Comprehensive analysis and identification of drought-responsive candidate NAC genes in three semi-arid tropics (SAT) legume crops

Singh, S and Kudapa, H and Garg, V and Varshney, R K (2021) Comprehensive analysis and identification of drought-responsive candidate NAC genes in three semi-arid tropics (SAT) legume crops. BMC Genomics (TSI), 22 (1). pp. 1-23. ISSN 1471-2164

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Abstract

Background: Chickpea, pigeonpea, and groundnut are the primary legume crops of semi-arid tropics (SAT) and their global productivity is severely affected by drought stress. The plant-specific NAC (NAM - no apical meristem, ATAF - Arabidopsis transcription activation factor, and CUC - cup-shaped cotyledon) transcription factor family is known to be involved in majority of abiotic stresses, especially in the drought stress tolerance mechanism. Despite the knowledge available regarding NAC function, not much information is available on NAC genes in SAT legume crops. Results: In this study, genome-wide NAC proteins – 72, 96, and 166 have been identified from the genomes of chickpea, pigeonpea, and groundnut, respectively, and later grouped into 10 clusters in chickpea and pigeonpea, while 12 clusters in groundnut. Phylogeny with well-known stress-responsive NACs in Arabidopsis thaliana, Oryza sativa (rice), Medicago truncatula, and Glycine max (soybean) enabled prediction of putative stress-responsive NACs in chickpea (22), pigeonpea (31), and groundnut (33). Transcriptome data revealed putative stress-responsive NACs at various developmental stages that showed differential expression patterns in the different tissues studied. Quantitative real-time PCR (qRT-PCR) was performed to validate the expression patterns of selected stressresponsive, Ca_NAC (Cicer arietinum - 14), Cc_NAC (Cajanus cajan - 15), and Ah_NAC (Arachis hypogaea - 14) genes using drought-stressed and well-watered root tissues from two contrasting drought-responsive genotypes of each of the three legumes. Based on expression analysis, Ca_06899, Ca_18090, Ca_22941, Ca_04337, Ca_04069, Ca_04233, Ca_12660, Ca_16379, Ca_16946, and Ca_21186; Cc_26125, Cc_43030, Cc_43785, Cc_43786, Cc_22429, and Cc_22430; Ah_ann1.G1V3KR.2, Ah_ann1.MI72XM.2, Ah_ann1.V0X4SV.1, Ah_ann1.FU1JML.2, and Ah_ann1.8AKD3R.1 were identified as potential drought stress-responsive candidate genes.

Item Type:	Article
Divisions:	Research Program : Genetic Gains
CRP:	CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC)
Uncontrolled Keywords:	Chickpea, Cis-acting regulatory elements (CARE), Drought tolerance, Groundnut, Legumes, NACs, Phylogenetics, Pigeonpea
Subjects:	Others > Drought Tolerance Mandate crops > Chickpea Mandate crops > Pigeonpea Mandate crops > Groundnut Others > Genetics and Genomics Others > Legume Crops
Depositing User:	Mr Arun S
Date Deposited:	26 May 2021 16:25
Last Modified:	26 May 2021 16:25
URI:	http://oar.icrisat.org/id/eprint/11821
Official URL:	https://doi.org/10.1186/s12864-021-07602-5
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	The authors thank Mr. Jaipal Goud for providing technical support in this project. This work has been undertaken as part of the CGIAR Research Program on Grain Legumes & Dryland Cereals. ICRISAT is a member of the CGIAR Research Consortium.
Links:	Google Scholar

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