Unveiling Integrative Computational Analysis and Functional Profiling of GhSOS1 gene family in response to dual stresses Drought and Salinity in Gossypium hirsutum L.

Unveiling Integrative Computational Analysis and Functional Profiling of GhSOS1 gene family in response to dual stresses Drought and Salinity in Gossypium hirsutum L. | Research Square window.SnipcartSettings = { analytics: { enabled: false } }; (function() { var accessVector = localStorage.getItem('access_vector') || ''; window.dataLayer = window.dataLayer || []; if (accessVector) { window.dataLayer.push({ user: { profile: { profileInfo: { snid: accessVector } } } }); } })(); (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src='https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-K279D39R'); Browse Preprints In Review Journals COVID-19 Preprints AJE Video Bytes Research Tools Research Promotion AJE Professional Editing AJE Rubriq About Preprint Platform In Review Editorial Policies Our Team Advisory Board Help Center Sign In Submit a Preprint Cite Share Download PDF Research Article Unveiling Integrative Computational Analysis and Functional Profiling of GhSOS1 gene family in response to dual stresses Drought and Salinity in Gossypium hirsutum L. Laraib Iqra, Muhammad Naveed Shahid, Umar Akram, Usman Arif This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-7788692/v1 This work is licensed under a CC BY 4.0 License Status: Posted Version 1 posted You are reading this latest preprint version Abstract Background The global production of upland cotton ( Gossypium hirsutum ) has declined in recent years due to increasing drought and salinity stress. SOS1 gene family plays a key role in maintaining ion homeostasis and enhancing stress resilience. Methods A genome-wide study was conducted to identify SOS1 genes, including analyses of gene structure, motifs, chromosomal distribution, phylogenetic relationships, Ka/Ks ratios, cis-regulatory elements, protein–protein interactions, 3D structures, and phosphorylation sites. Fifteen paralogs of G. hirsutum were identified and functionally characterized. For the validation of in-silico findings, expression of 15 genes was profiled during salt and drought stress by RNA-seq data that was available publicly and finally it led to selection of five highly responsive species. After exposing cotton seedlings to 400mM NaCl and 20% PEG, quantitative Realtime PCR was performed with different time intervals (0h, 3h, 6h, and 12 h). Results The presence of cis-regulatory elements, including ABRE, DRE/CRT, MYB sites, and other transcription factor motifs, further confirmed their stress response role. Ka/Ks analysis indicated strong conservation among gene paralogs, with most under purifying selection. Protein–protein interaction analysis revealed SOS1 association with antiporters, facilitating Na⁺ efflux across the plasma membrane to reduce drought and salinity effects. Prominent transcriptional changes induced by stress was confirmed by qPCR results. The results showed consistency with in-silico predictions by up-regulation of GhSOS1-5 and GhSOS1-11 . Conclusions Collectively, this is a comprehensive study of the SOS1 family in G. hirsutism which highlights its roles in conferring abiotic stress tolerance. These findings will serve as a valuable resource for molecular breeding. Insilico characterization of SOS1 Cis-regulatory elements phylogenetic analysis qPCR validation of GhSOS1 Full Text Additional Declarations No competing interests reported. Supplementary Files Table2.xlsx Table1.xlsx TableS1.docx Cite Share Download PDF Status: Posted Version 1 posted You are reading this latest preprint version Research Square lets you share your work early, gain feedback from the community, and start making changes to your manuscript prior to peer review in a journal. As a division of Research Square Company, we’re committed to making research communication faster, fairer, and more useful. We do this by developing innovative software and high quality services for the global research community. Our growing team is made up of researchers and industry professionals working together to solve the most critical problems facing scientific publishing. Also discoverable on Platform About Our Team In Review Editorial Policies Advisory Board Help Center Resources Author Services Accessibility API Access RSS feed Manage Cookie Preferences © Research Square 2026 | ISSN 2693-5015 (online) Privacy Policy Terms of Service Do Not Sell My Personal Information {"props":{"pageProps":{"initialData":{"identity":"rs-7788692","acceptedTermsAndConditions":true,"allowDirectSubmit":true,"archivedVersions":[],"articleType":"Research Article","associatedPublications":[],"authors":[{"id":533039921,"identity":"6ef709ef-82db-403c-91ff-23d8234da1d0","order_by":0,"name":"Laraib 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Fifteen paralogs of G. hirsutum were identified and functionally characterized. For the validation of in-silico findings, expression of 15 genes was profiled during salt and drought stress by RNA-seq data that was available publicly and finally it led to selection of five highly responsive species. After exposing cotton seedlings to 400mM NaCl and 20% PEG, quantitative Realtime PCR was performed with different time intervals (0h, 3h, 6h, and 12 h).\u003c/p\u003e\u003ch2\u003eResults\u003c/h2\u003e\u003cp\u003eThe presence of cis-regulatory elements, including ABRE, DRE/CRT, MYB sites, and other transcription factor motifs, further confirmed their stress response role. Ka/Ks analysis indicated strong conservation among gene paralogs, with most under purifying selection. Protein\u0026ndash;protein interaction analysis revealed \u003cem\u003eSOS1\u003c/em\u003e association with antiporters, facilitating Na⁺ efflux across the plasma membrane to reduce drought and salinity effects. Prominent transcriptional changes induced by stress was confirmed by qPCR results. The results showed consistency with in-silico predictions by up-regulation of \u003cem\u003eGhSOS1-5\u003c/em\u003e and \u003cem\u003eGhSOS1-11\u003c/em\u003e.\u003c/p\u003e\u003ch2\u003eConclusions\u003c/h2\u003e\u003cp\u003eCollectively, this is a comprehensive study of the \u003cem\u003eSOS1\u003c/em\u003e family in G. hirsutism which highlights its roles in conferring abiotic stress tolerance. 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