Surabhi Shriram Rode

Surabhi Shriram Rode

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Surabhi Shriram Rode

Department of Biological Sciences and Engineering, Indian Institute of Technology Gandhinagar, Palaj, Gujarat 382355, India

Research Focus & Metrics

Academic Career Length

4Years (2023-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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23 August 2024 in Scientific Reports
Verified
Journal Article
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HKHarry Kaur
Harry Kaur
SSSimranjeet Singh
Simranjeet Singh
SRSurabhi Rode
Surabhi Rode
PCPANKAJ CHAUDHARY
PANKAJ CHAUDHARY
Nadeem A KhanNadeem A Khan
Nadeem A Khan
ASAshwani Kumar Sharma
Ashwani Kumar Sharma
Electrospinning stands out as a flexible and viable method, presenting designed nanoscale materials with customized properties. This research demonstrates the immobilization of carboxylesterase protein Ha006a, reported for its adequacy in pesticide bioremediation by utilizing the electrospinning strategy. This strategy was utilized to create nanofibers by incorporating variable mixtures of biodegradable and cost-effective polyvinyl alcohol (PVA)-chitosan (CS) nanofiber solution (PVA100, PVA96, PVA94, PVA92 and PVA90). All the mixtures were electrospun at a reliable voltage of 21 kV, maintaining a gap of 12 cm from the nozzle. The Ha006a, sourced from Helicoverpa armigera, was consolidated into the optimized PVA90 polymer mixture. The electrospun nanofibers experienced comprehensive characterization utilizing distinctive microscopy and spectroscopy procedures counting FESEM, TGA, XRD and FTIR. The comparative investigation of the esterase property, ideal parameters and stability of the unbound and bound/immobilized Ha006a was scrutinized. The results uncovered an essential elevation in the ideal conditions of enzyme activity post-immobilization. The PVA-CS control nanofiber and Ha006a-PVA-CS showed a smooth structure, including an average breadth of around 170.5 ± 44.2 and 222.5 ± 66.5 nm, respectively. The enzyme-immobilized nanofibers displayed upgraded stability and comprehensive characterization of the nanofiber, which guaranteed genuineness and reproducibility, contributing to its potential as a potent device for bioremediation applications. This investigation opens the way for the manufacture of pesticide-resistant insect enzyme-based nanofibers, unlocking their potential for assorted applications, counting pesticide remediation and ensuring environmental sustainability.


3 June 2026 in bioRxiv
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SRSurabhi Shriram Rode
Surabhi Shriram Rode
KSKarthik Sudarsanam
Karthik Sudarsanam
HBHemal Bhalla
Hemal Bhalla
ASAshutosh Srivastava
Ashutosh Srivastava
SSSubramanian Sankaranarayanan
Subramanian Sankaranarayanan
Background: Plant development is a multifaceted process governed by intricate protein regulatory networks. High-throughput sequencing methods have vastly expanded plant transcriptomic and proteomic datasets, yet there is a large discrepancy between structural information for plant developmental proteins and the UniProt sequence entries. Advances in X-ray crystallography, NMR spectroscopy, and Cryo-EM have enabled the determination of protein complex structures and their dynamics. AI-driven tools like AlphaFold have revolutionized analysis of protein structural intricacies. However, available three-dimensional structural models predominantly prioritize the human proteome and other mammals over plants. Assessing structural coverage of plant developmental proteins is thus essential to identify research gaps, guide structure-function studies, and advance agriculture. Results: Here, we focus on mapping the structural coverage of developmental proteins in Arabidopsis thaliana . We observed a substantial disparity in the Protein Data Bank (PDB) representation of Arabidopsis thaliana proteins compared to those of Homo sapiens. Our analysis identified 16,389 reviewed UniProt entries, of which only 1,038 have experimentally determined structures. Functional mapping using PlantGSEA revealed 3,485 proteins associated with plant developmental processes; of which only 337 (9.67%) have experimentally determined structures. In contrast, analysis of the AlphaFold database showed that 69.85% of the 39,278 Arabidopsis thaliana UniProt protein entries have predicted structures. Notably, all 3,485 plant developmental proteins (100%) from Arabidopsis thaliana are covered by AlphaFold models. The substantially higher structural coverage provided by AlphaFold for Arabidopsis thaliana, relative to Homo sapiens, highlights the strength of computational approaches in addressing the challenges of structural studies of difficult-to-crystallize proteins. Furthermore, 79.15% of reviewed A. thaliana protein models exhibit high confidence (pLDDT > 70), indicating reliable structural predictions. Although the experimental structural coverage of Arabidopsis thaliana developmental proteins remains limited, AlphaFold has markedly expanded the accessible structural landscape. Conclusion: This study investigated the structural coverage of Arabidopsis thaliana plant developmental proteins, underscoring the critical need for structural studies using both experimental and AlphaFold approaches. It provides research directions for bridging the knowledge gap in understanding molecular mechanisms of plant development.

28 March 2026 in bioRxiv
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Preprint
Open access
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HBHemal Bhalla
Hemal Bhalla
KAKumari Ankita
Kumari Ankita
AAAman Ahlawat
Aman Ahlawat
SRSurabhi Shriram Rode
Surabhi Shriram Rode
KSKunwar Harendra Singh
Kunwar Harendra Singh
SSSubramanian Sankaranarayanan
Subramanian Sankaranarayanan
Self-incompatibility (SI), a reproductive mechanism that prevents self-pollen from fertilizing the ovule, is widespread in flowering plants, including the Brassicaceae family, where it promotes outcrossing, genetic diversity, and hybrid vigor. Although prevalent in Brassica rapa , an economically vital crop, it remains poorly characterized in widely grown varieties, such as toria and yellow sarson, with prior studies primarily focused on Brassica napus . Given its potential for hybrid breeding and crop improvement in rapeseed ( B. rapa ), we characterized key SI-regulatory genes, analyzing their phylogenetic relationships, structure-function dynamics, and expression patterns. Our results indicate sequence, structural, and functional homology as well as conservation with previously known candidates. This study identifies SRK, FER, and ARC1 as essential, while MLPK plays a minor role in SI for the varieties under study. Furthermore, we identified that SRK, FER, and MLPK activate ROS during the SI response, while ARC1 does not. Our findings establish a foundation for harnessing this natural system to integrate agriculturally important traits and sustain them across generations via outcrossing.