bluuebunny/crossref_metadata_2025_split huggingface dataset:
Characterization of microsatellite loci for the detection of temporal genetic shifts within a single cohort of the brown demoiselle, Neopomacentrus filamentosus
Authors: JONES M. ELIZABETH , BARBER PAUL H. 
Published: January 2006

Abstract Neopomacentrus filamentosus, a common damselfish on the Indo–Australian archipelago, undergoes significant shifts in size and mitochondrial genetic structure upon larval settlement and metamorphosis to juvenile stages. We characterized five polymorphic microsatellite loci in order to study temporal genetic shifts within a single generation of N. filamentosus sampled first as larval settlers then again as demersal juvenile recruits. All loci were extremely polymorphic and exhibited high levels of heterozygosity. While all loci from the larval samples conformed to Hardy – Weinberg expectations, significant heterozygote deficiencies were seen in two loci in the juvenile samples, likely due to extreme size‐selective mortality imposed post‐settlement.
Chloroplast microsatellites in Prunus, Rosaceae
Authors: OHTA S. , NISHITANI C. , YAMAMOTO T. 
Published: January 2006

AbstractTen chloroplast microsatellite markers were developed from Japanese plum (Prunus salicina) based on nucleotide sequences of c. 4300 bp from six chloroplast regions. Out of 10 microsatellites, seven markers contained mononucleotide repeats. Almost all microsatellites displayed discrete amplified fragments for 17 species in Prunus. The microsatellites generated 46 different fragment types and differentiated all used species. Polymorphism was also observed within species for all microsatellites.
Isolation of polymorphic tetranucleotide microsatellite markers for the wedge‐billed woodcreeper Glyphorynchus spirurus
Authors: MILÁ BORJA , BARDELEBEN CAROLYNE 
Published: January 2006

AbstractWe have isolated six polymorphic microsatellite markers for the wedge‐billed woodcreeper Glyphorynchus spirurus from a genomic library enriched for (AAGG)n repetitive elements, and characterized them in 25 individuals. The number of alleles ranged from eight to 20 per locus, with observed heterozygosity ranging from 0.43 to 0.78.
Characterization of six microsatellite DNA loci for Sorex arizonae
Authors: ORTEGA J. , YOUNG S. , SIMONS L. H. , MALDONADO J. E. 
Published: January 2006

Abstract Sorex arizonae is a rare species that occupies a narrow range of habitat types in several mountain ranges of New Mexico, Arizona and Northern Mexico. Here we identify and characterize six microsatellite loci for this species. We screened 63 individuals from four different localities from New Mexico and Arizona to analyse genetic variability. Alleles ranged from three to 16. Heterozygosity ranged from 40% to 78%. Most polymorphic loci were in Hardy–Weinberg equilibrium with the exception of one locus. Primers appear to have reasonable cross‐species applicability as five loci amplified in another shrew species (Sorex monticolus).
Isolation of microsatellite markers from an interspecific hybrid isolate of the fungal plant pathogen Verticillium dahliae
Authors: BARBARA D. J. , MORTON A. , MILLER N. J. 
Published: January 2006

AbstractTen microsatellite markers have been isolated from an amphihaploid isolate of Verticillium dahliae using genomic libraries enriched for (AGT), (GAC), (GCC), (TAC) and (TTA) repetitive elements. These were characterized on four amphihaploid isolates and two haploid isolates each of V. dahliae and Verticillium albo‐atrum. Nine were polymorphic, with between two and five alleles, and the tenth was polymorphic when tested on a further 20 haploid V. dahliae isolates (three alleles). Only one primer pair gave the expected double bands from the amphihaploid isolates, supporting the view that V. albo‐atrum is not one of the parents of the interspecific hybrid amphihaploid isolates.
Isolation of microsatellite loci in green abalone (Haliotis fulgens) and cross‐species amplification in two other North American red (Haliotis rufescens) and pink (Haliotis corrugata) abalones
Authors: CRUZ P. , IBARRA A. M. , FIORE‐AMARAL G. , GALINDO‐SÁNCHEZ C. E. , MENDOZA‐CARRIÓN G. 
Published: January 2006

AbstractMicrosatellite loci were isolated in Haliotis fulgens using a (CT)n enriched‐genomic library. From 33 sequenced clones, 21 microsatellites regions were identified, 15 with the expected (CT)n. Eight microsatellite loci were amplified, six of which were polymorphic with a range of three to 20 alleles, and five cross‐amplified in two other species (Haliotis rufescens and Haliotis corrugata). These microsatellites will be useful as population genetic markers in the three species.
Isolation and characterization of microsatellite markers from the sweet passion fruit (Passiflora alata Curtis: Passifloraceae)
Authors: PÁDUA J. G. , OLIVEIRA E. J. , ZUCCHI M. I. , OLIVEIRA G. C. X. , CAMARGO L. E. A. , VIEIRA M. L. C. 
Published: January 2006

Abstract Passiflora alata is one of the commercialized species of the passion vines, grown for its edible fruits. It is found in South America, mainly Paraguay, Argentina, Peru and Brazil. The development of a set of microsatellite markers was proposed to provide tools for analysing both genetic structure of wild populations and the reproductive system of the species, which are poorly understood. Seven markers were developed from a P. alata‐genomic library enriched for simple sequence repeats (SSR). Twelve individuals were genotyped, and the levels of the expected heterozygosity (HE) did show that those markers could be used to develop P. alata genetic studies.
Microsatellites for diversity studies in the golden hamster (Mesocricetus auratus)
Authors: NEUMANN KARSTEN , MAAK STEFFEN , FRITZSCHE PETER , GATTERMANN ROLF 
Published: January 2006

AbstractTen polymorphic microsatellites were developed for the golden hamster (Mesocricetus auratus), a widely used model organism in biological and medical researches. All loci were used to analyse the microsatellite variability in wild golden hamsters from Syria and in a sample of domestic animals comprising different strains. Average mean expected heterozygosity (HE) and mean allele number (A) of domestic hamsters measured 0.279 ± 0.058 and 2.6 ± 0.306, respectively, compared to 0.809 ± 0.019 and 8.3 ± 1.075 found for wild hamsters. Cross‐species application in other Mesocricetus species proved conservation of most loci throughout the genus.
Combined morphological and molecular analysis of individual nematodes through short‐term preservation in formalin
Authors: BHADURY P. , AUSTEN M. C. , BILTON D. T. , LAMBSHEAD P. J. D. , ROGERS A. D. , SMERDON G. R. 
Published: January 2006

AbstractSmall metazoans such as marine nematodes are increasingly identified using both molecular and morphological techniques. Formalin is the preferred fixative for morphological analysis but specimens become unsuitable for molecular study due to formalin‐induced modification of DNA. Nematodes fixed in ethanol work well for molecular studies but become unsuitable for taxonomy due to shrinkage. Here we show for the first time that formalin can be used as a short‐term fixative (≤ 7 days) for marine nematodes, allowing both morphological and molecular work to be conducted on the same individual. No sequence ambiguities were detected in polymerase chain reaction (PCR) amplifications of 18S ribosomal DNA (rDNA) following short‐term formalin preservation.
Characterization of newly developed microsatellite loci in the stemmed yellow violet, Viola pubescens (Violaceae)
Authors: CULLEY THERESA M. 
Published: January 2006

Abstract Viola pubescens is a perennial herb with a mixed mating system involving the production of both open, chasmogamous flowers and closed, cleistogamous flowers. Using a nonradioactive protocol, 12 microsatellite primers that amplified loci with perfect and imperfect repeats were developed in the species. As examined in five populations of V. pubescens using multiplex reactions, all loci exhibited polymorphism with an average of 5.4 alleles. Most primers also amplified in 12 additional Viola species and one cultivar, revealing the possibility of wide applicability across the genus. This is the first known report of microsatellite loci developed in Viola and the Violaceae.
Isolation and characterization of microsatellites in Chinese sturgeon,Acipenser sinensis
Authors: ZHU B. , LIAO X. , SHAO Z. , ROSENTHAL H. , CHANG J. 
Published: January 2006

AbstractFrom (GATA)nand (AAAG)nenriched genomic libraries for the Chinese sturgeon (Acipenser sinensis), 50 primer pairs were developed using the fast isolation by AFLP of sequences containing repeats (FIASCO) protocol. Forty‐six primer pairs exhibited highly polymorphic with two to 11 alleles per locus, while the rest four displayed monomorphic. These markers yielded 246 alleles in a survey of eight specimens of wildA. sinensis. Average observed heterozygosity ranged from 0.13 to 1.00. These loci should provide sufficient levels of genetic diversity to allow parentage analysis for artificial stocking management and delineation of fine‐scale population structure.
Isolation and characterization of microsatellite DNA loci for endangered fish, Japanese huchen (Hucho perryi)
Authors: HATAKEYAMA MAKOTO , WATANABE TOMOHISA , IKEDA MINORU , NAKAJIMA MASAMICHI , KAWAMULA HIROSHI , TANIGUCHI NOBUHIKO 
Published: January 2006

AbstractJapanese huchen, Hucho perryi, is an endangered fish in Japan. In order to promote a conservation program for this species, it is necessary to evaluate its genetic diversity and population genetics. For this purpose, we designed 15 primers containing dinucleotide microsatellite regions and examined their allelic variation using a total of 23 wild individuals collected from two different localities. Eight loci showed moderate allelic variation ranging from two to four alleles, with expected heterozygosities from 0.043 to 0.548. These markers will be useful for the assessment of genetic variation for this species.
Isolation of polymorphic microsatellite loci in the clear lake gnat and two other phantom midge species of the genus Chaoborus (Diptera: Chaoboridae)
Authors: BERENDONK T. U. , DOBSON K. 
Published: January 2006

Abstract Chaoborus is of great interest to many freshwater ecologists. The adults can become pests in certain areas in North America and the larvae are an important food source for fish. In this preliminary study, we identified variable microsatellite loci in three species: Chaoborus astictopus (HE = 0.52–0.76), Chaoborus americanus (HE = 0.46–0.80) and Chaoborus punctipennis (HE = 0.66–0.81). Using a biotin/streptavidin capture technique of repetitive sequences in a 96‐well format, we obtained microsatellite‐enriched genomic libraries for all three species and identified six polymorphic microsatellite markers for each species. None of the primers did yield a polymerase chain reaction fragment in a cross‐species test.
Conservation and versatility of a new set of primers for long‐PCR amplification of complete insect mitochondrial genomes based on Haematobia irritans mtDNA sequences
Authors: BARAU JOAN GRANDE , DE AZEREDO‐ESPIN ANA MARIA LIMA , LESSINGER ANA CLÁUDIA 
Published: January 2006

AbstractThe amplification of complete mitochondrial genomes by long PCR (polymerase chain reaction) has been a major contribution to the large‐scale sequencing of arthropodan mitochondrial genomes. In this work, we designed six conserved long‐PCR primers to successfully recover the entire mitochondrial genome of the horn fly Haematobia irritans (Diptera: Muscidae) in two overlapping fragments. The conservation and versatility of these primers were tested for 17 other species from four major insect orders: Diptera (14), Coleoptera (1), Lepidoptera (1) and Hymenoptera (1). The amplification of complete mitochondrial genomes in orders other than Diptera suggested an even broader application of these primers, especially within the Hexapoda.
A method to size DNA fragments from 50 to 800 bp on a DNA analyser
Authors: AVIS PETER G. , FELDHEIM KEVIN A. 
Published: January 2006

AbstractWe present a method to size DNA fragments from 50 to 800 bp on a DNA analyser using an alternative size standard (X‐Rhodamine MapMarker 1000) run on a capillary electrophoresis system (Applied Biosystem's 3730 DNA Analyser). This method avoids several limitations imposed by manufacturer‐developed size standards, instruments and software and offers a more robust approach to conducting DNA size fragment analyses.
Polymerase chain reaction primers for microsatellite loci in the semi‐aquatic grasshopper, Cornops aquaticum
Authors: BREDE EDWARD G. , BEEBEE TREVOR J. C. 
Published: January 2006

AbstractThe semi‐aquatic grasshopper Cornops aquaticum is native to South America, with a distribution as far south as the Argentinian pampas and as far north as the Gulf of Mexico. This study reports the characterization of nine microsatellite loci for this species. To our knowledge, no molecular studies have been conducted on C. aquaticum, therefore, little is known about this species’ genetic diversity and how this relates to host specificity. These primers will allow further studies to elucidate the population history of C. aquaticum across both its native and introduced ranges.
gener: a server‐based analysis of pollen pool structure
Authors: DYER RODNEY J. 
Published: January 2006

AbstractThe server‐based program gener performs the two‐generation analysis of pollen flow for data consisting of mother/offspring arrays using genetic markers. The gener program decomposes the genetic variance sampled by maternal individuals within and among pollen pool components of genetic variance and is accessible from http://dyerlab.bio.vcu.edu. These estimates are used to construct the test statistic, Φft, whose significance is tested via permutation. The Φft statistic can subsequently be used to quantify genetic effective pollen donor population size (Nep), effective mating area and dispersal distance. Furthermore, the gener program can calculate Φft values for all pairs of substrata within the data set.
Species‐specific microsatellite markers to monitor gene flow between exotic poplars and their natural relatives in eastern North America
Authors: KHASA DAMASE , POLLEFEYS PATRICK , NAVARRO‐QUEZADA AURA , PERINET PIERRE , BOUSQUET JEAN 
Published: January 2006

AbstractSpecies‐specific microsatellite markers were obtained for the unambiguous recognition of five poplar species of ecological and commercial importance to eastern North America: the native species Populus balsamifera and Populus deltoides, the exotic species Populus maximowiczii, Populus nigra, Populus trichocarpa and their interspecific hybrids. Forty‐four of 71 tested primer pairs amplified simple sequence repeat (SSR) loci for all five taxa. Six of these loci showed non‐overlapping allelic diversity between species, including fixed differences. Together, they were useful to identify unambiguously the five taxa and to validate parental contributions in a group of hybrid progeny. These markers will be invaluable to detect gene flow from plantations of exotic poplar into adjacent stands of native species and between the two potentially hybridizing native species P. balsamifera and P. deltoides.
Twelve polymorphic microsatellite loci for the South China tigerPanthera tigris amoyensis
Authors: ZHANG ZHI‐HE , ZHANG WEN‐PING , YUE BI‐SONG , SHEN FU‐JUN , ZHANG LIANG , HOU RONG , ZHU MU‐YUAN 
Published: January 2006

AbstractTwelve microsatellite loci were found from genomic DNA‐enriched libraries of the South China tiger (Panthera tigris amoyensis). The number of observed alleles for each locus in 53 individuals ranged from five to 14; the expected and observed heterozygosity was 0.480 to 0.883 and 0.333 to 0.956, respectively; and the mean polymorphic information content (PIC) was 0.729. These markers would be considered a useful tool for the study of genetic variation in South China tiger in the future.
Isolation and characterization of microsatellite DNA loci in the toad‐headed lizards,Phrynocephalus przewalskiicomplex
Authors: URQUHART JOHN , BI KE , GOZDZIK AGNES , FU JINZHONG 
Published: January 2006

AbstractTo assess mechanisms of hybridization and speciation, we isolated and characterized 12 dinucleotide microsatellite DNA loci for the toad‐headed lizards,Phrynocephalus przewalskiicomplex. A total of 48 specimens were examined and all loci were polymorphic with seven to 25 alleles per locus. The observed and expected heterozygosities ranged from 0.282 to 0.946 and 0.400 to 0.937, respectively. These loci are therefore suitable for a wide range of population level studies within theP. przewalskiicomplex.
Characterization of 14 polymorphic microsatellite loci for the lesser horseshoe bat, Rhinolophus hipposideros (Rhinolophidae, Chiroptera)
Authors: PUECHMAILLE SEBASTIEN , MATHY GREGORY , PETIT ERIC 
Published: January 2006

AbstractFourteen polymorphic microsatellites isolated in the lesser horseshoe bat, Rhinolophus hipposideros, are described. A subset of eight loci successfully coamplified in a multiplex polymerase chain reaction (PCR), and allowed to confirm that expected heterozygosity was relatively high for the eight loci (0.56–0.83). This set of eight microsatellites indeed permits to build genetic tags that distinguish all individuals in colonies consisting of up to more than 1000 individuals.
Characterization of polymorphic microsatellites in the castration parasite plant‐ant Allomerus octoarticulatus cf. demerarae (Formicidae: Myrmicinae)
Authors: DEBOUT GABRIEL D. G. , PEREYRA RICARDO , EMERSON BRENT C. , YU DOUGLAS W. 
Published: January 2006

AbstractFifteen microsatellite loci were isolated from the Peruvian tropical plant‐ant Allomerus octoarticulatus cf. demerarae (Hymenoptera: Myrmicinae) and their polymorphism was characterized. High levels of within‐population variation were observed at most loci, with number of alleles ranging from one to 21, and heterozygosity from 0 to 1 per population sample. Cross‐species amplification of these loci was also tested in one other species of the ant genus Allomerus (Allomerus decemarticulatus), displaying similar life history.
Isolation and characterization of polymorphic microsatellite loci in the Australian smelt, Retropinna semoni
Authors: HILLYER MIA J. , WOODS RYAN J. , HUGHES JANE M. 
Published: January 2006

AbstractFive polymorphic microsatellite loci were isolated from the Australian smelt, Retropinna semoni, in order to study levels of connectivity among populations at various spatial scales. Screening of one natural population (n = 30) from central Victoria, southeastern Australia, yielded nine to 14 alleles per locus with observed levels of heterozygosity ranging from 0.40 to 0.80. All loci were in Hardy–Weinberg equilibrium after Bonferroni correction for multiple tests. These loci should provide a useful tool in further understanding the population genetics of this species.
Characterization of microsatellite loci in polyploid Lavatera assurgentiflora ssp. assurgentiflora and ssp. glabra (Malvaceae)
Authors: WALLACE LISA E. , HELENURM KAIUS 
Published: January 2006

Abstract Lavatera assurgentiflora (Malvaceae) is one of four species of the genus Lavatera native to California and Baja California. Two geographically defined subspecies are recognized: L. a. assurgentiflora on the northern islands and L. a. glabra on the southern islands. We isolated nine polymorphic microsatellite loci that amplify in both subspecies of L. assurgentiflora. Substantial levels of polymorphism were observed at many of the loci. Four loci exhibited more than 10 alleles, polymorphism information content ranged from 0.4 to 0.8, and up to six alleles were found in some individuals, supporting reports that these taxa are hexaploid. All loci also amplified in Lavatera lindsayi from Guadalupe Island, and we anticipate that they will cross‐amplify in other California Lavatera species as well.
Isolation and characterization of polymorphic microsatellite markers from Primula nutans (Primulaceae)
Authors: KREIVI MARJUT , HUTTUNEN SUSANNA , ASPI JOUNI 
Published: January 2006

AbstractSeven polymorphic microsatellite loci were developed for a perennial seashore plant, Primula nutans. Degenerate oligonucleotide‐primed (DOP)–polymerase chain reaction (PCR)‐amplified DNA was ligated to TOPO TA vector and screened with radioactively labelled dinucleotide repeat probes. A sample of 378 individuals from Finland, Norway and Russia were used to characterize those loci, which exhibited two to four alleles per locus with observed heterozygosity of 0.003–0.229 and expected heterozygosity of 0.016–0.527. No linkage disequilibrium was found between these seven loci. These are the first microsatellite markers reported for P. nutans.
Geographical and seasonal gradients in hatching failure in Eastern Bluebirds Sialia sialis reinforce clutch size trends
Authors: COOPER CAREN B. , HOCHACHKA WESLEY M. , PHILLIPS TINA B. , DHONDT ANDRÉ A. 
Published: January 2006

Eggs untended during the laying phase can lose viability if exposed to high temperatures, such as those common at lower latitudes and late in the nesting season. The egg‐viability hypothesis states that constraints on viability during the laying phase could account for latitudinal and seasonal gradients in clutch size. We used 7 years’ worth of data collected by volunteers (The Birdhouse Network, co‐ordinated by the Cornell Laboratory of Ornithology) to look simultaneously at populations across the temperate breeding range of Eastern Bluebirds Sialia sialis in order to test three predictions of the egg‐viability hypothesis: the probability of hatching failure decreases at higher latitude and increases later in the season, and that these trends are strongest among large clutches. The overall average number of unhatched eggs relative to the total number of eggs laid was similar to that found by other studies (7.8%; range 6.8–8.9% annually; n = 32 567 eggs from 7231 nests from 530 study sites). Using generalized linear mixed models that controlled for the non‐independence of eggs within a clutch, we found that the ‘per‐egg’ probability of hatching failure was highest late in the season, highest at lower latitudes, and highest for both small (three‐egg) and large (six‐egg) clutches. The seasonal and geographical gradients in egg hatching failure reinforce documented seasonal and geographical trends in clutch size. Loss of egg viability prior to incubation currently provides the most parsimonious and consistent explanation of the observed patterns of hatching failure. However, alternative explanations for large‐scale patterns, particularly those not consistent with the egg‐viability hypothesis, warrant further research into other causes of hatching failure, such as microbes and infertility (related to extra‐pair mating). Our results demonstrate that investigating causes of variation in demography among local populations across a geographical gradient provides a potential means of identifying selection pressures on life‐history traits.