Identification of putative candidate gene markers for grain zinc content using recombinant inbred lines (RIL) population of IRRI38 X Jeerigesanna

Naveen Kumar Gande; Pavan J Kundur; Rakhi Soman; Rajeswari Ambati; Ashwathanarayana R; Berhanu Dagnaw Bekele; Shashidhar H.E*

doi:10.5897/AJB2013.13334

African Journal of
Biotechnology

Abbreviation: Afr. J. Biotechnol.
Language: English
ISSN: 1684-5315
DOI: 10.5897/AJB
Start Year: 2002
Published Articles: 12508

Full Length Research Paper

Identification of putative candidate gene markers for grain zinc content using recombinant inbred lines (RIL) population of IRRI38 X Jeerigesanna

Naveen Kumar Gande

Naveen Kumar Gande
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India. Department of Biotechnology, Karpagam University, Coimbatore - 641021, Tamilnadu, India.
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Pavan J Kundur

Pavan J Kundur
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India.
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Rakhi Soman

Rakhi Soman
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India. Department of Biotechnology, Karpagam University, Coimbatore - 641021, Tamilnadu, India.
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Rajeswari Ambati

Rajeswari Ambati
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India.
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Ashwathanarayana R

Ashwathanarayana R
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India.
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Berhanu Dagnaw Bekele

Berhanu Dagnaw Bekele
Department of Biotechnology, University of Gondar, P. O. Box: 196, Gondar, Ethiopia.
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Shashidhar H.E*

Shashidhar H.E*
Department of Plant Biotechnology, University of Agricultural Sciences, GKVK, Bangalore-560065 Karnataka, India.
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Article Number - C6C4A3742897
Vol.13(5), pp. 657-663 , January 2014
https://doi.org/10.5897/AJB2013.13334

Accepted: 16 January 2014
Published: 29 January 2014

Abstract

Nutrients in food crops can be enriched by adopting biofortification. Identifying the target quantitative trait loci (QTL) genes will help achieve biofortification with greater precision and accuracy. The objective of this experiment is to estimate grain zinc content, evaluation of candidate gene markers in recombinant inbred lines (RIL) derived from IRRI38 X Jeerigesanna and validation of putative candidate gene markers with rice accessions. Grain zinc content ranged from 16.1 to 35.5 ppm with an average of 23.7 ppm. Among twenty four candidate gene markers, eight showed polymorphism and out of three simple sequence repeats (SSR) markers, three showed polymorphism. Single marker analysis revealed that four (OsNAC, OsZIP8a, OsZIP8c and OsZIP4b) candidate gene markers showed significant variation among RIL population with a phenotypic variation of 4.5, 19.0, 5.1 and 10.2% respectively. Validation with 96 rice genotypes showed three markers (OsZIP8a, OsNAC and OsZIP4b) with phenotypic variation of 11.0, 5.8 and 4.8%, respectively.

Key words: Zinc, biofortification, single-marker analysis (SMS) and marker assisted selection (MAS).

Abbreviation

Abbreviations: QTL, Quantitative trait loci; RIL, recombinant inbred lines; XRF, X-ray florescence; CTAB, cethyltrimethyl ammoniac bromide; PCR, polymerase chain reaction; SSR, simple sequence repeats; SMA, single marker analysis.