Polymorphism analysis of three Chinese indigenous sheep breeds by microsatellite markers

2015 ◽  
Author(s):  
Jun Yan Bai ◽  
You Bing Yang ◽  
Yu Qin Wang ◽  
Xiao Hui Zhang ◽  
You Zhi Pang
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Microsatellite Markers ◽  
Polymorphism Information Content ◽  
The Other ◽  
Polymorphism Analysis ◽  
Effective Number ◽  
Sheep Breeds ◽  
Indigenous Sheep ◽  
Hardy Weinberg Equilibrium

In this study, six microsatellite markers were adopted to detect the genetic diversity and analyze the genetic distance of three Chinese indigenous sheep breeds. The results showed that 161 alleles were detected in the three breeds of sheep populations, and the average effective number of alleles, the average polymorphism information content (PIC) of six microsatellite markers in fat-tailed sheep, small tailed han-sheep, Yuxi fat-tailed sheep were 5.8844, 6.3103, 4.8017 and 0.7463, 0.7790, 0.7140 respectively. Five markers were highly polymorphic except marker ILSTS011 which gave moderate polymorphic. Except markers OarFCB48, OarFCB304 and BL1038, the other three microsatellite markers deviated significantly from the Hardy-Weinberg Equilibrium (P

scholarly journals Study of genetic differences among Slovak Tsigai populations using microsatellite markers

2009 ◽  
Vol 54 (No. 10) ◽  
pp. 468-474 ◽  
Author(s):  
S. Kusza ◽  
E. Gyarmathy ◽  
J. Dubravska ◽  
I. Nagy ◽  
A. Jávor ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Distance ◽  
Microsatellite Markers ◽  
Mating System ◽  
Population Differentiation ◽  
Genetic Relationships ◽  
The Other ◽  
Potential Risks ◽  
Substantial Degree

In this study genetic diversity, population structure and genetic relationships of Tsigai populations in Slovakia were investigated using microsatellite markers. Altogether 195 animals from 12 populations were genotyped for 16 microsatellites. 212 alleles were detected on the loci. The number of identified alleles per locus ranged from 11 to 35. In the majority of the populations heterozygosity deficiency and potential risks of inbreeding could be determined. High values of <I>F</I><sub>ST</sub> (0.133) across all the loci revealed a substantial degree of population differentiation. The estimation of genetic distance value showed that the Slovak Vojin population was the most different from the other populations. The 12 examined populations were able to group into 4 clusters. With this result our aim is to help the Slovak sheep breeders to establish their own mating system, to avoid genetic loss and to prevent diversity of Tsigai breed in Slovakia.

scholarly journals Genetic diversity of Tibetan goats of Plateau type using microsatellite markers

2011 ◽  
Vol 54 (2) ◽  
pp. 188-197 ◽  
Author(s):  
Y. Wang ◽  
J. Wang ◽  
X.-D. Zi ◽  
C.-R. Huatai ◽  
X. Ouyang ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Information Content ◽  
Microsatellite Loci ◽  
Polymorphism Information Content ◽  
The Other ◽  
Allele Number ◽  
The Mean ◽  
Black Goat ◽  
Historical Origins

Abstract. The 10 microsatellite markers (XBM7, XBM11, XBM16, XBM19, XBM24, XBM31, XBM84, TGLA53, SRCRSP-10 and ILS005) were selected to investigate the genetic diversity of Tibetan goat of Plateau type (NM, n=108), and the other 5 goat populations, i.e., Tibetan goat of Valley type (TG, n=36), Baiyu black goat (BY, n=36), Jianchang black goat (JC, n=36), Meigu goat (MG, n=36) and Xinjiang goat (XJ, n=32) were served as control. The mean polymorphism information content, heterozygosity and effective allele number of these 6 populations were 0.660/0.777/4.476, 0.716/0.797/4.9416, 0.631/0.673/3.061, 0.649/0.680/3.125, 0.629/0.680/3.125 and 0.561/0.793/4.840 respectively. The allele frequencies of Tibetan goat of plateau type in 10 microsatellite loci were greatly different with other 5 goat populations. The 6 goat populations were grouped into three distinct clusters: the Tibetan goat cluster (NM goat and TG goat), Sichuan goat cluster (JC goat, MG goat and BY goat), and Xinjiang goat cluster (XJ goat). These 3 distinct clusters were finally clustered together. The genetic differences among populations were in accordance with their geographical and historical origins.

Genetic diversity of Chinese indigenous sheep breeds inferred from microsatellite markers

2010 ◽  
Vol 90 (1-3) ◽  
pp. 88-94 ◽  
Author(s):  
T. Zhong ◽  
J.L. Han ◽  
J. Guo ◽  
Q.J. Zhao ◽  
B.L. Fu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Sheep Breeds ◽  
Indigenous Sheep

scholarly journals Genetic Diversity of Populations of Akhal-Teke Horses from the Czech Republic, Russia, Estonia and Switzerland

2016 ◽  
Vol 64 (2) ◽  
pp. 461-466 ◽  
Author(s):  
Iva Jiskrová ◽  
Irena Vrtková ◽  
Michaela Prausová
Keyword(s):  
Genetic Diversity ◽  
Czech Republic ◽  
Genetic Distance ◽  
Genetic Parameters ◽  
Inbreeding Coefficient ◽  
The Other ◽  
Effective Number ◽  
The Czech Republic ◽  
Expected Heterozygosity ◽  
The Mean

Our research objective was to evaluate the genetic parameters in the populations of Akhal-Teke horses in 4 countries: Czech Republic, Russia, Estonia and Switzerland. The experiment involved a total of 325 Akhal-Teke horses; 121 horses came from the Czech Republic, 152 were from Russia, 28 were from Estonia and 24 horses came from Switzerland. For the divided database of micro satellites we evaluated the following parameters: effective number of alleles, frequency of alleles for the groups of horses; the observed heterozygosity (HO); the expected heterozygosity (HE); the inbreeding coefficient (Fis); and the genetic distance. The researched population is polymorphous. The population in the Czech Republic differs from the other three countries in the numbers of alleles per locus. The Czech population also includes Akhal-Teke horses which are not purebred Akhal-Teke horses. A confirmation of this fact is the effective number of alleles. The population in the Czech Republic exhibits the highest mean number of effective alleles. The Akhal-Teke population in Estonia exhibits the highest mean observed heterozygosity. By contrast, the population in the Czech Republic exhibits the lowest mean observed heterozygosity. In the Czech Republic the mean Fis value is a positive number indicating a reduced number of heterozygotes in the Czech Akhal-Teke population. The genetic distance is the highest between populations of horses bred in Russia and Estonia. The genetic distance is the lowest between populations of Akhal-Teke horses bred in Russia and in the Czech Republic.

scholarly journals Genetic structure of nine horse populations

2008 ◽  
Vol 56 (2) ◽  
pp. 57-60
Author(s):  
Monika Burócziová ◽  
J. Říha ◽  
R. Židek ◽  
J. Trandžík ◽  
D. Jakabová
Keyword(s):  
Genetic Diversity ◽  
Genetic Structure ◽  
Genetic Distance ◽  
International Society ◽  
Polymorphism Information Content ◽  
Slovak Republic ◽  
Microsatellites Markers ◽  
Expected Heterozygosity ◽  
History Of ◽  
Hardy Weinberg Equilibrium

In the present study was estimate the genetic diversity and relationships among nine horses breeds in Czech and Slovak Republic.In conclusion, the main objective of study was to show the level of genetic distance among the horse breeds with different history of breeding of each country. Furthermore, it should be clarified whether these populations and subpopulations are distinct enough from each other to justify defining separate breeds. This research concerns the variability of microsatellite markers in genotypes of horse. We compared the genetic diversity and distance among nine horse breeds Czech and Slovak Warmblood both of Czech origin, Slovak Warmblood of Slovak origin, Hucul, Hafling, Furioso, Noriker, Silesian Noriker and Bohemian-Moravian Belgian Horse.In total, 932 animals were genotyped for 17 microsatellites markers (AHT4, AHT5, ASB2, HMS3, HMS6, HMS7, HTG4, HTG10, VHL20, HTG6, HMS2, HTG7, ASB17, ASB23, CA425, HMS1, LEX3) recommended by the International Society of Animal Genetics.In the different population size, the allele frequencies, observed and expected heterozygosity, test for deviations from Hardy-Weinberg equilibrium and Polymorphism information content have been calculated for each breed. We analyzed genetic distance and diversity among them on the base of the dataset of highly polymorphic set of microsatellites representing all autozomes using set of PowerMar­ker v3.25 analysis tools and Structure 2.2. programme for results comparison.

Assessing genetic diversity and differentiation in Portuguese coarse-wool sheep breeds with microsatellite markers

2008 ◽  
Vol 78 (1-3) ◽  
pp. 32-40 ◽  
Author(s):  
F. Santos-Silva ◽  
R.S. Ivo ◽  
M.C.O. Sousa ◽  
M.I. Carolino ◽  
C. Ginja ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Sheep Breeds

Genetic Characterization of Indigenous Duck of North-East Region using Microsatellite Markers

2021 ◽  
Author(s):  
Purabi Kaushik ◽  
Jnyanashree Saikia ◽  
Kabitabala Kalita ◽  
Rajjyoti Deka ◽  
J. Saharia
Keyword(s):  
Microsatellite Markers ◽  
Genetic Characterization ◽  
The Other ◽  
North East India ◽  
North East ◽  
Brahmaputra Valley ◽  
East Region ◽  
Hardy Weinberg Equilibrium ◽  
Common Variety

Background: Duck farming plays a significant role, next to chicken in the socio-economic uplift men of the rural farmers of North-East India. Pati duck is the most common duck breed in the Brahmaputra valley of Assam and the other common variety reared in North-East India is Chara-Chambeli, however it originatein Kerala. Genetic characterization plays a significant role for formulation of breeding strategies for improvement of any breed. Microsatellites are codominant in nature and are highly polymorphic. High level of allelic variation, co-dominant mode of inheritance and potential for automated analysis make them an excellent tool for genotyping, mapping and genetic characterization. Pati duck is the most common duck breed in the Brahmaputra valley of Assam and the other common variety reared in North-East India is Chara-Chambeli however its origin in Kerela. Therefore, the present investigation was carried out to characterize these two duck breeds using microsatellite markers to evaluate the genetic diversity in these two duck population. Methods: For the present study, Blood sample were collected from 50 Patiducks and 50 Chara-Chambeli ducks from different parts of North-East India. Assessment of genetic characterization of duck breeds of north-east region were carried out using 16 microsatellite markers and population genetics analysis were done by POPGENE software. Result: In the present study, all the studied loci were highly polymorphic. Analysis generated a total of 41 microsatellite alleles. The number of observed alleles (Na) with an overall mean of 1.93±0.258. However, the effective number of alleles (Ne) with a mean of 1.6933±0.2712. The Shannon’s information index was found to a mean value of 0.5685±0.1693. The overall means for observed (HO) and expected (He) heterozygosities were 0.2889±0.2477 and 0.5289±0.0853, respectively. The chi-square (χ2) test for Hardy-Weinberg equilibrium revealed that all the loci are in within Hardy-Weinberg equilibrium.

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 Development of Pineapple Microsatellite Markers and Germplasm Genetic Diversity Analysis

2013 ◽  
Vol 2013 ◽  
pp. 1-11 ◽  
Author(s):  
Suping Feng ◽  
Helin Tong ◽  
You Chen ◽  
Jingyi Wang ◽  
Yeyuan Chen ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Genomic Library ◽  
Trinucleotide Repeats ◽  
The Other ◽  
Diversity Analysis ◽  
Dominant Type ◽  
Genetic Diversity Analysis ◽  
Ssr Loci ◽  
Ssr Development

Two methods were used to develop pineapple microsatellite markers. Genomic library-based SSR development: using selectively amplified microsatellite assay, 86 sequences were generated from pineapple genomic library. 91 (96.8%) of the 94 Simple Sequence Repeat (SSR) loci were dinucleotide repeats (39 AC/GT repeats and 52 GA/TC repeats, accounting for 42.9% and 57.1%, resp.), and the other three were mononucleotide repeats. Thirty-six pairs of SSR primers were designed; 24 of them generated clear bands of expected sizes, and 13 of them showed polymorphism. EST-based SSR development: 5659 pineapple EST sequences obtained from NCBI were analyzed; among 1397 nonredundant EST sequences, 843 were found containing 1110 SSR loci (217 of them contained more than one SSR locus). Frequency of SSRs in pineapple EST sequences is 1SSR/3.73 kb, and 44 types were found. Mononucleotide, dinucleotide, and trinucleotide repeats dominate, accounting for 95.6% in total. AG/CT and AGC/GCT were the dominant type of dinucleotide and trinucleotide repeats, accounting for 83.5% and 24.1%, respectively. Thirty pairs of primers were designed for each of randomly selected 30 sequences; 26 of them generated clear and reproducible bands, and 22 of them showed polymorphism. Eighteen pairs of primers obtained by the one or the other of the two methods above that showed polymorphism were selected to carry out germplasm genetic diversity analysis for 48 breeds of pineapple; similarity coefficients of these breeds were between 0.59 and 1.00, and they can be divided into four groups accordingly. Amplification products of five SSR markers were extracted and sequenced, corresponding repeat loci were found and locus mutations are mainly in copy number of repeats and base mutations in the flanking region.

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