bluuebunny/crossref_metadata_2025 huggingface dataset:
HOMOLOGOUS RECOMBINATION IN ESCHERICHIA COLI: DEPENDENCE ON SUBSTRATE LENGTH AND HOMOLOGY
Authors: Shen Ping , Huang Henry V
Published: January 2021

We studied the in vivo recombination between homologous DNA sequences cloned in phage lambda and a pBR322-derived plasmid by assaying for the formation of phage-plasmid cointegrates by a single (or an odd number of) reciprocal exchange. (1) Recombination proceeds by the RecBC pathway in wild-type cells and by low levels of a RecF-dependent pathway in recBC  - cells. The RecE pathway appears not to generate phage-plasmid cointegrates. (2) Recombination is linearly dependent on the length of the homologous sequences. In both RecBC and RecF-dependent pathways there is a minimal length, called the minimal efficient processing segment (MEPS), below which recombination becomes inefficient. The length of MEPS is between 23-27 base pairs (bp) and between 44-90 bp for the RecBC- and RecF-dependent pathways, respectively. A model, based on overlapping MEPS, of the correlation of genetic length with physical length is presented. The bases for the different MEPS length of the two pathways are discussed in relationship to the enzymes specific to each pathway. (3) The RecBC and the RecF-dependent pathways are each very sensitive to substrate homology. In wild-type E. coli, reduction of homology from 100% to 90% decreases recombinant frequency over 40-fold. The homology dependence of the RecBC and RecF-dependent pathways are similar. This suggests that a component common to both, probably recA, is responsible for the recognition of homology.
MOLECULAR AND CYTOGENETIC CHARACTERIZATION OF A METALLOTHIONEIN GENE OF DROSOPHILA
Authors: Maroni Gustavo , Otto Edward , Lastowski-Perry Donna
Published: January 2021

A chromosomal DNA segment containing the metallothionein gene was isolated from a genomic library of Drosophila melanogaster using a previously characterized cDNA of this species as a probe. A segment of 1543 base pair (bp) was sequenced and found to include the cDNA sequence interrupted by one small intron. Several lines of evidence indicate that there is a single copy of the metallothionein gene (Mtn) in Drosophila; any other related genes, if they occur, must be sufficiently different that they are not detectable by our probe, even under hybridization conditions of reduced stringency. According to in situ hybridization and deletion mapping, Mtn is located in the right arm of the third chromosome in region 85E10-15. Within 300 bases upstream of the apparent site of transcription initiation, there are several short intervals very similar to the 12-bp segments considered to be responsible for metal regulation in mammalian systems.
THE MOLECULAR THROUGH ECOLOGICAL GENETICS OF ABNORMAL ABDOMEN. II. RIBOSOMAL DNA POLYMORPHISM IS ASSOCIATED WITH THE ABNORMAL ABDOMEN SYNDROME IN DROSOPHILA MERCATORUM
Authors: DeSalle Rob , Slightom Jerry , Zimmer Elizabeth
Published: January 2021

Restriction endonuclease cleavage analyses of cloned and genomic DNA samples indicate that the structure of the DNA encoding the large cytoplasmic RNAs (rDNAs) is altered in Drosophila mercatorum lines which exhibit an abnormal abdomen (aa) phenotype. In a majority of the rDNA repeat units from aa flies, the 28S coding sequence is interrupted by a large [5-6 kilobase pairs (kbp)] insert. A subclone containing this inserted DNA (ins 3) hybridizes primarily to rDNA-containing sequences in in situ and genomic blot hybridization experiments. Additionally, genomic nitrocellulose blot hybridization analyses show that ins  - containing rDNA repeat units are clustered in a spontaneously arising aa mutant. This rDNA alteration in D. mercatorum flies with the aa phenotype more closely resembles the bobbed (bb) defect of D. hydei than the bb defect of D. melanogaster, which involves alterations in rDNA copy number. By analogy with the other Drosophila systems, we propose that the altered D. mercatorum rDNA repeat units are defective in rRNA production at a critical stage. The lowered levels of rRNA ultimately would limit the concentration of ribosomes needed to produce large quantities of a protein (in these cases, juvenile hormone esterase) needed for normal development.
THE HOMOZYGOSITY TEST AFTER A CHANGE IN POPULATION SIZE
Authors: Watterson G A
Published: January 2021

The homozygosity of a population will be influenced by any recent change in the population size. The "homozygosity test" of the neutral mutation hypothesis might also be influenced by a population change. A computer simulation method is described that establishes the significance levels of observed homozygosities after a change in population size. Some numerical examples are given.
THE EFFECT OF AN EXPERIMENTAL BOTTLENECK UPON QUANTITATIVE GENETIC VARIATION IN THE HOUSEFLY
Authors: Bryant Edwin H , McCommas Steven A , Combs Lisa M
Published: January 2021

Effects of a population bottleneck (founder-flush cycle) upon quantitative genetic variation of morphometric traits were examined in replicated experimental lines of the housefly founded with one, four or 16 pairs of flies. Heritability and additive genetic variances for eight morphometric traits generally increased as a result of the bottleneck, but the pattern of increase among bottleneck sizes differed among traits. Principal axes of the additive genetic correlation matrix for the control line yielded two suites of traits, one associated with general body size and another set largely independent of body size. In the former set containing five of the traits, additive genetic variance was greatest in the bottleneck size of four pairs, whereas in the latter set of two traits the largest additive genetic variance occurred in the smallest bottleneck size of one pair. One trait exhibited changes in additive genetic variance intermediate between these two major responses. These results were inconsistent with models of additive effects of alleles within loci or of additive effects among loci. An observed decline in viability measures and body size in the bottleneck lines also indicated that there was nonadditivity of allelic effects for these traits. Several possible nonadditive models were explored that increased additive genetic variance as a result of a bottleneck. These included a model with complete dominance, a model with overdominance and a model incorporating multiplicative epistasis.
Molecular Markers for the agouti Coat Color Locus of the Mouse
Authors: Lovett Michael , Cheng Zai-yu , Lamela Estrella M , Yokoi Tohru , Epstein Charles J
Published: January 2021

The agouti (a) coat color locus of the mouse acts within the microenvironment of the hair follicle to control the relative amount and distribution of yellow and black pigment in the coat hairs. Over 18 different mutations with complex dominance relationships have been described at this locus. The lethal yellow (Ay) mutation is the top dominant of this series and is uniquely associated with an endogenous provirus, Emv-15, in three highly inbred strains. However, we report here that it is unlikely that the provirus itself causes the Ay-associated alteration in coat color, since one strain of mice (YBR-Ay/a) lacks the provirus but still retains a yellow coat color. Using single-copy mouse DNA sequences from the regions flanking Emv-15 we have detected three patterns of restriction fragment length polymorphisms (RFLPs) within this region that can be used as molecular markers for different agouti locus alleles: a wild-type agouti (A) pattern, a pattern which generally cosegregates with the nonagouti (a) mutation, and a pattern which is specific to Emv-15. We have used these RFLPs and a panel of 28 recombinant inbred mouse strains to determine the genetic linkage of these sequences with the agouti locus and have found complete concordance between the two (95% confidence limit of 0.00 to 3.79 centimorgans). We have also physically mapped these sequences by in situ hybridization to band H1 of chromosome 2, thus directly confirming previous assignments of the location of the agouti locus.
Temporal and Spatial Heterogeneity of mtDNA Polymorphisms in Natural Populations of Drosophila mercatorum
Authors: DeSalle Rob , Templeton Alan , Mori Ikue , Pletscher Susan , Johnston J Spencer
Published: January 2021

Restriction endonuclease analysis of mtDNA was used to examine the genetic relatedness of several geographically separated isolines of the Drosophila mercatorum subgroup. In addition, we examined the temporal and spatial distribution of two mtDNA restriction site polymorphisms produced by the enzymes BstEII and BstNI at a single locality—Kamuela, Hawaii. Due to small sample sizes of some collections and the undesirable dependance of the estimation of polymorphism frequency on its variance, an arcsin square root transformation of the frequency data was used. We also use an Fst estimator of our transformed frequencies to demonstrate considerable spatial and temporal differentiation within the Kamuela population. In contrast, isozyme data from the same population reveals no pattern of differentiation. The temporal and geographic heterogeneity and population subdivision detected with mtDNA analysis also is consistent with the known dispersal behavior and ecological constraints of this species. The mtDNA data in conjunction with the isozyme data show that the population structure of the Kamuela D. mercatorum is close to the boundary line separating panmixia from subdivision, a conclusion that could not be made from isozyme data alone.
Reexamination of Alcohol Dehydrogenase Structural Mutants in Drosophila Using Protein Blotting
Authors: Hollocher Hope , Place Allen R
Published: January 2021

Using protein blotting and an immuno-overlay procedure, we have reexamined the cross-reacting material produced by ADH null-activity mutants generated with ethyl methanesulfonate (EMS). Of the 13 mutants, 11 have an immunodetectable polypeptide of wild-type size. The native and urea denatured isoelectric points (pI) establish that 7 of 13 of the mutations have no effect on protein charge. The electrophoretic mobilities of each variant on increasing percent acrylamide gels (Ferguson analysis), reveal that 9 of the 11 immunodetectable mutants have retained the ability to form dimers under native conditions. None of the inactive mutant proteins has the ability to form the "adduct-bound" isozyme. We have found no correlation between protein pI and in vivo stability. The observed frequencies of specific charge class alterations do not dispute the propensity of G:A transitions previously found for EMS mutagenesis.
The Effects of Chromosomal Rearrangements on the zeste-white Interaction in Drosophila melanogaster
Authors: Smolik-Utlaut Sarah M , Gelbart William M
Published: January 2021

Three gene systems have been shown to exhibit proximity-dependent phenotypes in Drosophila melanogaster: bithorax (BX-C), decapentaplegic (DPP-C) and white (w). In structurally homozygous genotypes, specific allelic combinations at these loci exhibit one phenotype, while in certain rearrangement heterozygotes the same allelic combinations exhibit dramatically different phenotypes. These observations have led to the suggestion that, through the process of somatic chromosome pairing, such loci are brought into sufficient proximity to permit effective passage of molecular information between homologues; rearrangement heterozygosity would then displace the homologues relative to one another such that this trans-communication is obviated. The genetic properties of the proximity-dependent allelic complementation (termed transvection effects) at the BX-C and DPP-C, are quite similar. Chromosomal rearrangements which disrupt transvection possess a breakpoint in a particular segment of the chromosome arm bearing the transvection-sensitive gene (arm 2L for the DDP-C and 3R for the BX-C); this segment of each arm has been termed the critical region by Lewis (1954). As determined by cytogenetic analysis of transvection-disrupting rearrangements, the critical regions for the BX-C and DDP-C transvection effects extend proximally from these loci for several hundred polytene chromosome bands (Lewis 1954; Gelbart 1982). The interaction between the zeste and white loci appears to depend upon the proximity of the two w+ alleles. By use of insertional duplications, displacement of w+ homologues has been shown to interfere with the zeste-white interaction. In contrast to transvection at bithorax and decapentaplegic, however, only breakpoints in the immediate vicinity of the white locus can disrupt the zeste-white interaction (Gans 1953; Green 1967; Gelbart 1971; this report). In this report, we investigate the basis for the difference in the size of the BX-C and DPP-C critical regions from that of white. We test and eliminate the possibility that the difference is due to the presence near the white locus of a site which mediates somatic chromosome pairing. Rather, our evidence strongly suggests that the zeste-white interaction is, at the phenotypic level, much less sensitive to displacement of the homologous genes than is transvection at either the BX-C or DPP-C. We also show that many of the breakpoints in the vicinity of the white locus do not behave as if they are disrupting a critical region for somatic chromosome pairing. Given these results, we suggest that the zeste-white interaction and transvection are two different proximity-dependent phenomena.
Genetics of Male and Female Sterility in Hybrids of Drosophila pseudoobscura and D. persimilis
Authors: Orr H Allen
Published: January 2021

The genetic basis of male and female sterility in hybrids of Drosophila pseudoobscura-Drosophila persimilis was studied using backcross analysis. Previous studies indirectly assessed male fertility by measuring testis size; these studies concluded that male sterility results from an X chromosome-autosome imbalance. By directly scoring for the production of motile sperm, male sterility is shown to be largely due to an incompatibility between genes on the X and Y chromosomes of these two species. These species have diverged at a minimum of nine loci affecting hybrid male fertility. Semisterility of hybrid females appears to result from an X chromosome-cytoplasm interaction; the X chromosome thus has the largest effect on sterility in both male and female hybrids. This is apparently the first analysis of the genetic basis of female sterility, or of sterility/inviability affecting both sexes, in an animal hybridization.
Linkage Relationships Reflecting Ancestral Tetraploidy in Salmonid Fish
Authors: Johnson K R , Wright J E , May B
Published: January 2021

Fifteen classical linkage groups were identified in two salmonid species (Salmo trutta and Salmo gairdneri) and three fertile, interspecific hybrids (S. gairdneri × Salmo clarki, Salvelinus fontinalis × Salvelinus namaycush and S. fontinalisx Salvelinus alpinus) by backcrossing multiply heterozygous individuals. These linkage relationships of electrophoretically detected, protein coding loci were highly conserved among species. The loci encoding the enzymes appeared to be randomly distributed among the salmonid chromosomes. Recombination frequencies were generally greater in females than in males. In males, certain linkage groups were pseudolinked with other linkage groups, presumably because of facultative multivalent pairing and directed disjunction of chromosomes. Five such pseudolinkage groups were identified and they also appeared to be common among species and hybrids. Duplicate loci were never classically linked with each other, although some exhibited pseudolinkage and some showed evidence of exchanging alleles. Gene-centromere recombination frequencies estimated from genotypic distributions of gynogenetic offspring were consistent with map locations inferred from female intergenic recombination frequencies. These linkage relationships support the contention that all extant salmonids arose from a common tetraploid progenitor and that this progenitor may have been a segmental allotetraploid.
A New Mutation (t-int) Interacts With the Mutations of the Mouse T/t Complex That Affect the Tail
Authors: Artzt Karen , Cookingham Janice , Bennett Dorothea
Published: January 2021

A new recessive mutation affecting tail length is described. It is unlinked to the T/t-complex on chromosome 17 and yet it shows cumulative phenotypic effects with several t-complex mutations: T, TCu, tct and Fuki. It does not interact with five different nonchromosome 17 mutations that affect tail length. Thus, t-int is a tail modifier with surprisingly specific interactions.
Mutational Analysis of Meiotic and Mitotic Centromere Function in Saccharomyces cerevisiae
Authors: Cumberledge Susan , Carbon John
Published: January 2021

A centromere (CEN) in Saccharomyces cerevisiae consists of approximately 150 bp of DNA and contains 3 conserved sequence elements: a high A + T region 78-86 bp in length (element II), flanked on the left by a conserved 8-bp element I sequence (PuTCACPuTG), and on the right by a conserved 25-bp element III sequence. We have carried out a structure-function analysis of the element I and II regions of CEN3 by constructing mutations in these sequences and subsequently determining their effect on mitotic and meiotic chromosome segregation. We have also examined the mitotic and meiotic segregation behavior of ARS plasmids containing the structurally altered CEN3 sequences. Replacing the periodic tracts of A residues within element II with random A + T sequences of equal length increases the frequency of mitotic chromosome nondisjunction only 4-fold; whereas, reducing the A + T content of element II while preserving the length results in a 40-fold increase in the frequence of chromosome nondisjunction. Structural alterations in the element II region that do not decrease the overall length have little effect on the meiotic segregation behavior of the altered chromosomes. Centromeres containing a deletion of element I or a portion of element II retain considerable mitotic activity, yet plasmids carrying these same mutations segregate randomly during meiosis I, indicating these sequences to be essential for maintaining attachment of the replicated sister chromatids during the first meiotic division. The presence of an intact element I sequence properly spaced from the element III region is absolutely essential for proper meiotic function of the centromere.
Heritability and Variability in Ribosomal RNA Genes of Vicia faba
Authors: Rogers Scott O , Bendich Arnold J
Published: January 2021

We have compared the restriction patterns and copy numbers of ribosomal RNA genes (rDNA) between and within individuals of Vicia faba. While the Eco RI blot-hybridization patterns changed only after one to two generations, copy number changes were found among different tissues of the same plant. Copy number differences among individuals in the population were as great as 95-fold, whereas as much as a 12-fold variation was seen among tissues of the same plant. Among individual F1 progeny from genetic crosses, nearly an 8-fold variation was seen, and among individuals of the F2 generation a spread of 22-fold was measured. Among individual siblings of self-pollinated parents, up to 7-fold variation was observed. However, changes in copy number did not necessarily indicate changes in rDNA Eco RI blot-hybridization pattern, and vice versa. Furthermore, nearest neighbor analysis of R-loop experiments showed that the arrangement of members of the "nontranscribed" spacer (NTS) size classes along the chromosome was not random, but some clustering was indicated. The data are consistent with the hypothesis that sister chromatid exchange in somatic cells of V. faba is the primary mechanism for altering the rDNA copy number as well as causing the extreme variation observed in the NTS. Variation among individuals in rDNA blot-hybridization pattern was also observed for Vicia villosa, Vicia dasycarpa, Vicia benghalensis and Vicia pannonica.
Dominance, Pleiotropy and Metabolic Structure
Authors: Keightley Peter D , Kacser Henrik
Published: January 2021

It is a common observation that most mutants have similar dominance relations for all the characters they are known to affect. As a model of pleiotropic effects we investigate a branched pathway where the two outputs represent two characters whose variation is affected by changes in any of the genetically specified enzymes in the system. We consider the effects on the phenotype (fluxes or intermediate metabolites) of substitutions at one locus represented by enzyme activities of the two homozygotes (mutant and wild type) and that of the heterozygote. Dominance indices for the characters pleiotropically connected by the metabolic system are calculated. We show that if enzymes behave 'linearly,' (first order), that is if saturation and feedback inhibition or other nonlinearities are absent, all fluxes and pools have identical dominance relations. The presence of such nonlinearity, however, leads to differences in dominance between different characters and we define the conditions where such differences can be important.
On the Theory of Partially Inbreeding Finite Populations. I. Partial Selfing
Authors: Pollak Edward
Published: January 2021

Some stochastic theory is developed for monoecious populations of size N in which there are probabilities β and 1 - β of reproduction by selfing and by random mating. It is assumed that β >> N  -1. Expressions are derived for the inbreeding coefficient of one random individual and the coefficient of kinship of two random separate individuals at time t. The mean and between-lines variance of the fraction of copies of a locus that are identical in two random separate individuals in an equilibrium population are obtained under the assumption that there is an infinite number of possible alleles. It is found that the theory for random mating populations holds if the effective population number is Ne = N′/(1 + FIS), where FIS is the inbreeding coefficient at equilibrium when N is infinite and N′ is the reciprocal of the probability that two gametes contributing to random separate adults come from the same parent. When there is a binomial distribution of successful gametes emanating from each adult, N′ = N. An approximation to the probability that an allele A survives if it is originally present in one AĀ heterozygote is found to be 2(N′/N)(FISs  1 + (1 - FIS)s  2), where s  1 and s  2 are the selective advantages of AA and AĀ in comparison with ĀĀ. In the last section it is shown that if there is partial full sib mating and binomial offspring distributions Ne = N/(1 + 3FIS).
Genetic Analysis of Bacillus subtilis spo Mutations Generated by Tn917-Mediated Insertional Mutagenesis
Authors: Sandman Kathleen , Losick Richard , Youngman Philip
Published: January 2021

Mutations that cause sporulation defects (spo mutations) often identify developmentally regulated transcription units or genes whose products are required for the expression of sporulation-specific regulons. We report here the isolation, genetic analysis and phenotypic characterization of spo mutations produced by insertional mutagenesis with transposon Tn917, a form of mutagenesis that facilitates genetic and physical manipulation of mutated genes in many ways. Twenty-four insertional $10 mutations were studied in detail. On the basis of transformation-mediated and transductionmediated linkage analysis and a range of phenotypic tests, these mutations were assigned to 20 distinct loci, at least 9 of which are different from the 40 previously described spo loci. The insertional mutations caused blocks at a variety of different stages of sporulation, and therefore probably identify genes active at different times during sporulation. In addition to increasing substantially the total of known spo loci, we anticipate that this collection will include representatives of many of the temporally regulated sets of genes that comprise the overall program of sporulation-specific gene activation in Bacillus subtilis. Given the kinds of manipulations that are possible with genes disrupted by Tn917 insertions, this should significantly facilitate efforts to understand the regulation of these gene sets.
The dissonance mutant of courtship song in Drosophila melanogaster: isolation, behavior and cytogenetics.
Authors: Kulkarni S J , Steinlauf A F , Hall J C
Published: January 2021

The dissonance mutant of courtship song was induced by chemical mutagenesis. This X-chromosomal mutation causes the D. melanogaster male's acoustical output, resulting from his wing vibrations directed at a female, to include very long and loud tone "pulses." Yet, a given train of pulses starts out as normal, with the signals in all but the shortest singing bouts eventually becoming polycyclic and high-amplitude. The aberrant songs caused by diss (map position, 1-52; cytological interval, 14C1-2 to 14C4-5) were quantitatively compared to those produced by mutant cacophony males, whose pulses are much more uniformly polycyclic (due to a mutation mapping elsewhere on the X chromosome). Males or females expressing diss are normal in several "general" behaviors. Yet diss males not only sing abnormally, but they also exhibit longer-than-normal mating latencies in their courtship of females. These decrements seem to be associated, at least in part, with visually aberrant behavior of diss flies--measured with regard to male courtship per se, and also in tests of more general visual responses. Such defects were found when testing diss males or females, and the genetic etiology of the visual impairments were provisionally mapped to the same locus to which the song abnormality has been localized. Neurogenetic connections between the control of courtship singing behavior and visual system functions are discussed with respect to the new song mutation (diss) and the older one (cac)--which also turned out to be genetically related to a mutation that causes abnormalities of light-induced behavior and physiology.
Identification of the genomic locations of duplicate nucleotide sequences in maize by analysis of restriction fragment length polymorphisms.
Authors: Helentjaris T , Weber D , Wright S
Published: January 2021

While preparing a linkage map for maize based upon loci detected through the use of restriction fragment length polymorphisms (RFLPs), it was found that 62 of the 217 cloned maize sequences tested (29%) detected more than one fragment on genomic Southern blots. Thus, more than one nucleotide sequence is present within the maize genome which is in part homologous to each of these cloned sequences. The genomic locations of these ;;duplicate'' sequences were determined and it was found that they usually originated from different chromosomes. The process which produced them did not operate randomly as some pairs of chromosomes share many duplicate sequences while many other pairs share none. Furthermore, these shared duplicate sequences are generally arrayed in an ordered arrangement along these chromosomes. It is believed that chromosomal segments which contain several duplicate loci in a generally ordered arrangement must have had a common origin. The presence of these duplicated segments supports the idea that allopolyploidy may have been involved in the evolution of maize. Nevertheless, the duplicate loci do not primarily involve five pairs of chromosomes and thus, five pairs of homeologous chromosomes are not currently present within the maize genome. The data clearly indicate that maize is not a recent allotetraploid produced by hybridization between two individuals with similar genomic structures; however, the data are also consistent with the possibility of these shared duplicate chromosomal segments having been generated through internal duplication.
A selective screen to recover chromosomal deletions and duplications in Drosophila melanogaster.
Authors: Gubb D , McGill S , Ashburner M
Published: January 2021

A screen is described that will select for breakpoints within a restricted chromosomal region in Drosophila. The aberrations recovered can be used to construct chromosomes carrying synthetic duplications and deletions. Such chromosomes have applications in the mapping of complementation groups at both the genetic and molecular level. In particular, breakpoints recovered after P element hybrid dysgenesis tend to be associated with P element insertion sites. Such aberration breakpoints can be genetically mapped, as synthetic deletions, and then used as transposon-tagged sites for the recovery of genomic clones.
The discoidin I gene family of Dictyostelium discoideum is linked to genes regulating its expression.
Authors: Welker D L
Published: January 2021

The discoidin I protein has been studied extensively as a marker of early development in the cellular slime mold Dictyostelium discoideum. However, like most other developmentally regulated proteins in this system, no reliable information was available on the linkage of the discoidin genes to other known genes. Analysis of the linkage of the discoidin I genes by use of restriction fragment length polymorphisms revealed that all three discoidin I genes as well as a pseudogene are located on linkage group II. This evidence is consistent with the discoidin I genes forming a gene cluster that may be under the control of a single regulatory element. The discoidin I genes are linked to three genetic loci (disA, motA, daxA) that affect the expression of the discoidin I protein. Linkage of the gene family members to regulatory loci may be important in the coordinate maintenance of the gene family and regulatory loci. A duplication affecting the entire discoidin gene family is also linked to group II; this appears to be a small tandem duplication. This duplication was mapped using a DNA polymorphism generated by insertion of the Tdd-3 mobile genetic element into a Tdd-2 element flanking the gamma gene. A probe for Tdd-2 identified a restriction fragment length polymorphism in strain AX3K that was consistent with generation by a previously proposed Tdd-3 insertion event. A putative duplication or rearrangement of a second Tdd-2 element on linkage group IV of strain AX3K was also identified. This is the first linkage information available for mobile genetic elements in D. discoideum.
Variation among extracted lines of Drosophila melanogaster in triacylglycerol and carbohydrate storage.
Authors: Clark A G , Keith L E
Published: January 2021

Whole larvae and whole adult extracts from 26 second chromosome replacement lines of Drosophila melanogaster were analyzed to determine the amounts of stored triacylglycerols and carbohydrates as well as the activities of 13 enzymes in relevant biochemical pathways. Analysis of covariance revealed significant differences among lines in stored lipids and carbohydrates, as well as in activities of most of the enzymes. Significant broad-sense genetic correlations (among adjusted line means) were detected for a number of enzyme pairs. Multiple regression techniques were applied to assess the extent to which the amounts of stored triacylglycerols and carbohydrates could be predicted from the enzyme activities. Significant regressions were found in both adults and larvae, suggesting that modulation of enzyme activities is reflected in different sizes of storage pools. The population genetic consequences of natural selection acting on a phenotype such as energy storage is considered in light of models of metabolic flux in biochemical pathways.
A sex chromosomal restriction-fragment-length marker linked to melanoma-determining Tu loci in Xiphophorus.
Authors: Schartl M
Published: January 2021

In Xiphophorus, the causative genetic information for melanoma formation has been assigned by classical genetics to chromosomal loci, which are located on the sex chromosomes. In our attempts to molecularly clone these melanoma-determining loci, named Tu, we have looked for restriction-fragment-length markers (RFLMs) linked to the Tu loci. These RFLMs should be useful in obtaining a physical map of a Tu locus, which will aid in the cloning of the corresponding sequences. DNA samples from various Xiphophorus strains and hybrids including those bearing different Tu wild-type, deletion and translocation chromosomes, were screened for the presence of random RFLMs using homologous or heterologous sequences as hybridization probes. We find an EcoRI restriction fragment which shows limited crosshybridization to the v-erb B gene--but not representing the authentic c-erb B gene of Xiphophorus--to be polymorphic with respect to different sex chromosomes. Linkage analysis revealed that a 5-kb fragment is linked to the Tu-Sd locus on the X chromosome, a 7-kb fragment is linked to the Tu-Sr locus on the Y chromosome, both of Xiphophorus maculatus, and that a 12-kb fragment is linked to the Tu-Li locus on the X chromosome of Xiphophorus variatus. Using different chromosomal mutants this RFLM has been mapped to a frequent deletion/translocation breakpoint of the X chromosome, less than 0.3 cM apart from the Tu locus.
The evolution of the Y chromosome with X-Y recombination.
Authors: Clark A G
Published: January 2021

A theoretical population genetic model is developed to explore the consequences of X-Y recombination in the evolution of sex chromosome polymorphism. The model incorporates one sex-determining locus and one locus subject to natural selection. Both loci have two alleles, and the rate of classical meiotic recombination between the loci is r. The alleles at the sex-determining locus specify whether the chromosome is X or Y, and the alleles at the selected locus are arbitrarily labeled A and a. Natural selection is modeled as a process of differential viabilities. The system can be expressed in terms of three recurrence equations, one for the frequency of A on the X-bearing gametes produced by females, one for each of the frequency of A on the X- and Y-bearing gametes produced by males. Several special cases are examined, including X chromosome dominance and symmetric selection. Unusual equilibria are found with the two sexes having very different allele frequencies at the selected locus. A significant finding is that the allowance of recombination results in a much greater opportunity for polymorphism of the Y chromosome. Tighter linkage results in a greater likelihood for equilibria with a large difference between the sex chromosomes in allele frequency.
Cytoplasmic leucyl-tRNA synthetase of Neurospora crassa is not specified by the leu-5 locus.
Authors: Benarous R , Chow C M , RajBhandary U L
Published: January 2021

We generated a lambda gt11 Neurospora crassa cDNA library and screened the library for the cytoplasmic leucyl-tRNA synthetase (cyto LeuRS) clones using cyto LeuRS specific antibody. Two clones, lambda NCLRSC1 and lambda NCLRSC2, were obtained which have inserts of approximately 2 kbp and approximately 1.3 kbp, and which overlap by about 0.6 kbp. The following lines of evidence indicate that lambda NCLRSC1 and lambda NCLRSC2 encode parts of cyto LeuRS. (1) Antibodies affinity purified using either of the fusion proteins encoded by lambda NCLRSC1 or lambda NCLRSC2 inhibit cyto LeuRS activity. Thus, the fusion protein and cyto LeuRS share immunological determinants. (2) The same antibodies also react with an approximately 115-kDa protein, which comigrates with purified cyto LeuRS, in immunoblots of total N. crassa proteins. We used the cDNA clones to probe a N. crassa genomic DNA library and isolated two genomic DNA clones. Partial sequence analysis of cDNA and genomic DNA clones shows a methionine initiated open reading frame, which includes a stretch of amino acid residues that are highly conserved and that are at the ATP binding site in aminoacyl-tRNA synthetases. Using the cloned DNA as probe, we show that the cyto LeuRS mRNA is approximately 3900 nucleotides long. Finally, we have used restriction fragment length polymorphism mapping to show that the cyto LeuRS gene resides on the far right of linkage group II and not on linkage group V where the leu-5 mutation, which was previously reported to specify cyto LeuRS, is located.
Reciprocality of recombination events that rearrange the chromosome.
Authors: Mahan M J , Roth J R
Published: January 2021

We describe a genetic system for studying the reciprocality of chromosomal recombination; all substrates and recombination functions involved are provided exclusively by the bacterial chromosome. The genetic system allows the recovery of both recombinant products from a single recombination event. The system was used to demonstrate the full reciprocality of three different types of recombination events: (1) intrachromosomal recombination between direct repeats, causing deletions; (2) intrachromosomal recombination between inverse homologies, causing inversion of a segment of the bacterial chromosome; and (3) circle to circle recombination (in the absence of any plasmid or phage functions). Results suggest that intrachromosomal recombination in bacteria is frequently fully reciprocal.
Many protein products from a few loci: assignment of human salivary proline-rich proteins to specific loci.
Authors: Lyons K M , Azen E A , Goodman P A , Smithies O
Published: January 2021

Earlier studies of protein polymorphisms led to the description of 13 linked loci thought to encode the human salivary proline-rich proteins (PRPs). However, more recent studies at the DNA level have shown that there are only six genes which encode PRPs. The present study was undertaken in order to reconcile these observations. Nucleotide and decoded amino acid sequences from each of the six genes were compared with the available protein sequence data for PRPs. This analysis allowed assignment of the PmF, PmS and Pe proteins to the PRB1 locus, the G1 protein to the PRB3 locus, the Po protein to the PRB4 locus, the Ps protein to the PRB2 locus, and the CON1 and CON2 proteins to the PRB4 locus. Correlations between insertion/deletion RFLPs and PRP protein phenotypes were observed for the PmF, PmS, Gl and CON2 proteins. Our overall analysis indicates that in many instances several proteins previously considered to be the products of separate loci are actually proteolytic cleavage products of a large precursor specified by one or other of the six genes identified at the DNA level. Our analysis also demonstrates that some of the "null" alleles proposed to occur at 11 of the 13 loci in the earlier genetic studies, are actually productive alleles having alterations at proteolytic cleavage sites within the relevant precursor protein. The absence of cleavage leads to the persistence of longer precursor peptides not resolved electrophoretically, concurrently with an absence of the smaller PRPs seen when cleavage occurs.
Gene conversion, linkage, and the evolution of multigene families.
Authors: Nagylaki T
Published: January 2021

The evolution of the probabilities of genetic identity within and between the loci of a multigene family is investigated. Unbiased gene conversion, equal crossing over, random genetic drift, and mutation to new alleles are incorporated. Generations are discrete and nonoverlapping; the diploid, monoecious population mates at random. The linkage map is arbitrary, and the location dependence of the probabilities of identity is formulated exactly. The greatest of the rates of gene conversion, random drift, and mutation is epsilon much less than 1. For interchromosomal conversion, the equilibrium probabilities of identity are within order epsilon [i.e., O(epsilon)] of those in a simple model that has no location dependence and, at equilibrium, no linkage disequilibrium. At equilibrium, the linkage disequilibria are of O(epsilon); they are evaluated explicitly with an error of O(epsilon 2); they may be negative if symmetric heteroduplexes occur. The ultimate rate and pattern of convergence to equilibrium are within O(epsilon 2) and O(epsilon), respectively, of that of the same simple model. If linkage is loose (i.e., all the crossover rates greatly exceed epsilon, though they may still be much less than 1/2), the linkage disequilibria are reduced to O(epsilon) in a time of O(-ln epsilon). If intrachromosomal conversion is incorporated, the same results hold for loose linkage, except that, if the crossover rates are much less than 1/2, then the linkage disequilibria generally exceed those for pure interchromosomal conversion.
Studies of the genetic organization of the vestigial microregion of Drosophila melanogaster.
Authors: Lasko P F , Pardue M L
Published: January 2021

The region of the second chromosome of Drosophila melanogaster defined by Df(2R)vgB was screened for recessive lethal and visible mutations. Fifty-eight new recessive alleles fall into 17 complementation groups. Many new vg alleles were also isolated in a screen for new vg deficiencies. The breakpoints of the new vg deficiencies were nonrandomly distributed. The distal breakpoints of twelve of 20 deficiencies overlapping Df(2R)vgB are genetically identical to that of Df(2R)vgD, coinciding with the position of a complex, pleiotropic locus, l(2)49Ea-Psc-Su(z)2.
The Ultrastructure of the Nictitating Membrane of the Little Penguin (Eudyptula minor, Aves)
Authors: Collin S P , Collin H B
Published: January 2021

Synopsis

The ultrastructure of the nictitating membrane in the little penguin Eudyptula minor was studied using both scanning and transmission electron microscopy to improve our understanding of the function of ocular adnexa in diving birds. Following euthanasia, eyes were enucleated and immersion fixed in Karnovsky’s fixative. The nictitating membrane and conjunctiva were embedded in araldite and semi- or ultra-thin sections were stained and photographed using compound and transmission electron microscopes, respectively. Ultrastructural dimensions were measured directly from digital photographs. Surface ultrastructure was examined using scanning electron microscopy. The transparent nictitating membrane consists of a dense stroma surrounded by epithelia on both the external (conjunctival) and internal (bulbar) surfaces. The conjunctival surface of the membrane near the leading edge is covered by microvilli, which transition to microplicae and finally to microridges in the periphery. Beneath the epithelial cells, there is a well-developed basement membrane. Scattered throughout this epithelium are a few goblet cells. The surface of the bulbar epithelium is covered by microvilli near the leading edge, which become denser peripherally. The stroma consists of densely-packed collagen fibrils, which are randomly oriented in bundles near the leading edge but are aligned in the same direction parallel with the epithelial and corneal surfaces and with the leading edge, when the membrane is extended. The ultrastructure of the nictitating membrane in the little penguin differs from other birds and its function is predominantly protective, while preserving clear vision in both water and air.
Predicting the observability of population III stars with ELT-HARMONI via the helium 1640 Å emission line
Authors: Grisdale Kearn , Thatte Niranjan , Devriendt Julien , Pereira-Santaella Miguel , Slyz Adrianne , Kimm Taysun , Dubois Yohan , Yi Sukyoung K
Published: January 2021

Population III (Pop. III) stars, as of yet, have not been detected, however as we move into the era of extremely large telescopes this is likely to change. One likely tracer for Pop. III stars is the He iiλ1640 emission line, which will be detectable by the HARMONI spectrograph on the European Extremely Large Telescope (ELT) over a broad range of redshifts (2 ≤ z ≤ 14). By post-processing galaxies from the cosmological, AMR-hydrodynamical simulation newhorizon with theoretical spectral energy distributions (SED) for Pop. III stars and radiative transfer (i.e. the Yggdrasil Models and cloudy look-up tables, respectively) we are able to compute the flux of He iiλ1640 for individual galaxies. From mock 10 h observations of these galaxies we show that HARMONI will be able to detect Pop. III stars in galaxies up to z ∼ 10 provided Pop. III stars have a top heavy initial mass function (IMF). Furthermore, we find that should Pop. III stars instead have an IMF similar to those of the Pop. I stars, the He iiλ1640 line would only be observable for galaxies with Pop. III stellar masses in excess of $10^{7}\, {\rm M}_\odot$, average stellar age $\lt 1\, {\rm Myr}$ at z = 4. Finally, we are able to determine the minimal intrinsic flux required for HARMONI to detect Pop. III stars in a galaxy up to z = 10.
Dynamical modelling of CXOGBS J175553.2−281633: a 10 h long orbital period cataclysmic variable
Authors: Gomez Sebastian , Torres Manuel A P , Jonker Peter G , Kostrzewa-Rutkowska Zuzanna , van Grunsven Theo F J , Udalski Andrzej , Hynes Robert I , Heinke Craig O , Maccarone Thomas J , Salinas Ricardo , Strader Jay
Published: January 2021

We present modelling of the long-term optical light and radial velocity curves of the binary stellar system CXOGBS J175553.2−281633, first detected in X-rays in the Chandra Galactic Bulge Survey. We analysed 7 yr of optical I-band photometry from Optical Gravitational Lensing Experiment and found long-term variations from year to year. These long-term variations can most likely be explained with by either variations in the luminosity of the accretion disc or a spotted secondary star. The phased light curve has a sinusoidal shape, which we interpret as being due to ellipsoidal modulations. We improve the orbital period to be P = 10.34488 ± 0.00006 h with a time of inferior conjunction of the secondary star T0 = HJD 2455260.8204 ± 0.0008. Moreover, we collected 37 spectra over 6 non-consecutive nights. The spectra show evidence for an evolved K7 secondary donor star, from which we obtain a semi-amplitude for the radial velocity curve of K2 = 161 ± 6 km s−1. Using the light-curve synthesis code xrbinary, we derive the most likely orbital inclination for the binary of i = 63.0 ± 0.7 deg, a primary mass of M1 = 0.83 ± 0.06 M⊙, consistent with a white dwarf accretor, and a secondary donor mass of M2 = 0.65 ± 0.07 M⊙, consistent with the spectral classification. Therefore, we identify the source as a long orbital period cataclysmic variable star.
Constraining stellar population parameters from narrow band photometric surveys using convolutional neural networks
Authors: Liew-Cain Choong Ling , Kawata Daisuke , Sánchez-Blázquez Patricia , Ferreras Ignacio , Symeonidis Myrto
Published: January 2021

Upcoming large-area narrow band photometric surveys, such as Javalambre Physics of the Accelerating Universe Astrophysical Survey (J-PAS), will enable us to observe a large number of galaxies simultaneously and efficiently. However, it will be challenging to analyse the spatially resolved stellar populations of galaxies from such big data to investigate galaxy formation and evolutionary history. We have applied a convolutional neural network (CNN) technique, which is known to be computationally inexpensive once it is trained, to retrieve the metallicity and age from J-PAS-like narrow-band images. The CNN was trained using synthetic photometry from the integral field unit spectra of the Calar Alto Legacy Integral Field Area survey and the age and metallicity obtained in a full spectral fitting on the same spectra. We demonstrate that our CNN model can consistently recover age and metallicity from each J-PAS-like spectral energy distribution. The radial gradients of the age and metallicity for galaxies are also recovered accurately, irrespective of their morphology. However, it is demonstrated that the diversity of the data set used to train the neural networks has a dramatic effect on the recovery of galactic stellar population parameters. Hence, future applications of CNNs to constrain stellar populations will rely on the availability of quality spectroscopic data from samples covering a wide range of population parameters.