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Allelic Diversity, Structural Analysis, and Genome-Wide Association Study (GWAS) for Yield and Related Traits Using Unexplored Common Bean (Phaseolus vulgaris L.) Germplasm From Western Himalayas

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Relation http://oar.icrisat.org/11789/
https://doi.org/10.3389/fgene.2020.609603
doi:10.3389/fgene.2020.609603
 
Title Allelic Diversity, Structural Analysis, and Genome-Wide Association Study (GWAS) for Yield and Related Traits Using Unexplored Common Bean (Phaseolus vulgaris L.) Germplasm From Western Himalayas
 
Creator Mir, R R
Choudhary, N
Bawa, V
Jan, S
Singh, B
Bhat, M A
Paliwal, R
Kumar, A
Chitikineni, A
Thudi, M
Varshney, R K
 
Subject Genetics and Genomics
Germplasm
Legume Crops
 
Description The north-western Indian Himalayas possesses vast diversity in common bean
germplasm due to several years of natural adaptation and farmer’s selection. Systematic
efforts have been made for the first time for the characterization and use of this
huge diversity for the identification of genes/quantitative trait loci (QTLs) for yield and
yield-contributing traits in common bean in India. A core set of 96 diverse common
bean genotypes was characterized using 91 genome-wide genomic and genic simple
sequence repeat (SSR) markers. The study of genetic diversity led to the identification
of 691 alleles ranging from 2 to 21 with an average of 7.59 alleles/locus. The gene
diversity (expected heterozygosity, He) varied from 0.31 to 0.93 with an average of 0.73.
As expected, the genic SSR markers detected less allelic diversity than the random
genomic SSR markers. The traditional clustering and Bayesian clustering (structural
analysis) analyses led to a clear cut separation of a core set of 96 genotypes into two
distinct groups based on their gene pools (Mesoamerican and Andean genotypes).
Genome-wide association mapping for pods/plant, seeds/pod, seed weight, and
yield/plant led to the identification of 39 significant marker–trait associations (MTAs)
including 15 major, 15 stable, and 13 both major and stable MTAs. Out of 39 MTAs
detected, 29 were new MTAs reported for the first time, whereas the remaining 10
MTAs were already identified in earlier studies and therefore declared as validation of
earlier results. A set of seven markers was such, which were found to be associated
with multiple (two to four) different traits. The important MTAs will be used for common
bean molecular breeding programs worldwide for enhancing common bean yield.
 
Publisher Frontiers Media
 
Date 2021-01
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Identifier http://oar.icrisat.org/11789/1/fgene-11-609603.pdf
Mir, R R and Choudhary, N and Bawa, V and Jan, S and Singh, B and Bhat, M A and Paliwal, R and Kumar, A and Chitikineni, A and Thudi, M and Varshney, R K (2021) Allelic Diversity, Structural Analysis, and Genome-Wide Association Study (GWAS) for Yield and Related Traits Using Unexplored Common Bean (Phaseolus vulgaris L.) Germplasm From Western Himalayas. Frontiers in Genetics, 11. pp. 1-17. ISSN 1664-8021