Publications of NIPGR Scientists
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Item Nuclear proteome reprogramming and acquired thermotolerance in chickpea exposed to escalating high-temperature stress(Elsevier B.V., 2026) Pareek, Akanksha; Wardhan, Vijay; Mishra, Divya; Rathi, Divya; Khan, Iqra Nafees; Subba, Pratigya; Saxena, Harshita; Jeevaraj, Theboral; Chakraborty, Subhra; Chakraborty, NiranjanGlobal chickpea (Cicer arietinum L.) production amounted to ∼17.55 MMT during 2024-2025, whose market size is valued at ∼$16.83 billion. Chickpea is highly susceptible to high-temperature stress (HTS), and its yield declines 10-15% with the rise in each degree of temperature. In this study, the HTS-responsive nuclear proteome of a thermotolerant chickpea cultivar ICC 1205 was investigated, leading to the identification of 2705 proteins, including 424 differentially regulated proteins designated as HTS-responsive (HRPs). Of these, 212 were shared between immediate (day-1) and later (day-4) stages of HTS, with 117 proteins specific to day-1 and 95 to day-4. Functional network analysis revealed a complex network of nuclear proteins involved in regulatory and stress-related functions. Detailed analysis of the proteome revealed several non-canonical proteins, suggesting HTS-responsive reprograming of the nuclear proteome landscape. The cross-species multiple abiotic stress responses recognized unique HRPs, reflecting genetic foundation that leads to crop adaptation. Comparison of protein and mRNA expression shed light on the intricate regulatory mechanisms of thermotolerance response in chickpea. The characterization of root-phototropism 2 protein (CaRPT2), a member of the NPH3 gene-family, showed significant regulations, particularly under dehydration stress and ABA treatments. Subcellular localization of CaRPT2 demonstrated its dual localization in both plasma membrane and nucleus. Analysis of physiological indices in atrpt2 loss-of function mutants in Arabidopsis demonstrated better germination rate, resilience and growth under progressive HTS, suggesting the putative role of RPT2 in regulating multiple stress-responsive genes.Item Dehydration-responsive chickpea chloroplast protein, CaPDZ1, confers dehydration tolerance by improving photosynthesis(John Wiley & Sons, 2022) Lande, Nilesh Vikram; Barua, Pragya; Gayen, Dipak; Wardhan, Vijay; Jeevaraj, Theboral; Kumar, Sunil; Chakraborty, Subhra; Chakraborty, NiranjanThe screening of a dehydration-responsive chloroplast proteome of chickpea led us to identify and investigate the functional importance of an uncharacterized protein, designated CaPDZ1. In all, we identified 14 CaPDZs, and phylogenetic analysis revealed that these belong to photosynthetic eukaryotes. Sequence analyses of CaPDZs indicated that CaPDZ1 is a unique member, which harbours a TPR domain besides a PDZ domain. The global expression analysis showed that CaPDZs are intimately associated with various stresses such as dehydration and oxidative stress along with certain phytohormone responses. The CaPDZ1-overexpressing chickpea seedlings exhibited distinct phenotypic and molecular responses, particularly increased photosystem (PS) efficiency, ETR and qP that validated its participation in PSII complex assembly and/or repair. The investigation of CaPDZ1 interacting proteins through Y2H library screening and co-IP analysis revealed the interacting partners to be PSII associated CP43, CP47, D1, D2 and STN8. These findings supported the earlier hypothesis regarding the role of direct or indirect involvement of PDZ proteins in PS assembly or repair. Moreover, the GUS-promoter analysis demonstrated the preferential expression of CaPDZ1 specifically in photosynthetic tissues. We classified CaPDZ1 as a dehydration-responsive chloroplast intrinsic protein with multi-fold abundance under dehydration stress, which may participate synergistically with other chloroplast proteins in the maintenance of the photosystem.Item Calcium-dependent changes in physicochemical properties and the proteome dynamics influence dehydration responses in rice(Elsevier B.V., 2020) Rai, Yogita; Wardhan, Vijay; Gupta, Deepti Bhushan; Chakraborty, NiranjanThe cytosolic Ca2+ ([Ca2+]cyt), in plants serves as secondary messenger during development and stress adaptive responses. While several of the components of Ca2+-signalling, especially involved in water-deficit stress or dehydration are known, the underlying mechanism of such regulations remain poorly understood. In this study, we investigated the Ca2+-mediated alleviation of dehydration stress in rice. The physicochemical indices of the rice seedlings pretreated with CaCl2, followed by dehydration treatment displayed better maintenance of relative water content (RWC) and cell membrane integrity, besides peroxide levels. CaCl2-pretreated seedling showed stimulation of antioxidants contributing to long-term survival under dehydration stress. Contrastingly, blocking of Ca2+-channels aggravated the dehydration-induced damage, suggesting a crucial role of Ca2+-signalling in stress adaptation. The cytosolic proteome profiling of CaCl2-pretreated seedlings revealed 100 distinct proteins that include 56 dehydration-responsive proteins (DRPs), presumably involved in adaptive responses. A critical screening of the proteome led to the identification of a MADS-box transcription factor family protein, designated OsMADS23. The predicted structure and nuclear localization indicated that OsMADS23 might bind to nucleic acids, suggesting its possible role in transcriptional regulation. The stimulation of stress-responsive expression of OsMADS23 by Ca2+ demonstrated its participation in Ca2+-dependent signalling. Altogether, these results indicate the Ca2+-dependent dehydration response in plants and substantiate the function of a MADS-box protein in the cross-talk of developmental and stress-responsive pathways.