Genome Analysis Suggests The Bacterial Family Acetobacteraceae is a Source of Undiscovered Specialized Metabolites

Genome Analysis Suggests The Bacterial Family Acetobacteraceae is a Source of Undiscovered Specialized Metabolites | 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 Genome Analysis Suggests The Bacterial Family Acetobacteraceae is a Source of Undiscovered Specialized Metabolites Juan David Guzman, Andreas Vilcinskas This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-722780/v1 This work is licensed under a CC BY 4.0 License Status: Published Journal Publication published 10 Nov, 2021 Read the published version in Antonie van Leeuwenhoek → Version 1 posted 5 You are reading this latest preprint version Abstract Acetobacteraceae is an economically important family of bacteria that is used for industrial fermentation in the food/feed sector and for the preparation of sorbose and bacterial cellulose. It comprises two major groups: acetous species (acetic acid bacteria) associated with flowers, fruits and insects, and acidophilic species, a phylogenetically basal and physiologically heterogeneous group inhabiting acid or hot springs, sludge, sewage and freshwater environments. Despite the biotechnological importance of the family Acetobacteraceae , the literature does not provide any information about its ability to produce specialized metabolites. We therefore constructed a phylogenomic tree based on concatenated protein sequences from 127 type strains of the family and predicted the presence of small-molecule biosynthetic gene clusters (BGCs) using the antiSMASH tool. This dual approach allowed us to associate certain biosynthetic pathways with particular taxonomic groups. We found that acidophilic and acetous species contain on average ~6 and ~3.4 BGCs per genome, respectively. All the Acetobacteraceae strains encoded proteins associated involved in hopanoid biosynthesis, with many also featuring genes encoding type-1 and type-3 polyketide and non-ribosomal peptide synthases, and enzymes for aryl polyene, lactone and ribosomal peptide biosynthesis. Our in silico analysis indicated that the family Acetobacteraceae is a potential source of many undiscovered bacterial metabolites and deserves more detailed experimental exploration. Biotechnology and Bioengineering Bacteriology Agroecology Acetobacteraceae phylogeny biosynthesis specialized metabolites Full Text Supplementary Files AvLfinalSupplementary.pdf Cite Share Download PDF Status: Published Journal Publication published 10 Nov, 2021 Read the published version in Antonie van Leeuwenhoek → Version 1 posted Editorial decision: Minor revisions 07 Sep, 2021 Reviews received at journal 29 Jul, 2021 Reviewers invited by journal 26 Jul, 2021 Editor assigned by journal 16 Jul, 2021 First submitted to journal 15 Jul, 2021 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-722780","acceptedTermsAndConditions":true,"allowDirectSubmit":false,"archivedVersions":[],"articleType":"Research Article","associatedPublications":[],"authors":[{"id":42092661,"identity":"cb84c27d-b22c-4745-aa0b-a565daeae0dd","order_by":0,"name":"Juan David Guzman","email":"data:image/png;base64,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","orcid":"https://orcid.org/0000-0003-4120-9065","institution":"Fraunhofer Institute for Molecular Biology and Applied Ecology","correspondingAuthor":true,"submittingAuthor":false,"prefix":"","firstName":"Juan","middleName":"David","lastName":"Guzman","suffix":""},{"id":42092662,"identity":"1a3487fe-4c09-458c-9426-7580608dee44","order_by":1,"name":"Andreas Vilcinskas","email":"","orcid":"","institution":"Fraunhofer Institute for Molecular Biology and Applied Ecology","correspondingAuthor":false,"submittingAuthor":false,"prefix":"","firstName":"Andreas","middleName":"","lastName":"Vilcinskas","suffix":""}],"badges":[],"createdAt":"2021-07-15 19:11:54","currentVersionCode":1,"declarations":"","doi":"10.21203/rs.3.rs-722780/v1","doiUrl":"https://doi.org/10.21203/rs.3.rs-722780/v1","draftVersion":[],"editorialEvents":[{"content":"https://doi.org/10.1007/s10482-021-01676-7","type":"published","date":"2021-11-10T20:03:10+00:00"}],"editorialNote":"","failedWorkflow":false,"files":[{"id":11929961,"identity":"edf99fdb-8f7b-4511-aac0-e97660f0af27","added_by":"auto","created_at":"2021-07-29 17:14:19","extension":"pdf","order_by":1,"title":"","display":"","copyAsset":false,"role":"supplement","size":893092,"visible":true,"origin":"","legend":"","description":"","filename":"AvLfinalSupplementary.pdf","url":"https://assets-eu.researchsquare.com/files/rs-722780/v1/b336e9475887da5c43d4533a.pdf"}],"financialInterests":"","formattedTitle":"\u003cp\u003eGenome Analysis Suggests The Bacterial Family \u003cem\u003eAcetobacteraceae \u003c/em\u003eis a Source of Undiscovered Specialized Metabolites\u003c/p\u003e","fulltext":[{"header":"Full Text","content":"This preprint is available for \u003ca href='/article/rs-722780/latest.pdf' target='_blank'\u003edownload as a PDF\u003c/a\u003e."}],"fulltextSource":"","fullText":"","funders":[],"hasAdminPriorityOnWorkflow":false,"hasManuscriptDocX":false,"hasOptedInToPreprint":true,"hasPassedJournalQc":"","hasAnyPriority":false,"hideJournal":false,"highlight":"","institution":"","isAcceptedByJournal":true,"isAuthorSuppliedPdf":true,"isDeskRejected":"","isHiddenFromSearch":false,"isInQc":false,"isInWorkflow":false,"isPdf":false,"isPdfUpToDate":true,"isWithdrawnOrRetracted":false,"journal":{"display":true,"email":"[email protected]","identity":"antonie-van-leeuwenhoek","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":false,"externalIdentity":"anto","sideBox":"Learn more about [Antonie van Leeuwenhoek](https://www.springer.com/journal/10482)","snPcode":"10482","submissionUrl":"https://submission.nature.com/new-submission/10482/3","title":"Antonie van Leeuwenhoek","twitterHandle":"","acdcEnabled":true,"dfaEnabled":true,"editorialSystem":"em","reportingPortfolio":"Springer Hybrid","inReviewEnabled":true,"inReviewRevisionsEnabled":false},"keywords":"Acetobacteraceae, phylogeny, biosynthesis, specialized metabolites","lastPublishedDoi":"10.21203/rs.3.rs-722780/v1","lastPublishedDoiUrl":"https://doi.org/10.21203/rs.3.rs-722780/v1","license":{"name":"CC BY 4.0","url":"https://creativecommons.org/licenses/by/4.0/"},"manuscriptAbstract":"\u003cp\u003e\u003cem\u003eAcetobacteraceae \u003c/em\u003eis an economically important family of bacteria that is used for industrial fermentation in the food/feed sector and for the preparation of sorbose and bacterial cellulose. It comprises two major groups: acetous species (acetic acid bacteria) associated with flowers, fruits and insects, and acidophilic species, a phylogenetically basal and physiologically heterogeneous group inhabiting acid or hot springs, sludge, sewage and freshwater environments. Despite the biotechnological importance of the family \u003cem\u003eAcetobacteraceae\u003c/em\u003e, the literature does not provide any information about its ability to produce specialized metabolites. We therefore constructed a phylogenomic tree based on concatenated protein sequences from 127 type strains of the family and predicted the presence of small-molecule biosynthetic gene clusters (BGCs) using the antiSMASH tool. This dual approach allowed us to associate certain biosynthetic pathways with particular taxonomic groups. We found that acidophilic and acetous species contain on average ~6 and ~3.4 BGCs per genome, respectively. 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