SSR markers in revealing extent of genetic diversity and phylogenetic relationships among chickpea core collection accessions for Western Himalayas

Mir, A H and Bhat, M A and Fayaz, H and Wani, A A and Dar, S A and Maqbool, S and Yasin, M and Mir, J I and Khan, M A and Sofi, P A and El‑Sappah, A H and Thudi, M and Varshney, R K and Mir, R R (2022) SSR markers in revealing extent of genetic diversity and phylogenetic relationships among chickpea core collection accessions for Western Himalayas. Molecular Biology Reports, 49. pp. 11469-11479. ISSN 1573-4978

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Abstract

Background The exploration of genetic diversity is the key source of germplasm conservation and potential to broaden its genetic base. The globally growing demand for chickpea suggests superior/climate-resilient varieties, which in turn necessitates the germplasm characterization to unravel underlying genetic variation. Methodology and results A chickpea core collection comprising of diverse 192 accessions which include cultivated Cicer arietinum, and wild C. reticulatum, C. echinospermum, and C. microphyllum species were investigated to analyze their genetic diversity and relationship, by assaying 33 unlinked simple sequence repeat (SSR) markers. The results amplified a total of 323 alleles (Na), ranging from 2 to 8 with an average of 4.25 alleles per locus. Expected heterozygosity (He) differed from 0.46 to 0.86 with an average of 0.68. Polymorphic information content (PIC) ranged from 0.73 to 0.98 with an average of 0.89. Analysis of molecular variance (AMOVA) showed that most of the variation was among individuals (87%). Cluster analysis resulted in the formation of four distinct clusters. Cluster I represented all cultivated and clusters II, III, and IV comprised a heterogeneous group of cultivated and wild chickpea accessions. Conclusion We report considerable diversity and greater resolving power of SSR markers for assessing variability and interrelationship among the chickpea accessions. The chickpea core is expected to be an efficient resource for breeders for broadening the chickpea genetic base and could be useful for selective breeding of desirable traits and in the identification of target genes for genomics-assisted breeding.

Item Type:	Article
Divisions:	Global Research Program - Accelerated Crop Improvement
CRP:	UNSPECIFIED
Uncontrolled Keywords:	Chickpea, Core collection, Genetic diversity, Microsatellites, Cluster analysis
Subjects:	Mandate crops > Chickpea Others > Genetics and Genomics
Depositing User:	Mr Nagaraju T
Date Deposited:	05 May 2023 04:31
Last Modified:	05 May 2023 04:31
URI:	http://oar.icrisat.org/id/eprint/12079
Official URL:	https://link.springer.com/article/10.1186/s43170-0...
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	The authors are thankful to ICRISAT (Hyderabad), IIPR (Kanpur), NBPGR (New Delhi) for providing the germplasm for the present study.
Links:	Google Scholar

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