Genomewide identification and development of microsatellite markers for Marssonina brunnea and their applications in two populations

2018 ◽  
Vol 48 (4) ◽  
pp. e12433 ◽  
Author(s):  
Y. Zhang ◽  
W. He ◽  
D.-H. Yan
Keyword(s):  
Microsatellite Markers ◽  
Marssonina Brunnea ◽  
Two Populations

Optimization of a Suite of Microsatellite Markers for Nocomis leptocephalus (Bluehead Chub) and Genetic Characterization of Two Populations in South Carolina

2020 ◽  
Vol 19 (2) ◽  
pp. 192 ◽  
Author(s):  
Elizabeth L. Cushman ◽  
Kimberly L. Kanapeckas Métris ◽  
Yoichiro Kanno ◽  
Kasey C. Pregler ◽  
Brandon K. Peoples ◽  
...  
Keyword(s):  
South Carolina ◽  
Microsatellite Markers ◽  
Genetic Characterization ◽  
Nocomis Leptocephalus ◽  
Two Populations

scholarly journals Microsatellite Variability of Two Populations of Clarias gariepinus (Siluriformes, Clariidae) in Nigeria

2019 ◽  
Vol 53 (3) ◽  
pp. 195-208
Author(s):  
M. O. Awodiran ◽  
F. O. Adeniran ◽  
R. O. Akinwale ◽  
A. A. Akinwande
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Dna ◽  
Dna Analysis ◽  
Clarias Gariepinus ◽  
Microsatellite Analysis ◽  
Significant Differentiation ◽  
Different Populations ◽  
Genetic Signatures ◽  
Two Populations ◽  
River Niger

Abstract The study evaluated the genetic signatures of the fishes from the two populations and compared the pattern of differentiation of the two populations with a view to separating the species from the different populations into possible sub-species. Forty (40) specimens were collected from River Niger (Lokoja) and Asejire Resevoir. The DNA of the twenty (20) specimens from each population extracted from the muscle tissue using phenol-chloroform extraction (PCE) method was subjected to microsatellite DNA analysis. Seven (7) microsatellite markers (Cga01, Cga02, Cga03, Cga05, Cga06, Cga09 and Cga10) were used in the analysis. Microsatellite DNA analysis of the two populations revealed significant differentiation between the two populations as shown by the high values of heterozygosity, low level of inbreeding and non-conformance to Hardy-Weinberg’s equilibrium. It is concluded from the study that microsatellite analysis showed a high potentiality for separation of the populations.

Genetic Diversity and Population Structure in Two Captive Rhesus Monkey (Macaca Mulatta) Populations as Revealed by Microsatellite Markers

2021 ◽  
Author(s):  
Chao Du ◽  
Bai Mo ◽  
Wujiao Li ◽  
Wencong Liu ◽  
Zongxiu Hu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Microsatellite Markers ◽  
Macaca Mulatta ◽  
Psychological Research ◽  
Effect Analysis ◽  
Bottleneck Effect ◽  
Genetic Lineages ◽  
Captive Populations ◽  
Two Populations

Abstract Rhesus monkeyss (Macaca mulatta) are extensively used in the field of medical and psychological research as valuable experimental animals. 15 polymorphic chromosome-specific microsatellite markers were used to analyze the genetic diversity and population structure in two captive individuals. A total of 155 alleles were identified, with the number of alleles per locus ranging from 7 to 15, giving an average number of 10.3 alleles per locus. The mean number of effective alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (He), and the polymorphism information content (PIC) were 5.602, 0.7297, 0.8016, and 0.7716, respectively. The populations HS and XJ shared partial common alleles, however, the remaining in XJ were not detected. Structure analysis indicated that two populations belong to three genetic lineages. AMOVA showed that the genetic variance was 91% among individuals, while it was 9% among populations, respectively. The bottleneck effect analysis revealed that the two captive populations were in accordance with mutation-drift equilibrium. In the comparison of the genetic parameters and structure between the HS and XJ, we speculated that the genetic diversity was higher, which may be attributed to the exchange of germplasm resources and the input of new individuals from wild populations.

scholarly journals Characterization of Nuclear Microsatellite Markers for the Narrow Endemic Syringa josikaea Jacq. fil. ex Rchb.

2013 ◽  
Vol 41 (1) ◽  
pp. 301 ◽  
Author(s):  
Bertalan LENDVAY ◽  
Andrzej PEDRYC ◽  
Mária Höhn
Keyword(s):  
Microsatellite Markers ◽  
Ornamental Plants ◽  
Enriched Library ◽  
Microsatellite Primers ◽  
Genetic Lineages ◽  
Nuclear Microsatellite ◽  
Rare Endemic ◽  
Two Populations ◽  
Pcr Conditions

The species of the genus Syringa L. are among the most popular ornamental plants worldwide. One particular species, Syringa josikaea, a rare endemic of the Carpathian Mountains, is of great conservation interest. Although microsatellite markers may be useful for studying the genetic variability of varieties and populations, no microsatellites have previously been characterized for any species of the Syringa genus. Our aim was therefore to test the applicability of microsatellite primers developed for neighboring genera (Olea and Ligustrum) and to complement these with markers isolated and characterized for S. josikaea. Twelve primer pairs of Olea and Ligustrum were tested by optimizing PCR conditions and checking the variability in 40 samples of two populations of S. josikaea. Two of them proved to be easy to PCR amplify and variable at the same time. To develop new primers we constructed a microsatellite enriched library and sequenced 48 clones. 18 sequences contained microsatellite motifs, and three of the designed primer pairs presented high allele variability. The five primer pairs characterized for S. josikaea proved to be highly informative and sufficient to distinguish between individuals. These microsatellite primers are valuable tools to study genetic variation of native populations, genetic lineages of hybrids and cultivars of S. josikaea.

scholarly journals Microsatellite markers reveal geographic population differentiation in Trichophyton rubrum

2007 ◽  
Vol 56 (8) ◽  
pp. 1058-1065 ◽  
Author(s):  
Yvonne Gräser ◽  
Janine Fröhlich ◽  
Wolfgang Presber ◽  
Sybren de Hoog
Keyword(s):  
Microsatellite Markers ◽  
Trichophyton Rubrum ◽  
Genotypic Diversity ◽  
Geographic Population ◽  
Multilocus Genotypes ◽  
Worldwide Distribution ◽  
Typing Methods ◽  
Multiple Strains ◽  
Two Populations ◽  
Selection Of

A worldwide selection of more than 200 isolates of the anthropophilic dermatophyte Trichophyton rubrum were analysed using seven microsatellite markers. Fifty-five multilocus genotypes were recognized, allowing a subdivision of the species into two populations. Both populations reproduced strictly clonally, showed a different predilection on the human host (scalp vs foot) and displayed geographic differentiation. Genotypes of one population originated predominantly from Africa, whilst the second population showed a worldwide distribution excluding the African continent. Genotypic diversity was highest in the African population, despite the lower number of strains analysed, suggesting that T. rubrum is likely to have evolved in Africa. No diagnostic correlation was observed between multilocus genotypes and any of the phenotypical characteristics of the strains. The involvement of multiple strains in a single patient detected by workers using other typing methods was not supported by these microsatellite markers. Four of the developed microsatellite markers may be applied for diagnostic purposes.

The Majorero camel (Camelus dromedarius) breed

2005 ◽  
Vol 36 ◽  
pp. 61-71 ◽  
Author(s):  
U. Schulz ◽  
Y. Mínguez ◽  
M.L. Checa ◽  
P. García-Atance ◽  
S. Dunner ◽  
...  
Keyword(s):  
Genetic Variability ◽  
Microsatellite Markers ◽  
Camelus Dromedarius ◽  
Molecular Information ◽  
Two Populations

SummaryA brief historical, morphologic and behavioural review of the camel Fuerteventura breed (Majorero) is presented. Genetic variability within the breed was analysed (n = 10) using 11 microsatellite markers, neutral to the selection, and compared with an African camel population (n = 37). In spite of the fact that there are significantly fewer Majorero camels than African, the level of inbreeding, measured by means of the statistic FIS, is almost 3 times higher in the African camel, (3.2 versus 8.7). The set of markers used shows significant differences between the two populations, (FST = 3.1%) and provides sufficient discrimination (> 99%) to carry out a proper control of parentage in the studbook. Nevertheless, the molecular information available does not manage to assign the individuals into clusters corresponding to its population.

Polymorphic microsatellites in Simulium damnosum s.l. and their use for differentiating two savannah populations: implications for epidemiological studies

Genome ◽  
1998 ◽  
Vol 41 (2) ◽  
pp. 154-161 ◽  
Author(s):  
Valérie Dumas ◽  
Stéphane Herder ◽  
Aïcha Bebba ◽  
Cécile Cadoux-Barnabé ◽  
Christian Bellec ◽  
...  
Keyword(s):  
Population Structure ◽  
Microsatellite Markers ◽  
Intraspecific Variability ◽  
Epidemiological Studies ◽  
Null Alleles ◽  
Population Subdivision ◽  
Structure Population ◽  
Polymorphic Microsatellites ◽  
Simulium Damnosum ◽  
Two Populations

In West Africa, Onchocerca volvulus, the cause of human onchocerciasis, is transmitted by sibling species of the Simulium damnosum complex. Little is known about blackfly intraspecific variability and its consequences on vectorial capacity. This study reports the use of microsatellite markers for differentiating populations of S. damnosum s.l. Five microsatellite loci were characterized and used to analyze individuals from two savannah populations in Mali, 120 km apart. Four loci were highly polymorphic, having 8-12 alleles per locus and gene diversities ranging from 77.9 to 88.2%. A significant heterozygote deficiency was observed in the two populations. This may arise from inbreeding, population structure (the Walhund effect), or the presence of null alleles. To test this last hypothesis, new primers were designed for two loci and used to analyze homozygous individuals. After correcting for null alleles, heterozygote deficit persisted. Population subdivision in the two foci remains the most likely explanation. Our results indicate that microsatellite markers could differentiate fly populations, making them valuable tools for the study of population genetic structure.Key words: Simulium damnosum s.l., microsatellites, polymorphism, population structure, population genetics, null alleles.

scholarly journals A population genetics study of Pale-winged Starlings, Onychognathus nabouroup, using novel microsatellite markers.

2021 ◽  
Author(s):  
Naadhirah Munshi ◽  
Craig Symes ◽  
Pieter De Maayer ◽  
Adrian Craig ◽  
Laurence Henry ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Nature Reserve ◽  
Environmental Changes ◽  
Genetic Relationships ◽  
Population Structuring ◽  
Opposite Sex ◽  
Group Members ◽  
Social Markers ◽  
High Degree ◽  
Two Populations

Recent research into starling species has revealed the existence of vocal social markers and a link between song temporal structuring and social organisation. The aim of the present study was to develop a genetic tool for understanding the population structuring and behaviour (social/parental transmission) and mating in Pale-winged Starlings (Onychognathus nabouroup), a songbird which is found in arid areas of southern Africa. Using next-generation sequencing, microsatellite markers comprising six dinucleotides, eighteen trinucleotides and twenty-four tetra-nucleotides specific to the Pale-winged Starling were isolated and developed. A total of 77 birds were sampled from the Augrabies Falls Nature Reserve in South Africa (n=53) and the Ai Ais-Richtersveld Transfrontier Park resort in Namibia (n=24), respectively. Fifteen polymorphic microsatellite markers were genotyped. The statistical programme STRUCTURE revealed four different genetic clusters within the two populations. There is low genetic divergence (mean Fst value of 0.01) between the two populations, which is supported by the mean number of effective migrants (22.45) between the populations. ML-Relate data analysis indicated that all individuals sampled from both populations have relatives within and across the two populations with three exceptions in the Augrabies Falls Nature Reserve region. Birds from either population migrate and join the other population maintaining gene flow between the two populations. Each population has a high degree of genetic diversity present between individuals. There is little inbreeding and high allelic richness in both sampled populations, which will allow them to adapt to future environmental changes. The developed microsatellites have inferred information for the success of this species. Social structure, relatedness and behaviour were inferred and regardless of genetic relationships these birds maintain a stable social environment and harbour strong social bonds between same and opposite sex group members as well as mates.

scholarly journals Transcriptome-Derived Microsatellite Markers for Population Diversity Analysis in Archidendron Clypearia (Jack) I.C. Nielsen

2021 ◽  
Author(s):  
Dandan Li ◽  
Mei Li ◽  
Fagen Li ◽  
Qijie Weng ◽  
Changpin Zhou ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
De Novo ◽  
Population Diversity ◽  
Diversity Analysis ◽  
Flower Bud ◽  
High Genetic Diversity ◽  
Genetic Studies ◽  
Practical Applications ◽  
Two Populations

Abstract Genomic resources including transcriptomic sequences and molecular markers remain scarce in the medicinally important woody legume genus Archidendron F. Mueller. Here we conducted transcriptome sequencing, genic microsatellite marker development, and population diversity analysis in Archidendron clypearia (Jack) I.C. Nielsen. Flower and flower bud transcriptomes were de novo assembled into 173,172 transcripts, with an average transcript length of 1597.3 bp and an N50 length of 2427 bp. A total of 34,701 microsatellite loci were identified from 26,716 (15.4%) transcripts. Primer pairs were designed for 718 microsatellite loci, of which 456 (63.5%) were polymorphic. Of the 456 polymorphic markers, 391 (85.7%) and 402 (88.1%) were transferable to A. lucidum (Benth.) I.C. Nielsen and A. multifoliolatum (H.Q. Wen) T.L. Wu, respectively. Using a subset of 15 microsatellite markers, relatively high genetic diversity was detected over two A. clypearia populations, with overall mean expected heterozygosity (He) being 0.707 and demonstrating the necessity of conservation. Relatively low differentiation between the two populations was revealed despite the distant separation (about 700 km), with overall inbreeding coefficient of sub-population to the total population (Fst) being 8.7%. This suggests that A. clypearia has mainly an outcrossing mating system and weak genetic structure. These results will offer valuable resources and information for further genetic studies and practical applications in Archidendron and the related taxa.

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