Browsing by Author "Shweta"

Filter results by typing the first few letters
Now showing 1 - 2 of 2
  • Thumbnail Image
    Item
    Genome-wide characterization of Major Intrinsic Protein (MIP) gene family in Brachypodium distachyon
    (Bentham Science, 2018) Saddhe, Ankush Ashok; Shweta; Mosa, Kareem A.; Kumar, Kundan; Prasad, Manoj; Dhankher, Om Parkash
    Background: Major intrinsic proteins (MIPs) are membrane channel proteins which maintain water homeostasis and permeable to small molecules across the membrane. Objective: Genome analysis of Brachypodium MIPs (BdMIPs) gene family and in silico studies are based on available bioinformatic tools. Further comparison and evolutionary study of MIPs members were performed within grass family. Method: MIPs sequences were retrieved from Gramene database, aligned and weblogo was generated. Physio-chemical analysis was performed and phylogenetic tree was constructed by neighbor-joining. In silico expression profile of BdMIP genes was searched and image maps were generated by CIMMiner web-based server. Result: Genome wide analysis of B. distachyon identified 33MIP genes and classified into four major groups. Analysis of motifs and transmembrane domains strongly supported their identity as a member of the MIP super family. Duplication analysis revealed that 4 genes were tandemly duplicated and no segmental duplication events in BdMIPs were observed. Prediction of cis-elements in BdMIP promoter region gave more insight into regulation mechanism under hormonal and stress conditions. In silico expression profile under development stages provided insight into expression pattern of BdMIP genes. Conclusion: Total 33 MIPs were predicted in Brachypodium genome. Tandem duplication event was dominant phenomenon over segmental duplication in BdMIPs. Orthology analysis revealed Brachypodium MIP members were close to grass family MIP members compared to Arabidopsis. Compilation of this work will significantly contribute to the understanding of an evolutionary and biological importance of MIP genes in grass family and thus provide a set up for functional genomics studies in Brachypodium.
  • Thumbnail Image
    Item
    Genome-wide investigation of GRAM-domain containing genes in rice reveals their role in plant-rhizobacteria interactions and abiotic stress responses
    (Elsevier B.V., 2020) Tiwari, Shalini; Shweta; Prasad, Manoj; Lata, Charu
    A comprehensive genome-wide survey of GRAM-domain containing genes in rice identified total 64 genes which were grouped into six classes and were physically mapped onto different rice chromosomes. GRAM domain-containing genes showed total 8 segmental and 3 tandem duplications. Comparative physical mapping between rice OsGRAM and its orthologs in related C4-crops depicted evolutionary insights into this gene family. Expression analyses of OsGRAM genes in rice roots subjected to salt stress with or without Bacillus amyloliquefaciens (SN13) inoculation revealed significant differential expression patterns suggesting their crucial role in beneficial plant-rhizobacteria interactions under stress. Further, expression analyses of selected 15 candidate genes with ≥3.0-fold induction in salt + SN13 treated samples indicated their precise and overlapping expression patterns under various abiotic stresses and phytohormones at early (1 h) and late (24 h) durations which might be ultimately responsible for functional divergence and beneficial plant-microbe interactions. Furthermore, OsGRAM27 and OsGRAM47 could be considered as potential candidate genes for further functional characterization and application in crop improvement since these genes showed positive modulation in stress under the influence of SN13. This study provides new dimensions into the evolution and divergence of OsGRAM and their role in plant-rhizobacteria interactions that could be utilized for improving stress tolerance in crops.