Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut

Pandey, M K and Gangurde, S S and Sharma, V and Pattanashetti, S K and Naidu, G K and Faye, I and Hamidou, F and Desmae, H and Kane, N A and Yuan, M and Vadez, V and Nigam, S N and Varshney, R K (2020) Improved Genetic Map Identified Major QTLs for Drought Tolerance- and Iron Deficiency Tolerance-Related Traits in Groundnut. Genes (TSI), 12 (1). pp. 1-22. ISSN 2073-4425

[img] PDF - Published Version
Download (1MB)


A deep understanding of the genetic control of drought tolerance and iron deficiency tolerance is essential to hasten the process of developing improved varieties with higher tolerance through genomics-assisted breeding. In this context, an improved genetic map with 1205 loci was developed spanning 2598.3cM with an average 2.2cM distance between loci in the recombinant inbred line (TAG 24 � ICGV 86031) population using high-density 58K single nucleotide polymorphism (SNP) “Axiom_Arachis” array. Quantitative trait locus (QTL) analysis was performed using extensive phenotyping data generated for 20 drought tolerance- and two iron deficiency tolerance-related traits from eight seasons (2004–2015) at two locations in India, one in Niger, and one in Senegal. The genome-wide QTL discovery analysis identified 19 major main-effect QTLs with 10.0–33.9% phenotypic variation explained (PVE) for drought tolerance- and iron deficiency tolerance- related traits. Major main-effect QTLs were detected for haulm weight (20.1% PVE), SCMR (soil plant analytical development (SPAD) chlorophyll meter reading, 22.4% PVE), and visual chlorosis rate (33.9% PVE). Several important candidate genes encoding glycosyl hydrolases; malate dehydrogenases; microtubule-associated proteins; and transcription factors such as MADS-box, basic helix-loop-helix (bHLH), NAM, ATAF, and CUC (NAC), and myeloblastosis (MYB) were identified underlying these QTL regions. The putative function of these genes indicated their possible involvement in plant growth, development of seed and pod, and photosynthesis under drought or iron deficiency conditions in groundnut. These genomic regions and candidate genes, after validation, may be useful to develop molecular markers for deploying genomics-assisted breeding for enhancing groundnut yield under drought stress and iron-deficient soil conditions.

Item Type: Article
Divisions: Research Program : Genetic Gains
Research Program : West & Central Africa
CRP: CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC)
Uncontrolled Keywords: Abiotic stress, Arachis hypogaea, Map density, SNP array, Genetic map, Genomics-assisted, Breeding, Peanut
Subjects: Others > Abiotic Stress
Mandate crops > Groundnut
Others > Genetics and Genomics
Depositing User: Mr Arun S
Date Deposited: 15 Mar 2021 08:48
Last Modified: 15 Mar 2021 08:48
Official URL:
Acknowledgement: The authors are thankful to the National Agricultural Science Fund (NASF) of the Indian Council of Agricultural Research, India, and the Bill and Melinda Gates Foundation (BMGF), USA, for partial financial assistance. The work reported in this article was undertaken as a part of the CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC). ICRISAT is a member of the CGIAR.
View Statistics

Actions (login required)

View Item View Item