Integrated Transcriptomic and DNA Methylomic Analysis of Yarrowia lipolytica in response to La(III)/Ce(III) Stress

Integrated Transcriptomic and DNA Methylomic Analysis of Yarrowia lipolytica in response to La(III)/Ce(III) Stress | 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 Integrated Transcriptomic and DNA Methylomic Analysis of Yarrowia lipolytica in response to La(III)/Ce(III) Stress Jingqi Liu, Huangfeng Qiu, Donghua Tan, Yuting Liang, Haiyan Wu, and 2 more This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-7219780/v1 This work is licensed under a CC BY 4.0 License Status: Under Review Version 1 posted 9 You are reading this latest preprint version Abstract Rare earth elements (REEs), as strategic resources, cause severe pollution and ecological degradation through chemical leaching processes. Bioremediation technology offers an efficient green alternative for REE recovery from wastewater. This study investigated Yarrowia lipolytica to elucidate its efficient adsorption mechanisms and stress adaptation towards La(III)/Ce(III). Phenotypic analysis revealed that the strain enhances adsorption capacity for La(III)/ Ce(III) by increasing specific surface area through dimorphic transition. Under optimal conditions, adsorption rates reached 84.33% for La(III) and 87.21% for Ce(III). Adsorption kinetics followed a pseudo-second-order model (indicating chemisorption dominance), and isotherms conformed to the Langmuir model (suggesting monolayer adsorption). FTIR and XPS analyses identified cell surface -OH groups as key active sites, directly capturing REE ions via complexation. Integrated transcriptomic and DNA methylomic analyses uncovered interaction mechanisms and stress responses: La(III) exposure inhibited glycolysis/TCA cycle genes while activating peroxisome pathways (antioxidant defense) and ABC transporters (ion efflux). Ce(III) exposure specifically suppressed amino acid metabolism (e.g., glutamate pathway). Whole-genome methylation levels decreased significantly with preferential methylation in CHH contexts. 10 (La(III)) and 4 (Ce(III)) were identified differentially expressed genes accompanied by altered methylation levels, demonstrating DNA methylation-mediated regulation of La(III)/Ce(III) resistance genes. This study lays a theoretical foundation for bioremediation of REE pollution. Rare earth ion stress，Yarrowia lipolytica Tolerance Adsorption Transcriptomics DNA methylationomics Full Text Additional Declarations No competing interests reported. Supplementary Files Additionalfiles1tabels.docx Cite Share Download PDF Status: Under Review Version 1 posted Editorial decision: Revision requested 30 Oct, 2025 Reviews received at journal 22 Aug, 2025 Reviewers agreed at journal 13 Aug, 2025 Reviewers agreed at journal 12 Aug, 2025 Reviewers agreed at journal 08 Aug, 2025 Reviewers invited by journal 08 Aug, 2025 Editor assigned by journal 31 Jul, 2025 Submission checks completed at journal 31 Jul, 2025 First submitted to journal 26 Jul, 2025 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. 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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-7219780","acceptedTermsAndConditions":true,"allowDirectSubmit":false,"archivedVersions":[],"articleType":"Research Article","associatedPublications":[],"authors":[{"id":499934274,"identity":"777a6832-b7f4-4753-850c-150362536825","order_by":0,"name":"Jingqi Liu","email":"","orcid":"","institution":"Central South University","correspondingAuthor":false,"prefix":"","firstName":"Jingqi","middleName":"","lastName":"Liu","suffix":""},{"id":499934276,"identity":"23908e55-b7a3-414f-ad72-d125695ebdfc","order_by":1,"name":"Huangfeng Qiu","email":"","orcid":"","institution":"Central South 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