Browsing by Author "Trivedi, Prabodh K."

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    Genome-wide identification and interactome analysis of members of two-component system in Banana
    (BioMed Central Ltd, 2019) Dhar, Yogeshwar V.; Lakhwani, Deepika; Pandey, Ashutosh; Singh, Shikha; Trivedi, Prabodh K.; Asif, Mehar H.
    BACKGROUND: Ethylene signal transduction in plants is conducted by the two-component system (TCS) which consists of histidine kinase (HK), histidine phosphotransferase (HPT) and response regulators (RRs). This system plays an important role in signal transduction during various cellular processes, including fruit ripening and response to multiple environmental cues. Though members of TCS have been identified in a few plants, no detailed analysis has been carried out in banana. RESULTS: Through genome-wide analysis, we identified a total of 80 (25 HK, 10 HPT and 45 RR) and 72 (25 HK, 5 HPT and 42 RR) TCS genes in Musa acuminata and Musa balbisiana respectively. The analysis of identified genes revealed that most of the genes are highly conserved however; there are subtle divergences among various members. Comparative expression analysis revealed an involvement of a set of TCS members during banana fruit ripening. Co-expression network analysis identified a working TCS module with direct interactions of HK-HPT and RR members. The molecular dynamics analysis of TCS module showed a significant change in structural trajectories of TCS proteins in the presence of ethylene. Analysis suggests possible interactions between the HK-HPTs and RRs as well as other members leading to banana fruit ripening. CONCLUSIONS: In this study, we identified and compared the members of TCS gene family in two banana species and showed their diversity, within groups on the basis of whole-genome duplication events. Our analysis showed that during banana fruit ripening TCS module plays a crucial role. We also demonstrated a possible interaction mechanism of TCS proteins in the presence and absence of ethylene by molecular dynamics simulations. These findings will help in understanding the functional mechanism of TCS proteins in plants in different conditions.
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    Novel microRNAs regulating ripening-associated processes in banana fruit
    (Springer Nature Publishing AG, 2020) Lakhwani, Deepika; Sanchita; Pandey, Ashutosh; Sharma, Deepika; Asif, Mehar H.; Trivedi, Prabodh K.
    MicroRNAs (miRNAs) modulate gene expression and regulate various physiological and developmental processes in plants. During fruit ripening phase, several physiological and biochemical variations take place resulting changes in colour and texture, softening and production of aroma volatiles. A number of pathways leading to cell wall hydrolysis, ethylene signaling, biosynthesis of fatty acids, esters and a number of secondary plant products play important role during fruit ripening. However, detailed analysis of various processes regulated by miRNAs has not been studied in detailed in a number of fruits. In this study, we sequenced small RNA libraries from ripe and un-ripe fruit of Banana (Musa acuminata), an important and staple food crop, to identify miRNAs regulating fruit ripening. Our analysis identifed a number of novel miRNAs which are diferentially expressed during fruit ripening. These novel miRNAs were analyzed for their precursors, chromosome localization and targets. Some of these miRNAs were identifed to target genes involved in miRNA biogenesis, fruit softening and aroma biosynthesis. This study advances our knowledges in the area of fruit ripening process regulated by miRNAs.