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Analysis of chickpea gene co-expression networks and pathways during heavy metal stress

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Abstract

Crop productivity and yield are adversely affected by abiotic and biotic stresses. Therefore, finding out the genes responsible for stress tolerance is a significant stride towards crop improvement. A gene co-expression network is a powerful tool to detect the most connected genes during heavy metal (HM) stress in plants. The most connected genes may be responsible for HM tolerance by altering the different metabolic pathways during the biotic and abiotic stress. In the same line we have performed the GSE86807 microarray analysis of chickpea during exposure to chromium, cadmium and arsenic and analyzed the data. Common differentially expressed genes (DEGs) during exposure to chromium, cadmium and arsenic were identified and a co-expression network study was carried out. Hub and bottleneck genes were explored on the basis of degree and betweenness centrality, respectively. A gene set enrichment analysis study revealed that genes like haloacid dehydrogenase, cinnamoyl CoA reductase, F-box protein, GDSL esterase lipase, cellulose synthase, β-glucosidase 13 and isoflavone hydroxylase are significantly enriched and regulate the different pathways like riboflavin metabolism, phenyl propanoid biosynthesis, amino acid biosynthesis, isoflavonoid biosynthesis and indole alkaloid biosynthesis.

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Acknowledgements

BSY is thankful to the DST INSPIRE program for a fellowship. AM is thankful to MNNIT Allahabad for a TEQIPII grant.

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Authors and Affiliations

  1. Department of Biotechnology, Motilal Nehru National Institute of Technology, Allahabad, 211004, India

    Birendra Singh Yadav, Sameer Srivastava & Ashutosh Mani

  2. Centre of Bioinformatics, University of Allahabad, Allahabad, 211002, India

    Swati Singh

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  1. Birendra Singh Yadav
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  2. Swati Singh
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  4. Ashutosh Mani
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Correspondence to Ashutosh Mani.

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Communicated by Manchikatla Venkat Rajam.

Corresponding editor: Manchikatla Venkat Rajam

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Yadav, B.S., Singh, S., Srivastava, S. et al. Analysis of chickpea gene co-expression networks and pathways during heavy metal stress. J Biosci 44, 99 (2019). https://doi.org/10.1007/s12038-019-9899-x

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