Institutional Publications

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Start date: 2024Subject: search.filters.subject.transcriptional regulation

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    Decoding rice seed storage proteins: From gene identification to structural prediction
    (Oxford University Press, 2026) Yadav, Antima; Jaiswal, Priya; Mathew, Iny Elizebeth; Panwar, Akanksha; Agarwal, Pinky
    Background and Aims: Rice seed storage proteins (SSPs) are major determinants of grain nutritional quality, serving as primary sources of dietary protein, energy, and essential nutrients. However, limited understanding of their diversity, evolution, and regulation constrains efforts to improve grain quality. This study aimed to perform a comprehensive genome-wide characterization of SSPs in rice. Methods: A combined homology- and domain-based approach was employed to identify SSP-encoding genes in the rice genome. These proteins were further analysed through phylogenetic reconstruction, domain and motif characterization, promoter cis-element analysis, expression profiling across seed developmental stages, and three-dimensional structural modelling. Key Results: A total of 65 SSP genes were identified, including 19 previously uncharacterized members. Phylogenetic and domain analyses revealed evolutionary relationships between albumins and prolamins, and between globulins and glutelins. Tandem clustering of albumins, glutelins, and prolamins suggested gene duplication as a major driver of SSP family expansion. Expression profiling indicated that albumins, globulins, and glutelins were transcriptionally active from the S2 stage, whereas prolamins were predominantly expressed from the S3 stage onwards. Promoter analysis identified several seed-specific cis-regulatory elements, including CAATBOX1, EBOXBNNAPA, and DOFCOREZM. Structural modelling showed that albumins and prolamins are primarily composed of α-helices, while globulins and glutelins are enriched in β-strands and coils. Conclusions: This integrative analysis provides comprehensive insights into the classification, evolution, regulatory mechanisms, and structural features of rice SSPs. The findings establish a valuable resource for future functional studies and offer a foundation for strategies aimed at improving grain nutritional quality.
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    Editorial: Plant transcription factors associated with abiotic stress tolerance in crops and wild-relatives
    (Frontiers Media S.A., 2024) Puglia, Giuseppe Diego; Frugis, Giovanna; Yadav, Gitanjali
    Editorial on the Research Topic Plant transcription factors associated with abiotic stress tolerance in crop and wild-relatives Global climate change (GCC), by altering the intensity and frequency of potentially damaging weather events such as droughts, waterlogging, heat waves, and cold spells, has altered seasonal weather patterns, causing severe problems for plant crops and wildlife species (Cramer et al., 2011; Asseng et al., 2015; Minoli et al., 2019). To cope with these challenges, plants have evolved complex regulatory mechanisms that enable them to respond and adapt to changing environmental conditions, while maintaining a balance between optimal growth and stress (Eckardt et al., 2023). This Research Topic brings together several contributions that highlight the role of transcriptional regulation in plant responses to abiotic stresses and hypothesise its role in stress tolerance. The studies published in this Research Topic deal with well-recognised groups of transcription factors (TFs), but also with new ones whose association with the response to abiotic stresses has been demonstrated by recent molecular advances. This evidence allows us to shed light on the mechanisms by which plants respond to different stresses, with a focus on abiotic stresses such as salt, drought, cold, and waterlogging.