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Validation of Genome-Wide SSR Markers Developed for Genetic Diversity and Population Structure Study in Grain Amaranth (Amaranthus hypochondriacus)

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Relation http://oar.icrisat.org/12203/
https://www.mdpi.com/2077-0472/13/2/431
https://doi.org/10.3390/agriculture13020431
 
Title Validation of Genome-Wide SSR Markers Developed for Genetic Diversity and Population Structure Study in Grain Amaranth (Amaranthus hypochondriacus)
 
Creator Vats, G
Das, D
Gupta, R
Signh, A
Maurya, A
Rajkumar, S
Singh, A K
Bharadwaj, R
Kumar, S
Kaushik, S K
Gupta, V
Singh, K
Singh, R
 
Subject Genetics and Genomics
Germplasm
 
Description Grain Amaranth is the most promising C4 dicotyledonous pseudocereal and is distributed globally. It has an excellent nutritional profile and adaptability against a broad range of environmental factors. These traits have renewed the interest of researchers and breeders in exploring this underutilized orphan crop. The present study aimed to validate the genome-wide SSR to assess the
genetic diversity among 94 Amaranthus hypochondriacus accessions using 57 genomic SSR (g-SSR) markers developed in-house. A total of 36 g-SSRs were recorded as polymorphic and amplified 138 alleles, with an average of 3.83 alleles per locus. Major allele frequency ranged from 0.29 to 0.98,
with an average of 0.63 per marker. The expected heterozygosity ranged from 0.03 to 0.81, with an average of 0.46 per locus. Polymorphism information content (PIC) ranged from 0.03 to 0.79, with an average of 0.40, indicating a high level of polymorphism across amaranth accessions. Population structure analysis resulted into two major genetic clusters irrespective of their geographical origin, which suggests there may be sharing of common genomic regions across the accessions. High allelic
frequency and heterozygosity levels indicate significant genetic variability in the germplasm, which can be further used in future breeding programs.
 
Publisher MDPI
 
Date 2023-02-12
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_attribution
 
Identifier http://oar.icrisat.org/12203/1/Agriculture_13_2_01-14_2023.pdf
Vats, G and Das, D and Gupta, R and Signh, A and Maurya, A and Rajkumar, S and Singh, A K and Bharadwaj, R and Kumar, S and Kaushik, S K and Gupta, V and Singh, K and Singh, R (2023) Validation of Genome-Wide SSR Markers Developed for Genetic Diversity and Population Structure Study in Grain Amaranth (Amaranthus hypochondriacus). Agriculture, 13 (2). pp. 1-14. ISSN 2077-0472