Assessment of Genetic Diversity in Three Subsets Constituted from the ICRISAT Sorghum Collection Using Random vs Non-Random Sampling Procedures
B. Using molecular markers

Grenier, Cécile; Deu, Monique; Kresovich, Stephen; Bramel-Cox, P. J.; Hamon, Perla

doi:10.1007/s001220051469

Cited by 63 publications

(58 citation statements)

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“…The genetic diversity values for both the ISSR and the SSR markers were high for all landraces as well as for landraces in each zone and the model based populations. Other studies on sorghum (Grenier et al, 2000;Dje et al, 2000;Ghebru et al, 2001;Medraoui et al, 2007;Weerasooriya et al, 2016) reported values close to the present study. The high diversity observed in NE Ethiopian sorghum landraces could be attributed to various factors including subsistence farming practice that rely on landraces, introgression with wild and weedy relatives, the geographic and agro-climatic variability of the area affecting adaptability of landraces.…”

Section: Genetic Diversitysupporting

confidence: 87%

“…from the fact that this is one of the, if not the major, centre of origin/domestication of sorghum, and the fact that there are diverse end-uses for sorghum in this region. The result for proportions of rare alleles for the SSR markers is in general agreement with values reported for sorghum using SSR markers (Grenier et al, 2000;Dje et al, 2000;Ghebru et al, 2001). The number of bands per ISSR primer in the present study was higher than bands reported in Moroccan sorghums (Medraoui et al, 2007).…”

Section: Genetic Diversitysupporting

confidence: 87%

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DNA markers reveal genetic structure and localized diversity of Ethiopian sorghum landraces

Desmae¹,

Jordan²,

Godwin³

2016

Afr. J. Biotechnol.

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North Eastern Ethiopia is a major sorghum-growing region. A total of 415 sorghum landraces were sampled to represent the range of agro-ecologies (three altitude ranges) as well as spatial heterogeneity, that is, 4 zones: North Welo, South Welo, Oromiya and North Shewa with each zone containing 2 to 5 districts. The landraces were genotyped with simple sequence repeats (SSR) and inter simple sequence repeats (ISSR) markers. High genetic diversity was observed among the landraces for both marker systems. STRUCTURE analysis revealed 4 clusters of genetically differentiated groups of landraces. Cluster analysis revealed a close relationship between landraces along geographic proximity with genetic distance between landraces increasing with an increase in geographic distance. The grouping of landraces based on districts was influenced by clinal trend and geographic proximity. The F ST statistics showed significant geographic differentiation among landraces at various levels of predefined geographic origin but a large portion of the variation was among landraces within rather than between predefined populations. The landraces from North Shewa were predominantly in one cluster, and landraces from this area also exhibited the greatest allelic diversity and the highest number of private alleles. There was low variation among the highland Zengada landraces, but these landraces were quite strongly differentiated and fell into one population cluster. The low to moderate genetic differentiation between landraces from various geographic origins could be attributed to gene flow across the region as a consequence of seed exchange among farmers.

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Section: Genetic Diversitysupporting

confidence: 87%

Section: Genetic Diversitysupporting

confidence: 87%

DNA markers reveal genetic structure and localized diversity of Ethiopian sorghum landraces

Desmae¹,

Jordan²,

Godwin³

2016

Afr. J. Biotechnol.

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“…This information could be used for selection of parents for breeding programs to produce CLCuD resistant cultivars as well as varieties with other desired traits (Malik et al, 2011). Grouping of germplasms with great variation between the clusters is of great genetic value for the selection of CLCuD resistant material (Grenier et al, 2000).…”

Section: Discussionmentioning

confidence: 99%

Assessment of genetic diversity of cotton genotypes for various economic traits against cotton leaf curl disease (CLCuD)

Javed¹,

Hussain²,

Baber³

2017

Genet. Mol. Res.

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ABSTRACT. In Pakistan, cotton crop has been under enormous threat of cotton leaf curl disease (CLCuD) over the last four decades. In order to estimate genetic diversity in cotton germplasm CLCuD resistance, we assessed 100 cotton genotypes for their CLCuD resistance/tolerance and other related agronomical traits. Various statistical analytical tools, including correlation analysis, cluster analysis, and principal component analysis (PCA), were used to select the best genotypes. These genotypes can be used in future breeding programs to generate CLCuD resistant varieties. The same set of procedures could be utilized for other diseases in other crops. CLCuD incidence showed a significant negative genotypic correlation with yield-contributing traits followed by a significant negative association for phenotypic correlation. The seed cotton yield showed significant positive genotypic and phenotypic correlations with plant height, number of bolls per plant, and boll 2 M. Javed et al. Genetics and Molecular Research 16 (1): gmr16019446 weight. From the PCA we identified five principal components (PCs) that explained a significant amount of the variance among the variables, which may be used for selection of cotton genotypes with CLCuD resistance. Of the five PCs, the first four contributed more towards the total variability and had eigenvalues greater than one. The cluster analysis showed that the genotypes in one of the clusters performed particularly well with respect to CLCuD tolerance. These genotypes can be utilized for development of varieties with increased CLCuD tolerance.

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“…All the 22 SSR loci were poly- Table 5. AMOVA calculated according to weir, (Weir, 1996 morphic in the individuals (except locus mSbCIR 286) and bulks, as seen in previous studies of sorghum germplasm with diverse geographic origins (Grenier et al, 2000b;Casa et al, 2005). The average number of alleles per locus identified in this study was lower in individuals (4.91) and higher in bulks (6.27) than the average of 5.9 previously reported in elite sorghum lines (Smith et al, 2000), though both were lower than obtained in other studies (Menz et al, 2004;Uptmoor et al, 2003;Dje et al, 2000;Grenier et al, 2000).…”

Section: Discussionmentioning

confidence: 99%

Assessment of the genetic diversity and pattern of relationship of West African sorghum accessions using microsatellite markers

Kitavi¹,

Kiambi²,

Haussman³

et al. 2014

Afr. J. Biotechnol.

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An understanding of the extent, distribution and patterns of genetic variation is useful for estimation of any possible loss of genetic diversity and assessment of genetic variability and its potential use in breeding programs, including establishment of heterotic groups. This study assessed patterns of genetic diversity and relationships among 30 West African sorghum accessions using 22 microsatellite markers. Population structure and within population genetic diversity was also assessed using the same markers. Genotypic data was generated using the ABI Prism 3730 and alleles called and sized using genemapper software version 3.7. Molecular data was analyzed using DARwin 4.0, powermarker 3.0 and Arlequin version 3.11. The average marker quality index was 0.27 while a mean PIC of 0.54 was observed across the 22 SSR markers. Among the 30 accessions, the markers detect a total of 146 alleles with an average of 6.6 alleles per marker. Results from the various statistical analyses performed revealed a wide range of polymorphism from 22.7 to 86.4%. The mean heterozygosity was relatively low at 0.28 while the average Nei's genetic diversity among the 30 populations was 0.57. The within population Nei's genetic diversity assessed from 49 individuals in 10 populations was lower at 0.54 and the average heterozygosity was also lower at 0.21. Cluster and principal coordinate analysis of the 30 populations revealed two distinct groups independent of their geographic origins The examination of the hierarchical partitioning of genetic variation by AMOVA demonstrated that genetic differentiation was significant at P < 0.00. Of the total diversity, 8.9% was attributed to country differences, 54.11% was attributed to population differences within the countries while 36.99% was attributed to differences within populations. The F ST value (0.63) indicated a very high genetic differentiation as expected for selfing species. This study demonstrates the utility of SSR markers in detecting polymorphism, estimating genetic diversity and establishment of genetic clusters for heterotic studies.

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Assessment of Genetic Diversity in Three Subsets Constituted from the ICRISAT Sorghum Collection Using Random vs Non-Random Sampling Procedures B. Using molecular markers

Cited by 63 publications

References 0 publications

DNA markers reveal genetic structure and localized diversity of Ethiopian sorghum landraces

DNA markers reveal genetic structure and localized diversity of Ethiopian sorghum landraces

Assessment of genetic diversity of cotton genotypes for various economic traits against cotton leaf curl disease (CLCuD)

Assessment of the genetic diversity and pattern of relationship of West African sorghum accessions using microsatellite markers

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