title: Transcriptome analysis in different rice cultivars provides novel insights into desiccation and salinity stress responses.
abstract: Drought and salinity are the major environmental factors that affect rice productivity. Comparative transcriptome analysis between tolerant and sensitive rice cultivars can provide insights into the regulatory mechanisms involved in these stress responses. In this study, the comparison of transcriptomes of a drought-tolerant [Nagina 22 (N22)] and a salinity-tolerant (Pokkali) rice cultivar with IR64 (susceptible cultivar) revealed variable transcriptional responses under control and stress conditions. A total of 801 and 507 transcripts were exclusively differentially expressed in N22 and Pokkali rice cultivars, respectively, under stress conditions. Gene ontology analysis suggested the enrichment of transcripts involved in response to abiotic stress and regulation of gene expression in stress-tolerant rice cultivars. A larger number of transcripts encoding for members of NAC and DBP transcription factor (TF) families in N22 and members of bHLH and C2H2 TF families in Pokkali exhibited differential regulation under desiccation and salinity stresses, respectively. Transcripts encoding for thioredoxin and involved in phenylpropanoid metabolism were up-regulated in N22, whereas transcripts involved in wax and terpenoid metabolism were up-regulated in Pokkali. Overall, common and cultivar-specific stress-responsive transcripts identified in this study can serve as a helpful resource to explore novel candidate genes for abiotic stress tolerance in rice.
authors.affiliation: Functional and Applied Genomics Laboratory, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi - 110067, India.
authors.forename: Rama
authors.initials: R
authors.lastname: Shankar
authors.affiliation: Functional and Applied Genomics Laboratory, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi - 110067, India.
authors.forename: Annapurna
authors.initials: A
authors.lastname: Bhattacharjee
authors.affiliation: Functional and Applied Genomics Laboratory, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi - 110067, India.|School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi-110067, India.
authors.forename: Mukesh
authors.initials: M
authors.lastname: Jain
mesh_terms: D055864:Droughts; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D063990:Gene Ontology; D058977:Molecular Sequence Annotation; D012275:Oryza / Q000145:classification / Q000235:genetics*; D064587:Osmoregulation / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics*; D054712:Salinity; D055049:Salt Tolerance / Q000235:genetics*; D013045:Species Specificity; D013312:Stress, Physiological / Q000235:genetics; D013879:Thioredoxins / Q000235:genetics; D014157:Transcription Factors / Q000235:genetics; D059467:Transcriptome
chemical_list: D010940:Plant Proteins; D014157:Transcription Factors; D013879:Thioredoxins