Publications of NIPGR Scientists

Permanent URI for this communityhttps://ndkr-library.nipgr.ac.in/handle/123456789/1

Browse

Author: search.filters.author.Rathi, DivyaStart date: 2021

Search Results

Now showing 1 - 5 of 5
  • Thumbnail Image
    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, Niranjan
    Global 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.
  • Thumbnail Image
    Item
    Suspension cell secretome of the grain legume Lathyrus sativus (grasspea) reveals roles in plant development and defense responses
    (Elsevier B.V., 2022) Rathi, Divya; Verma, Jitendra Kumar; Chakraborty, Subhra; Chakraborty, Niranjan
    Plant secretomics has been especially important in understanding the molecular basis of plant development, stress resistance and biomarker discovery. In addition to sharing a similar role in maintaining cell metabolism and biogenesis with the animal secretome, plant-secreted proteins actively participate in signaling events crucial for cellular homeostasis during stress adaptation. However, investigation of the plant secretome remains largely overlooked, particularly in pulse crops, demanding urgent attention. To better understand the complexity of the secretome, we developed a reference map of a stress-resilient orphan legume, Lathyrus sativus (grasspea), which can be utilized as a potential proteomic resource. Secretome analysis of L. sativus led to the identification of 741 nonredundant proteins belonging to a myriad of functional classes, including antimicrobial, antioxidative and redox potential. Computational prediction of the secretome revealed that ∼29% of constituents are predicted to follow unconventional protein secretion (UPS) routes. We conducted additional in planta analysis to determine the localization of two secreted proteins, recognized as cell surface residents. Sequence-based homology comparison revealed that L. sativus shares ∼40% of the constituents reported thus far from in vitro and in planta secretome analysis in model and crop species. Significantly, we identified 571 unique proteins secreted from L. sativus involved in cell-to-cell communication, organ development, kinase-mediated signaling, and stress perception, among other critical roles. Conclusively, the grasspea secretome participates in putative crosstalk between genetic circuits that regulate developmental processes and stress resilience.
  • Thumbnail Image
    Item
    Dissection of grasspea (Lathyrus sativus L.) root exoproteome reveals critical insights and novel proteins
    (Elsevier B.V., 2022) Rathi, Divya; Verma, Jitendra Kumar; Pareek, Akanksha; Chakraborty, Subhra; Chakraborty, Niranjan
    The plant exoproteome is crucial because its constituents greatly influence plant phenotype by regulating physiological characteristics to adapt to environmental stresses. The root exudates constitute a dynamic aspect of plant exoproteome, as its molecular composition ensures a beneficial rhizosphere in a species-specific manner. We investigated the root exoproteome of grasspea, a stress-resilient pulse and identified 2861 non-redundant proteins, belonging to a myriad of functional classes, including root development, rhizosphere augmentation as well as defense functions against soil-borne pathogens. Significantly, we identified 1986 novel exoproteome constituents of grasspea, potentially involved in cell-to-cell communication and root meristem maintenance, among other critical roles. Sequence-based comparison revealed that grasspea shares less than 30 % of its exoproteome with the reports so far from model plants as well as crop species. Further, the exoproteome revealed 65 % proteins to be extracellular in nature and of these, 37 % constituents were predicted to follow unconventional protein secretion (UPS) mode. We validated the UPS for four stress-responsive proteins, which were otherwise predicted to follow classical protein secretion (CPS). Conclusively, we recognized not only the highest number of root exudate proteins, but also pinpointed novel signatures of dicot root exoproteome.
  • Thumbnail Image
    Item
    Grasspea, a critical recruit among neglected and underutilized legumes, for tapping genomic resources
    (Elsevier B.V., 2021) Rathi, Divya; Chakraborty, Subhra; Chakraborty, Niranjan
    Environmental perturbations are persistent threats to sustainable agriculture, and thus recruitment of resilient crops, especially legumes, exhibiting agronomically important traits has become a priority for plant biologists. It is of utmost importance that the neglected and underutilized legumes (NULs) are identified and utilized as source of germane genes and gene-products, through concerted research platforms. In the present article, we analyzed the current status of NULs with specific emphasis to the potent utility of grasspea owing to its unique characters including stress adaptation, nutritional superiority and ease of cultivation. We have highlighted the landmarks in the history of grasspea, delineating the rapid progress achieved in grasspea biology during the past decades. Despite possession of a neurotoxic compound, β-N-oxalyl-L-α,β-diaminopropionic acid (β-ODAP), this neglected legume outshines most food crops with its distinct physicochemical attributes, health and agricultural benefits and resilience to environmental constraints. With the availability of genome sequence, grasspea is now established as an appropriate genetic resource for sustainable agriculture and phytoremediation rendering its genes, proteins and metabolites for targeted genetic manipulation. We conclude that grasspea would serve as a resource for plant translational genomics (TG) research, particularly resilience of legumes to environmental challenges.
  • Thumbnail Image
    Item
    The small heat shock proteins, chaperonin 10, in plants: An evolutionary view and emerging functional diversity
    (Elsevier B.V., 2021) Pareek, Akanksha; Mishra, Divya; Rathi, Divya; Verma, Jitendra Kumar; Chakraborty, Subhra; Chakraborty, Niranjan
    Small heat shock proteins (sHSPs) constitute a class of molecular chaperones, which are evolutionarily conserved yet diverse group of molecules, rapidly produced in response to stress. In this study, we sought to identify plant sHSPs, especially chaperonin 10 (Cpn10) family members in major evolutionary lineages, and determine their biological significance. Multiple sequence alignment of Cpn10 domains revealed divergent amino acids as well as conserved sites. Phylogenetic tree depicted the diversification and expansion of Cpn10 gene family. During the process of evolution, the Ka/Ks ratio of orthologous and paralogous pairs was <1, suggesting their evolutionary convergence and biological relevance. Functional annotations demonstrated that Cpn10 are involved in protein folding, regulation of metabolic processes and abiotic stress responses. Furthermore, subcellular localization prediction revealed that Cpn10 proteins are localized in multiple compartments, indicating a critical cell-coordinated defense. In-silico gene expression analysis exhibited their expression in most tissues examined, implying functional redundancy. Interactome analysis illustrated their interaction with chloroplast and mitochondrial genes, which are majorly involved in protein folding and assembly. The transcriptional regulation revealed their stress-responsive and distinct physiological roles. Our findings would contribute to new insights on the evolutionary history of Cpn10 gene family and the distinct biological roles.