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In silico characterization, and expression analysis of rice golden 2-like (OsGLK) members in response to low phosphorous

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Abstract

The availability of phosphorus (P) affects productivity of rice. Under acidic soil conditions (pH < 5.5), P is rapidly immobilized in the soil. Several transcription factors play an important role in low Pi tolerance response, including MYB family members but their role in acidic soil is yet unknown. In this study, genome wide identification and characterization of golden 2-like (GLK) members belonging to GARP superfamily from rice (OsGLK) led to identification of 46 members distributed over 12 chromosomes. We assigned gene nomenclature, analyzed gene structure and identified mutant orthologs and phenotypes in maize and rice, respectively. On the basis of biological functions three categories viz., (a) two-component response regulator (five members), (b) putative transcription factor (21 members) and (c) phosphate starvation response (8 members) were identified. Phylogenetic analysis revealed a total of nine subgroups with MYB homeodomain-like and MYB CC-type domains conserved across members. Expression profiling of OsGLKs in response to 24 and 48 h of low Pi in four contrasting rice genotypes, revealed significantly higher expression of OsGLK10, OsGLK15, OsGLK22 and OsGLK30 in tolerant genotypes as compared to susceptible genotypes, suggesting their role in Pi starvation tolerance. Meta analyses and cis-regulatory elements (CREs) profiling of OsGLK showed diverse expression pattern in various tissues and organs and also modulation in response to various abiotic and biotic stresses. Our results highlight the versatile role of this diverse and complex GLK family, in particular to abiotic stress. These genes will form the basis of future studies on low Pi tolerance in acidic soils.

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Funding

This work was supported by the grants from Indian Council of Agricultural Research (NAIP; component IV; C30033/415101-036) and Department of Biotechnology, Government of India (BT/566/NE/U-excel/2016/72). KLB was supported by NFST from Ministry of Tribal Affairs, University Grant Commission, Government of India.

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  1. School of Crop Improvement, College of Post-Graduate Studies in Agricultural Sciences, Central Agricultural University (Imphal), Umroi Road, Umiam, 793103, Meghalaya, India

    Karma Landup Bhutia, Ernieca Lyngdoh Nongbri, Ebenazar Gympad, Mayank Rai & Wricha Tyagi

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  1. Karma Landup Bhutia
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  2. Ernieca Lyngdoh Nongbri
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Contributions

KLB, MR and WT conceived the research plan and designed the experiments. KLB, ELN and EG performed the experiments. KLB and ELN wrote the draft. KLB and WT analyzed the data. WT and MR reviewed and edited the paper, providing helpful comments and discussions. All authors read and approved the final manuscript.

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Correspondence to Wricha Tyagi.

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Bhutia, K.L., Nongbri, E.L., Gympad, E. et al. In silico characterization, and expression analysis of rice golden 2-like (OsGLK) members in response to low phosphorous. Mol Biol Rep 47, 2529–2549 (2020). https://doi.org/10.1007/s11033-020-05337-2

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