Molecular characterization of Iranian dromedaries using microsatellite markers

Considering the importance of maintaining the genetic diversity in native animals, this study conducted to analyse genetic diversity in dromedary populations in the north of Kerman province, Iran, using eight autosomal microsatellite markers. Eighty-one blood samples were collected from five different populations and DNA was extracted. The highest and the lowest allele number and effective alleles were shown in YWLL08 (21 and 4) and VOLP32 (14.97 and 3.11), respectively. The expected heterozygosity varied from 0.778 in Sahra-e Jahad population to 0.847 in Nogh population. The test for Hardy-Weinberg equilibrium showed significant deviations in most loci. The mean multilocus FST value (0.057) suggested that differentiation is moderate between populations. From total genetic diversity, only 6% were due to differentiation among populations, while the remaining 94% corresponded to differences among individuals within each population. The results of the current study indicated that the Camelus dromedarius populations in the north of Kerman province have a relativity high genetic variation and the data could be useful for designing the breeding strategies and conservation. The degree of variability demonstrated implies that studied populations are rich reservoirs of genetic diversity that must be preserved. A future direction to our study can be studying all of the Iranian Camelus dromedarius populations to better evaluate the level of inbreeding and establish the appropriate conservation strategies aimed to avoid losses of genetic diversity.

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

10.21203/rs.3.rs-669769/v1 ◽

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.

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Genetic relationships in different sheep populations of Bangladesh based on microsatellite markers

Journal of the Bangladesh Agricultural University ◽

10.3329/jbau.v7i2.4736 ◽

1970 ◽

Vol 7 (2) ◽

pp. 291-294 ◽

Cited By ~ 3

Author(s):

MYA Khan ◽

SS Husain ◽

MR Alam ◽

A Teneva ◽

JL Han ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Genetic Distance ◽

Microsatellite Markers ◽

Microsatellite Marker ◽

Genetic Relationships ◽

Genetic Relation ◽

Allele Number ◽

Different Populations

The genetic variation and differentiation among different populations of sheep in Bangladesh were studied by using 18 microsatellite markers. A total of 140 samples- 37 from Bangladesh Central (BGC), 40 from Bangladesh East (BGE), 39 from Bangladesh North (BGN) and 24 from Garole (GAR) were genotyped. The allele number per locus ranged from 2 to 10. The average number of alleles per population was 5.50 ± 1.72, 5.33 ± 2.00, 6.39 ± 2.06 and 4.72 ± 1.71 for BGC, BGE, BGN and GAR respectively. Heterozygosity was found in the range from 0.5084±0.0187 (BGE) to 0.5810±0.0237 (GAR). The genetic distance (DA) between BGN and GAR was the highest (0.1071) and that between BGC and BGN was the lowest (0.0664). In the phylogenetic dendrogram, BGC and BGN grouped in the same cluster, while BGE and GAR formed another two separate clusters. The results indicate that all four sheep populations had rich genetic diversity and the Garole sheep (GAR) is considered as an independent breed in Bangladesh. Keywords: Sheep; Microsatellite marker; Genetic relation; Phylogenetic dendrogram DOI: 10.3329/jbau.v7i2.4736 J. Bangladesh Agril. Univ. 7(2): 291-294, 2009

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Genetic diversity and population structure of indigenous chicken in Rwanda using microsatellite markers

10.1101/825141 ◽

2019 ◽

Author(s):

R. Habimana ◽

T.O. Okeno ◽

K. Ngeno ◽

S. Mboumba ◽

P. Assami ◽

...

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

Genetic Improvement ◽

Eastern Region ◽

Indigenous Chicken ◽

North West ◽

Ecological Zones ◽

The North ◽

Hardy Weinberg Equilibrium ◽

Private Alleles

AbstractRwanda has about 4.5 million of indigenous chicken (IC) that are very low in productivity. To initiate any genetic improvement programme, IC needs to be accurately characterized. The key purpose of this study was to ascertain the genetic diversity of IC in Rwanda using microsatellite markers. Blood samples of IC sampled from 5 agro-ecological zones were collected from which DNA was extracted, amplified by PCR and genotyped using 28 microsatellite markers. A total of 325 (313 indigenous and 12 exotic) chicken were genotyped and revealed a total number of 305 alleles varying between 2 and 22 with a mean of 10.89 per locus. 186 distinct alleles and 60 private alleles were also observed. The frequency of private alleles was highest in samples from the Eastern region, whereas those from the North West had the lowest. The influx of genes was lower in the Eastern agro-ecological zone than the North West. The mean observed heterozygosity was 0.6155, whereas the average expected heterozygosity was 0.688. The overall inbreeding coefficient among the population was 0.040. Divergence from the Hardy-Weinberg equilibrium was significant in 90% of loci in all the populations. The analysis of molecular variance revealed that about 92% of the total variation originated from variation within populations. Additionally, the study demonstrated that IC in Rwanda could be clustered into four gene groups. In conclusion, there was considerable genetic diversity in IC in Rwanda, which represents a crucial genetic resource that can be conserved or optimized through genetic improvement.

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Development of microsatellite markers at the National Agrobiodiversity Center in Korea for the genetic assessment of underutilized crops

Plant Genetic Resources ◽

10.1017/s1479262114000525 ◽

2014 ◽

Vol 12 (S1) ◽

pp. S125-S129

Author(s):

Gi-An Lee ◽

Sok-Young Lee ◽

Ho-Sun Lee ◽

Kyung-Ho Ma ◽

Jae-Gyun Gwag ◽

...

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

Germplasm Management ◽

Underutilized Crops ◽

Crop Species ◽

Closely Related Species ◽

Polymorphic Loci ◽

Allele Number ◽

The Mean ◽

Genetic Assessment

The RDA Genebank at the National Agrobiodiversity Center (NAAS, RDA, Republic of Korea) has conserved about 182,000 accessions in 1777 species and is working at preserving agricultural genetic resources for the conservation and sustainable utilization of genetic diversity. The detection of genetic variability in conserved resources is important for germplasm management, but the molecular evaluation tools providing genetic information are insufficient for underutilized crops, unlike those for major crops. In this regard, the Korean National Agrobiodiversity Center has been developing microsatellite markers for several underutilized crops. We designed 3640 primer pairs flanking simple sequence repeat (SSR) motifs for 6310 SSR clones in 21 crop species. Polymorphic loci were revealed in each species (7–36), and the mean ratio of polymorphic loci to all the loci tested was 12%. The average allele number was 5.1 (2.8–10.3) and the expected heterozygosity 0.51 (0.31–0.74). Some SSRs were transferable to closely related species, such as within the genera Fagopyrum and Allium. These SSR markers might be used for studying the genetic diversity of conserved underutilized crops.

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Intraspecific differentiation of Reed Grass Calamagrostis arundinacea (L.) Roth (Poaceae) populations revealed by peroxidase allozymes

Acta Societatis Botanicorum Poloniae ◽

10.5586/asbp.2008.038 ◽

2011 ◽

Vol 77 (4) ◽

pp. 299-304

Author(s):

Maria Krzakowa ◽

Zbigniew Celka

Keyword(s):

Genetic Diversity ◽

Genetic Parameters ◽

Electrophoretic Analysis ◽

Fixation Index ◽

Mean Values ◽

Interpopulation Variability ◽

Total Genetic Diversity ◽

Variability Level ◽

Hardy Weinberg Equilibrium ◽

Geographic Regions

The genetic Variation of Reed Grass <em>Calamagrostis arundinacea</em> (L.) Roth was investigated in 25 populations in various geographic regions of Poland. A total of 907 individuals were sampled for electrophoretic analysis of peroxidase loci (11 allozymes). Populations were characterised by genetic parameters e.g. heterozygosity level, Wright's fixation index (F) and polymorphism coefficient (Pg). Mean values of interpopulation variability level (GST=0.0310), total genetic diversity (HT=0.4102) and gene flow between populations (Nm=7.805) were also examined. All the populations were polymorphic and they remain in Hardy Weinberg equilibrium.

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Genetic diversity in Brazilian tall coconut populations by microsatellite markers

Cropp Breeding and Applied Biotechnology ◽

10.1590/s1984-70332013000400006 ◽

2013 ◽

Vol 13 (4) ◽

pp. 356-362 ◽

Cited By ~ 4

Author(s):

Francisco Elias Ribeiro ◽

Luc Baudouin ◽

Patricia Lebrun ◽

Lázaro José Chaves ◽

Claudio Brondani ◽

...

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

Cape Verde ◽

Coconut Palm ◽

Different Populations ◽

The Mean ◽

High Level ◽

Brazilian Populations

The tall coconut palm was introduced in Brazil in 1553, originating from the island of Cape Verde. The aim of the present study was to evaluate the genetic diversity of ten populations of Brazilian tall coconut by 13 microsatellite markers. Samples were collected from 195 individuals of 10 different populations. A total of 68 alleles were detected, with an average of 5.23 alleles per locus. The mean expected and observed heterozygosity value was 0.459 and 0.443, respectively. The number of alleles per population ranged from 36 to 48, with a mean of 40.9 alleles. We observed the formation of two groups, the first formed by the populations of Baía Formosa, Georgino Avelino and São José do Mipibu, and the second by the populations of Japoatã, Pacatuba and Praia do Forte. These results reveal a high level of genetic diversity in the Brazilian populations.

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

Bangladesh Journal of Agricultural Research ◽

10.3329/bjar.v37i3.12082 ◽

2012 ◽

Vol 37 (3) ◽

pp. 389-398 ◽

Cited By ~ 3

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

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Genetic diversity in Tunisian dromedary (Camelus dromedarius) populations using microsatellite markers

Livestock Science ◽

10.1016/j.livsci.2010.05.016 ◽

2010 ◽

Vol 132 (1-3) ◽

pp. 182-185 ◽

Cited By ~ 8

Author(s):

M. Ould Ahmed ◽

F. Ben Salem ◽

S. Bedhiaf ◽

B. Rekik ◽

M. Djemali

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

Camelus Dromedarius

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Microsatellite marker-based estimation of the genetic diversity of cattle in Chongqing

Indian Journal of Animal Research ◽

10.18805/ijar.b-887 ◽

2018 ◽

Author(s):

Weiwei Ni ◽

An Jiang ◽

Jian Zhang ◽

Guangxin E ◽

Yongfu Huang

Keyword(s):

Genetic Diversity ◽

Microsatellite Markers ◽

Microsatellite Marker ◽

Weinberg Equilibrium ◽

The Future ◽

Hardy Weinberg Equilibrium ◽

The Mean ◽

Coefficient Of Inbreeding

Cattle are the main source of meat in Chongqing. This study investigated the genetic diversity of cattle native to Chongqing and 4 introduced breeds. A total of 96 individuals from 5 breeds were genotyped using six microsatellite markers. Five markers were highly polymorphic within the breed populations, and one marker had moderate levels of polymorphism. Heterozygosity ranged from 0.5379±0.0434 in Simmental to 0.6667±0.0559 in Charolais. The heterozygosity deficit was significant in all populations analyzed compared with the expected level of heterozygosity. In addition, two microsatellite markers (TGLA53 and OarFCB20) deviated from Hardy-Weinberg equilibrium across populations (except in cattle native to Chongqing). The mean number of alleles ranged from 6.00±2.37 in Angus to 7.17±2.14 in Droughtmaster across six markers. The coefficient of inbreeding ranged from 0.0017 in Simmental and Droughtmaster to 0.0367 in Angus. Pairwise difference analyses revealed that Simmental and Droughtmaster were the most differentiated (FST= 0.06861) from each other, whereas cattle native to Chongqing and Charolais were the least differentiated (FST= 0.00557). In summary, this study showed that cattle native to Chongqing and 4 introduced breeds were genetically well protected in Chongqing, and information from this study would be helpful for guiding hybridization and genetic improvements in the future.

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Genetic diversity and structure in fragmented populations of the endangered species Ranunculus cabrerensis (Ranunculaceae): implications for conservation

Biologia ◽

10.2478/s11756-012-0126-6 ◽

2013 ◽

Vol 68 (1) ◽

Cited By ~ 6

Author(s):

Eduardo Cires ◽

Candela Cuesta ◽

José Fernández Prieto

Keyword(s):

Genetic Diversity ◽

Endangered Species ◽

Conservation Strategies ◽

Aflp Analysis ◽

Issr Primer ◽

Bayesian Analyses ◽

Principal Coordinates ◽

Genetic Diversity And Structure ◽

Different Populations ◽

Genetic Structures

AbstractRanunculus cabrerensis is an endemic and endangered species of the Northwestern Iberian Peninsula. The molecular markers AFLP and ISSR were used to investigate the genetic diversity and population structure of four populations across its known distribution. Fifteen selective primer combinations of AFLP and seventeen ISSR primer combinations produced a total of 2830 and 103 unambiguously repeatable fragments respectively, of which 97.57 and 81.38% were polymorphic for both markers. The genetic diversity of R. cabrerensis at species level was high (H E = 0.294 by ISSR and H E = 0.191 by AFLP) and differentiation between sampled locations was also relatively high (G ST = 0.316 and 0.158 by ISSR and AFLP analysis respectively) compared to other studies of endangered and rare species using the same techniques. The analysis of molecular variance (AMOVA) indicated that the main genetic variation was within sampled locations (73% by AFLP; 52% by ISSR), even though the variation among locations was also significant. Principal Coordinates, NeighborNet and Bayesian analyses revealed a weak but significant relationship between the genetic structures of different populations in R. cabrerensis, with gene flow acting as a homogenizing force that prevents stronger differentiation of populations. Finally, suggestions for conservation strategies to preserve the genetic resources of this species are outlined.

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