Identification of putative QTLs for seedling stage phosphorus starvation response in finger millet (Eleusine coracana L. Gaertn.) by association mapping and cross species synteny analysis

Ramakrishnan, M and Ceasar, S A and Vinod, K K and Duraipandiyan, V and Ajeesh Krishna, T P and Upadhyaya, H D and Al-Dhabi, N A and Ignacimuthu, S (2017) Identification of putative QTLs for seedling stage phosphorus starvation response in finger millet (Eleusine coracana L. Gaertn.) by association mapping and cross species synteny analysis. PLoS ONE. pp. 1-27. ISSN 1932-6203

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Abstract

A germplasm assembly of 128 finger millet genotypes from 18 countries was evaluated for seedling-stage phosphorus (P) responses by growing them in P sufficient (Psuf) and P deficient (Pdef) treatments. Majority of the genotypes showed adaptive responses to low P condition. Based on phenotype behaviour using the best linear unbiased predictors for each trait, genotypes were classified into, P responsive, low P tolerant and P non-responsive types. Based on the overall phenotype performance under Pdef, 10 genotypes were identified as low P tolerants. The low P tolerant genotypes were characterised by increased shoot and root length and increased root hair induction with longer root hairs under Pdef, than under Psuf. Association mapping of P response traits using mixed linear models revealed four quantitative trait loci (QTLs). Two QTLs (qLRDW.1 and qLRDW.2) for low P response affecting root dry weight explained over 10% phenotypic variation. In silico synteny analysis across grass genomes for these QTLs identified putative candidate genes such as Ser-Thr kinase and transcription factors such as WRKY and basic helix-loop-helix (bHLH). The QTLs for response under Psuf were mapped for traits such as shoot dry weight (qHSDW.1) and root length (qHRL.1). Putative associations of these QTLs over the syntenous regions on the grass genomes revealed proximity to cytochrome P450, phosphate transporter and pectin methylesterase inhibitor (PMEI) genes. This is the first report of the extent of phenotypic variability for P response in finger millet genotypes during seedling-stage, along with the QTLs and putative candidate genes associated with P starvation tolerance.

Item Type: Article
Divisions: Research Program : Genetic Gains
CRP: UNSPECIFIED
Uncontrolled Keywords: Finger millet, Germplasms, QTLs, Phosphorus, Small millets, Cereals, Association mapping, Genotypes, Millet germplasm
Subjects: Mandate crops > Millets
Mandate crops > Millets > Finger Millet
Others > Genetics and Genomics
Others > Germplasm Collection
Depositing User: Mr Ramesh K
Date Deposited: 31 Oct 2017 05:58
Last Modified: 08 Mar 2018 04:47
URI: http://oar.icrisat.org/id/eprint/10239
Official URL: http://dx.doi.org/10.1371/journal.pone.0183261
Projects: UNSPECIFIED
Funders: UNSPECIFIED
Acknowledgement: The authors thank the Department of Biotechnology, Government of India, New Delhi, for providing financial support through a grant BT/PR15011/AGR/02/772/2010. They also extend their appreciation to the International Scientific Partnership Program (ISPP) at King Saud University for support of this research work through ISPP 0020. Authors acknowledge the help rendered by ICRISAT, UAS (GKVK) and TNAU by providing finger millet germplasm. We thank Dr. Ketrien Devos, the University of Georgia, College of Agricultural Science, USA for giving the parent sequences of the SSR markers. We thank the mentor Dr P. Kadirvel, Senior Scientist, DOR, ICAR, Hyderabad-500030-India, for his encouragement.
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