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Assessment of molecular genetic diversity of 384 chickpea genotypes and development of core set of 192 genotypes for chickpea improvement programs

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Abstract

Cicer arietinum L. (chickpea) is one of the most significant legume crops domesticated in the Fertile Crescent. This study was aimed to characterize a diverse composite set of 384 Cicer genotypes using unlinked simple sequence repeat (SSR) markers. The genotypes grown under the temperate conditions of Western-Himalayas included cultivated and wild relatives from primary (Cicer reticulatum Ladiz.), secondary (Cicer echinospermum P.H. Davis) and tertiary (Cicer microphyllum Benth.) gene pools. The analysis of genotypic data of eight SSR markers from eight linkage groups led to the identification of 63 alleles, ranging from 2 to 6 with an average value of 3.7 alleles per locus. The polymorphic information content of SSR markers ranged from 0.46 to 0.79 with an average value of 0.77 and the gene diversity ranged from 0.47 to 0.79 with an average of 0.64. The clustering of genotypes in the form of dendrogram discriminated all 384 genotypes into four major clusters. The wild genotypes belonging to different gene pools got clustered uniformly in different clusters along with cultivated chickpea genotypes. The analysis of data also led to the selection of core set of 192 genotypes. The core set was found to possess same diversity (63 alleles; average alleles per locus: 3.7; gene diversity: 0.65) as that of composite set of 384 genotypes. The development of core set in chickpea shall prove useful in gene discovery for variety of traits through genome-wide association studies. The results also provide an insight into gene/allele diversity available in our chickpea germplasm collection grown under agro-climatic conditions of the North Western-Himalayas.

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Acknowledgements

The authors are thankful to ICRISAT, Hyderabad, IIPR, Kanpur, NBPGR, New Delhi for providing the germplasm for the present study. Thanks are also due to Douglas R cook at University of California at Davis (UC-Davis), California, USA for providing seeds of some wild relatives through ICRISAT, Hyderabad. The authors are also thankful to the head Division of Genetics and Plant Breeding SKAUT-K for providing the necessary facilities during the course of study. The corresponding author is also thankful to various funding agencies including Science and Engineering Research Board (SERB), Department of Science and Technology (DST), Government of India for providing different grants in the form of NPDFs to students mentored by me and to Department of Biotechnology (DBT), GOI, New Delhi, India.

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This study was not specifically funded by any funding agency.

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Authors and Affiliations

  1. Division of Genetics and Plant Breeding, Faculty of Agriculture (FoA), SKUAST-Kashmir, Wadura Campus, Sopore, India

    Humara Fayaz, Asma Hamid Mir, Nelofar Jan, Mohd Anwar Khan & Reyazul Rouf Mir

  2. Cytogenetics and Reproductive Biology Laboratory, Department of Botany, University of Kashmir, Srinagar, India

    Humara Fayaz & Aijaz A. Wani

  3. Department of Plant Physiology, Indian Agricultural Research Institute (IARI), New Delhi, India

    Sandhya Tyagi

  4. Rafi Amhad Kidwai (RAK) College of Agriculture, Rajmata Vijayaraje Schindia Krishi Vishwa Vidyalaya (RVSKV), Sehore, Madhya Pradesh, India

    Mohammad Yasin

  5. ICAR-Central Institute of Temperate Horticulture (CITH), Srinagar, Kashmir, India

    Javid Iqbal Mir

  6. Division of Crop Improvement, Indian Institute of Pulse Research (IIPR), Kanpur, India

    Biswajit Mondal

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  1. Humara Fayaz
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Correspondence to Reyazul Rouf Mir.

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Fayaz, H., Mir, A.H., Tyagi, S. et al. Assessment of molecular genetic diversity of 384 chickpea genotypes and development of core set of 192 genotypes for chickpea improvement programs. Genet Resour Crop Evol 69, 1193–1205 (2022). https://doi.org/10.1007/s10722-021-01296-0

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