Karyotype Differentiation in Cultivated Chickpea Revealed by Oligopainting Fluorescence in situ Hybridization

Doležalová, A and Sládeková, L and Šimoníková, D and Holušová, K and Karafiátová, M and Varshney, R K and Doležel, J and Hřibová, E (2022) Karyotype Differentiation in Cultivated Chickpea Revealed by Oligopainting Fluorescence in situ Hybridization. Frontiers in Plant Science (TSI), 12. pp. 1-11. ISSN 1664-462X

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Abstract

Chickpea (Cicer arietinum L.) is one of the main sources of plant proteins in the Indian subcontinent and West Asia, where two different morphotypes, desi and kabuli, are grown. Despite the progress in genome mapping and sequencing, the knowledge of the chickpea genome at the chromosomal level, including the long-range molecular chromosome organization, is limited. Earlier cytogenetic studies in chickpea suffered from a limited number of cytogenetic landmarks and did not permit to identify individual chromosomes in the metaphase spreads or to anchor pseudomolecules to chromosomes in situ. In this study, we developed a system for fast molecular karyotyping for both morphotypes of cultivated chickpea. We demonstrate that even draft genome sequences are adequate to develop oligo-fluorescence in situ hybridization (FISH) barcodes for the identification of chromosomes and comparative analysis among closely related chickpea genotypes. Our results show the potential of oligo-FISH barcoding for the identification of structural changes in chromosomes, which accompanied genome diversification among chickpea cultivars. Moreover, oligo-FISH barcoding in chickpea pointed out some problematic, most probably wrongly assembled regions of the pseudomolecules of both kabuli and desi reference genomes. Thus, oligo-FISH appears as a powerful tool not only for comparative karyotyping but also for the validation of genome assemblies.

Item Type:	Article
Divisions:	Center of Excellence in Genomics and Systems Biology
CRP:	UNSPECIFIED
Uncontrolled Keywords:	Cicer arietinum L., kabuli type, desi type, oligopainting FISH, chromosome identification, chromosome translocation
Subjects:	Mandate crops > Chickpea
Depositing User:	Mr Nagaraju T
Date Deposited:	04 Apr 2024 10:31
Last Modified:	04 Apr 2024 10:31
URI:	http://oar.icrisat.org/id/eprint/12614
Official URL:	https://www.frontiersin.org/journals/plant-science...
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	We thank Zdeňka Dubská, Eva Jahnová, Radomíra Tušková, and Helena Tvardíková for excellent technical assistance. The computing was supported by the project “e-Infrastruktura CZ” (e-INFRA LM2018140) provided within the program Projects of Large Research, Development and Innovations Infrastructures. RKV was thankful to JC Bose National Fellowship from Science and Engineering Research Board, Ministry of Science and Technology, Government of India.
Links:	Google Scholar

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