Sex-biased dispersal of greater long-tailed hamster (Tscherskia triton) revealed by microsatellites

2005 ◽  
Vol 83 (6) ◽  
pp. 773-779 ◽  
Author(s):  
Mingjing Song ◽  
Zhibin Zhang ◽  
Karsten Neumann ◽  
Rolf Gattermann
Keyword(s):  
Genetic Diversity ◽  
Allelic Richness ◽  
Allelic Diversity ◽  
Hebei Province ◽  
Effective Number ◽  
Republic Of China ◽  
Allele Number ◽  
Expected Heterozygosity ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

For 2 consecutive years we studied the effect of dispersal on the genetic diversity of greater long-tailed hamsters (Tscherskia triton (de Winton, 1899)) in farmland habitat, Hebei Province, People's Republic of China. Level of genetic diversity was estimated by analyzing six highly polymorphic microsatellite loci in terms of mean d2, allele number, allelic diversity, effective number of alleles, allelic richness, average observed heterozygosity, and expected heterozygosity. The genetic diversity in populations from both two sites and 2 years indicated that the males contained higher levels of genetic diversity than the females, which supported our prediction that male-biased dispersal increased population genetic diversity. We also found significant departures from Hardy–Weinberg equilibrium and a reduction in genetic diversity in samples from a partially isolated site, which was probably due to genetic drift, inbreeding, or a combination of these factors.

scholarly journals Characterization of Single Nucleotide Polymorphism Marker in the Chinese Giant Salamander Andrias davidianus

2021 ◽  
Author(s):  
Quanhe Wang ◽  
Lei Cheng ◽  
Haifeng Tian ◽  
Xiaoli Dong ◽  
Hanbing Xiao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Nutritional Value ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Andrias Davidianus ◽  
Allele Number ◽  
Expected Heterozygosity ◽  
Hardy Weinberg Equilibrium ◽  
Chinese Giant Salamander

Background: Chinese giant salamander Andrias davidianus is called “baby fish” in China. Due to its palatability and nutritional value, it was widely cultured in China. The current study was to evaluate the genetic diversity of the farmed A. davidianus. Methods: 30 salamanders were collected from farm and DNA was extracted. Thirty contigs potentially containing SNPs were selected from the previously developed RAD-seq library. The primer was designed and PCR was performed, than the products was sequenced from different direction. At last the sequences were analyzed using the vector NTI 10.Result: 5824bp high-quality sequences embodied in 16 contigs were sequenced and eighty SNP loci were identified which each SNP locus exhibited bi-alleles. The effective allele number from 1.03 to 2.00 and the minor allele frequency was 0.017 to 0.500. The expected heterozygosity was from 0.0333 to 0.5091 and the observed heterozygosity was 0.0333 to 1.0000. Sixty-six of the 80 loci significantly deviated from the Hardy-Weinberg equilibrium (P less than 0.05). The results provide useful genomic resources to evaluate the genetic diversity of A. davidianus for conservation and aquaculture.

scholarly journals Isolation and Characterization of 17 Polymorphic Microsatellite Loci for Musella lasiocarpa (Musaceae)

HortScience ◽  
2009 ◽  
Vol 44 (7) ◽  
pp. 2041-2042 ◽  
Author(s):  
Chun-yan Yang ◽  
Yuan Huang ◽  
Chunlin Long
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Southwest China ◽  
Microsatellite Primers ◽  
Genetic Population ◽  
Allele Number ◽  
Isolation And Characterization ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

Seventeen microsatellite markers were isolated from 24 wild individuals collected from three populations of Musella lasiocarpa (Franch.) C. Y. Wu ex H. W. Li, a plant endemic to southwest China. The average allele number of these markers was 3.6 per locus, ranging from two to seven. The expected (He) and observed (Ho) heterozygosities varied from 0.4672 to 0.8183 and from 0.0417 to 1, respectively. Eleven loci were significantly deviated from Hardy-Weinberg equilibrium as a result of the heterozygote deficiency. These microsatellite primers will be used for studying genetic population structure and genetic diversity of M. lasiocarpa.

scholarly journals Development and characterization of microsatellite loci for Cedrela fissilis Vell (Meliaceae), an endangered tropical tree species

2014 ◽  
Vol 63 (1-6) ◽  
pp. 240-243 ◽  
Author(s):  
F. B. Gandara ◽  
E. V. Tambarussi ◽  
Alexandre Magno Sebbenn ◽  
E. M. Ferraz ◽  
M. A. Moreno ◽  
...  
Keyword(s):  
Genomic Library ◽  
Population Level ◽  
Fixation Index ◽  
Allele Number ◽  
Neotropical Tree ◽  
Expected Heterozygosity ◽  
Adult Trees ◽  
Ssr Loci ◽  
Polymorphic Microsatellite

Abstract The timber of the Neotropical tree Cedrela fissilis is used in construction, shipbuilding, carpentry and for medical purposes. In this study, polymorphic microsatellite (SSR) markers derived from an enriched genomic library were characterized using 120 adult trees from four different C. fissilis populations. No substantial genotypic linkage disequilibrium was detected among all possible pairs of SSR loci. The number of alleles per locus ranged from 2 to 20, the average allele number ranged from 8 to 9.7, depending on the population. The observed heterozygosity among the different SSR loci varied from 0.0 to 1.00 , the expected heterozygosity varied from 0.07 to 0.95 On the population level, the average observed and expected heterozygosities ranged from 0.50 to 0.63 and from 0.64 to 0.70, respectively. The average fixation index among populations ranged from 0.09 to 0.24. Thus, the SSR loci revealed high poly - morphism rates and can be used to study the genetic diversity,structure, mating system, and gene flow in C. fissilis.

scholarly journals Molecular characterization of wheat (Triticum aestivum L.) genotypes through SSR markers

2012 ◽  
Vol 37 (3) ◽  
pp. 389-398 ◽  
Author(s):  
S Islam ◽  
MS Haque ◽  
RM Emon ◽  
MM Islam ◽  
SN Begum
Keyword(s):  
Genetic Diversity ◽  
Triticum Aestivum ◽  
Genetic Distance ◽  
Microsatellite Markers ◽  
Gene Diversity ◽  
Polymorphic Information Content ◽  
Allelic Diversity ◽  
Triticum Aestivum L ◽  
Allele Number ◽  
Average Gene

A study was undertaken to examine the genetic diversity of 12 wheat (Triticum aestivum L.) genotypes, using 4 simple sequence repeats (SSRs). A total of 10 alleles were found. Allele number per locus ranged from 2 to 4 with an average of 2.5. The polymorphic information content (PIC) values ranged from 0.2755 to 0.5411 with an average of 0.3839. The average gene diversity over all SSR loci for the 12 wheat genotypes was 0.4688, ranging from 0.3299 to 0.6042. Cluster analysis based on microsatellite allelic diversity discriminated the varieties into different clusters. Genetic diversity was the highest between variety Gourab and Akbar as well as Gourab and BAW-1064, showing a genetic distance value of 0.4697. The genetic distance was lowest between Balaka and Aghrani as well as Triticale and BAW-1036. Positive correlations were found between gene diversity, number of alleles, the allele size range and the types of repeat motif of microsatellite markers. It was found from this study that microsatellite markers could characterize and discriminate all of the genotypes. More primers should be used for saturation of different regions in further studies. Bangladesh J. Agril. Res. 37(3): 389-398, September 2012 DOI: http://dx.doi.org/10.3329/bjar.v37i3.12082

scholarly journals The Sensitiveness of Expected Heterozygosity and Allelic Richness Estimates for Analyzing Population Genetic Diversity

2021 ◽  
Author(s):  
María Eugenia Barrandeguy ◽  
María Victoria García
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Genetic Variability ◽  
Population Size ◽  
Genetic Drift ◽  
Population Genetic ◽  
Allelic Richness ◽  
Theoretical Background ◽  
Computational Simulations ◽  
Expected Heterozygosity

Genetic diversity comprises the total of genetic variability contained in a population and it represents the fundamental component of changes since it determines the microevolutionary potential of populations. There are several measures for quantifying the genetic diversity, most notably measures based on heterozygosity and measures based on allelic richness, i.e. the expected number of alleles in populations of same size. These measures differ in their theoretical background and, in consequence, they differ in their ecological and evolutionary interpretations. Therefore, in the present chapter these measures of genetic diversity were jointly analyzed, highlighting the changes expected as consequence of gene flow and genetic drift. To develop this analysis, computational simulations of extreme scenarios combining changes in the levels of gene flow and population size were performed.

scholarly journals Cross-amplification and Characterization of Polymorphic Microsatellite Markers From Acacia (Senegalia) mellifera and Acacia brevispica to Acacia senegal (L.) Willd.

2010 ◽  
Vol 59 (1-6) ◽  
pp. 285-288 ◽  
Author(s):  
Stephen F. Omondi ◽  
O. G. Dangasuk ◽  
D. W. Odee ◽  
S. Cavers ◽  
D. P. Khasa
Keyword(s):  
Microsatellite Markers ◽  
Allelic Diversity ◽  
Breeding Systems ◽  
Acacia Senegal ◽  
Cross Amplification ◽  
Expected Heterozygosity ◽  
Potential Source ◽  
Polymorphic Microsatellite ◽  
Acacia Mellifera

Abstract Seven polymorphic microsatellite markers isolated from Acacia brevispica and Acacia mellifera were successfully cross-amplified in Acacia senegal. The loci were surveyed for polymorphism using 30 samples. Allelic diversity ranged from 4 (Ame02, Ab06 and Ab18) to 13 (Ab26) per locus. The expected heterozygosity (HE) ranged from 0.543 (Ame02) to 0.868 (Ab26) while observed heterozygosity (HO) ranged from 0.516 (Ame05) to 0.800 (Ame03). Cross-amplification of these loci represents a potential source of co-dominant markers and will be useful in the study of genetic diversity, structure, gene flow and breeding systems of this important Acacia species.

scholarly journals Development of microsatellite markers for the Japanese endemic conifer Thuja standishii and transfer to other East Asian species

2019 ◽  
Author(s):  
James Raymond Peter Worth ◽  
K. S. Chang ◽  
Y.-H. Ha ◽  
Aili Qin
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
East Asian ◽  
Clonal Reproduction ◽  
Sister Species ◽  
Asian Species ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellite ◽  
Diversity Structure

Abstract Objective: Design polymorphic microsatellite loci that will be useful for studies of the genetic diversity, structure and reproduction in the Japanese endemic conifer Thuja standishii and test the transferability of these loci to the two other East Asian species, T. sutchuenensis and T. koraiensis . Results: Fifteen loci were developed which displayed 3 to 21 alleles per locus (average = 9.2) among 97 samples from three populations of T. standishii . Observed heterozygosity for all samples varied between 0.33-0.75 (average 0.54) while expected heterozygosity values were higher with an average over the 15 loci of 0.62 (0.37-0.91). Low multi-locus probability of identity values (< 0.00001) indicate that these markers will be effective for identifying individuals derived from clonal reproduction. All 15 loci amplified in 13 samples of T. sutchuenensis , the sister species of T. standishii , with 1 to 11 alleles per locus (average = 4.33) while 13 loci amplified in four samples of the more distantly related T. koraiensis with 1 to 5 alleles per locus (average = 2.15).

scholarly journals Assessment of Genetic Diversity and Relationship of the Two Sanga Type Cattle of Botswana Based on Microsatellite Markers

2021 ◽  
Author(s):  
Tirelo Bakae ◽  
Phetogo Ineeleng Monau ◽  
James Nsoso ◽  
Patrick Monametsi Kgwatalala
Keyword(s):  
Genetic Variation ◽  
Microsatellite Markers ◽  
Polymorphic Information Content ◽  
Allelic Diversity ◽  
Inbreeding Coefficient ◽  
Analysis Of Molecular Variance ◽  
Expected Heterozygosity ◽  
Hardy Weinberg Equilibrium ◽  
Almost All ◽  
Relationship Of

Abstract The study was performed to evaluate genetic variation on two Sanga type cattle found in Botswana; Tswana and Tuli using twelve microsatellite markers. All amplified loci were polymorphic with 75 and 77 alleles genotyped in the Tswana and Tuli populations, respectively. The total number of alleles per locus ranged from 2 (BM1818) to 10 (TGLA227) with total mean of 6.25 for Tswana and 6.43 for Tuli population. Almost all the markers showed high polymorphic information content (PIC) apart from BM1818 (0.375) and INTRA23 (0.393) which were moderately informative in Tswana population. Most of the markers were in Hardy-Weinberg equilibrium except for CSSRM60 and CSSM66 loci in Tswana population and ETH10, ETH225 and CSSM66 loci in Tuli population. A total of 103 unique alleles were genotyped across the two breeds with 49-shared, and 26 and 28 were unique to Tswana and Tuli populations, respectively. The expected heterozygosity (He) values were higher than the observed heterozygosity (Ho) in both populations; Tswana (He=0.7895±0.033 vs Ho=0.631±0.091) and Tuli (He=0.8123±0.033 vs Ho=0.556±0.021). The inbreeding coefficient was 0.200±0.002 and 0.332±0.001 in Tswana and Tuli populations, respectively. Analysis of molecular variance revealed 6.8% of the total genetic variation corresponding to differences between the two breeds and 93.2% within populations. The genetic identity between the two breeds was 56% and there were similar levels of multilocus heterozygosity and allelic diversity in the two breeds. The use of Tswana and Tuli breeds in a crossbreeding program is likely to result in minimal heterosis and therefore not recommended.

Genetic Diversity of Cambuci (Campomanesia Phaea) Revealed by Microsatellite Markers

2021 ◽  
Author(s):  
Rafael Oliveira Moreira ◽  
Eduardo de Andrade Bressan ◽  
Horst Bremer Neto ◽  
Angelo Pedro Jacomino ◽  
Antonio Figueira ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Microsatellite Markers ◽  
Native Species ◽  
Genetic Parameters ◽  
Genomic Library ◽  
Conservation Strategies ◽  
Paulo State ◽  
Allele Number ◽  
Expected Heterozygosity

Abstract Campomanesia phaea (Myrtaceae), known as cambuci, is a native species from the Brazilian Atlantic Forest with great potential to be developed as a new fruit crop. Microsatellite markers were developed for cambuci to characterize the genetic diversity and to investigate the genetic structure of a group of accessions originally collected at the presumed center of diversity of the species. The work involved the collection of 145 accessions from five regional groups (Juquitiba, Paraibuna, Mogi das Cruzes, Ribeirão Pires, and Salesópolis) in São Paulo state, Brazil. Fourteen loci were identified in an enriched genomic library developed from one of these accessions. Six out of 14 loci revealed to be polymorphic, disclosing 26 alleles. Based on the allele frequencies, the calculated genetic parameters of the five groups indicated an average allele number per loci (A) of 3.83, with the expected heterozygosity (He) of 0.57 and the observed heterozygosity (Ho) of 0.54. The analysis of the genetic structure indicated that most of the genetic diversity is found within each population (HS = 0.57), whereas the genetic diversity among populations was low (GST = 0.19). The genetic diversity parameter of Nei was considered low for the cambuci analyzed populations, with no evidence of inbreeding. Based on Darwin analysis, we chose 18 accessions from the five regional populations to compose a core collection that includes most of the genetic diversity found in this study. Our findings may contribute to define better conservation strategies and genetic breeding approaches for this native species in Brazil.

scholarly journals Development of SSR Markers and Genetic Diversity Evaluation of Mycocentrospora Acerina Causing Round Spot of Panax Notoginseng in Yunan Province, China

2022 ◽  
Author(s):  
Huiling Wang ◽  
Kuan Yang ◽  
Liwei Guo ◽  
Lifen Luo ◽  
Chi He ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Yunnan Province ◽  
Polymorphic Information Content ◽  
Polyacrylamide Gel Electrophoresis ◽  
Panax Notoginseng ◽  
Expected Heterozygosity ◽  
Ssr Primers ◽  
Polymorphic Microsatellite ◽  
Simple Sequence

Abstract Sanqi round spot, which is caused by Mycocentrospora acerina, is a destructive disease limits the production of Panax notoginseng in Yunnan province of China. However, the disease has not been studied comprehensively. In the current study, we identify M. acerina polymorphic microsatellite markers using CERVUS 3.0 and compare the genetic diversity of its isolates from P. notoginseng round spot using Simple Sequence Repeat (SSR) markers and polyacrylamide gel electrophoresis. Thirty-two SSR markers with good polymorphism were developed using MISA and CERVUS 3.0. The genetic diversity of 187 M. acerina isolates were evaluated using 14 representative SSR primers, and the polymorphic information content values of 14 sites ranged from 0.813 to 0.946, with a total of 264 alleles detected at 14 microsatellite loci. The average expected heterozygosity was 0.8967. The genetic diversity of M. acerina in Yunnan province does not reflect geographic specificity.

Sign in / Sign up

Export Citation Format

Share Document