# Patent

## Title
Inbred corn line PHAR1

## Abstract

A novel inbred maize line designated PHAR1 and seed, plants and plant parts thereof. Methods for producing a maize plant that comprise crossing inbred maize line PHAR1 with another maize plant. Methods for producing a maize plant containing in its genetic material one or more traits introgressed into PHAR1 through backcross conversion and/or transformation, and to the maize seed, plant and plant part produced thereby. Hybrid maize seed, plant or plant part produced by crossing the inbred line PHAR1 or a trait conversion of PHAR1 with another maize line. Inbred maize lines derived from inbred maize line PHAR1, methods for producing other inbred maize lines derived from inbred maize line PHAR1 and the inbred maize lines and their parts derived by the use of those methods.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
This application is a continuation of U.S. patent application Ser. No. 11/047,991, now U.S. Pat. No. 7,271,326, filed on Jan. 31, 2005, the contents of which is hereby incorporated by reference in their entirety.


FIELD OF THE INVENTION
This invention relates generally to the field of maize breeding, specifically relating to an inbred maize line designated PHAR1.
BACKGROUND OF THE INVENTION
The goal of plant breeding is to combine, in a single variety or hybrid, various desirable traits. For field crops, these traits may include resistance to diseases and insects, resistance to heat and drought, reducing the time to crop maturity, greater yield, and better agronomic quality. With mechanical harvesting of many crops, uniformity of plant characteristics such as germination, stand establishment, growth rate, maturity, plant height and ear height, is important. Traditional plant breeding is an important tool in developing new and improved commercial crops.
SUMMARY OF THE INVENTION
According to the invention, there is provided a novel inbred maize line, designated PHAR1 and processes for making PHAR1. This invention relates to seed of inbred maize line PHAR1, to the plants of inbred maize line PHAR1, to plant parts of inbred maize line PHAR1, and to processes for making a maize plant that comprise crossing inbred maize line PHAR1 with another maize plant. This invention also relates to processes for making a maize plant containing in its genetic material one or more traits introgressed into PHAR1 through backcross conversion and/or transformation, and to the maize seed, plant and plant part produced by such introgression. This invention further relates to a hybrid maize seed, plant or plant part produced by crossing the inbred line PHAR1 or an introgressed trait conversion of PHAR1 with another maize line. This invention also relates to inbred maize lines derived from inbred maize line PHAR1 to processes for making other inbred maize lines derived from inbred maize line PHAR1 and to the inbred maize lines and their parts derived by the use of those processes.
Definitions
Certain definitions used in the specification are provided below. Also in the examples that follow, a number of terms are used herein. In order to provide a clear and consistent understanding of the specification and claims, including the scope to be given such terms, the following definitions are provided. NOTE: ABS is in absolute terms and % MN is percent of the mean for the experiments in which the inbred or hybrid was grown. PCT designates that the trait is calculated as a percentage. % NOT designates the percentage of plants that did not exhibit a trait. For example, STKLDG % NOT is the percentage of plants in a plot that were not stalk lodged. These designators will follow the descriptors to denote how the values are to be interpreted.
ABTSTK=ARTIFICIAL BRITTLE STALK. A count of the number of “snapped” plants per plot following machine snapping. A snapped plant has its stalk completely snapped at a node between the base of the plant and the node above the ear. Expressed as percent of plants that did not snap.
ALLELE. Any of one or more alternative forms of a genetic sequence. Typically, in a diploid cell or organism, the two alleles of a given sequence typically occupy corresponding loci on a pair of homologous chromosomes.
ALTER. The utilization of up-regulation, down-regulation, or gene silencing.
ANTHESIS. The time of a flower's opening.
ANT ROT=ANTHRACNOSE STALK ROT (Colletotrichum graminicola). A 1 to 9 visual rating indicating the resistance to Anthracnose Stalk Rot. A higher score indicates a higher resistance.
BACKCROSSING. Process in which a breeder crosses a hybrid progeny line back to one of the parental genotypes one or more times.
BARPLT=BARREN PLANTS. The percent of plants per plot that were not barren (lack ears).
BREEDING. The genetic manipulation of living organisms.
BREEDING CROSS. A cross to introduce new genetic material into a plant for the development of a new variety. For example, one could cross plant A with plant B, wherein plant B would be genetically different from plant A. After the breeding cross, the resulting F1 plants could then be selfed or sibbed for one, two, three or more times (F1, F2, F3, etc.) until a new inbred variety is developed. For clarification, such new inbred varieties would be within a pedigree distance of one breeding cross of plants A and B. The process described above would be referred to as one breeding cycle.
BRTSTK=BRITTLE STALKS. This is a measure of the stalk breakage near the time of pollination, and is an indication of whether a hybrid or inbred would snap or break near the time of flowering under severe winds. Data are presented as percentage of plants that did not snap.
CELL. Cell as used herein includes a plant cell, whether isolated, in tissue culture or incorporated in a plant or plant part.
CLDTST=COLD TEST. The percent of plants that germinate under cold test conditions.
CLN=CORN LETHAL NECROSIS. Synergistic interaction of maize chlorotic mottle virus (MCMV) in combination with either maize dwarf mosaic virus (MDMV-A or MDMV-B) or wheat streak mosaic virus (WSMV). A 1 to 9 visual rating indicating the resistance to Corn Lethal Necrosis. A higher score indicates a higher resistance.
COMRST=COMMON RUST (Puccinia sorghi). A 1 to 9 visual rating indicating the resistance to Common Rust. A higher score indicates a higher resistance.
CROSS POLLINATION. A plant is cross pollinated if the pollen comes from a flower on a different plant from a different family or line. Cross pollination excludes sib and self pollination.
CROSS. As used herein, the term “cross” or “crossing” can refer to a simple X by Y cross, or the process of backcrossing, depending on the context.
D/D=DRYDOWN. This represents the relative rate at which a hybrid will reach acceptable harvest moisture compared to other hybrids on a 1 to 9 rating scale. A high score indicates a hybrid that dries relatively fast while a low score indicates a hybrid that dries slowly.
DIPERS=DIPLODIA EAR MOLD SCORES (Diplodia maydis and Diplodia macrospora). A 1 to 9 visual rating indicating the resistance to Diplodia Ear Mold. A higher score indicates a higher resistance.
DIPLOID PLANT PART. Refers to a plant part or cell that has the same diploid genotype as PHAR1.
DIPROT=DIPLODIA STALK ROT SCORE. Score of stalk rot severity due to Diplodia (Diplodia maydis). Expressed as a 1 to 9 score with 9 being highly resistant.
DRPEAR=DROPPED EARS. A measure of the number of dropped ears per plot and represents the percentage of plants that did not drop ears prior to harvest.
D/T=DROUGHT TOLERANCE. This represents a 1 to 9 rating for drought tolerance, and is based on data obtained under stress conditions. A high score indicates good drought tolerance and a low score indicates poor drought tolerance.
EARHT=EAR HEIGHT. The ear height is a measure from the ground to the highest placed developed ear node attachment and is measured in centimeters.
EARMLD=GENERAL EAR MOLD. Visual rating (1 to 9 score) where a 1 is very susceptible and a 9 is very resistant. This is based on overall rating for ear mold of mature ears without determining the specific mold organism, and may not be predictive for a specific ear mold.
EARSZ=EAR SIZE. A 1 to 9 visual rating of ear size. The higher the rating the larger the ear size.
EBTSTK=EARLY BRITTLE STALK. A count of the number of “snapped” plants per plot following severe winds when the corn plant is experiencing very rapid vegetative growth in the V5-V8 stage. Expressed as percent of plants that did not snap.
ECB1LF=EUROPEAN CORN BORER FIRST GENERATION LEAF FEEDING (Ostrinia nubilalis). A 1 to 9 visual rating indicating the resistance to preflowering leaf feeding by first generation European Corn Borer. A higher score indicates a higher resistance.
ECB2IT=EUROPEAN CORN BORER SECOND GENERATION INCHES OF TUNNELING (Ostrinia nubilalis). Average inches of tunneling per plant in the stalk.
ECB2SC=EUROPEAN CORN BORER SECOND GENERATION (Ostrinia nubilalis). A 1 to 9 visual rating indicating post flowering degree of stalk breakage and other evidence of feeding by second generation European Corn Borer. A higher score indicates a higher resistance.
ECBDPE=EUROPEAN CORN BORER DROPPED EARS (Ostrinia nubilalis). Dropped ears due to European Corn Borer. Percentage of plants that did not drop ears under second generation European Corn Borer infestation.
EGRWTH=EARLY GROWTH. This is a measure of the relative height and size of a corn seedling at the 2-4 leaf stage of growth. This is a visual rating (1 to 9), with 1 being weak or slow growth, 5 being average growth and 9 being strong growth. Taller plants, wider leaves, more green mass and darker color constitute higher score.
ELITE INBRED. An inbred that contributed desirable qualities when used to produce commercial hybrids. An elite inbred may also be used in further breeding for the purpose of developing further improved varieties.
ERTLDG=EARLY ROOT LODGING. The percentage of plants that do not root lodge prior to or around anthesis; plants that lean from the vertical axis at an approximately 30 degree angle or greater would be counted as root lodged.
ERTLPN=EARLY ROOT LODGING. An estimate of the percentage of plants that do not root lodge prior to or around anthesis; plants that lean from the vertical axis at an approximately 30 degree angle or greater would be considered as root lodged.
ERTLSC=EARLY ROOT LODGING SCORE. Score for severity of plants that lean from a vertical axis at an approximate 30 degree angle or greater which typically results from strong winds prior to or around flowering recorded within 2 weeks of a wind event. Expressed as a 1 to 9 score with 9 being no lodging.
ESTCNT=EARLY STAND COUNT. This is a measure of the stand establishment in the spring and represents the number of plants that emerge on per plot basis for the inbred or hybrid.
EYESPT=EYE SPOT (Kabatiella zeae or Aureobasidium zeae). A 1 to 9 visual rating indicating the resistance to Eye Spot. A higher score indicates a higher resistance.
FUSERS=FUSARIUM EAR ROT SCORE (Fusarium moniliforme or Fusarium subglutinans). A 1 to 9 visual rating indicating the resistance to Fusarium Ear Rot. A higher score indicates a higher resistance.
GDU=GROWING DEGREE UNITS. Using the Barger Heat Unit Theory, which assumes that maize growth occurs in the temperature range 50 degrees F.-86 degrees F. and that temperatures outside this range slow down growth; the maximum daily heat unit accumulation is 36 and the minimum daily heat unit accumulation is 0. The seasonal accumulation of GDU is a major factor in determining maturity zones.
GDUSHD=GDU TO SHED. The number of growing degree units (GDUs) or heat units required for an inbred line or hybrid to have approximately 50 percent of the plants shedding pollen and is measured from the time of planting. Growing degree units are calculated by the Barger Method, where the heat units for a 24-hour period are:




  
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The highest maximum temperature used is 86 degrees F. and the lowest minimum temperature used is 50 degrees F. For each inbred or hybrid it takes a certain number of GDUs to reach various stages of plant development.
GDUSLK=GDU TO SILK. The number of growing degree units required for an inbred line or hybrid to have approximately 50 percent of the plants with silk emergence from time of planting. Growing degree units are calculated by the Barger Method as given in GDU SHD definition.
GENE SILENCING. The interruption or suppression of the expression of a gene at the level of transcription or translation.
GENOTYPE. Refers to the genetic constitution of a cell or organism.
GIBERS=GIBBERELLA EAR ROT (PINK MOLD) (Gibberella zeae). A 1 to 9 visual rating indicating the resistance to Gibberella Ear Rot. A higher score indicates a higher resistance.
GIBROT=GIBBERELLA STALK ROT SCORE. Score of stalk rot severity due to Gibberella (Gibberella zeae). Expressed as a 1 to 9 score with 9 being highly resistant.
GLFSPT=GRAY LEAF SPOT (Cercospora zeae-maydis). A 1 to 9 visual rating indicating the resistance to Gray Leaf Spot. A higher score indicates a higher resistance.
GOSWLT=GOSS'WILT (Corynebacterium nebraskense). A 1 to 9 visual rating indicating the resistance to Goss' Wilt. A higher score indicates a higher resistance.
GRNAPP=GRAIN APPEARANCE. This is a 1 to 9 rating for the general appearance of the shelled grain as it is harvested based on such factors as the color of harvested grain, any mold on the grain, and any cracked grain. High scores indicate good grain visual quality.
HAPLOID PLANT PART. Refers to a plant part or cell that has the same haploid genotype as PHAR1.
HCBLT=HELMINTHOSPORIUM CARBONUM LEAF BLIGHT (Helminthosporium carbonum). A 1 to 9 visual rating indicating the resistance to Helminthosporium infection. A higher score indicates a higher resistance.
HD SMT=HEAD SMUT (Sphacelotheca reiliana). This score indicates the percentage of plants not infected.
HSKCVR=HUSK COVER. A 1 to 9 score based on performance relative to key checks, with a score of 1 indicating very short husks, tip of ear and kernels showing; 5 is intermediate coverage of the ear under most conditions, sometimes with thin husk; and a 9 has husks extending and closed beyond the tip of the ear. Scoring can best be done near physiological maturity stage or any time during dry down until harvested.
INBRED. A line developed through inbreeding or doubled haploidy that preferably comprises homozygous alleles at about 95% or more of its loci.
INC D/A=GROSS INCOME (DOLLARS PER ACRE). Relative income per acre assuming drying costs of two cents per point above 15.5 percent harvest moisture and current market price per bushel.
INCOME/ACRE. Income advantage of hybrid to be patented over other hybrid on per acre basis.
INC ADV=GROSS INCOME ADVANTAGE. Gross income advantage of variety #1 over variety #2.
INTROGRESSION. The process of transferring genetic material from one genotype to another.
KSZDCD=KERNEL SIZE DISCARD. The percent of discard seed; calculated as the sum of discarded tip kernels and extra large kernels.
LINKAGE. Refers to a phenomenon wherein alleles on the same chromosome tend to segregate together more often than expected by chance if their transmission was independent.
LINKAGE DISEQUILIBRIUM. Refers to a phenomenon wherein alleles tend to remain together in linkage groups when segregating from parents to offspring, with a greater frequency than expected from their individual frequencies.
LOCUS. A defined segment of DNA.
L/POP=YIELD AT LOW DENSITY. Yield ability at relatively low plant densities on a 1 to 9 relative system with a higher number indicating the hybrid responds well to low plant densities for yield relative to other hybrids. A 1, 5, and 9 would represent very poor, average, and very good yield response, respectively, to low plant density.
LRTLDG=LATE ROOT LODGING. The percentage of plants that do not root lodge after anthesis through harvest; plants that lean from the vertical axis at an approximately 30 degree angle or greater would be counted as root lodged.
LRTLPN=LATE ROOT LODGING. An estimate of the percentage of plants that do not root lodge after anthesis through harvest; plants that lean from the vertical axis at an approximately 30 degree angle or greater would be considered as root lodged.
LRTLSC=LATE ROOT LODGING SCORE. Score for severity of plants that lean from a vertical axis at an approximate 30 degree angle or greater which typically results from strong winds after flowering. Recorded prior to harvest when a root-lodging event has occurred. This lodging results in plants that are leaned or “lodged” over at the base of the plant and do not straighten or “goose-neck” back to a vertical position. Expressed as a 1 to 9 score with 9 being no lodging.
MDMCPX=MAIZE DWARF MOSAIC COMPLEX (MDMV=Maize Dwarf Mosaic Virus and MCDV=Maize Chlorotic Dwarf Virus). A 1 to 9 visual rating indicating the resistance to Maize Dwarf Mosaic Complex. A higher score indicates a higher resistance.
MST=HARVEST MOISTURE. The moisture is the actual percentage moisture of the grain at harvest.
MSTADV=MOISTURE ADVANTAGE. The moisture advantage of variety #1 over variety #2 as calculated by: MOISTURE of variety #2−MOISTURE of variety #1=MOISTURE ADVANTAGE of variety #1.
NLFBLT=NORTHERN LEAF BLIGHT (Helminthosporium turcicum or Exserohilum turcicum). A 1 to 9 visual rating indicating the resistance to Northern Leaf Blight. A higher score indicates a higher resistance.
OILT=GRAIN OIL. Absolute value of oil content of the kernel as predicted by Near-Infrared Transmittance and expressed as a percent of dry matter.
PEDIGREE DISTANCE. Relationship among generations based on their ancestral links as evidenced in pedigrees. May be measured by the distance of the pedigree from a given starting point in the ancestry.
PERCENT IDENTITY. Percent identity as used herein refers to the comparison of the homozygous alleles of two inbred lines. Each inbred plant will have the same allele (and therefore be homozygous) at almost all of their loci. Percent identity is determined by comparing a statistically significant number of the homozygous alleles of two inbred lines. For example, a percent identity of 90% between inbred PHAR1 and other inbred line means that the two inbred lines have the same allele at 90% of their loci.
PERCENT SIMILARITY. Percent similarity as used herein refers to the comparison of the homozygous alleles of an inbred line with another plant. The homozygous alleles of PHAR1 are compared with the alleles of a non-inbred plant, such as a hybrid, and if the allele of the inbred matches at least one of the alleles from the hybrid then they are scored as similar. Percent similarity is determined by comparing a statistically significant number of loci and recording the number of loci with similar alleles as a percentage. For example, a percent similarity of 90% between inbred PHAR1 and a hybrid maize plant means that the inbred line matches at least one of the hybrid alleles at 90% of the loci. In the case of a hybrid produced from PHAR1 as the male or female parent, such hybrid will comprise two sets of alleles, one set of which will comprise the same alleles as the homozygous alleles of inbred line PHAR1.
PLANT. As used herein, the term “plant” includes reference to an immature or mature whole plant, including a plant that has been detasseled or from which seed or grain has been removed. Seed or embryo that will produce the plant is also considered to be the plant.
PLANT PARTS. As used herein, the term “plant parts” includes leaves, stems, roots, seed, grain, embryo, pollen, ovules, flowers, ears, cobs, husks, stalks, root tips, anthers, pericarp, silk, tissue, cells and the like.
PLTHT=PLANT HEIGHT. This is a measure of the height of the plant from the ground to the tip of the tassel in centimeters.
POLSC=POLLEN SCORE. A 1 to 9 visual rating indicating the amount of pollen shed. The higher the score the more pollen shed.
POLWT=POLLEN WEIGHT. This is calculated by dry weight of tassels collected as shedding commences minus dry weight from similar tassels harvested after shedding is complete.
POP K/A=PLANT POPULATIONS. Measured as 1000s per acre.
POP ADV=PLANT POPULATION ADVANTAGE. The plant population advantage of variety #1 over variety #2 as calculated by PLANT POPULATION of variety #2−PLANT POPULATION of variety #1=PLANT POPULATION ADVANTAGE of variety #1.
PRM=PREDICTED RELATIVE MATURITY. This trait, predicted relative maturity, is based on the harvest moisture of the grain. The relative maturity rating is based on a known set of checks and utilizes standard linear regression analyses and is also referred to as the Comparative Relative Maturity Rating System that is similar to the Minnesota Relative Maturity Rating System.
PRMSHD=A relative measure of the growing degree units (GDU) required to reach 50% pollen shed. Relative values are predicted values from the linear regression of observed GDU's on relative maturity of commercial checks.
PROT=GRAIN PROTEIN. Absolute value of protein content of the kernel as predicted by Near-infrared Transmittance and expressed as a percent of dry matter.
RESISTANCE. Synonymous with tolerance. The ability of a plant to withstand exposure to an insect, disease, herbicide or other condition. A resistant plant variety will have a level of resistance higher than a comparable wild-type variety.
RTLDG=ROOT LODGING. Root lodging is the percentage of plants that do not root lodge; plants that lean from the vertical axis at an approximately 30 degree angle or greater would be counted as root lodged.
RTLADV=ROOT LODGING ADVANTAGE. The root lodging advantage of variety #1 over variety #2.
SCTGRN=SCATTER GRAIN. A 1 to 9 visual rating indicating the amount of scatter grain (lack of pollination or kernel abortion) on the ear. The higher the score the less scatter grain.
SDGVGR=SEEDLING VIGOR. This is the visual rating (1 to 9) of the amount of vegetative growth after emergence at the seedling stage (approximately five leaves). A higher score indicates better vigor.
SEL IND=SELECTION INDEX. The selection index gives a single measure of the hybrid's worth based on information for up to five traits. A maize breeder may utilize his or her own set of traits for the selection index. One of the traits that is almost always included is yield. The selection index data presented in the tables represent the mean value averaged across testing stations.
SELF POLLINATION. A plant is self-pollinated if pollen from one flower is transferred to the same or another flower of the same plant.
SIB POLLINATION. A plant is sib-pollinated when individuals within the same family or line are used for pollination.
SLFBLT=SOUTHERN LEAF BLIGHT (Helminthosporium maydis or Bipolaris maydis). A 1 to 9 visual rating indicating the resistance to Southern Leaf Blight. A higher score indicates a higher resistance.
SOURST=SOUTHERN RUST (Puccinia polysora). A 1 to 9 visual rating indicating the resistance to Southern Rust. A higher score indicates a higher resistance.
STAGRN=STAY GREEN. Stay green is the measure of plant health near the time of black layer formation (physiological maturity). A high score indicates better late-season plant health.
STDADV=STALK STANDING ADVANTAGE. The advantage of variety #1 over variety #2 for the trait STK CNT.
STKCNT=NUMBER OF PLANTS. This is the final stand or number of plants per plot.
STKLDG=STALK LODGING REGULAR. This is the percentage of plants that did not stalk lodge (stalk breakage) at regular harvest (when grain moisture is between about 20 and 30%) as measured by either natural lodging or pushing the stalks and determining the percentage of plants that break below the ear.
STKLDS=STALK LODGING SCORE. A plant is considered as stalk lodged if the stalk is broken or crimped between the ear and the ground. This can be caused by any or a combination of the following: strong winds late in the season, disease pressure within the stalks, ECB damage or genetically weak stalks. This trait should be taken just prior to or at harvest. Expressed on a 1 to 9 scale with 9 being no lodging.
STLLPN=LATE STALK LODGING. This is the percent of plants that did not stalk lodge (stalk breakage or crimping) at or around late season harvest (when grain moisture is below 20%) as measured by either natural lodging or pushing the stalks and determining the percentage of plants that break or crimp below the ear.
STLPCN=STALK LODGING REGULAR. This is an estimate of the percentage of plants that did not stalk lodge (stalk breakage) at regular harvest (when grain moisture is between about 20 and 30%) as measured by either natural lodging or pushing the stalks and determining the percentage of plants that break below the ear.
STRT=GRAIN STARCH. Absolute value of starch content of the kernel as predicted by Near-Infrared Transmittance and expressed as a percent of dry matter.
STWWLT=Stewart's Wilt (Erwinia stewartii). A 1 to 9 visual rating indicating the resistance to Stewart's Wilt. A higher score indicates a higher resistance.
TASBLS=TASSEL BLAST. A 1 to 9 visual rating was used to measure the degree of blasting (necrosis due to heat stress) of the tassel at the time of flowering. A 1 would indicate a very high level of blasting at time of flowering, while a 9 would have no tassel blasting.
TASSZ=TASSEL SIZE. A 1 to 9 visual rating was used to indicate the relative size of the tassel. The higher the rating the larger the tassel.
TAS WT=TASSEL WEIGHT. This is the average weight of a tassel (grams) just prior to pollen shed.
TEXEAR=EAR TEXTURE. A 1 to 9 visual rating was used to indicate the relative hardness (smoothness of crown) of mature grain. A 1 would be very soft (extreme dent) while a 9 would be very hard (flinty or very smooth crown).
TILLER=TILLERS. A count of the number of tillers per plot that could possibly shed pollen was taken. Data are given as a percentage of tillers: number of tillers per plot divided by number of plants per plot.
TSTWT=TEST WEIGHT (UNADJUSTED). The measure of the weight of the grain in pounds for a given volume (bushel).
TSWADV=TEST WEIGHT ADVANTAGE. The test weight advantage of variety #1 over variety #2.
WIN M %=PERCENT MOISTURE WINS. WIN Y %=PERCENT YIELD WINS.
YIELD BU/A=YIELD (BUSHELS/ACRE). Yield of the grain at harvest in bushels per acre adjusted to 15% moisture.
YLDADV=YIELD ADVANTAGE. The yield advantage of variety #1 over variety #2 as calculated by: YIELD of variety #1−YIELD variety #2=YIELD ADVANTAGE of variety #1.
YLDSC=YIELD SCORE. A 1 to 9 visual rating was used to give a relative rating for yield based on plot ear piles. The higher the rating the greater visual yield appearance.
Definitions for Area of Adaptability
When referring to area of adaptability, such term is used to describe the location with the environmental conditions that would be well suited for this maize line. Area of adaptability is based on a number of factors, for example: days to maturity, insect resistance, disease resistance, and drought resistance. Area of adaptability does not indicate that the maize line will grow in every location within the area of adaptability or that it will not grow outside the area.

    Central Corn Belt: Iowa, Illinois, Indiana
    Drylands: non-irrigated areas of North Dakota, South Dakota, Nebraska, Kansas, Colorado, and Oklahoma
    Eastern U.S.: Ohio, Pennsylvania, Delaware, Maryland, Virginia, and West Virginia
    North central U.S.: Minnesota and Wisconsin
    Northeast: Michigan, New York, Vermont, and Ontario and Quebec Canada
    Northwest U.S.: North Dakota, South Dakota, Wyoming, Washington, Oregon, Montana, Utah, and Idaho
    South central U.S.: Missouri, Tennessee, Kentucky, Arkansas
    Southeast U.S.: North Carolina, South Carolina, Georgia, Florida, Alabama, Mississippi, and Louisiana
    Southwest U.S.: Texas, Oklahoma, New Mexico, Arizona
    Western U.S.: Nebraska, Kansas, Colorado, and California
    Maritime Europe Northern France, Germany, Belgium, Netherlands and Austria




DETAILED DESCRIPTION OF THE INVENTION AND FURTHER EMBODIMENTS
All tables discussed in the Detailed Description of the Invention and Further Embodiments section can found at the end of the section.
Morphological and Physiological Characteristics of PHAR1
Inbred maize line PHAR1 is a yellow, flint-dent maize inbred that may be used as either a male or female in the production of the first generation F1 maize hybrid although PHAR1 may be best suited for use as a female. Inbred maize line PHAR1 is best adapted to the Central Corn Belt and Eastern United States and is useful in making silage hybrids of approximately 110 CRM. PHAR1 is of average height and per se yield. It produces seed that is above average for cold test although below average for grain texture with occasional kernel popping. PHAR1 sometimes produces plants that are poorly developed characterized by less than normal elongation of the mid-plant internodes. Expression of this trait appears to be environmentally influenced. In hybrid combination, PHAR1 demonstrates good resistance to foliar diseases including northern corn leaf blight, southern corn leaf blight and grey leaf spot. It also produces hybrids that are slightly above average for plant height, average for yield and have good silage characteristics.
The inbred has shown uniformity and stability within the limits of environmental influence for all the traits as described in the Variety Description Information (Table 1, found at the end of the section). The inbred has been self-pollinated and ear-rowed a sufficient number of generations with careful attention paid to uniformity of plant type to ensure the homozygosity and phenotypic stability necessary for use in commercial hybrid seed production. The line has been increased both by hand and in isolated fields with continued observation for uniformity. No variant traits have been observed or are expected in PHAR1.
Inbred maize line PHAR1, being substantially homozygous, can be reproduced by planting seeds of the line, growing the resulting maize plants under self-pollinating or sib-pollinating conditions with adequate isolation, and harvesting the resulting seed using techniques familiar to the agricultural arts.
Genotypic Characteristics of PHAR1
In addition to phenotypic observations, a plant can also be identified by its genotype. The genotype of a plant can be characterized through a genetic marker profile, which can identify plants of the same variety or a related variety, or be used to determine or validate a pedigree. The SSR profile of Inbred PHAR1 can be found in Table 2 at the end of this section. As a result of inbreeding, PHAR1 is substantially homozygous. This homozygosity has been characterized at the loci shown in the marker profile provided herein. An F1 hybrid made with PHAR1 would comprise the marker profile of PHAR1 shown herein. This is because an F1 hybrid is the sum of its inbred parents, e.g., if one inbred parent is homozygous for allele x at a particular locus, and the other inbred parent is homozygous for allele y at that locus, the F1 hybrid will be x.y (heterozygous) at that locus. The profile can therefore be used to identify hybrids comprising PHAR1 as a parent, since such hybrids will comprise two sets of alleles, one set of which will be from PHAR1. The determination of the male set of alleles and the female set of alleles may be made by profiling the hybrid and the pericarp of the hybrid seed, which is composed of maternal parent cells. One way to obtain the paternal parent profile is to subtract the pericarp profile from the hybrid profile.
Subsequent generations of progeny produced by selection and breeding are expected to be of genotype x (homozygous), y (homozygous), or x.y (heterozygous) for these locus positions. When the F1 plant is used to produce an inbred, the resulting inbred should be either x or y for that allele. In that regard, a unique allele or combination of alleles unique to that inbred can be used to identify progeny plants that retain those unique alleles or combinations of alleles.
Therefore, in accordance with the above, an embodiment of this invention is a PHAR1 progeny maize plant or plant part that is a first generation (F1) hybrid maize plant comprising two sets of alleles, wherein one set of the alleles is the same as PHAR1 at all of the SSR loci listed in Table 2. A maize cell wherein one set of the alleles is the same as PHAR1 at all of the SSR loci listed in Table 2 is also an embodiment of the invention. This maize cell may be a part of a hybrid seed, plant or plant part produced by crossing PHAR1 with another inbred maize plant.
Genetic marker profiles can be obtained by techniques such as Restriction Fragment Length Polymorphisms (RFLPs), Randomly Amplified Polymorphic DNAs (RAPDs), Arbitrarily Primed Polymerase Chain Reaction (AP-PCR), DNA Amplification Fingerprinting (DAF), Sequence Characterized Amplified Regions (SCARs), Amplified Fragment Length Polymorphisms (AFLPs), Simple Sequence Repeats (SSRs) which are also referred to as Microsatellites, and Single Nucleotide Polymorphisms (SNPs). For example, see Berry, Don et al., “Assessing Probability of Ancestry Using Simple Sequence Repeat Profiles: Applications to Maize Hybrids and Inbreds”, Genetics, 2002, 161:813-824, and Berry, Don et al., “Assessing Probability of Ancestry Using Simple Sequence Repeat Profiles: Applications to Maize Inbred Lines and Soybean Varieties”, Genetics, 2003, 165: 331-342.
Particular markers used for these purposes are not limited to the set of markers disclosed herein, but may include any type of marker and marker profile which provides a means of distinguishing varieties. In addition to being used for identification of Inbred maize line PHAR1, a hybrid produced through the use of PHAR1, and the identification or verification of pedigree for progeny plants produced through the use of PHAR1, the genetic marker profile is also useful in further breeding and in developing an introgressed trait conversion of PHAR1.
Means of performing genetic marker profiles using SSR polymorphisms are well known in the art. SSRs are genetic markers based on polymorphisms in repeated nucleotide sequences, such as microsatellites. A marker system based on SSRs can be highly informative in linkage analysis relative to other marker systems in that multiple alleles may be present. Another advantage of this type of marker is that, through use of flanking primers, detection of SSRs can be achieved, for example, by the polymerase chain reaction (PCR), thereby eliminating the need for labor-intensive Southern hybridization. The PCR detection is done by use of two oligonucleotide primers flanking the polymorphic segment of repetitive DNA. Repeated cycles of heat denaturation of the DNA followed by annealing of the primers to their complementary sequences at low temperatures, and extension of the annealed primers with DNA polymerase, comprise the major part of the methodology.
Following amplification, markers can be scored by electrophoresis of the amplification products. Scoring of marker genotype is based on the size of the amplified fragment, which may be measured by the base pair weight or molecular weight of the fragment. While variation in the primer used or in laboratory procedures can affect the reported fragment size, relative values should remain constant regardless of the specific primer or laboratory used. When comparing lines it is preferable if all SSR profiles are performed in the same lab. The SSR analyses reported herein were conducted in-house at Pioneer Hi-Bred. An SSR service is available to the public on a contractual basis by DNA Landmarks in Saint-Jean-sur-Richelieu, Quebec, Canada.
Primers used for the SSRs reported herein are publicly available and may be found in the Maize GDB on the World Wide Web at maizegdb.org (sponsored by the USDA Agricultural Research Service), in Sharopova et al. (Plant Mol. Biol. 48(5-6):463-481), Lee et al. (Plant Mol. Biol. 48(5-6); 453-461), or may be constructed from sequences if reported herein. Primers may be constructed from publicly available sequence information. Some marker information may also be available from DNA Landmarks.
Map information is provided by bin number as reported in the Maize GDB for the IBM 2 and/or IBM 2 Neighbors maps. The bin number digits to the left of decimal point represent the chromosome on which such marker is located, and the digits to the right of the decimal represent the location on such chromosome. A bin number.xx designation indicates that the bin location on that chromosome is not known. Map positions are also available on the Maize GDB for a variety of different mapping populations.
PHAR1 and its plant parts can be identified through a molecular marker profile. An inbred corn plant cell having the SSR genetic marker profile shown in Table 2 is an embodiment of the invention. Such plant cell may be either diploid or haploid.
Also encompassed within the scope of the invention are plants and plant parts substantially benefiting from the use of PHAR1 in their development, such as PHAR1 comprising a introgressed trait through backcross conversion or transformation, and which may be identified by having an SSR molecular marker profile with a high percent identity to PHAR1, such as at least 80%, 81%, 82%, 83%, 84%, 85%, 86%, 87%, 88%, 89%, 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 99.5% identity. Likewise, percent similarity at these percentages may be used to identify hybrid and other non-inbred plants produced by the use of PHAR1.
An embodiment of this invention is an inbred PHAR1 progeny maize plant or plant part comprising the same homozygous alleles as the plant or plant part of PHAR1 for at least 90% of the SSR loci listed in Table 2. A plant cell comprising the same homozygous alleles as a plant cell of PHAR1 for at least 90% of the SSR loci listed in Table 2 is also an embodiment of this invention. In these specific embodiments, 90% may also be replaced by any integer or partial integer percent of 80% or greater as listed above. One means of producing such a progeny plant, plant part or cell is through the backcrossing and/or transformation methods described herein.
Similarly, an embodiment of this invention is a PHAR1 progeny maize plant or plant part comprising at least one allele per locus that is the same allele as the plant or plant part of PHAR1 for at least 90% of the SSR loci listed in Table 2. This progeny plant may be a hybrid. A progeny or hybrid plant cell wherein at least one allele per locus that is the same allele as the plant cell PHAR1 for at least 90% of the SSR loci listed in Table 2 is also a specific embodiment of this invention. In these specific embodiments, 90% may also be replaced by any integer percent listed above. One means of producing such a progeny or hybrid plant, plant part or cell is through the backcrossing and/or transformation methods described herein.
In addition, the SSR profile of PHAR1 also can be used to identify essentially derived varieties and other progeny lines developed from the use of PHAR1, as well as cells and other plant parts thereof. Progeny plants and plant parts produced using PHAR1 may be identified by having a molecular marker profile of at least 25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 61%, 62%, 63%, 64%, 65%, 66%, 67%, 68%, 69%, 70%, 71%, 72%, 73%, 74%, 75%, 76%, 77%, 78%, 79%, 80%, 81%, 82%, 83%, 84%, 85%, 86%, 87%, 88%, 89%, 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 99.5% genetic contribution from inbred line PHAR1, as measured by either percent identity or percent similarity.
Comparing PHAR1 to Other Inbreds
A breeder uses various methods to help determine which plants should be selected from segregating populations and ultimately which inbred lines will be used to develop hybrids for commercialization. In addition to knowledge of the germplasm and plant genetics, a part of the selection process is dependent on experimental design coupled with the use of statistical analysis. Experimental design and statistical analysis are used to help determine which plants, which family of plants, and finally which inbred lines and hybrid combinations are significantly better or different for one or more traits of interest. Experimental design methods are used to assess error so that differences between two inbred lines or two hybrid lines can be more accurately evaluated. Statistical analysis includes the calculation of mean values, determination of the statistical significance of the sources of variation, and the calculation of the appropriate variance components. Either a five or a one percent significance level is customarily used to determine whether a difference that occurs for a given trait is real or due to the environment or experimental error. One of ordinary skill in the art of plant breeding would know how to evaluate the traits of two plant varieties to determine if there is no significant difference between the two traits expressed by those varieties. For example, see Fehr, Walt, Principles of Cultivar Development, p. 261-286 (1987). Mean trait values may be used to determine whether trait differences are significant. Trait values should preferably be measured on plants grown under the same environmental conditions, and environmental conditions should be appropriate for the traits or traits being evaluated. Sufficient selection pressure should be present for optimum measurement of traits of interest such as herbicide, insect or disease resistance. Similarly, an introgressed trait conversion of PHAR1 for resistance, such as herbicide resistance, should not be compared to PHAR1 in the presence of the herbicide when comparing non-resistance related traits such as plant height and yield.
In Table 3, data from traits and characteristics of inbred maize line PHAR1 per se are given and compared to other maize inbred lines and hybrids. The following are the results of these comparisons. The results in Table 3 show inbred PHAR1 has significantly different traits compared to other maize inbred lines.
The results in Table 3A compare inbred PHAR1 to inbred PH3RC. The results show inbred PHAR1 has significantly different plant height and number of growing degree units required to have approximately 50 percent of plants with silk emergence from time of planting compared to PH3RC.
The results in Table 3B compare inbred PHAR1 to inbred PH2VJ. The results show inbred PHAR1 differs significantly over multiple traits including gray leaf spot and northern leaf blight tolerance when compared to inbred PH2VJ.
The results in Table 3C compare inbred PHAR1 to inbred PH07D. The results show inbred PHAR1 differs significantly from PH07D in a number of traits including yield and ear height.
Development of Maize Hybrids using PHAR1
A single cross maize hybrid results from the cross of two inbred lines, each of which has a genotype that complements the genotype of the other. The hybrid progeny of the first generation is designated F1. In the development of commercial hybrids in a maize plant breeding program, only the F1 hybrid plants are sought. F1 hybrids are more vigorous than their inbred parents. This hybrid vigor, or heterosis, can be manifested in many polygenic traits, including increased vegetative growth and increased yield.
PHAR1 may be used to produce hybrid maize. One such embodiment is the method of crossing inbred maize line PHAR1 with another maize plant, such as a different maize inbred line, to form a first generation F1 hybrid seed. The first generation F1 hybrid seed, plant and plant part produced by this method is an embodiment of the invention. The first generation F1 seed, plant and plant part will comprise an essentially complete set of the alleles of inbred line PHAR1. One of ordinary skill in the art can utilize either breeder books or molecular methods to identify a particular F1 hybrid plant produced using inbred line PHAR1. Further, one of ordinary skill in the art may also produce F1 hybrids with transgenic, male sterile and/or backcross conversions of inbred line PHAR1
The development of a maize hybrid in a maize plant breeding program involves three steps: (1) the selection of plants from various germplasm pools for initial breeding crosses; (2) the selfing of the selected plants from the breeding crosses for several generations to produce a series of inbred lines, such as PHAR1, which, although different from each other, breed true and are highly uniform; and (3) crossing the selected inbred lines with different inbred lines to produce the hybrids. During the inbreeding process in maize, the vigor of the lines decreases, and so one would not be likely to use PHAR1 directly to produce grain. However, vigor is restored when PHAR1 is crossed to a different inbred line to produce a commercial F1 hybrid. An important consequence of the homozygosity and homogeneity of the inbred line is that the hybrid between a defined pair of inbreds may be reproduced indefinitely as long as the homogeneity of the inbred parents is maintained.
PHAR1 may be used to produce a single cross hybrid, a double cross hybrid, or a three-way hybrid. A single cross hybrid is produced when two inbred lines are crossed to produce the F1 progeny. A double cross hybrid is produced from four inbred lines crossed in pairs (A×B and C×D) and then the two F1 hybrids are crossed again (A×B)×(C×D). A three-way cross hybrid is produced from three inbred lines where two of the inbred lines are crossed (A×B) and then the resulting F1 hybrid is crossed with the third inbred (A×B)×C. In each case, pericarp tissue from the female parent will be a part of and protect the hybrid seed.
Combining Ability of PHAR1
Combining ability of a line, as well as the performance of the line per se, is a factor in the selection of improved maize inbreds. Combining ability refers to a line's contribution as a parent when crossed with other lines to form hybrids. The hybrids formed for the purpose of selecting superior lines may be referred to as test crosses, and include comparisons to other hybrid varieties grown in the same environment (same cross, location and time of planting). One way of measuring combining ability is by using values based in part on the overall mean of a number of test crosses weighted by number of experiment and location combinations in which the hybrid combinations occurs. The mean may be adjusted to remove environmental effects and known genetic relationships among the lines.
General combining ability provides an overall score for the inbred over a large number of test crosses. Specific combining ability provides information on hybrid combinations formed by PHAR1 and a specific inbred parent. A line such as PHAR1 which exhibits good general combining ability may be used in a large number of hybrid combinations.
A general combining ability report for inbred PHAR1 is provided in Table 4. This data represents the overall mean value for these traits over hundreds of test crosses. Table 4 demonstrates that inbred PHAR1 shows good general combining ability for hybrid production.
Hybrid Comparisons
These hybrid comparisons represent specific hybrid crosses with PHAR1 and a comparison of these specific hybrids with other hybrids with favorable characteristics. These comparisons illustrate the good specific combining ability of PHAR1.
The results in Table 5 compare a specific hybrid for which inbred PHAR1 is a parent with other hybrids. The results show that inbred PHAR1 shows good specific combining ability.
Introgression of a New Locus or Trait into PHAR1
PHAR1 represents a new base genetic line into which a new locus or trait may be introgressed. Direct transformation and backcrossing represent two important methods that can be used to accomplish such an introgression. The term backcross conversion and single locus conversion are used interchangeably to designate the product of a backcrossing program.
Backcross Conversions of PHAR1
A backcross conversion of PHAR1 occurs when DNA sequences are introduced through backcrossing (Hallauer et al. in Corn and Corn Improvement, Sprague and Dudley, Third Ed. 1998), with PHAR1 utilized as the recurrent parent. Both naturally occurring and transgenic DNA sequences may be introduced through backcrossing techniques. A backcross conversion may produce a plant with a trait or locus conversion in at least one or more backcrosses, including at least 2 crosses, at least 3 crosses, at least 4 crosses, at least 5 crosses and the like. Molecular marker assisted breeding or selection may be utilized to reduce the number of backcrosses necessary to achieve the backcross conversion. For example, see Openshaw, S. J. et al., Marker-assisted Selection in Backcross Breeding, In: Proceedings. Symposium of the Analysis of Molecular Data, August 1994, Crop Science Society of America, Corvallis, Oreg., where it is demonstrated that a backcross conversion can be made in as few as two backcrosses.
The complexity of the backcross conversion method depends on the type of trait being transferred (single genes or closely linked genes as vs. unlinked genes), the level of expression of the trait, the type of inheritance (cytoplasmic or nuclear) and the types of parents included in the cross. It is understood by those of ordinary skill in the art that for single gene traits that are relatively easy to classify, the backcross method is effective and relatively easy to manage. (See Hallauer et al. in Corn and Corn Improvement, Sprague and Dudley, Third Ed. 1998). Desired traits that may be transferred through backcross conversion include, but are not limited to, waxy starch, sterility (nuclear and cytoplasmic), fertility restoration, grain color (white), nutritional enhancements, drought resistance, enhanced nitrogen utilization efficiency, altered nitrogen responsiveness, altered fatty acid profile, increased digestibility, low phytate, industrial enhancements, disease resistance (bacterial, fungal or viral), insect resistance, herbicide resistance and yield enhancements. In addition, an introgression site itself, such as an FRT site, Lox site or other site specific integration site, may be inserted by backcrossing and utilized for direct insertion of one or more genes of interest into a specific plant variety. In some embodiments of the invention, the number of loci that may be backcrossed into PHAR1 is at least 1, 2, 3, 4, or 5 and/or no more than 6, 5, 4, 3, or 2. A single loci may contain several transgenes, such as a transgene for disease resistance that, in the same expression vector, also contains a transgene for herbicide resistance. The gene for herbicide resistance may be used as a selectable marker and/or as a phenotypic trait. A single locus conversion of site specific integration system allows for the integration of multiple genes at the converted loci. Further, SSI and FRT technologies known to those of skill in the art in the art may result in introgressions at multiple loci.
The backcross conversion may result from either the transfer of a dominant allele or a recessive allele. Selection of progeny containing the trait of interest is accomplished by direct selection for a trait associated with a dominant allele. Transgenes transferred via backcrossing typically function as a dominant single gene trait and are relatively easy to classify. Selection of progeny for a trait that is transferred via a recessive allele, such as the waxy starch characteristic, requires growing and selfing the first backcross generation to determine which plants carry the recessive alleles. Recessive traits may require additional progeny testing in successive backcross generations to determine the presence of the locus of interest. The last backcross generation is usually selfed to give pure breeding progeny for the gene(s) being transferred, although a backcross conversion with a stably introgressed trait may also be maintained by further backcrossing to the recurrent parent with selection for the converted trait.
Along with selection for the trait of interest, progeny are selected for the phenotype of the recurrent parent. While occasionally additional polynucleotide sequences or genes may be transferred along with the backcross conversion, the backcross conversion line “fits into the same hybrid combination as the recurrent parent inbred line and contributes the effect of the additional gene added through the backcross.” Poehlman et al. (1995, page 334). It has been proposed that in general there should be at least four backcrosses when it is important that the recovered lines be essentially identical to the recurrent parent except for the characteristic being transferred (Fehr 1987, Principles of Cultivar Development). However, as noted above, the number of backcrosses necessary can be reduced with the use of molecular markers. Other factors, such as a genetically similar donor parent, may also reduce the number of backcrosses necessary.
One process for adding or modifying a trait or locus in maize inbred line PHAR1 comprises crossing PHAR1 plants grown from PHAR1 seed with plants of another maize line that comprise the desired trait or locus, selecting F1 progeny plants that comprise the desired trait or locus to produce selected F1 progeny plants, crossing the selected progeny plants with the PHAR1 plants to produce backcross progeny plants, selecting for backcross progeny plants that have the desired trait or locus and the morphological characteristics of maize inbred line PHAR1 to produce selected backcross progeny plants; and backcrossing to PHAR1 three or more times in succession to produce selected fourth or higher backcross progeny plants that comprise said trait or locus. The modified PHAR1 may be further characterized as having the physiological and morphological characteristics of maize inbred line PHAR1 listed in Table 1 as determined at the 5% significance level when grown in the same environmental conditions and/or may be characterized by percent similarity or identity to PHAR1 as determined by SSR markers. The above method may be utilized with fewer backcrosses in appropriate situations, such as when the donor parent is highly related or markers are used in the selection step. Desired traits that may be used include those nucleic acids known in the art, some of which are listed herein, that will affect traits through nucleic acid expression or inhibition. Desired loci include the introgression of FRT, Lox and other sites for site specific integration.
In addition, the above process and other similar processes described herein may be used to produce F1 hybrid maize seed by adding a step at the end of the process that comprises crossing PHAR1 with the introgressed trait or locus with a different maize plant and harvesting the resultant F1 hybrid maize seed.
Male Sterility and Hybrid Seed Production
Hybrid seed production requires elimination or inactivation of pollen produced by the female inbred parent. Incomplete removal or inactivation of the pollen provides the potential for self-pollination. A reliable method of controlling male fertility in plants offers the opportunity for improved seed production.
PHAR1 can be produced in a male-sterile form. There are several ways in which a maize plant can be manipulated so that it is male sterile. These include use of manual or mechanical emasculation (or detasseling), use of one or more genetic factors that confer male sterility, including cytoplasmic genetic and/or nuclear genetic male sterility, use of gametocides and the like. A male sterile inbred designated PHAR1 may include one or more genetic factors, which result in cytoplasmic genetic and/or nuclear genetic male sterility. All of such embodiments are within the scope of the present claims. The male sterility may be either partial or complete male sterility.
Hybrid maize seed is often produced by a male sterility system incorporating manual or mechanical detasseling. Alternate strips of two maize inbreds are planted in a field, and the pollen-bearing tassels are removed from one of the inbreds (female). Provided that there is sufficient isolation from sources of foreign maize pollen, the ears of the detasseled inbred will be fertilized only from the other inbred (male), and the resulting seed is therefore hybrid and will form hybrid plants.
The laborious detasseling process can be avoided by using cytoplasmic male-sterile (CMS) inbreds. Plants of a CMS inbred are male sterile as a result of genetic factors in the cytoplasm, as opposed to the nucleus, and so nuclear linked genes are not transferred during backcrossing. Thus, this characteristic is inherited exclusively through the female parent in maize plants, since only the female provides cytoplasm to the fertilized seed. CMS plants are fertilized with pollen from another inbred that is not male-sterile. Pollen from the second inbred may or may not contribute genes that make the hybrid plants male-fertile, and either option may be preferred depending on the intended use of the hybrid. The same hybrid seed, a portion produced from detasseled fertile maize and a portion produced using the CMS system, can be blended to insure that adequate pollen loads are available for fertilization when the hybrid plants are grown. CMS systems have been successfully used since the 1950's, and the male sterility trait is routinely backcrossed into inbred lines. See Wych, p. 585-586, 1998.
There are several methods of conferring genetic male sterility available, such as multiple mutant genes at separate locations within the genome that confer male sterility, as disclosed in U.S. Pat. Nos. 4,654,465 and 4,727,219 to Brar et al. and chromosomal translocations as described by Patterson in U.S. Pat. Nos. 3,861,709 and 3,710,511. In addition to these methods, Albertsen et al., U.S. Pat. No. 5,432,068, describe a system of nuclear male sterility which includes: identifying a gene which is critical to male fertility; silencing this native gene which is critical to male fertility; removing the native promoter from the essential male fertility gene and replacing it with an inducible promoter; inserting this genetically engineered gene back into the plant; and thus creating a plant that is male sterile because the inducible promoter is not “on” resulting in the male fertility gene not being transcribed. Fertility is restored by inducing, or turning “on”, the promoter, which in turn allows the gene that confers male fertility to be transcribed.
These, and the other methods of conferring genetic male sterility in the art, each possess their own benefits and drawbacks. Some other methods use a variety of approaches such as delivering into the plant a gene encoding a cytotoxic substance associated with a male tissue specific promoter or an antisense system in which a gene critical to fertility is identified and an antisense to that gene is inserted in the plant (see Fabinjanski, et al. EPO 89/3010153.8 publication no. 329,308 and PCT application PCT/CA90/00037 published as WO 90/08828).
Another system for controlling male sterility makes use of gametocides. Gametocides are not a genetic system, but rather a topical application of chemicals. These chemicals affect cells that are critical to male fertility. The application of these chemicals affects fertility in the plants only for the growing season in which the gametocide is applied (see Carlson, Glenn R., U.S. Pat. No.: 4,936,904). Application of the gametocide, timing of the application and genotype specificity often limit the usefulness of the approach and it is not appropriate in all situations.
Incomplete control over male fertility may result in self-pollinated seed being unintentionally harvested and packaged with hybrid seed. This would typically be only female parent seed, because the male plant is grown in rows that are typically destroyed prior to seed development. Once the seed from the hybrid bag is planted, it is possible to identify and select these self-pollinated plants. These self-pollinated plants will be one of the inbred lines used to produce the hybrid. Though the possibility of inbred PHAR1 being included in a hybrid seed bag exists, the occurrence is very low because much care is taken by seed companies to avoid such inclusions. It is worth noting that hybrid seed is sold to growers for the production of grain or forage and not for breeding or seed production. These self-pollinated plants can be identified and selected by one skilled in the art due to their less vigorous appearance for vegetative and/or reproductive characteristics, including shorter plant height, small ear size, ear and kernel shape, cob color, or other characteristics.
Identification of these self-pollinated lines can also be accomplished through molecular marker analyses. See, “The Identification of Female Selfs in Hybrid Maize: A Comparison Using Electrophoresis and Morphology”, Smith, J. S. C. and Wych, R. D., Seed Science and Technology 14, 1-8 (1995), the disclosure of which is expressly incorporated herein by reference. Through these technologies, the homozygosity of the self pollinated line can be verified by analyzing allelic composition at various loci along the genome. Those methods allow for rapid identification of the invention disclosed herein. See also, “Identification of Atypical Plants in Hybrid Maize Seed by Postcontrol and Electrophoresis” Sarca, V. et al., Probleme de Genetica Teoritica si Aplicata Vol. 20 (1) p. 29-42.
An embodiment of this invention is a process for producing seed of PHAR1 comprising planting a collection of seed comprising seed of a hybrid, one of whose parents is inbred PHAR1 said collection also comprising seed of said inbred, growing plants from said collection of seed, identifying inbred parent plants, selecting said inbred parent plant; and controlling pollination to preserve the homozygosity of said inbred parent plant.
Transformation
The advent of new molecular biological techniques has allowed the isolation and characterization of genetic elements with specific functions, such as encoding specific protein products. Scientists in the field of plant biology developed a strong interest in engineering the genome of plants to contain and express foreign genetic elements, or additional, or modified versions of native or endogenous genetic elements in order to alter the traits of a plant in a specific manner. Any DNA sequences, whether from a different species or from the same species, which are inserted into the genome using transformation are referred to herein collectively as “transgenes”. In some embodiments of the invention, a transformed variant of PHAR1 may contain at least one transgene but could contain at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 and/or no more than 15, 14, 13, 12, 11, 10, 9, 8, 7, 6, 5, 4, 3, or 2. Over the last fifteen to twenty years several methods for producing transgenic plants have been developed, and the present invention also relates to transformed versions of the claimed inbred maize line PHAR1 as well as hybrid combinations thereof.
Numerous methods for plant transformation have been developed, including biological and physical plant transformation protocols. See, for example, Miki et al., “Procedures for Introducing Foreign DNA into Plants” in Methods in Plant Molecular Biology and Biotechnology, Glick, B. R. and Thompson, J. E. Eds. (CRC Press, Inc., Boca Raton, 1993) pages 67-88 and Armstrong, “The First Decade of Maize Transformation: A Review and Future Perspective” (Maydica 44:101-109, 1999). In addition, expression vectors and in vitro culture methods for plant cell or tissue transformation and regeneration of plants are available. See, for example, Gruber et al., “Vectors for Plant Transformation” in Methods in Plant Molecular Biology and Biotechnology, Glick, B. R. and Thompson, J. E. Eds. (CRC Press, Inc., Boca Raton, 1993) pages 89-119.
The most prevalent types of plant transformation involve the construction of an expression vector. Such a vector comprises a DNA sequence that contains a gene under the control of or operatively linked to a regulatory element, for example a promoter. The vector may contain one or more genes and one or more regulatory elements.
A genetic trait which has been engineered into the genome of a particular maize plant using transformation techniques, could be moved into the genome of another line using traditional breeding techniques that are well known in the plant breeding arts. For example, a backcrossing approach is commonly used to move a transgene from a transformed maize plant to an elite inbred line, and the resulting progeny would then comprise the transgene(s). Also, if an inbred line was used for the transformation then the transgenic plants could be crossed to a different inbred in order to produce a transgenic hybrid maize plant.
Various genetic elements can be introduced into the plant genome using transformation. These elements include, but are not limited to genes; coding sequences; inducible, constitutive, and tissue specific promoters; enhancing sequences; and signal and targeting sequences. For example, see the traits, genes and transformation methods listed in U.S. Pat. No. 6,118,055. In addition, transformability of a line can be increased by introgressing the trait of high transformability from another line known to have high transformability, such as Hi-II. See U.S. Patent Application Publication US2004/0016030 (2004).
With transgenic plants according to the present invention, a foreign protein can be produced in commercial quantities. Thus, techniques for the selection and propagation of transformed plants, which are well understood in the art, yield a plurality of transgenic plants that are harvested in a conventional manner, and a foreign protein then can be extracted from a tissue of interest or from total biomass. Protein extraction from plant biomass can be accomplished by known methods which are discussed, for example, by Heney and Orr, Anal. Biochem. 114: 92-6 (1981).
A genetic map can be generated, primarily via conventional Restriction Fragment Length Polymorphisms (RFLP), Polymerase Chain Reaction (PCR) analysis, Simple Sequence Repeats (SSR) and Single Nucleotide Polymorphisms (SNP) that identifies the approximate chromosomal location of the integrated DNA molecule. For exemplary methodologies in this regard, see Glick and Thompson, Methods in Plant Molecular Biology and Biotechnology 269-284 (CRC Press, Boca Raton, 1993).
Wang et al. discuss “Large Scale Identification, Mapping and Genotyping of Single-Nucleotide Polymorphisms in the Human Genome”, Science, 280:1077-1082, 1998, and similar capabilities are becoming increasingly available for the corn genome. Map information concerning chromosomal location is useful for proprietary protection of a subject transgenic plant. If unauthorized propagation is undertaken and crosses made with other germplasm, the map of the integration region can be compared to similar maps for suspect plants to determine if the latter have a common parentage with the subject plant. Map comparisons would involve hybridizations, RFLP, PCR, SSR and sequencing, all of which are conventional techniques. SNPs may also be used alone or in combination with other techniques.
Likewise, by means of the present invention, plants can be genetically engineered to express various phenotypes of agronomic interest. Through the transformation of maize the expression of genes can be altered to enhance disease resistance, insect resistance, herbicide resistance, agronomic, grain quality and other traits. Transformation can also be used to insert DNA sequences which control or help control male-sterility. DNA sequences native to maize as well as non-native DNA sequences can be transformed into maize and used to alter levels of native or non-native proteins. Various promoters, targeting sequences, enhancing sequences, and other DNA sequences can be inserted into the maize genome for the purpose of altering the expression of proteins. Reduction of the activity of specific genes (also known as gene silencing, or gene suppression) is desirable for several aspects of genetic engineering in plants.
Many techniques for gene silencing are well known to one of skill in the art, including but not limited to knock-outs (such as by insertion of a transposable element such as mu (Vicki Chandler, The Maize Handbook ch. 118 (Springer-Verlag 1994) or other genetic elements such as a FRT, Lox or other site specific integration site, antisense technology (see, e.g., Sheehy et al. (1988) PNAS USA 85:8805-8809; and U.S. Pat. Nos. 5,107,065; 5,453,566; and 5,759,829); co-suppression (e.g., Taylor (1997) Plant Cell 9:1245; Jorgensen (1990) Trends Biotech. 8(12):340-344; Flavell (1994) PNAS USA 91:3490-3496; Finnegan et al. (1994) Bio/Technology 12: 883-888; and Neuhuber et al. (1994) Mol. Gen. Genet. 244:230-241); RNA interference (Napoli et al. (1990) Plant Cell 2:279-289; U.S. Pat. No. 5,034,323; Sharp (1999) Genes Dev. 13:139-141; Zamore et al. (2000) Cell 101:25-33; and Montgomery et al. (1998) PNAS USA 95:15502-15507), virus-induced gene silencing (Burton, et al. (2000) Plant Cell 12:691-705; and Baulcombe (1999) Curr. Op. Plant Bio. 2:109-113); target-RNA-specific ribozymes (Haseloff et al. (1988) Nature 334: 585-591); hairpin structures (Smith et al. (2000) Nature 407:319-320; WO 99/53050; and WO 98/53083); MicroRNA (Aukerman & Sakai (2003) Plant Cell 15:2730-2741); ribozymes (Steinecke et al. (1992) EMBO J. 11:1525; and Perriman et al. (1993) Antisense Res. Dev. 3:253); oligonucleotide mediated targeted modification (e.g., WO 03/076574 and WO 99/25853); Zn-finger targeted molecules (e.g., WO 01/52620; WO 03/048345; and WO 00/42219); and other methods or combinations of the above methods known to those of skill in the art.
Exemplary nucleotide sequences that may be altered by genetic engineering include, but are not limited to, those categorized below.
1. Transgenes that Confer Resistance to Insects or Disease and that Encode:
(A) Plant disease resistance genes. Plant defenses are often activated by specific interaction between the product of a disease resistance gene (R) in the plant and the product of a corresponding avirulence (Avr) gene in the pathogen. A plant variety can be transformed with cloned resistance gene to engineer plants that are resistant to specific pathogen strains. See, for example Jones et al., Science 266: 789 (1994) (cloning of the tomato Cf-9 gene for resistance to Cladosporium fulvum); Martin et al., Science 262: 1432 (1993) (tomato Pto gene for resistance to Pseudomonas syringae pv. tomato encodes a protein kinase); Mindrinos et al., Cell 78: 1089 (1994) (Arabidopsis RSP2 gene for resistance to Pseudomonas syringae); McDowell & Woffenden, (2003) Trends Biotechnol. 21(4): 178-83 and Toyoda et al., (2002) Transgenic Res. 11(6):567-82. A plant resistant to a disease is one that is more resistant to a pathogen as compared to the wild type plant.
(B) A Bacillus thuringiensis protein, a derivative thereof or a synthetic polypeptide modeled thereon. See, for example, Geiser et al., Gene 48: 109 (1986), who disclose the cloning and nucleotide sequence of a Bt delta-endotoxin gene. Moreover, DNA molecules encoding delta-endotoxin genes can be purchased from American Type Culture Collection (Rockville, Md.), for example, under ATCC Accession Nos. 40098, 67136, 31995 and 31998. Other examples of Bacillus thuringiensis transgenes being genetically engineered are given in the following patents and patent applications and hereby are incorporated by reference for this purpose: U.S. Pat. Nos. 5,188,960; 5,689,052; 5,880,275; WO 91/14778; WO 99/31248; WO 01/12731; WO 99/24581; WO 97/40162 and U.S. application Ser. Nos. 10/032,717; 10/414,637; and 10/606,320.
(C) An insect-specific hormone or pheromone such as an ecdysteroid and juvenile hormone, a variant thereof, a mimetic based thereon, or an antagonist or agonist thereof. See, for example, the disclosure by Hammock et al., Nature 344: 458 (1990), of baculovirus expression of cloned juvenile hormone esterase, an inactivator of juvenile hormone.
(D) An insect-specific peptide which, upon expression, disrupts the physiology of the affected pest. For example, see the disclosures of Regan, J. Biol. Chem. 269: 9 (1994) (expression cloning yields DNA coding for insect diuretic hormone receptor); Pratt et al., Biochem. Biophys. Res. Comm. 163: 1243 (1989) (an allostatin is identified in Diploptera puntata); Chattopadhyay et al. (2004) Critical Reviews in Microbiology 30 (1): 33-54 2004; Zjawiony (2004) J Nat Prod 67 (2): 300-310; Carlini & Grossi-de-Sa (2002) Toxicon, 40 (11): 1515-1539; Ussuf et al. (2001) Curr Sci. 80 (7): 847-853; and Vasconcelos & Oliveira (2004) Toxicon 44 (4): 385-403. See also U.S. Pat. No. 5,266,317 to Tomalski et al., who disclose genes encoding insect-specific toxins.
(E) An enzyme responsible for a hyperaccumulation of a monterpene, a sesquiterpene, a steroid, hydroxamic acid, a phenylpropanoid derivative or another non-protein molecule with insecticidal activity.
(F) An enzyme involved in the modification, including the post-translational modification, of a biologically active molecule; for example, a glycolytic enzyme, a proteolytic enzyme, a lipolytic enzyme, a nuclease, a cyclase, a transaminase, an esterase, a hydrolase, a phosphatase, a kinase, a phosphorylase, a polymerase, an elastase, a chitinase and a glucanase, whether natural or synthetic. See PCT application WO 93/02197 in the name of Scott et al., which discloses the nucleotide sequence of a callase gene. DNA molecules which contain chitinase-encoding sequences can be obtained, for example, from the ATCC under Accession Nos. 39637 and 67152. See also Kramer et al., Insect Biochem. Molec. Biol. 23: 691 (1993), who teach the nucleotide sequence of a cDNA encoding tobacco hookworm chitinase, and Kawalleck et al., Plant Molec. Biol. 21: 673 (1993), who provide the nucleotide sequence of the parsley ubi4-2 polyubiquitin gene, U.S. application Ser. Nos. 10/389,432, 10/692,367, and U.S. Pat. No. 6,563,020.
(G) A molecule that stimulates signal transduction. For example, see the disclosure by Botella et al., Plant Molec. Biol. 24: 757 (1994), of nucleotide sequences for mung bean calmodulin cDNA clones, and Griess et al., Plant Physiol. 104: 1467 (1994), who provide the nucleotide sequence of a maize calmodulin cDNA clone.
(H) A hydrophobic moment peptide. See PCT application WO 95/16776 and U.S. Pat. No. 5,580,852 (disclosure of peptide derivatives of Tachyplesin which inhibit fungal plant pathogens) and PCT application WO 95/18855 and U.S. Pat. No. 5,607,914) (teaches synthetic antimicrobial peptides that confer disease resistance).
(I) A membrane permease, a channel former or a channel blocker. For example, see the disclosure by Jaynes et al., Plant Sci. 89: 43 (1993), of heterologous expression of a cecropin-beta lytic peptide analog to render transgenic tobacco plants resistant to Pseudomonas solanacearum. 
(J) A viral-invasive protein or a complex toxin derived therefrom. For example, the accumulation of viral coat proteins in transformed plant cells imparts resistance to viral infection and/or disease development effected by the virus from which the coat protein gene is derived, as well as by related viruses. See Beachy et al., Ann. Rev. Phytopathol. 28: 451 (1990). Coat protein-mediated resistance has been conferred upon transformed plants against alfalfa mosaic virus, cucumber mosaic virus, tobacco streak virus, potato virus X, potato virus Y, tobacco etch virus, tobacco rattle virus and tobacco mosaic virus. Id.
(K) An insect-specific antibody or an immunotoxin derived therefrom. Thus, an antibody targeted to a critical metabolic function in the insect gut would inactivate an affected enzyme, killing the insect. Cf. Taylor et al., Abstract #497, SEVENTH INT'L SYMPOSIUM ON MOLECULAR PLANT-MICROBE INTERACTIONS (Edinburgh, Scotland, 1994) (enzymatic inactivation in transgenic tobacco via production of single-chain antibody fragments).
(L) A virus-specific antibody. See, for example, Tavladoraki et al., Nature 366: 469 (1993), who show that transgenic plants expressing recombinant antibody genes are protected from virus attack.
(M) A developmental-arrestive protein produced in nature by a pathogen or a parasite. Thus, fungal endo alpha-1,4-D-polygalacturonases facilitate fungal colonization and plant nutrient release by solubilizing plant cell wall homo-alpha-1,4-D-galacturonase. See Lamb et al., Bio/Technology 10: 1436 (1992). The cloning and characterization of a gene which encodes a bean endopolygalacturonase-inhibiting protein is described by Toubart et al., Plant J. 2: 367 (1992).
(N) A developmental-arrestive protein produced in nature by a plant. For example, Logemann et al., Bio/Technology 10: 305 (1992), have shown that transgenic plants expressing the barley ribosome-inactivating gene have an increased resistance to fungal disease.
(O) Genes involved in the Systemic Acquired Resistance (SAR) Response and/or the pathogenesis related genes. Briggs, S., Current Biology, 5(2):128-131 (1995), Pieterse & Van Loon (2004) Curr. Opin. Plant Bio. 7(4):456-64 and Somssich (2003) Cell 113(7):815-6.
(P) Antifungal genes (Cornelissen and Melchers, Pl. Physiol. 101:709-712, (1993) and Parijs et al., Planta 183:258-264, (1991) and Bushnell et al., Can. J. of Plant Path. 20(2):137-149 (1998). Also see U.S. application Ser. No. 09/950,933.
(Q) Detoxification genes, such as for fumonisin, beauvericin, moniliformin and zearalenone and their structurally related derivatives. For example, see U.S. Pat. No. 5,792,931.
(R) Cystatin and cysteine proteinase inhibitors. See U.S. application Ser. No. 10/947,979.
(S) Defensin genes. See WO03000863 and U.S. application Ser. No. 10/178,213.
(T) Genes conferring resistance to nematodes. See WO 03/033651 and Urwin et. al., Planta 204:472-479 (1998), Williamson (1999) Curr Opin Plant Bio. 2(4):327-31.
2. Transgenes that Confer Resistance to a Herbicide, for Example:
(A) A herbicide that inhibits the growing point or meristem, such as an imidazolinone or a sulfonylurea. Exemplary genes in this category code for mutant ALS and AHAS enzyme as described, for example, by Lee et al., EMBO J. 7: 1241 (1988), and Miki et al., Theor. Appl. Genet. 80: 449 (1990), respectively. See also, U.S. Pat. Nos. 5,605,011; 5,013,659; 5,141,870; 5,767,361; 5,731,180; 5,304,732; 4,761,373; 5,331,107; 5,928,937; and 5,378,824; and international publication WO 96/33270, which are incorporated herein by reference for this purpose.
(B) Glyphosate (resistance imparted by mutant 5-enolpyruvl-3-phosphikimate synthase (EPSP) and aroA genes, respectively) and other phosphono compounds such as glufosinate (phosphinothricin acetyl transferase (PAT) and Streptomyces hygroscopicus phosphinothricin acetyl transferase (bar) genes), and pyridinoxy or phenoxy proprionic acids and cycloshexones (ACCase inhibitor-encoding genes). See, for example, U.S. Pat. No. 4,940,835 to Shah et al., which discloses the nucleotide sequence of a form of EPSPS which can confer glyphosate resistance. U.S. Pat. No. 5,627,061 to Barry et al. also describes genes encoding EPSPS enzymes. See also U.S. Pat. Nos. 6,566,587; 6,338,961; 6,248,876 B1; 6,040,497; 5,804,425; 5,633,435; 5,145,783; 4,971,908; 5,312,910; 5,188,642; 4,940,835; 5,866,775; 6,225,114 B1; 6,130,366; 5,310,667; 4,535,060; 4,769,061; 5,633,448; 5,510,471; Re. 36,449; RE 37,287 E; and 5,491,288; and international publications EP1173580; WO 01/66704; EP1173581 and EP1173582, which are incorporated herein by reference for this purpose. Glyphosate resistance is also imparted to plants that express a gene that encodes a glyphosate oxido-reductase enzyme as described more fully in U.S. Pat. Nos. 5,776,760 and 5,463,175, which are incorporated herein by reference for this purpose. In addition glyphosate resistance can be imparted to plants by the over expression of genes encoding glyphosate N-acetyltransferase. See, for example, U.S. application Ser. Nos. US01/46227; Ser. Nos. 10/427,692 and 10/427,692. A DNA molecule encoding a mutant aroA gene can be obtained under ATCC accession No. 39256, and the nucleotide sequence of the mutant gene is disclosed in U.S. Pat. No. 4,769,061 to Comai. European Patent Application No. 0 333 033 to Kumada et al. and U.S. Pat. No. 4,975,374 to Goodman et al. disclose nucleotide sequences of glutamine synthetase genes which confer resistance to herbicides such as L-phosphinothricin. The nucleotide sequence of a phosphinothricin-acetyl-transferase gene is provided in European Patent No. 0 242 246 and 0 242 236 to Leemans et al. De Greef et al., Bio/Technology 7: 61 (1989), describe the production of transgenic plants that express chimeric bar genes coding for phosphinothricin acetyl transferase activity. See also, U.S. Pat. Nos. 5,969,213; 5,489,520; 5,550,318; 5,874,265; 5,919,675; 5,561,236; 5,648,477; 5,646,024; 6,177,616 B1; and 5,879,903, which are incorporated herein by reference for this purpose. Exemplary genes conferring resistance to phenoxy proprionic acids and cycloshexones, such as sethoxydim and haloxyfop, are the Acc1-S1, Acc1-S2 and Acc1-S3 genes described by Marshall et al., Theor. Appl. Genet. 83:435 (1992).
(C) A herbicide that inhibits photosynthesis, such as a triazine (psbA and gs+ genes) and a benzonitrile (nitrilase gene). Przibilla et al., Plant Cell 3: 169 (1991), describe the transformation of Chlamydomonas with plasmids encoding mutant psbA genes. Nucleotide sequences for nitrilase genes are disclosed in U.S. Pat. No. 4,810,648 to Stalker, and DNA molecules containing these genes are available under ATCC Accession Nos. 53435, 67441 and 67442. Cloning and expression of DNA coding for a glutathione S-transferase is described by Hayes et al., Biochem. J. 285:173 (1992).
(D) Acetohydroxy acid synthase, which has been found to make plants that express this enzyme resistant to multiple types of herbicides, has been introduced into a variety of plants (see, e.g., Hattori et al. (1995) Mol Gen Genet. 246:419). Other genes that confer resistance to herbicides include: a gene encoding a chimeric protein of rat cytochrome P4507A1 and yeast NADPH-cytochrome P450 oxidoreductase (Shiota et al. (1994) Plant Physiol. 106:17), genes for glutathione reductase and superoxide dismutase (Aono et al. (1995) Plant Cell Physiol 36:1687, and genes for various phosphotransferases (Datta et al. (1992) Plant Mol Biol 20:619).
(E) Protoporphyrinogen oxidase (protox) is necessary for the production of chlorophyll, which is necessary for all plant survival. The protox enzyme serves as the target for a variety of herbicidal compounds. These herbicides also inhibit growth of all the different species of plants present, causing their total destruction. The development of plants containing altered protox activity which are resistant to these herbicides are described in U.S. Pat. No. 6,288,306 B1; 6,282,837 B1; and 5,767,373; and international publication WO 01/12825.
3. Transgenes that Confer or Contribute to an Altered Grain Characteristic, Such As:
(A) Altered fatty acids, for example, by

    
    
        (1) Down-regulation of stearoyl-ACP desaturase to increase stearic acid content of the plant. See Knultzon et al., Proc. Natl. Acad. Sci. USA 89: 2624 (1992) and WO99/64579 (Genes for Desaturases to Alter Lipid Profiles in Corn),
        (2) Elevating oleic acid via FAD-2 gene modification and/or decreasing linolenic acid via FAD-3 gene modification (see U.S. Pat. Nos. 6,063,947; 6,323,392; 6,372,965 and WO 93/11245),
        (3) Altering conjugated linolenic or linoleic acid content, such as in WO 01/12800,
        (4) Altering LEC1, AGP, Dek1, Superal1, mi1ps, various Ipa genes such as Ipa1, Ipa3, hpt or hggt. For example, see WO 02/42424, WO 98/22604, WO 03/011015, U.S. Pat. No. 6,423,886, U.S. Pat. No. 6,197,561, U.S. Pat. No. 6,825,397, US2003/0079247, US2003/0204870, WO02/057439, WO03/011015 and Rivera-Madrid, R. et. al. Proc. Natl. Acad. Sci. 92:5620-5624 (1995).
    
    


(B) Altered phosphorus content, for example, by the

    
    
        (1) Introduction of a phytase-encoding gene would enhance breakdown of phytate, adding more free phosphate to the transformed plant. For example, see Van Hartingsveldt et al., Gene 127: 87 (1993), for a disclosure of the nucleotide sequence of an Aspergillus niger phytase gene.
        (2) Up-regulation of a gene that reduces phytate content. In maize, this, for example, could be accomplished, by cloning and then re-introducing DNA associated with one or more of the alleles, such as the LPA alleles, identified in maize mutants characterized by low levels of phytic acid, such as in Raboy et al., Maydica 35: 383 (1990) and/or by altering inositol kinase activity as in WO 02/059324, US2003/0009011, WO 03/027243, US2003/0079247, WO 99/05298, U.S. Pat. No. 6,197,561, U.S. Pat. No. 6,291,224, U.S. Pat. No. 6,391,348, WO2002/059324, US2003/0079247, Wo98/45448, WO99/55882, WO01/04147.
    
    


(C) Altered carbohydrates effected, for example, by altering a gene for an enzyme that affects the branching pattern of starch or a gene altering thioredoxin (See U.S. Pat. No. 6,531,648). See Shiroza et al., J. Bacteriol. 170: 810 (1988) (nucleotide sequence of Streptococcus mutans fructosyltransferase gene), Steinmetz et al., Mol. Gen. Genet. 200: 220 (1985) (nucleotide sequence of Bacillus subtilis levansucrase gene), Pen et al., Bio/Technology 10: 292 (1992) (production of transgenic plants that express Bacillus licheniformis alpha-amylase), Elliot et al., Plant Molec. Biol. 21: 515 (1993) (nucleotide sequences of tomato invertase genes), Søgaard et al., J. Biol. Chem. 268: 22480 (1993) (site-directed mutagenesis of barley alpha-amylase gene), and Fisher et al., Plant Physiol. 102: 1045 (1993) (maize endosperm starch branching enzyme II), WO 99/10498 (improved digestibility and/or starch extraction through modification of UDP-D-xylose 4-epimerase, Fragile 1 and 2, Ref1, HCHL, C4H), U.S. Pat. No. 6,232,529 (method of producing high oil seed by modification of starch levels (AGP)). The fatty acid modification genes mentioned above may also be used to affect starch content and/or composition through the interrelationship of the starch and oil pathways.
(D) Altered antioxidant content or composition, such as alteration of tocopherol or tocotrienols. For example, see U.S. Pat. No. 6,787,683, US2004/0034886 and WO 00/68393 involving the manipulation of antioxidant levels through alteration of a phytl prenyl transferase (ppt), WO 03/082899 through alteration of a homogentisate geranyl geranyl transferase (hggt).
(E) Altered essential seed amino acids. For example, see U.S. Pat. No. 6,127,600 (method of increasing accumulation of essential amino acids in seeds), U.S. Pat. No. 6,080,913 (binary methods of increasing accumulation of essential amino acids in seeds), U.S. Pat. No. 5,990,389 (high lysine), WO99/40209 (alteration of amino acid compositions in seeds), WO99/29882 (methods for altering amino acid content of proteins), U.S. Pat. No. 5,850,016 (alteration of amino acid compositions in seeds), WO98/20133 (proteins with enhanced levels of essential amino acids), U.S. Pat. No. 5,885,802 (high methionine), U.S. Pat. No. 5,885,801 (high threonine), U.S. Pat. No. 6,664,445 (plant amino acid biosynthetic enzymes), U.S. Pat. No. 6,459,019 (increased lysine and threonine), U.S. Pat. No. 6,441,274 (plant tryptophan synthase beta subunit), U.S. Pat. No. 6,346,403 (methionine metabolic enzymes), U.S. Pat. No. 5,939,599 (high sulfur), U.S. Pat. No. 5,912,414 (increased methionine), WO98/56935 (plant amino acid biosynthetic enzymes), WO98/45458 (engineered seed protein having higher percentage of essential amino acids), WO98/42831 (increased lysine), U.S. Pat. No. 5,633,436 (increasing sulfur amino acid content), U.S. Pat. No. 5,559,223 (synthetic storage proteins with defined structure containing programmable levels of essential amino acids for improvement of the nutritional value of plants), WO96/01905 (increased threonine), WO95/15392 (increased lysine), US2003/0163838, US2003/0150014, US2004/0068767, U.S. Pat. No. 6,803,498, WO01/79516, and WO00/09706 (Ces A: cellulose synthase), U.S. Pat. No. 6,194,638 (hemicellulose), U.S. Pat. No. 6,399,859 and US2004/0025203 (UDPGdH), U.S. Pat. No. 6,194,638 (RGP).
4. Genes that Control Male-sterility
There are several methods of conferring genetic male sterility available, such as multiple mutant genes at separate locations within the genome that confer male sterility, as disclosed in U.S. Pat. Nos. 4,654,465 and 4,727,219 to Brar et al. and chromosomal translocations as described by Patterson in U.S. Pat. Nos. 3,861,709 and 3,710,511. In addition to these methods, Albertsen et al., U.S. Pat. No. 5,432,068, describe a system of nuclear male sterility which includes: identifying a gene which is critical to male fertility; silencing this native gene which is critical to male fertility; removing the native promoter from the essential male fertility gene and replacing it with an inducible promoter; inserting this genetically engineered gene back into the plant; and thus creating a plant that is male sterile because the inducible promoter is not “on” resulting in the male fertility gene not being transcribed. Fertility is restored by inducing, or turning “on”, the promoter, which in turn allows the gene that confers male fertility to be transcribed.
(A) Introduction of a deacetylase gene under the control of a tapetum-specific promoter and with the application of the chemical N—Ac-PPT (WO 01/29237).
(B) Introduction of various stamen-specific promoters (WO 92/13956, WO 92/13957).
(C) Introduction of the barnase and the barstar gene (Paul et al. Plant Mol. Biol. 19:611-622, 1992).
For additional examples of nuclear male and female sterility systems and genes, see also, U.S. Pat. No. 5,859,341; U.S. Pat. No. 6,297,426; U.S. Pat. No. 5,478,369; U.S. Pat. No. 5,824,524; U.S. Pat. No. 5,850,014; and U.S. Pat. No. 6,265,640; all of which are hereby incorporated by reference.
5. Genes that create a site for site specific DNA integration. This includes the introduction of FRT sites that may be used in the FLP/FRT system and/or Lox sites that may be used in the Cre/Loxp system. For example, see Lyznik, et al., Site-Specific Recombination for Genetic Engineering in Plants, Plant Cell Rep (2003) 21:925-932 and WO 99/25821, which are hereby incorporated by reference. Other systems that may be used include the Gin recombinase of phage Mu (Maeser et al., 1991; Vicki Chandler, The Maize Handbook ch. 118 (Springer-Verlag 1994), the Pin recombinase of E. coli (Enomoto et al., 1983), and the R/RS system of the pSR1 plasmid (Araki et al., 1992).

6. Genes that affect abiotic stress resistance (including but not limited to flowering, ear and seed development, enhancement of nitrogen utilization efficiency, altered nitrogen responsiveness, drought resistance or tolerance, cold resistance or tolerance, and salt resistance or tolerance) and increased yield under stress. For example, see: WO 00/73475 where water use efficiency is altered through alteration of malate; U.S. Pat. No. 5,892,009, U.S. Pat. No. 5,965,705, U.S. Pat. No. 5,929,305, U.S. Pat. No. 5,891,859, U.S. Pat. No. 6,417,428, U.S. Pat. No. 6,664,446, U.S. Pat. No. 6,706,866, U.S. Pat. No. 6,717,034, U.S. Pat. No. 6,801,104, WO2000060089, WO2001026459, WO2001035725, WO2001034726, WO2001035727, WO2001036444, WO2001036597, WO2001036598, WO2002015675, WO2002017430, WO2002077185, WO2002079403, WO2003013227, WO2003013228, WO2003014327, WO2004031349, WO2004076638, WO9809521, and WO9938977 describing genes, including CBF genes and transcription factors effective in mitigating the negative effects of freezing, high salinity, and drought on plants, as well as conferring other positive effects on plant phenotype; US2004/0148654 and WO01/36596 where abscisic acid is altered in plants resulting in improved plant phenotype such as increased yield and/or increased tolerance to abiotic stress; WO2000/006341, WO04/090143, U.S. application Ser. Nos. 10/817,483 and 09/545,334 where cytokinin expression is modified resulting in plants with increased stress tolerance, such as drought tolerance, and/or increased yield. Also see WO0202776, WO2003052063, JP2002281975, U.S. Pat. No. 6,084,153, WO0164898, U.S. Pat. No. 6,177,275, and U.S. Pat. No. 6,107,547 (enhancement of nitrogen utilization and altered nitrogen responsiveness). For ethylene alteration, see US20040128719, US20030166197 and WO200032761. For plant transcription factors or transcriptional regulators of abiotic stress, see e.g. US20040098764 or US20040078852.

Other genes and transcription factors that affect plant growth and agronomic traits such as yield, flowering, plant growth and/or plant structure, can be introduced or introgressed into plants, see e.g. WO97/49811 (LHY), WO98/56918 (ESD4), WO97/10339 and U.S. Pat. No. 6,573,430 (TFL), U.S. Pat. No. 6,713,663 (FT), WO96/14414 (CON), WO96/38560, WO01/21822 (VRN1), WO00/44918 (VRN2), WO99/49064 (GI), WO00/46358 (FRI), WO97/29123, U.S. Pat. No. 6,794,560, U.S. Pat. No. 6,307,126 (GAI), WO99/09174 (D8 and Rht), and WO2004076638 and WO2004031349 (transcription factors).
Using PHAR1 to Develop Other Maize Inbreds
Inbred maize lines such as PHAR1 are typically developed for use in the production of hybrid maize lines. However, inbred lines such as PHAR1 also provide a source of breeding material that may be used to develop new maize inbred lines. Plant breeding techniques known in the art and used in a maize plant breeding program include, but are not limited to, recurrent selection, mass selection, bulk selection, mass selection, backcrossing, pedigree breeding, open pollination breeding, restriction fragment length polymorphism enhanced selection, genetic marker enhanced selection, making double haploids, and transformation. Often combinations of these techniques are used. The development of maize hybrids in a maize plant breeding program requires, in general, the development of homozygous inbred lines, the crossing of these lines, and the evaluation of the crosses. There are many analytical methods available to evaluate the result of a cross. The oldest and most traditional method of analysis is the observation of phenotypic traits but genotypic analysis may also be used.
Using PHAR1 in a Breeding Program
This invention is directed to methods for producing a maize plant by crossing a first parent maize plant with a second parent maize plant wherein either the first or second parent maize plant is an inbred maize plant of the line PHAR1. The other parent may be any other maize plant, such as another inbred line or a plant that is part of a synthetic or natural population. Any such methods using the inbred maize line PHAR1 are part of this invention: selfing, sibbing, backcrosses, mass selection, pedigree breeding, bulk selection, hybrid production, crosses to populations, and the like. These methods are well known in the art and some of the more commonly used breeding methods are described below. Descriptions of breeding methods can also be found in one of several reference books (e.g., Allard, Principles of Plant Breeding, 1960; Simmonds, Principles of Crop Improvement, 1979; Fehr, “Breeding Methods for Cultivar Development”, Production and Uses, 2nd ed., Wilcox editor, 1987).
Pedigree Breeding
Pedigree breeding starts with the crossing of two genotypes, such as PHAR1 and one other elite inbred line having one or more desirable characteristics that is lacking or which complements PHAR1. If the two original parents do not provide all the desired characteristics, other sources can be included in the breeding population. In the pedigree method, superior plants are selfed and selected in successive filial generations. In the succeeding filial generations the heterozygous condition gives way to homogeneous lines as a result of self-pollination and selection. Typically in the pedigree method of breeding, five or more successive filial generations of selfing and selection is practiced: F1→F2; F2→F3; F3→F4; F4→F5, etc. After a sufficient amount of inbreeding, successive filial generations will serve to increase seed of the developed inbred. Preferably, the inbred line comprises homozygous alleles at about 95% or more of its loci.
In addition to being used to create a backcross conversion, backcrossing can also be used in combination with pedigree breeding to modify PHAR1 and a hybrid that is made using the modified PHAR1. As discussed previously, backcrossing can be used to transfer one or more specifically desirable traits from one line, the donor parent, to an inbred called the recurrent parent, which has overall good agronomic characteristics yet lacks that desirable trait or traits. However, the same procedure can be used to move the progeny toward the genotype of the recurrent parent but at the same time retain many components of the non-recurrent parent by stopping the backcrossing at an early stage and proceeding with selfing and selection. For example, an F1, such as a commercial hybrid, is created. This commercial hybrid may be backcrossed to one of its parent lines to create a BC1 or BC2. Progeny are selfed and selected so that the newly developed inbred has many of the attributes of the recurrent parent and yet several of the desired attributes of the non-recurrent parent. This approach leverages the value and strengths of the recurrent parent for use in new hybrids and breeding.
Therefore, an embodiment of this invention is a method of making a backcross conversion of maize inbred line PHAR1, comprising the steps of crossing a plant of maize inbred line PHAR1 with a donor plant comprising a mutant gene or transgene conferring a desired trait, selecting an F1 progeny plant comprising the mutant gene or transgene conferring the desired trait, and backcrossing the selected F1 progeny plant to a plant of maize inbred line PHAR1. This method may further comprise the step of obtaining a molecular marker profile of maize inbred line PHAR1 and using the molecular marker profile to select for a progeny plant with the desired trait and the molecular marker profile of PHAR1. In the same manner, this method may be used to produce an F1 hybrid seed by adding a final step of crossing the desired trait conversion of maize inbred line PHAR1 with a different maize plant to make F1 hybrid maize seed comprising a mutant gene or transgene conferring the desired trait.
Recurrent Selection and Mass Selection
Recurrent selection is a method used in a plant breeding program to improve a population of plants. PHAR1 is suitable for use in a recurrent selection program. The method entails individual plants cross pollinating with each other to form progeny. The progeny are grown and the superior progeny selected by any number of selection methods, which include individual plant, half-sib progeny, full-sib progeny, selfed progeny and topcrossing. The selected progeny are cross pollinated with each other to form progeny for another population. This population is planted and again superior plants are selected to cross pollinate with each other. Recurrent selection is a cyclical process and therefore can be repeated as many times as desired. The objective of recurrent selection is to improve the traits of a population. The improved population can then be used as a source of breeding material to obtain inbred lines to be used in hybrids or used as parents for a synthetic cultivar. A synthetic cultivar is the resultant progeny formed by the intercrossing of several selected inbreds.
Mass selection is a useful technique when used in conjunction with molecular marker enhanced selection. In mass selection seeds from individuals are selected based on phenotype and/or genotype. These selected seeds are then bulked and used to grow the next generation. Bulk selection requires growing a population of plants in a bulk plot, allowing the plants to self-pollinate, harvesting the seed in bulk and then using a sample of the seed harvested in bulk to plant the next generation. Instead of self pollination, directed pollination could be used as part of the breeding program.
Mutation Breeding
Mutation breeding is one of many methods that could be used to introduce new traits into PHAR1. Mutations that occur spontaneously or are artificially induced can be useful sources of variability for a plant breeder. The goal of artificial mutagenesis is to increase the rate of mutation for a desired characteristic. Mutation rates can be increased by many different means including temperature, long-term seed storage, tissue culture conditions, radiation; such as X-rays, Gamma rays (e.g. cobalt 60 or cesium 137), neutrons, (product of nuclear fission by uranium 235 in an atomic reactor), Beta radiation (emitted from radioisotopes such as phosphorus 32 or carbon 14), or ultraviolet radiation (preferably from 2500 to 2900 nm), or chemical mutagens (such as base analogues (5-bromo-uracil), related compounds (8-ethoxy caffeine), antibiotics (streptonigrin), alkylating agents (sulfur mustards, nitrogen mustards, epoxides, ethylenamines, sulfates, sulfonates, sulfones, lactones), azide, hydroxylamine, nitrous acid, or acridines. Once a desired trait is observed through mutagenesis the trait may then be incorporated into existing germplasm by traditional breeding techniques, such as backcrossing. Details of mutation breeding can be found in “Principles of Cultivar Development” Fehr, 1993 Macmillan Publishing Company. In addition, mutations created in other lines may be used to produce a backcross conversion of PHAR1 that comprises such mutation.
Breeding with Molecular Markers
Molecular markers, which includes markers identified through the use of techniques such as Isozyme Electrophoresis, Restriction Fragment Length Polymorphisms (RFLPs), Randomly Amplified Polymorphic DNAs (RAPDs), Arbitrarily Primed Polymerase Chain Reaction (AP-PCR), DNA Amplification Fingerprinting (DAF), Sequence Characterized Amplified Regions (SCARs), Amplified Fragment Length Polymorphisms (AFLPs), Simple Sequence Repeats (SSRs) and Single Nucleotide Polymorphisms (SNPs), may be used in plant breeding methods utilizing PHAR1.
Isozyme Electrophoresis and RFLPs as discussed in Lee, M., “Inbred Lines of Maize and Their Molecular Markers,” The Maize Handbook, (Springer-Verlag, New York, Inc. 1994, at 423-432), have been widely used to determine genetic composition. Isozyme Electrophoresis has a relatively low number of available markers and a low number of allelic variants among maize inbreds. RFLPs allow more discrimination because they have a higher degree of allelic variation in maize and a larger number of markers can be found. Both of these methods have been eclipsed by SSRs as discussed in Smith et al., “An evaluation of the utility of SSR loci as molecular markers in maize (Zea mays L.): comparisons with data from RFLPs and pedigree”, Theoretical and Applied Genetics (1997) vol. 95 at 163-173 and by Pejic et al., “Comparative analysis of genetic similarity among maize inbreds detected by RFLPs, RAPDs, SSRs, and AFLPs,” Theoretical and Applied Genetics (1998) at 1248-1255 incorporated herein by reference. SSR technology is more efficient and practical to use than RFLPs; more marker loci can be routinely used and more alleles per marker locus can be found using SSRs in comparison to RFLPs. Single Nucleotide Polymorphisms may also be used to identify the unique genetic composition of the invention and progeny lines retaining that unique genetic composition. Various molecular marker techniques may be used in combination to enhance overall resolution.
Maize DNA molecular marker linkage maps have been rapidly constructed and widely implemented in genetic studies. One such study is described in Boppenmaier, et al., “Comparisons among strains of inbreds for RFLPs”, Maize Genetics Cooperative Newsletter, 65:1991, pg. 90, is incorporated herein by reference.
One use of molecular markers is Quantitative Trait Loci (QTL) mapping. QTL mapping is the use of markers, which are known to be closely linked to alleles that have measurable effects on a quantitative trait. Selection in the breeding process is based upon the accumulation of markers linked to the positive effecting alleles and/or the elimination of the markers linked to the negative effecting alleles from the plant's genome.
Molecular markers can also be used during the breeding process for the selection of qualitative traits. For example, markers closely linked to alleles or markers containing sequences within the actual alleles of interest can be used to select plants that contain the alleles of interest during a backcrossing breeding program. The markers can also be used to select for the genome of the recurrent parent and against the genome of the donor parent. Using this procedure can minimize the amount of genome from the donor parent that remains in the selected plants. It can also be used to reduce the number of crosses back to the recurrent parent needed in a backcrossing program. The use of molecular markers in the selection process is often called genetic marker enhanced selection.
Production of Double Haploids
The production of double haploids can also be used for the development of inbreds in the breeding program. For example, an F1 hybrid for which PHAR1 is a parent can be used to produce double haploid plants. Double haploids are produced by the doubling of a set of chromosomes (1N) from a heterozygous plant to produce a completely homozygous individual. For example, see Wan et al., “Efficient Production of Doubled Haploid Plants Through Colchicine Treatment of Anther-Derived Maize Callus”, Theoretical and Applied Genetics, 77:889-892, 1989 and US2003/0005479. This can be advantageous because the process omits the generations of selfing needed to obtain a homozygous plant from a heterozygous source.
Thus, an embodiment of this invention is a process for making a substantially homozygous PHAR1 progeny plant by producing or obtaining a seed from the cross of PHAR1 and another maize plant and applying double haploid methods to the F1 seed or F1 plant or to any successive filial generation. Such methods decrease the number of generations required to produce an inbred with similar genetics or characteristics to PHAR1. See Bernardo, R. and Kahler, A. L., Theor. Appl. Genet. 102:986-992, 2001.
In particular, a process of making seed retaining the molecular marker profile of maize inbred line PHAR1 is contemplated, such process comprising obtaining or producing F1 hybrid seed for which maize inbred line PHAR1 is a parent, inducing doubled haploids to create progeny without the occurrence of meiotic segregation, obtaining the molecular marker profile of maize inbred line PHAR1, and selecting progeny that retain the molecular marker profile of PHAR1.
Use of PHAR1 in Tissue Culture
This invention is also directed to the use of PHAR1 in tissue culture. As used herein, the term “tissue culture” includes plant protoplasts, plant cell tissue culture, cultured microspores, plant calli, plant clumps, and the like. As used herein, phrases such as “growing the seed” or “grown from the seed” include embryo rescue, isolation of cells from seed for use in tissue culture, as well as traditional growing methods.
Duncan, Williams, Zehr, and Widholm, Planta (1985) 165:322-332 reflects that 97% of the plants cultured that produced callus were capable of plant regeneration. Subsequent experiments with both inbreds and hybrids produced 91% regenerable callus that produced plants. In a further study in 1988, Songstad, Duncan & Widholm in Plant Cell Reports (1988), 7:262-265 reports several media additions that enhance regenerability of callus of two inbred lines. Other published reports also indicated that “nontraditional” tissues are capable of producing somatic embryogenesis and plant regeneration. K. P. Rao, et al., Maize Genetics Cooperation Newsletter, 60:64-65 (1986), refers to somatic embryogenesis from glume callus cultures and B. V. Conger, et al., Plant Cell Reports, 6:345-347 (1987) indicates somatic embryogenesis from the tissue cultures of maize leaf segments. Thus, it is clear from the literature that the state of the art is such that these methods of obtaining plants are, and were, “conventional” in the sense that they are routinely used and have a very high rate of success.
Tissue culture of maize, including tassel/anther culture, is described in U.S. 2002/0062506A1 and European Patent Application, publication EP0160,390, each of which are incorporated herein by reference for this purpose. Maize tissue culture procedures are also described in Green and Rhodes, “Plant Regeneration in Tissue Culture of Maize,” Maize for Biological Research (Plant Molecular Biology Association, Charlottesville, Va. 1982, at 367-372) and in Duncan, et al., “The Production of Callus Capable of Plant Regeneration from Immature Embryos of Numerous Zea Mays Genotypes,” 165 Planta 322-332 (1985). Thus, another aspect of this invention is to provide cells which upon growth and differentiation produce maize plants having the genotype and/or physiological and morphological characteristics of inbred line PHAR1.
Progeny Plants
All plants produced by the use of the methods described herein and that retain the unique genetic or trait combinations of PHAR1 are within the scope of the invention. Progeny of the breeding methods described herein may be characterized in any number of ways, such as by traits retained in the progeny, pedigree and/or molecular markers. Combinations of these methods of characterization may be used.
Breeder's of ordinary skill in the art have developed the concept of an “essentially derived variety”, which is defined in 7 U.S.C. § 2104(a)(3) of the Plant Variety Protection Act and is hereby incorporated by reference. Varieties and plants that are essentially derived from PHAR1 are within the scope of the invention.
Pedigree is a method used by breeders of ordinary skill in the art to describe the varieties. Varieties that are more closely related by pedigree are likely to share common genotypes and combinations of phenotypic characteristics. All breeders of ordinary skill in the art maintain pedigree records of their breeding programs. These pedigree records contain a detailed description of the breeding process, including a listing of all parental lines used in the breeding process and information on how such line was used. One embodiment of this invention is progeny plants and parts thereof with at least one ancestor that is PHAR1, and more specifically, where the pedigree of the progeny includes 1, 2, 3, 4, and/or 5 or less breeding crosses to a maize plant other than PHAR1 or a plant that has PHAR1 as a parent or other progenitor. A breeder of ordinary skill in the art would know if PHAR1 were used in the development of a progeny line, and would also know how many crosses to a line other than PHAR1 or line with PHAR1 as a parent or other progenitor were made in the development of any progeny line.
Molecular markers also provide a means by which those of ordinary skill in the art characterize the similarity or differences of two lines. Using the breeding methods described herein, one can develop individual plants, plant cells, and populations of plants that retain at least 25%, 30%, 35%, 40%, 45%, 50%, 55%, 60%, 61%, 62%, 63%, 64%, 65%, 66%, 67%, 68%, 69%, 70%, 71%, 72%, 73%, 74%, 75%, 76%, 77%, 78%, 79%, 80%, 81%, 82%, 83%, 84%, 85%, 86%, 87%, 88%, 89%, 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 99.5% genetic contribution from inbred line PHAR1, as measured by either percent identity or percent similarity. On average 50% of the starting germplasm would be expected to be passed to the progeny line after one cross to another line, 25% after another cross to a different line, and so on. With backcrossing, the expected contribution of PHAR1 after 2, 3, 4 and 5 doses (or 1, 2, 3 and 4 backcrosses) would be 75%, 87.5%, 93.75% and 96.875% respectively. Actual genetic contribution may be much higher than the genetic contribution expected by pedigree, especially if molecular markers are used in selection. Molecular markers could also be used to confirm and/or determine the pedigree of the progeny line.
Traits are also used by those of ordinary skill in the art to characterize progeny. Traits are commonly evaluated at a significance level, such as a 1%, 5% or 10% significance level, when measured in plants grown in the same environmental conditions. For example, a backcross conversion of PHAR1 may be characterized as having the same morphological and physiological traits as PHAR1. The traits used for comparison may be those traits shown in Table 1, Table 3, Table 4 or Table 5.
A breeder will commonly work to combine a specific trait of an undeveloped variety of the species, such as a high level of resistance to a particular disease, with one or more of the elite agronomic characteristics (yield, maturity, plant size, lodging resistance, etc.) needed for use as a commercial variety. This combination, once developed, provides a valuable source of new germplasm for further breeding. For example, it may take 10-15 years and significant effort to produce such a combination, yet progeny may be developed that retain this combination in as little as 2-5 years and with much less effort.
Specific Embodiments
Specific methods and products produced using inbred line PHAR1 in plant breeding are discussed in the following sections. The methods outlined are described in detail by way of illustration and example for purposes of clarity and understanding. However, it will be obvious that certain changes and modifications may be practiced within the scope of the invention.
One method for producing a line derived from inbred line PHAR1 is as follows. One of ordinary skill in the art would produce or obtain a seed from the cross between inbred line PHAR1 and another variety of maize, such as an elite inbred variety. The F1 seed derived from this cross would be grown to form a homogeneous population. The F1 seed would contain essentially all of the alleles from variety PHAR1 and essentially all of the alleles from the other maize variety. The F1 nuclear genome would be made-up of 50% variety PHAR1 and 50% of the other elite variety. The F1 seed would be grown and allowed to self, thereby forming F2 seed. On average the F2 seed would have derived 50% of its alleles from variety PHAR1 and 50% from the other maize variety, but many individual plants from the population would have a greater percentage of their alleles derived from PHAR1 (Wang J. and R. Bernardo, 2000, Crop Sci. 40:659-665 and Bernardo, R. and A. L. Kahler, 2001, Theor. Appl. Genet. 102:986-992). The molecular markers of PHAR1 could be used to select and retain those lines with high similarity to PHAR1. The F2 seed would be grown and selection of plants would be made based on visual observation, markers and/or measurement of traits. The traits used for selection may be any PHAR1 trait described in this specification, including the inbred per se maize PHAR1 traits described herein under the detailed description of inbred PHAR1. Such traits may also be the good general or specific combining ability of PHAR1, including its ability to produce hybrids with the approximate maturity and/or hybrid combination traits described herein under the detailed description of inbred PHAR1. The PHAR1 progeny plants that exhibit one or more of the desired PHAR1 traits, such as those listed herein, would be selected and each plant would be harvested separately. This F3 seed from each plant would be grown in individual rows and allowed to self. Then selected rows or plants from the rows would be harvested individually. The selections would again be based on visual observation, markers and/or measurements for desirable traits of the plants, such as one or more of the desirable PHAR1 traits listed herein. The process of growing and selection would be repeated any number of times until a PHAR1 progeny inbred plant is obtained. The PHAR1 progeny inbred plant would contain desirable traits derived from inbred plant PHAR1, some of which may not have been expressed by the other maize variety to which inbred line PHAR1 was crossed and some of which may have been expressed by both maize varieties but now would be at a level equal to or greater than the level expressed in inbred variety PHAR1. However, in each case the resulting progeny line would benefit from the efforts of the inventor(s), and would not have existed but for the inventor(s) work in creating PHAR1. The PHAR1 progeny inbred plants would have, on average, 50% of their nuclear genes derived from inbred line PHAR1, but many individual plants from the population would have a greater percentage of their alleles derived from PHAR1. This breeding cycle, of crossing and selfing, and optional selection, may be repeated to produce another population of PHAR1 progeny maize plants with, on average, 25% of their nuclear genes derived from inbred line PHAR1, but, again, many individual plants from the population would have a greater percentage of their alleles derived from PHAR1. This process can be repeated for a third, fourth, fifth, sixth, seventh or more breeding cycles. Another embodiment of the invention is a PHAR1 progeny plant that has received the desirable PHAR1 traits listed herein through the use of PHAR1, which traits were not exhibited by other plants used in the breeding process.
Therefore, an embodiment of this invention is a PHAR1 progeny maize plant, wherein at least one ancestor of said PHAR1 progeny maize plant is the maize plant or plant part of PHAR1, and wherein the pedigree of said PHAR1 progeny maize plant is within two breeding crosses of PHAR1 or a plant that has PHAR1 as a parent. The progeny plants, parts and plant cells produced from PHAR1 may be further characterized as having a percent marker similarity or identity with PHAR1 as described herein.
The previous example can be modified in numerous ways, for instance selection may or may not occur at every selfing generation, selection may occur before or after the actual self-pollination process occurs, or individual selections may be made by harvesting individual ears, plants, rows or plots at any point during the breeding process described. Double haploid breeding methods may be used at any step in the process. Instead of selfing out of the hybrid produced from the inbred, one could first cross the hybrid to either a parent line or a different inbred, and then self out of that cross.
The population of plants produced at each and any cycle of breeding is also an embodiment of the invention, and on average each such population would predictably consist of plants containing approximately 50% of its genes from inbred line PHAR1 in the first breeding cycle, 25% of its genes from inbred line PHAR1 in the second breeding cycle, 12.5% of its genes from inbred line PHAR1 in the third breeding cycle, 6.25% in the fourth breeding cycle, 3.125% in the fifth breeding cycle, and so on. However, in each case the use of PHAR1 provides a substantial benefit. The linkage groups of PHAR1 would be retained in the progeny lines, and since current estimates of the maize genome size is about 50,000-80,000 genes (Xiaowu, Gai et al., Nucleic Acids Research, 2000, Vol. 28, No. 1, 94-96), in addition to non-coding DNA that impacts gene expression, it provides a significant advantage to use PHAR1 as starting material to produce a line that retains desired genetics or traits of PHAR1.
Therefore, an embodiment of the invention is a process for making a population of PHAR1 progeny inbred maize plants comprising obtaining or producing a first generation progeny maize seed comprising the plant of PHAR1 as a parent, growing said first generation progeny maize seed to produce first generation maize plants and obtaining self or sib pollinated seed from said first generation maize plants, and growing the self or sib pollinated seed to obtain a population of PHAR1 progeny inbred maize plants.
The population of PHAR1 progeny inbred maize plants produced by this method are also embodiments of the invention, and such population as a whole will retain the expected genetic contribution of PHAR1. An inbred line selected from the population of PHAR1 progeny inbred maize plants produced by this method is an embodiment, and such line may be further characterized by its molecular marker identity or similarity to PHAR1.
In this manner, the invention also encompasses a process for making a PHAR1 inbred progeny maize plant comprising the steps of obtaining or producing a first generation progeny maize seed wherein a parent of said first generation progeny maize seed is a PHAR1 plant, growing said first generation progeny maize seed to produce a first generation maize plant and obtaining self or sib pollinated seed from said first generation maize plant, and producing successive filial generations to obtain a PHAR1 inbred progeny maize plant. Also an embodiment of this invention is the first breeding cycle inbred PHAR1 maize plant produced by this method.
Crosses to Other Species
The utility of inbred maize line PHAR1 also extends to crosses with other species. Commonly, suitable species will be of the family Graminaceae, and especially of the genera Zea, Tripsacum, Coix, Schlerachne, Polytoca, Chionachne, and Trilobachne, of the tribe Maydeae. Potentially suitable for crosses with PHAR1 may be the various varieties of grain sorghum, Sorghum bicolor (L.) Moench.
INDUSTRIAL APPLICABILITY
Maize is used as human food, livestock feed, and as raw material in industry. The food uses of maize, in addition to human consumption of maize kernels, include both products of dry- and wet-milling industries. The principal products of maize dry milling are grits, meal and flour. The maize wet-milling industry can provide maize starch, maize syrups, and dextrose for food use. Maize oil is recovered from maize germ, which is a by-product of both dry- and wet-milling industries.
Maize, including both grain and non-grain portions of the plant, is also used extensively as livestock feed, primarily for beef cattle, dairy cattle, hogs, and poultry.
Industrial uses of maize include production of ethanol, maize starch in the wet-milling industry and maize flour in the dry-milling industry. The industrial applications of maize starch and flour are based on functional properties, such as viscosity, film formation, adhesive properties, and ability to suspend particles. The maize starch and flour have application in the paper and textile industries. Other industrial uses include applications in adhesives, building materials, foundry binders, laundry starches, explosives, oil-well muds, and other mining applications.
Plant parts other than the grain of maize are also used in industry: for example, stalks and husks are made into paper and wallboard and cobs are used for fuel and to make charcoal.
The seed of inbred maize line PHAR1, the plant produced from the inbred seed, the hybrid maize plant produced from the crossing of the inbred, hybrid seed, and various parts of the hybrid maize plant and transgenic versions of the foregoing, can be utilized for human food, livestock feed, and as a raw material in industry.
REFERENCES


    Aukerman, M. J. et al. (2003) “Regulation of Flowering Time and Floral Organ Identity by a MicroRNA and Its APETALA2-like Target Genes” The Plant Cell 15:2730-2741
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    Conger, B. V., et al. (1987) “Somatic Embryogenesis From Cultured Leaf Segments of Zea Mays”, Plant Cell Reports, 6:345-347
    Duncan, D. R., et al. (1985) “The Production of Callus Capable of Plant Regeneration From Immature Embryos of Numerous Zea Mays Genotypes”, Planta, 165:322-332
    Edallo, et al. (1981) “Chromosomal Variation and Frequency of Spontaneous Mutation Associated with in Vitro Culture and Plant Regeneration in Maize”, Maydica, XXVI:39-56
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Deposits



Applicant has made a deposit of at least 2500 seeds of Inbred Maize Line PHAR1 with the American Type Culture Collection (ATCC), Manassas, Va. 20110 USA, ATCC Deposit No. PTA-7058. The seeds deposited with the ATCC on Sep. 22, 2005 were taken from the deposit maintained by Pioneer Hi-Bred International, Inc., 7100 NW 62nd Avenue, Johnston, Iowa, 50131 since prior to the filing date of this application. Access to this deposit will be available during the pendency of the application to the Commissioner of Patents and Trademarks and persons determined by the Commissioner to be entitled thereto upon request. Upon allowance of any claims in the application, the Applicant will make the deposit available to the public pursuant to 37 C.F.R. §1.808. This deposit of the Inbred Maize Line PHAR1 will be maintained in the ATCC depository, which is a public depository, for a period of 30 years, or 5 years after the most recent request, or for the enforceable life of the patent, whichever is longer, and will be replaced if it becomes nonviable during that period. Additionally, Applicant has or will satisfy all of the requirements of 37 C.F.R. §§1.801-1.809, including providing an indication of the viability of the sample upon deposit. Applicant has no authority to waive any restrictions imposed by law on the transfer of biological material or its transportation in commerce. Applicant does not waive any infringement of rights granted under this patent or under the Plant Variety Protection Act (7 USC 2321 et seq.). U.S. Plant Variety Protection of Inbred Maize Line PHAR1 has been applied for. Unauthorized seed multiplication is prohibited.







TABLE 1







VARIETY DESCRIPTION INFORMATION


PHAR1











AVG
STDEV
N















1.
TYPE: (Describe intermediate types in comments






section)



1 = Sweet, 2 = Dent, 3 = Flint, 4 = Flour, 5 = Pop and

3



6 = Ornamental.



Comments: Flint-Dent


2.
MATURITY: DAYS HEAT UNITS
Days
H. Units



Emergence to 50% of plants in silk
65
1,396



Emergence to 50% of plants in pollen shed
65
1,395



10% to 90% pollen shed
2
52



50% Silk to harvest at 25% moisture


3.
PLANT:



Plant Height (to tassel tip) (cm)
229.4
15.46
30



Ear Height (to base of top ear node) (cm)
82.2
8.62
30



Length of Top Ear Internode (cm)
15.5
2.30
30



Average Number of Tillers per Plant
0.0
0.01
6



Average Number of Ears per Stalk
1.0
0.05
6



Anthocyanin of Brace Roots: 1 = Absent, 2 = Faint,
4



3 = Moderate, 4 = Dark


4.
LEAF:



Width of Ear Node Leaf (cm)
10.0
0.98
30



Length of Ear Node Leaf (cm)
82.6
3.87
30



Number of Leaves above Top Ear
6.6
0.67
30



Leaf Angle: (at anthesis, 2nd leaf above ear to
24.0
5.92
30



stalk above leaf) (Degrees)



*Leaf Color: V. Dark Green Munsell: 5GY34



Leaf Sheath Pubescence: 1 = none to 9 = like peach fuzz
5


5.
TASSEL:



Number of Primary Lateral Branches
4.3
1.53
30



Branch Angle from Central Spike
39.8
19.41
30



Tassel Length: (from peduncle node to tassel tip), (cm).
55.1
4.16
30



Pollen Shed: 0 = male sterile, 9 = heavy shed
5



*Anther Color: Pale Yellow Munsell: 5Y76



*Glume Color: Med. Green Munsell: 5GY56



*Bar Glumes (glume bands): 1 = absent, 2 = present
1



Peduncle Length: (from top leaf node to lower florets or
18.6
3.02
30



branches), (cm).


6a.
EAR (Unhusked ear)



*Silk color: Light Green Munsell: 10Y76



(3 days after silk emergence)



*Fresh husk color: Med. Green Munsell: 5GY68



*Dry husk color: Buff Munsell: 2.5Y8.54



(65 days after 50% silking)



Ear position at dry husk stage: 1 = upright, 2 = horizontal,
2



3 = pendant



Husk Tightness: (1 = very loose, 9 = very tight)
5



Husk Extension (at harvest): 1 = short(ears exposed),
2



2 = medium (<8 cm), 3 = long (8-10 cm), 4 = v. long (>10 cm)


6b.
EAR (Husked ear data)



Ear Length (cm):
14.2
1.01
30



Ear Diameter at mid-point (mm)
43.1
1.95
30



Ear Weight (gm):
119.1
23.20
30



Number of Kernel Rows:
15.5
1.01
30



Kernel Rows: 1 = indistinct, 2 = distinct
2



Row Alignment: 1 = straight, 2 = slightly curved, 3 = spiral
2



Shank Length (cm):
7.1
1.45
30



Ear Taper: 1 = slight cylind., 2 = average, 3 = extreme
1


7.
KERNEL (Dried):



Kernel Length (mm):
10.4
1.10
30



Kernel Width (mm):
7.7
0.83
30



Kernel Thickness (mm):
5.6
0.86
30



Round Kernels (shape grade) (%)
68.5
11.52
6



Aleurone Color Pattern: 1 = homozygous, 2 = segregating
1



*Aleurone Color: Yellow Munsell: 10YR814



*Hard Endo. Color: Yellow Munsell: 10YR612



Endosperm Type:
3



1 = sweet (su1), 2 = extra sweet (sh2), 3 = normal starch,



4 = high amylose starch, 5 = waxy starch, 6 = high protein,



7 = high lysine, 8 = super sweet (se), 9 = high oil, 10 = other



Weight per 100 Kernels (unsized sample) (gm):
29.8
6.24
6


8.
COB:



*Cob Diameter at mid-point (mm):
25.3
0.98
30



*Cob Color: Pink Orange Munsell: 2.5YR48


10.
DISEASE RESISTANCE:









(Rate from 1 = most-susceptable to 9 = most-resistant.



Leave blank if not tested, leave race or strain



options blank if polygenic.)








A.
LEAF BLIGHTS, WILTS, AND LOCAL INFECTION DISEASES









Anthracnose Leaf Blight (Colletotrichum graminicola)



Common Rust (Puccinia sorghi)



Common Smut (Ustilago maydis)


0
Eyespot (Kabatiella zeae)


0
Goss's Wilt (Clavibacter michiganense spp.


0
Gray Leaf Spot (Cercospora zeae-maydis)



Helminthosporium Leaf Spot (Bipolaris zeicola) Race:


0
Northern Leaf Blight (Exserohilum turcicum) Race:


0
Southern Leaf Blight (Bipolaris maydis) Race:


0
Southern Rust (Puccinia polysora)


0
Stewart's Wilt (Erwinia stewartii)



Other (Specify):          








B.
SYSTEMIC DISEASES








0
Corn Lethal Necrosis (MCMV and MDMV)


0
Head Smut (Sphacelotheca reiliana)



Maize Chlorotic Dwarf Virus (MDV)



Maize Chlorotic Mottle Virus (MCMV)


0
Maize Dwarf Mosaic Virus (MDMV)



Sorghum Downy Mildew of Corn



(Peronosclerospora sorghi)



Other (Specify):          








C.
STALK ROTS








0
Anthracnose Stalk Rot (Colletotrichum graminicola)



Diplodia Stalk Rot (Stenocarpella maydis)



Fusarium Stalk Rot (Fusarium moniliforme)



Gibberella Stalk Rot (Gibberella zeae)



Other (Specify):          








D.
EAR AND KERNEL ROTS









Aspergillus Ear and Kernel Rot (Aspergillus flavus)


0
Diplodia Ear Rot (Stenocarpella maydis)


0
Fusarium Ear and Kernel Rot (Fusarium moniliforme)


0
Gibberella Ear Rot (Gibberella zeae)



Other (Specify):          








11.
INSECT RESISTANCE:









(Rate from 1 = most-suscept. to 9 = most-resist.,



leave blank if not tested.)



Corn Worm (Helicoverpa zea)



    Leaf Feeding



    Silk Feeding



    Ear Damage



Corn Leaf Aphid (Rophalosiphum maydis)



nebraskense) Corn Sap Beetle (Capophilus dimidiatus)



European Corn Borer (Ostrinia nubilalis)


0
1st. Generation (Typically whorl leaf feeding)


0
2nd. Generation (Typically leaf sheath-collar feeding)



    Stalk Tunneling



    cm tunneled/plant



Fall armyworm (Spodoptera fruqiperda)



    Leaf Feeding



    Silk Feeding



    mg larval wt.



Maize Weevil (Sitophilus zeamaize)



Northern Rootworm (Diabrotica barberi)



Southern Rootworm (Diabrotica undecimpunctata)



Southwestern Corn Borer (Diatreaea grandiosella)



    Leaf Feeding



    Stalk Tunneling



    cm tunneled/plant



Two-spotted Spider Mite (Tetranychus utricae)



Western Rootworm (Diabrotica virgifrea virgifrea)



Other (Specify):          








12.
AGRONOMIC TRAITS:








0
Staygreen (at 65 days after anthesis;



rate from 1-worst to 9-excellent)


0
% Dropped Ears (at 65 days after anthesis)



% Pre-anthesis Brittle Snapping



% Pre-anthesis Root Lodging


0
% Post-anthesis Root Lodging (at 65 days after anthesis)



% Post-anthesis Stalk Lodging









0.0 Kg/ha (Yield at 12-13% grain moisture)







*Munsell Glossy Book of Color, (A standard color reference). Kollmorgen Inst. Corp. New Windsor, NY.













TABLE 2







SSR PROFILE OF PHAR1









Bin #
Marker Name
Base Pairs












1
UMC1354
367.2


1.01
BNLG1014
114.1


1.01
TUB1
246.3


1.01
UMC1685
122.9


1.01
UMC2012
75.9


1.01
UMC2224
364.2


1.01
UMC2225
300.5


1.02
BNLG1429
205.2


1.02
BNLG1953
248.1


1.02
UMC1711
251.3


1.02
UMC2204
133.4


1.02
UMC2383
206.4


1.03
PHI109275
126.1


1.03
UMC1701
117.7


1.04
BNLG2086
218.2


1.04
UMC1144
230.1


1.04
UMC1472
213.1


1.04
UMC2228
218.7


1.04
UMC2390
147.5


1.05
UMC1244
348.4


1.05
UMC1626
143.8


1.05
UMC1689
149.7


1.05
UMC1703
153.2


1.05
UMC1906
155.8


1.05
UMC2025
131.3


1.05
UMC2232
139


1.06
BNLG1057
274


1.06
UMC1035
237.4


1.06
UMC1398
162.2


1.06
UMC1709
350.9


1.06
UMC1919
157.1


1.06
UMC1924
161.2


1.06
UMC1988
347.8


1.06
UMC2234
150.5


1.06
UMC2237
161.8


1.07
BNLG1556
201.7


1.07
UMC1848
143.5


1.07
UMC2387
112.4


1.08
BNLG2228
224.3


1.08
UMC1838
166.9


1.08
UMC1991
224


1.08
UMC2029
160.9


1.08
UMC2181
113.2


1.08
UMC2240
239.9


1.08
UMC2385
264.3


1.09
BNLG1331
121


1.09
GLB1
226.6


1.09
UMC1715
152.5


1.09
UMC2028
116.5


1.09
UMC2047
133.2


1.1
PHI308707
131.3


1.1
UMC1885
142.6


1.1
UMC2189
112.2


1.11
PHI064
94.5


1.11
PHI265454
234


1.11
UMC1500
249.5


1.11
UMC1681
138.4


1.11
UMC2241
333.3


1.11
UMC2242
347.8


1.12
UMC1797
109.1


2.01
PHI96100
284


2.01
UMC2245
161


2.01
UMC2363
337.1


2.02
BNLG1017
195.4


2.02
UMC1265
311.6


2.02
UMC1824A
142.3


2.02
UMC1961
309.1


2.03
BNLG1064
190.9


2.03
UMC1845
141.8


2.03
UMC2246
145.3


2.04
PRP2
131.2


2.04
UMC1326
142.9


2.04
UMC2007
111


2.04
UMC2030
166.6


2.04
UMC2032
168.5


2.04
UMC2247
258.6


2.04
UMC2248
141.4


2.05
UMC1459
95.6


2.05
UMC1635
145.6


2.05
UMC2252
108.5


2.05
UMC2254
100.7


2.06
BNLG1036
151.2


2.06
BNLG1138
222.2


2.06
BNLG1831
194.4


2.06
UMC1004
160.8


2.06
UMC1156
234.6


2.06
UMC1658
140.4


2.06
UMC1749
245.5


2.06
UMC1875
142.8


2.06
UMC1946
81.5


2.06
UMC2023
143.9


2.06
UMC2192
332


2.06
UMC2194
316


2.07
PHI251315
124.1


2.07
UMC1560
136.6


2.07
UMC2374
263.1


2.08
BNLG1141
152.8


2.08
BNLG1940
214.5


2.08
PHI435417
217.9


2.08
UMC1049
127.6


2.08
UMC1230
309.8


2.08
UMC1745
215.9


2.08
UMC1947
141.4


2.08
UMC2005
78.9


2.08
UMC2202
338.1


2.09
UMC1525
221.7


2.09
UMC1551
240.8


2.1
UMC2184
127


2.1
UMC2214
287.6


3
PHI453121
223


3
UMC1931
101.9


3.01
PHI404206
303.7


3.01
UMC1892
105.7


3.01
UMC2049
151


3.01
UMC2255
213.2


3.01
UMC2256
165.5


3.01
UMC2376
149.6


3.01
UMC2377
97.5


3.02
PHI243966
212.1


3.02
UMC1814
339.1


3.02
UMC1886
155.3


3.04
BNLG1019A
155.1


3.04
BNLG1638
142.2


3.04
TPI4
157.7


3.04
UMC1025
153.6


3.04
UMC1347
228.3


3.04
UMC1655
158.6


3.04
UMC1683
86.9


3.04
UMC1908
135.9


3.04
UMC2002
158


3.04
UMC2033
72.2


3.04
UMC2261
141.8


3.04
UMC2262
141.7


3.04
UMC2263
393.3


3.04
UMC2264
219.4


3.05
BNLG1035
101


3.05
GST4
185.5


3.05
UMC1300
164.7


3.05
UMC1307
145.4


3.05
UMC1954
344.3


3.05
UMC2020
123.3


3.05
UMC2265
211.8


3.06
BNLG1160
220.3


3.06
BNLG1951
131.1


3.06
BNLG2241
142.5


3.06
PHI102228
127.6


3.06
UMC1644
164.3


3.06
UMC1674
128.5


3.06
UMC1876
165.7


3.06
UMC2270
142


3.07
UMC1286
234.1


3.07
UMC1659
121.8


3.07
UMC1825
160.1


3.07
UMC2273
234.1


3.08
UMC1844
142.9


3.08
UMC1915
95


3.08
UMC2276
135.2


3.09
BNLG1496
196.2


3.09
UMC1639
97.6


3.09
UMC1641
208.1


3.09
UMC1813
162.1


3.1
UMC2048
327.1


4
MTL1
140


4.01
UMC1757
197


4.03
ADH2
111.2


4.04
ZP1
235.2


4.05
BNLG1217
212.4


4.05
BNLG1265
223.9


4.05
BNLG1755
214.8


4.05
GPC1
177.8


4.05
UMC1175
144


4.05
UMC1346
93.6


4.05
UMC1662
112


4.05
UMC1702
94.8


4.05
UMC1851
114.3


4.05
UMC1964
146.3


4.05
UMC2054
151


4.05
UMC2061
125.2


4.06
BNLG2291
178.8


4.06
UMC1869
151.5


4.06
UMC1945
113.5


4.06
UMC2027
116.7


4.07
UMC1194
167.3


4.07
UMC1620
148.2


4.07
UMC1651
95.6


4.07
UMC1847
160.1


4.08
BNLG2162
183.3


4.08
PDH1
111


4.08
SSU1
287.4


4.08
UMC1371
124.7


4.08
UMC1418
147.9


4.08
UMC1559
144.3


4.08
UMC1612
108.5


4.08
UMC1667
147


4.08
UMC1834
161.6


4.08
UMC1856
189.7


4.08
UMC1899
111.7


4.08
UMC2187
91.1


4.09
BNLG1565
200.8


4.09
RPD3
161


4.09
UMC1284
144.4


4.09
UMC1328
161.2


4.09
UMC1643
145.1


4.09
UMC1650
139.5


4.09
UMC1820
142.1


4.09
UMC1940
134.6


4.09
UMC1999
131.3


4.09
UMC2046
143.8


4.1
BNLG589
154.4


4.11
BNLG1890
200.8


5
UMC2022
157.4


5
UMC2292
137.6


5.01
UMC2036
158.4


5.03
PHI109188
161.2


5.03
UMC1315
159.1


5.03
UMC1355
357.9


5.03
UMC1475
260


5.03
UMC1686
93.7


5.03
UMC1692
157.4


5.03
UMC1731
361.8


5.03
UMC1784
337


5.03
UMC1830
194.1


5.03
UMC1850
125.1


5.03
UMC1870
241.6


5.03
UMC2035
102.2


5.03
UMC2295
115.2


5.03
UMC2297
151


5.04
BNLG2323
198.1


5.04
UMC1092
134.4


5.04
UMC1162
130.7


5.04
UMC1629
114.4


5.04
UMC1815
274.5


5.04
UMC1860
154.9


5.04
UMC1990
136.1


5.04
UMC2298
91.4


5.04
UMC2299
125.7


5.04
UMC2302
345.1


5.04
UMC2400
211.7


5.05
PHI333597
216.3


5.05
UMC1687
160.4


5.05
UMC1800
147.8


5.05
UMC1822
116.6


5.05
UMC1853
113.6


5.05
UMC2026
100.6


5.06
GLN4
250.3


5.06
UMC1941
113.2


5.06
UMC2305
156.5


5.06
UMC2306
83.3


5.07
BNLG1118
82.7


5.07
UMC1375
143.3


5.07
UMC1537
325.1


5.07
UMC2013
125.4


5.07
UMC2198
140.5


5.09
UMC1829
163.7


5.09
UMC2209
167.7


5.09
UMC2308
144.5


6
FDX2
123.7


6
GPC2
350.1


6
UMC1753
200.4


6
UMC1883
86.3


6.01
CYC3
263.1


6.01
UMC1195
138.4


6.01
UMC1625
137.3


6.01
UMC2056
167.9


6.02
SAUR1
113.4


6.02
UMC1656
136.9


6.03
UMC1887
99.2


6.04
UMC1857
150.8


6.04
UMC1918
167.4


6.04
UMC2006
174.7


6.04
UMC2317
129.7


6.05
BNLG1174
219.1


6.05
ROA2
348.7


6.05
UMC1314
346.6


6.05
UMC1413
303


6.05
UMC1751
232.3


6.05
UMC1795
128


6.05
UMC1805
100.1


6.06
UMC1912
162.7


6.07
BNLG1740
230.5


6.07
BNLG1759A
126.1


6.07
PHI299852
117.2


6.07
TLK1
83


6.07
UMC1350
119.9


6.07
UMC1653
108.3


6.07
UMC1897
157.2


6.08
UMC2059
127.2


7
BNLG2132
200.4


7
UMC1378
118.3


7
UMC1642
140.8


7.01
O2
409.2


7.01
UMC1632
142.8


7.02
BNLG1094
157.5


7.02
CYP6
118.7


7.02
KPP1
351.9


7.02
UMC1339
133


7.02
UMC1929
157.4


7.02
UMC2327
136.6


7.03
BNLG1070
145.5


7.03
BNLG155
253.1


7.03
BNLG2271
220


7.03
UMC1324
214.9


7.03
UMC1660
204.6


7.03
UMC1713
139.6


7.03
UMC1841
109.2


7.03
UMC1865
151.6


7.03
UMC1888
149


7.04
PHI328175
99.4


7.04
RIP2
330.7


7.04
UMC1342
230.7


7.04
UMC1708
332.8


7.04
UMC1710
246.4


7.04
UMC1799
104.6


7.05
PHI069
195.2


7.06
PHI116
164.9


8.01
UMC2042
107.9


8.02
UMC1304
246.5


8.02
UMC1790
157.7


8.02
UMC1913
159


8.02
UMC2004
100.2


8.03
BNLG1863
242.7


8.03
PHI100175
136.7


8.03
PHI121
93.6


8.03
UMC1289
221.5


8.03
UMC1377
216


8.03
UMC1904
134.3


8.04
BNLG2046
326.4


8.04
UMC1343
317.1


8.04
UMC1858
128


8.05
UMC1141
306.9


8.05
UMC1287
312.7


8.05
UMC1316
233.2


8.05
UMC1846
111


8.05
UMC1864
170.6


8.05
UMC1889
113.3


8.05
UMC1959
329.2


8.06
BNLG1031
291.2


8.06
UMC1149
227


8.06
UMC1161
258.1


8.07
BNLG1065
226.8


8.07
BNLG1828
158.8


8.08
GST1
79.3


8.08
UMC1933
112.5


8.08
UMC2052
152.7


8.09
PHI233376
135.7


8.09
UMC1638
141.2


8.09
UMC1663
175.7


9.01
BNLG1810
197.4


9.01
SH1
248.9


9.01
UMC1040
203.6


9.01
UMC1370
251.3


9.01
UMC1809
230.6


9.01
UMC1867
172.9


9.02
UMC1131
362.4


9.02
UMC1170
240.9


9.02
UMC1636
181.7


9.02
UMC1698
116.7


9.02
UMC1764
306.2


9.02
UMC1893
98.4


9.02
UMC2213
106.2


9.02
UMC2336
258.4


9.03
BNLG127
222.5


9.03
UMC1420
316.8


9.03
UMC1634
113.8


9.03
UMC1691
141.9


9.03
UMC2337
130.1


9.03
WX1
238.2


9.04
BNLG1012
161.5


9.04
BNLG1159B
148


9.04
UMC1519
228.2


9.04
UMC2398
115.1


9.05
MMP179
161.3


9.05
UMC1357
251.2


9.05
UMC1654
111.3


9.05
UMC1657
164.4


9.05
UMC1794
118.4


9.05
UMC2338
105


9.05
UMC2341
130.3


9.05
UMC2343
120.5


9.06
PHI448880
186.1


9.06
UMC2207
115.3


9.06
UMC2346
288.2


9.06
UMC2358
135.2


9.07
BNLG1375
117.5


9.07
UMC1104
210.7


9.07
UMC1675
165.4


9.07
UMC1714
158.8


9.07
UMC1804
94.7


9.07
UMC2347
140.2


9.08
BNLG1129
300.7


10
PHI041
202.7


10.01
UMC2018
162.9


10.01
UMC2053
103.6


10.02
PHI059
143.3


10.02
UMC1337
313.5


10.02
UMC1432
119.2


10.02
UMC2034
132.9


10.02
UMC2069
375.6


10.03
BNLG1079
172.4


10.03
UMC1336
310


10.03
UMC1345
163.5


10.03
UMC1367
315.4


10.03
UMC1381
213.6


10.03
UMC1863
159.9


10.03
UMC1938
160.4


10.03
UMC1962
145.3


10.03
UMC2016
125.3


10.03
UMC2067
152.1


10.03
UMC2348
216.5


10.04
MGS1
158


10.04
UMC1330
340.5


10.04
UMC1589
114.1


10.04
UMC1648
144


10.04
UMC1678
162.4


10.04
UMC1697
96.3


10.04
UMC1827
125.9


10.04
UMC1911
160


10.04
UMC1930
125.2


10.04
UMC2003
96.2


10.05
BNLG1074
172.1


10.06
BNLG1028
127.9


10.06
UMC1993
108.9


10.07
BNLG1450
239.2


10.07
BNLG1839
233.3


10.07
UMC1038
261.1


10.07
UMC1556
254.4


10.07
UMC1640
103.9


10.07
UMC1645
166
















TABLE 3A





PAIRED INBRED COMPARISON REPORT


Variety #1: PHAR1


Variety #2: PH3RC






















YIELD
YIELD

EGRWTH




BU/A 56#
BU/A 56#
MST PCT
SCORE



Stat
ABS
% MN
ABS
ABS







Mean1
138.6
115.5
22.3
6.3



Mean2
128.7
107
19.5
5.6



Locs
4
4
4
26



Reps
7
7
8
26



Diff
9.8
8.5
−2.8
0.7



Prob
0.455
0.434
0.066
0.003

















ESTCNT
TILLER
GDUSHD
GDUSLK
TASSZ



COUNT
PCT
GDU
GDU
SCORE


Stat
ABS
ABS
ABS
ABS
ABS





Mean1
26.8
2.1
147.7
148
4.3


Mean2
26.4
0.6
147.9
150.6
4.2


Locs
29
33
100
100
81


Reps
29
33
100
100
81


Diff
0.3
−1.5
−0.2
−2.5
0.2


Prob
0.663
0.051
0.712
0
0.099

















PLTHT
EARHT
STAGRN
SCTGRN




CM
CM
SCORE
SCORE



Stat
ABS
ABS
ABS
ABS







Mean1
230.8
81.8
5.2
7.5



Mean2
241.9
80.9
5.3
7.3



Locs
84
22
26
15



Reps
84
22
26
15



Diff
−11.1
0.9
−0.2
0.1



Prob
0
0.676
0.603
0.825








BARPLT
GLFSPT
FUSERS
COMRST




% NOT
SCORE
SCORE
SCORE



Stat
ABS
ABS
ABS
ABS







Mean1
91.7
4.8
8.2
5.3



Mean2
96.9
4.1
7.2
5.5



Locs
52
12
6
4



Reps
52
12
6
4



Diff
−5.2
0.7
1
−0.3



Prob
0.015
0.025
0.111
0.391








CLDTST
CLDTST
KSZDCD
ERTLPN




PCT
PCT
PCT
% NOT



Stat
ABS
% MN
ABS
ABS







Mean1
94.3
109
2
100



Mean2
88.8
102.6
5.8
99.8



Locs
4
4
4
4



Reps
4
4
4
4



Diff
5.5
6.4
−3.8
0.3



Prob
0.032
0.029
0.122
0.391

















TABLE 3B





PAIRED INBRED COMPARISON REPORT


Variety #1: PHAR1


Variety #2: PH2VJ






















YIELD
YIELD

TSTWT
EGRWTH
ESTCNT



BU/A 56#
BU/A 56#
MST PCT
LB/BU
SCORE
COUNT


Stat
ABS
% MN
ABS
ABS
ABS
ABS





Mean1
85.2
93.8
21.7
55.5
6.3
34.5


Mean2
89.4
97.6
19.9
55.8
6.6
33.4


Locs
18
18
20
5
18
16


Reps
33
33
35
8
19
16


Diff
−4.2
−3.9
−1.8
−0.3
−0.4
1.1


Prob
0.170
0.243
0
0.814
0.085
0.200

















TILLER
GDUSHD
GDUSLK
TASSZ




PCT
GDU
GDU
SCORE



Stat
ABS
ABS
ABS
ABS







Mean1
1.7
148.4
148.5
4.4



Mean2
0.8
148.3
149.3
4.4



Locs
21
59
59
49



Reps
21
59
59
49



Diff
−1
0.1
−0.7
0



Prob
0.118
0.89
0.144
0.883


















PLTHT
EARHT
STAGRN
SCTGRN




CM
CM
SCORE
SCORE



Stat
ABS
ABS
ABS
ABS







Mean1
234.1
86.9
4.8
7.1



Mean2
232.7
87.9
5
7.6



Locs
56
18
18
7



Reps
56
18
20
7



Diff
1.4
−1
−0.2
−0.4



Prob
0.593
0.707
0.658
0.200



















BARPLT
GLFSPT
NLFBLT
SLFBLT
ANTROT




% NOT
SCORE
SCORE
SCORE
SCORE



Stat
ABS
ABS
ABS
ABS
ABS







Mean1
92.5
5.2
5.4
7
4.1



Mean2
95.8
5.7
6.5
7.3
4.8



Locs
33
19
4
2
5



Reps
34
28
8
4
9



Diff
−3.3
−0.6
−1.1
−0.3
−0.7



Prob
0.186
0.017
0.018
0.5
0.525


















FUSERS
DIPERS
COMRST
CLDTST
CLDTST
KSZDCD



SCORE
SCORE
SCORE
PCT
PCT
PCT


Stat
ABS
ABS
ABS
ABS
% MN
ABS





Mean1
5.3
3.8
5.3
97.6
100.1
2


Mean2
4.6
5.9
5.3
97.1
99.7
8


Locs
8
5
3
9
9
8


Reps
14
10
4
9
9
8


Diff
0.6
−2.1
0
0.4
0.5
−5.9


Prob
0.060
0.001
1
0.760
0.760
0.135
















HD SMT
ERTLPN
LRTLPN




% NOT
% NOT
% NOT



Stat
ABS
ABS
ABS







Mean1
94.6
100
100



Mean2
99.5
98.8
100



Locs
3
4
2



Reps
6
6
4



Diff
−4.9
1.3
0



Prob
0.352
0.391
1

















TABLE 3C





PAIRED INBRED COMPARISON REPORT


Variety #1: PHAR1


Variety #2: PH07D






















YIELD
YIELD

TSTWT
EGRWTH
ESTCNT



BU/A 56#
BU/A 56#
MST PCT
LB/BU
SCORE
COUNT


Stat
ABS
% MN
ABS
ABS
ABS
ABS





Mean1
87.8
97.4
22.9
56.7
6.4
32.5


Mean2
75.4
83.7
25.9
56.3
6.2
32.8


Locs
28
28
29
9
27
29


Reps
32
32
33
9
27
29


Diff
12.5
13.7
3
0.5
0.2
−0.2


Prob
0.027
0.031
0.001
0.785
0.352
0.805






TILLER
GDUSHD
GDUSLK
TASSZ
PLTHT
EARHT



PCT
GDU
GDU
SCORE
CM
CM


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
2
146.6
146.7
4.3
233.9
86.8


Mean2
1.6
150.9
153.7
3.5
239.5
97.1


Locs
30
83
83
70
70
19


Reps
33
83
83
70
70
19


Diff
−0.4
−4.3
−7
0.8
−5.6
−10.2


Prob
0.725
0
0
0
0.021
0.000


















STAGRN
SCTGRN
TEXEAR
BARPLT
GLFSPT




SCORE
SCORE
SCORE
% NOT
SCORE



Stat
ABS
ABS
ABS
ABS
ABS







Mean1
5
7.7
6.3
93.1
5



Mean2
6.5
6.9
8
94.5
6.3



Locs
25
16
3
47
16



Reps
25
16
3
51
21



Diff
−1.5
0.8
−1.7
−1.4
−1.3



Prob
0.000
0.054
0.038
0.524
0.002


















NLFBLT
STWWLT
FUSERS
COMRST
CLDTST
CLDTST



SCORE
SCORE
SCORE
SCORE
PCT
PCT


Stat
ABS
ABS
ABS
ABS
ABS
% MN





Mean1
6.3
4
6.6
5.6
94.3
104


Mean2
5.4
5
7.4
5.9
93.1
102.7


Locs
4
1
12
5
12
12


Reps
8
1
15
6
12
12


Diff
0.9
−1
−0.8
−0.3
1.3
1.3


Prob
0.133

0.106
0.634
0.392
0.406
















KSZDCD
ERTLPN
LRTLPN




PCT
% NOT
% NOT



Stat
ABS
ABS
ABS







Mean1
2.4
100
100



Mean2
5.1
100
90



Locs
12
3
2



Reps
16
3
3



Diff
−2.8
0
10



Prob
0.049
1
0.5

















TABLE 4





GENERAL COMBINING ABILITY REPORT FOR PH1AR



















PRM Day ABS
Mean
111



PRM Day ABS
Reps
1434



PRMSHD Day ABS
Mean
112



PRMSHD Day ABS
Reps
735



YIELD bu/a 56# ABS
Mean
194.7



YIELD bu/a 56# ABS
Reps
653



YIELD bu/a 56# ABS
Years
3



YIELD bu/a 56# % MN
Mean
100.5



YIELD bu/a 56# % MN
Reps
653



MST pct ABS
Mean
21.3



MST pct ABS
Reps
656



MST pct % MN
Mean
100.5



MST pct % MN
Reps
656



STLPCN % NOT % MN
Mean
108



STLPCN % NOT % MN
Reps
163



STLLPN % NOT % MN
Mean
101



STLLPN % NOT % MN
Reps
158



ERTLPN % NOT % MN
Mean
103



ERTLPN % NOT % MN
Reps
64



LRTLPN % NOT % MN
Mean
104



LRTLPN % NOT % MN
Reps
86



TSTWT lb/bu % MN
Mean
100.4



TSTWT lb/bu % MN
Reps
455



STKCNT count % MN
Mean
100



STKCNT count % MN
Reps
1215



PLTHT in % MN
Mean
103



PLTHT in % MN
Reps
216



EARHT in % MN
Mean
103



EARHT in % MN
Reps
188



BRTSTK % NOT % MN
Mean
102



BRTSTK % NOT % MN
Reps
75



GLFSPT score ABS
Mean
6



GLFSPT score ABS
Reps
47



STAGRN score ABS
Mean
5



STAGRN score ABS
Reps
202



HSKCVR score ABS
Mean
4



HSKCVR score ABS
Reps
39



HDSMT % NOT ABS
Mean
78



HDSMT % NOT ABS
Reps
67

















TABLE 5A





INBREDS IN HYBRID COMBINATION REPORT


Variety #1: HYBRID CONTAINING PHAR1


Variety #2: 33H05






















YIELD
YIELD

EGRWTH
GDUSHD
GDUSLK



BU/A 56#
BU/A 56#
MST PCT
SCORE
GDU
GDU


Stat
ABS
% MN
% MN
% MN
% MN
% MN





Mean1
186.4
102.1
101.9
97.9
101.4
101.7


Mean2
182.5
100.3
104.3
80
100.2
100.6


Locs
132
132
133
25
33
22


Reps
141
141
142
27
37
25


Diff
4
1.8
2.4
17.9
1.2
1.2


Prob
0.027
0.062
0.002
0.001
0.000
0.033






STKCNT
PLTHT
EARHT
STAGRN
STKLDG
TSTWT



COUNT
CM
CM
SCORE
% NOT
LB/BU


Stat
% MN
% MN
% MN
% MN
% MN
ABS





Mean1
99.6
103.4
105.3
111.4
106.9
56.6


Mean2
100
100.3
101.1
122.1
97.9
55.9


Locs
242
41
41
48
2
87


Reps
339
44
44
51
2
95


Diff
−0.4
3.1
4.3
−10.7
9
0.7


Prob
0.214
0.002
0.013
0.045
0.081
0.001






GLFSPT
NLFBLT
GOSWLT
ANTROT
FUSERS
DIPERS



SCORE
SCORE
SCORE
SCORE
SCORE
SCORE


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
5.8
5.3
8
4.8
4.4
5


Mean2
5.7
6.4
8
5
4.8
7


Locs
8
9
2
4
6
1


Reps
11
14
4
8
10
2


Diff
0.1
−1.1
0
−0.3
−0.4
−2


Prob
0.699
0.028
1
0.604
0.363
—






HSKCVR
GIBROT
BRTSTK
HD SMT
ERTLPN
LRTLPN



SCORE
SCORE
% NOT
% NOT
% NOT
% NOT


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
4.2
4.5
97.9
91.8
87
88.6


Mean2
4.8
4.2
99.8
98.8
74.4
80.3


Locs
10
5
10
7
12
18


Reps
10
9
12
12
13
22


Diff
−0.6
0.3
−1.9
−7.1
12.6
8.3


Prob
0.024
0.716
0.071
0.298
0.034
0.172
















TABLE 5B





INBREDS IN HYBRID COMBINATION REPORT


Variety #1: HYBRID CONTAINING PHAR1


Variety #2: 34B23






















YIELD
YIELD

EGRWTH
ESTCNT
GDUSHD



BU/A 56#
BU/A 56#
MST PCT
SCORE
COUNT
GDU


Stat
ABS
% MN
% MN
% MN
% MN
% MN





Mean1
191.4
101.5
101.1
97.2
98.3
101.2


Mean2
187
99.7
97.5
110.9
104
101


Locs
207
207
208
38
8
43


Reps
233
233
234
44
14
52


Diff
4.4
1.8
−3.7
−13.8
−5.7
0.1


Prob
0.006
0.039
0
0.000
0.065
0.753






GDUSLK
STKCNT
PLTHT
EARHT
STAGRN
STKLDG



GDU
COUNT
CM
CM
SCORE
% NOT


Stat
% MN
% MN
% MN
% MN
% MN
% MN





Mean1
101.6
99.8
104.1
105.9
106.7
111.4


Mean2
101.5
99.9
98.8
94.1
83.4
72.6


Locs
31
348
58
55
73
3


Reps
39
494
66
60
77
4


Diff
0.1
−0.2
5.2
11.8
23.3
38.7


Prob
0.841
0.612
0
0
0
0.276






DRPEAR
TSTWT
GLFSPT
NLFBLT
SLFBLT
GOSWLT



% NOT
LB/BU
SCORE
SCORE
SCORE
SCORE


Stat
% MN
ABS
ABS
ABS
ABS
ABS





Mean1
100.5
56.6
5.8
5.4
5.8
8


Mean2
100.5
57.5
4.5
4.1
3.4
8


Locs
2
141
12
15
4
3


Reps
2
161
17
23
8
6


Diff
0
−1
1.3
1.3
2.4
0


Prob
1
0
0.001
0.001
0.002
1






ANTROT
CLN
FUSERS
GIBERS
DIPERS
ECBDPE



SCORE
SCORE
SCORE
SCORE
SCORE
% NOT


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
4.7
5.3
4.4
7
6
96.1


Mean2
3.1
4.7
4.7
6.7
5.3
97.7


Locs
6
1
8
3
3
5


Reps
12
3
14
5
6
6


Diff
1.6
0.7
−0.3
0.3
0.7
−1.6


Prob
0.135
—
0.736
0.184
0.529
0.233






ECB2SC
HSKCVR
GIBROT
DIPROT
BRTSTK
HD SMT



SCORE
SCORE
SCORE
SCORE
% NOT
% NOT


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
6.1
3.9
4.3
5.8
98.3
89.5


Mean2
4.4
4.5
4
3
93.9
75.2


Locs
12
19
6
2
12
12


Reps
16
23
10
4
15
25


Diff
1.6
−0.6
0.3
2.8
4.4
14.3


Prob
0.014
0.001
0.718
0.272
0.035
0.005















ERTLPN
LRTLPN




% NOT
% NOT



Stat
ABS
ABS







Mean1
80.3
81.8



Mean2
81.5
78.1



Locs
14
26



Reps
16
31



Diff
−1.1
3.8



Prob
0.865
0.496

















TABLE 5C





INBREDS IN HYBRID COMBINATION REPORT


Variety #1: HYBRID CONTAINING PHAR1


Variety #2: 34H31






















YIELD
YIELD

EGRWTH
ESTCNT
GDUSHD



BU/A 56#
BU/A 56#
MST PCT
SCORE
COUNT
GDU


Stat
ABS
% MN
% MN
% MN
% MN
% MN





Mean1
191.4
101.1
101.2
97.2
98.3
101.4


Mean2
186.9
99.1
102.1
90.8
103.8
98.7


Locs
191
191
192
37
8
37


Reps
217
217
218
43
14
46


Diff
4.5
2
0.9
6.3
−5.5
2.8


Prob
0.008
0.024
0.103
0.08
0.069
0






GDUSLK
STKCNT
PLTHT
EARHT
STAGRN
STKLDG



GDU
COUNT
CM
CM
SCORE
% NOT


Stat
% MN
% MN
% MN
% MN
% MN
% MN





Mean1
101.7
100
104.4
106.1
108.4
113.4


Mean2
97.9
100.9
97.3
96.3
101.4
93.4


Locs
30
322
52
49
65
2


Reps
38
473
60
54
69
3


Diff
3.8
−0.9
7.1
9.8
7
19.9


Prob
0
0.000
0
0
0.169
0.477






DRPEAR
TSTWT
GLFSPT
NLFBLT
SLFBLT
GOSWLT



% NOT
LB/BU
SCORE
SCORE
SCORE
SCORE


Stat
% MN
ABS
ABS
ABS
ABS
ABS





Mean1
99.4
56.5
5.9
5.4
5.8
8


Mean2
99.4
58
5.3
6.4
5.1
7.7


Locs
1
128
10
15
4
3


Reps
1
148
15
23
8
6


Diff
0
−1.5
0.6
−1
0.6
0.3


Prob
—
0
0.074
0.011
0.194
0.184






ANTROT
CLN
FUSERS
GIBERS
DIPERS
ECBDPE



SCORE
SCORE
SCORE
SCORE
SCORE
% NOT


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
4.7
5.3
4.4
7
6
96.1


Mean2
5.3
4.7
5.8
6.2
6
98


Locs
6
1
8
3
3
5


Reps
12
3
14
6
6
6


Diff
−0.6
0.7
−1.4
0.8
0
−1.9


Prob
0.272
—
0.008
0.300
1
0.188






ECB2SC
HSKCVR
GIBROT
DIPROT
BRTSTK
HD SMT



SCORE
SCORE
SCORE
SCORE
% NOT
% NOT


Stat
ABS
ABS
ABS
ABS
ABS
ABS





Mean1
5.8
3.9
4.3
5.8
98.4
90


Mean2
5.3
5.7
4.1
6.3
99
94.7


Locs
9
19
6
2
13
15


Reps
13
23
11
4
16
30


Diff
0.5
−1.9
0.2
−0.5
−0.6
−4.7


Prob
0.395
0
0.732
0.705
0.451
0.1095















ERTLPN
LRTLPN




% NOT
% NOT



Stat
ABS
ABS







Mean1
79.6
81.2



Mean2
87.2
85



Locs
13
23



Reps
15
28



Diff
−7.7
−3.8



Prob
0.329
0.530










All publications, patents and patent applications mentioned in the specification are indicative of the level of those skilled in the art to which this invention pertains. All such publications, patents and patent applications are incorporated by reference herein for the purpose cited to the same extent as if each was specifically and individually indicated to be incorporated by reference herein.
The foregoing invention has been described in detail by way of illustration and example for purposes of clarity and understanding. As is readily apparent to one skilled in the art, the foregoing are only some of the methods and compositions that illustrate the embodiments of the foregoing invention. It will be apparent to those of ordinary skill in the art that variations, changes, modifications and alterations may be applied to the compositions and/or methods described herein without departing from the true spirit, concept and scope of the invention.

## Claims

1. A seed comprising at least one set of the chromosomes of maize inbred line PHAR1, representative seed of said line having been deposited under ATCC Accession Number PTA-7058, wherein said chromosomes comprise all of the alleles of inbred line PHAR1 at the SSR loci listed in Table 2.

2. A maize plant produced by growing the seed of claim 1.

3. A maize plant part of the maize plant of claim 2.

4. The seed of claim 1, wherein said seed is an F1 hybrid maize seed produced by crossing a plant of maize inbred line PHAR1 with a different maize plant and harvesting the resultant F1 hybrid maize seed.

5. A maize plant produced by growing the F1 hybrid maize seed of claim 4.

6. A maize plant part of the maize plant of claim 5.

7. An F1 hybrid maize seed comprising an inbred maize plant cell of inbred maize line PHAR1, representative seed of said line having been deposited under ATCC Accession Number PTA-7058.

8. A maize plant produced by growing the F1 hybrid maize seed of claim 7.

9. The F1 hybrid maize seed of claim 7 wherein the inbred maize plant cell comprises two sets of chromosomes of maize inbred line PHAR, wherein said chromosomes comprise all of the alleles of inbred line PHAR1 at the SSR loci listed in Table 2.

10. A maize plant produced by growing the F1 hybrid maize seed of claim 9.

11. A process of introducing a desired trait into maize inbred line PHAR1 comprising:
(a) crossing PHAR1 plants grown from PHAR1 seed, representative seed of which has been deposited under ATCC Accession No: PTA-7058, with plants of another maize line that comprise a desired trait to produce F1 progeny plants, wherein the desired trait is selected from the group consisting of waxy starch, male sterility, herbicide resistance, insect resistance, bacterial disease resistance, fungal disease resistance, and viral disease resistance;
(b) selecting F1 progeny plants that have the desired trait to produce selected F1 progeny plants;
(c) crossing the selected progeny plants with the PHAR1 plants to produce backcross progeny plants;
(d) selecting for backcross progeny plants that have the desired trait and the alleles of inbred line PHAR1 at the SSR loci listed in Table 2 to produce selected backcross progeny plants; and
(e) repeating steps (c) and (d) to produce backcross progeny plants that comprise the desired trait and comprise at least 95% of the alleles of inbred line PHAR1 at the SSR loci listed in Table 2.

12. A plant produced by the process of claim 11, wherein the plant comprises at least 95% of the alleles of inbred line PHAR1 at the SSR loci listed in Table 2.

13. A maize plant having all the physiological and morphological characteristics of inbred line PHAR1, wherein a sample of the seed of inbred line PHAR1 was deposited under ATCC Accession Number PTA-7058.

14. A process of producing maize seed, comprising crossing a first parent maize plant with a second parent maize plant, wherein one or both of the first or the second parent maize plants is the plant of claim 13, and harvesting the resultant seed.

15. The maize seed produced by the process of claim 14.

16. The maize seed of claim 15, wherein the maize seed is hybrid seed.

17. A hybrid maize plant, or its parts, produced by growing said hybrid seed of claim 16.

18. The maize plant of claim 13, further comprising an SSR profile in accordance with the profile shown in Table 2.

19. A cell of the maize plant of claim 13.

20. The cell of claim 19, wherein said cell is further defined as having an SSR profile in accordance with the profile shown in Table 2.

21. A seed comprising the cell of claim 19.

22. The maize plant of claim 13, further defined as having a genome comprising a single locus conversion.

23. The maize plant of claim 22, wherein the single locus was stably inserted into the maize genome by transformation.

24. The maize plant of claim 22, wherein the locus is selected from the group consisting of a dominant allele and a recessive allele.

25. The maize plant of claim 22, wherein the locus confers a trait selected from the group consisting of herbicide tolerance; insect resistance; resistance to bacterial, fungal, nematode or viral disease; waxy starch; male sterility and restoration of male fertility.

26. The maize plant of claim 13, wherein said plant is further defined as comprising a gene conferring male sterility.

27. The maize plant of claim 13, wherein said plant is further defined as comprising a transgene conferring a trait selected from the group consisting of male sterility, herbicide resistance, insect resistance and disease resistance.

28. A method of producing a maize plant comprising the steps of:
(a) growing a progeny plant produced by crossing the plant of claim 13 with a second maize plant;
(b) crossing the progeny plant with itself or a different plant to produce a seed of a progeny plant of a subsequent generation;
(c) growing a progeny plant of a subsequent generation from said seed and crossing the progeny plant of a subsequent generation with itself or a different plant; and
(d) repeating steps (b) and (c) for an additional 0-5 generations to produce a maize plant.

29. The method of claim 28 wherein the produced maize plant is an inbred maize plant.

30. The method of claim 29, further comprising the step of crossing the inbred maize plant with a second, distinct inbred maize plant to produce an F1 hybrid maize plant.

31. A method for developing a second maize plant in a maize plant breeding program comprising applying plant breeding techniques to a first maize plant, or parts thereof, wherein said first maize plant is the maize plant of claim 13, and wherein application of said techniques results in development of said second maize plant.

32. The method for developing a maize plant in a maize plant breeding program of claim 31 wherein plant breeding techniques are selected from the group consisting of recurrent selection, backcrossing, pedigree breeding, restriction fragment length polymorphism enhanced selection, genetic marker enhanced selection, and transformation.

33. A method of plant breeding comprising the steps of:
(a) obtaining a molecular marker profile of maize inbred line PHAR1 , representative seed of said line having been deposited under ATCC Accession No. PTA-7058;
(b) obtaining an F1 hybrid seed for which the maize plant of claim 13 is a parent;
(c) crossing a plant grown from the F1 hybrid seed with a different maize plant; and
(d) selecting progeny that possess said molecular marker profile of PHAR 1.