{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,2]],"date-time":"2026-10-02T22:38:46Z","timestamp":1790980726886,"version":"4.1.0"},"reference-count":52,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T00:00:00Z","timestamp":1767225600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,7,29]],"date-time":"2025-07-29T00:00:00Z","timestamp":1753747200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100010665","name":"EU Framework Programme for Research and Innovation Marie Sk\u0142odowska-Curie Actions","doi-asserted-by":"publisher","award":["643063"],"award-info":[{"award-number":["643063"]}],"id":[{"id":"10.13039\/100010665","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000780","name":"European Commission","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000780","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100023561","name":"Government of Spain Ministry of Universities","doi-asserted-by":"publisher","award":["2021URV-MS-25"],"award-info":[{"award-number":["2021URV-MS-25"]}],"id":[{"id":"10.13039\/501100023561","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Food Microbiology"],"published-print":{"date-parts":[[2026,1]]},"DOI":"10.1016\/j.fm.2025.104886","type":"journal-article","created":{"date-parts":[[2025,7,28]],"date-time":"2025-07-28T23:25:06Z","timestamp":1753745106000},"page":"104886","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":2,"special_numbering":"C","title":["Comparative genomics and phenotypes of Oenococcus alcoholitolerans and Oenococcus oeni, two sister species adapted to ethanol-rich environments"],"prefix":"10.1016","volume":"133","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-1311-3146","authenticated-orcid":false,"given":"Aitor","family":"Balmaseda","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marc","family":"Lorentzen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lucie","family":"Duthil","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"C\u00e9cile","family":"Miot-Sertier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Olivier","family":"Claisse","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tue K.","family":"Nielsen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lars","family":"Hansen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Patrick","family":"Lucas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.fm.2025.104886_bib1","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1016\/j.foodres.2016.04.014","article-title":"Sugar cane spirit (cacha\u00e7a): effects of mixed inoculum of yeasts on the sensory and chemical characteristics","volume":"85","author":"Amorim","year":"2016","journal-title":"Food Res. Int."},{"key":"10.1016\/j.fm.2025.104886_bib2","doi-asserted-by":"crossref","first-page":"1259","DOI":"10.1007\/s10482-014-0296-z","article-title":"Oenococcus alcoholitolerans sp . nov ., a lactic acid bacteria isolated from cacha\u00e7a and ethanol fermentation processes","volume":"106","author":"Badotti","year":"2014","journal-title":"Antonie Leeuwenhoek"},{"key":"10.1016\/j.fm.2025.104886_bib3","doi-asserted-by":"crossref","first-page":"1540","DOI":"10.3390\/foods10071540","article-title":"Use of yeast mannoproteins by Oenococcus oeni during malolactic fermentation under different oenological conditions","volume":"10","author":"Balmaseda","year":"2021","journal-title":"Foods"},{"key":"10.1016\/j.fm.2025.104886_bib4","doi-asserted-by":"crossref","first-page":"534","DOI":"10.3389\/fmicb.2018.00534","article-title":"Non-Saccharomyces in wine: effect upon Oenococcus oeni and malolactic fermentation","volume":"9","author":"Balmaseda","year":"2018","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib5","doi-asserted-by":"crossref","DOI":"10.1016\/j.ijfoodmicro.2023.110276","article-title":"Alcoholic fermentation drives the selection of Oenococcus oeni strains in wine but not in cider","volume":"400","author":"Balmaseda","year":"2023","journal-title":"Int. J. Food Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib6","doi-asserted-by":"crossref","DOI":"10.1016\/j.ijfoodmicro.2021.109490","article-title":"Molecular adaptation response of Oenococcus oeni in non-Saccharomyces fermented wines: a comparative multi-omics approach","volume":"362","author":"Balmaseda","year":"2022","journal-title":"Int. J. Food Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib7","doi-asserted-by":"crossref","first-page":"15","DOI":"10.3390\/v15010015","article-title":"Phage encounters recorded in CRISPR arrays in the genus Oenococcus","volume":"15","author":"Barchi","year":"2023","journal-title":"Viruses"},{"key":"10.1016\/j.fm.2025.104886_bib8","doi-asserted-by":"crossref","first-page":"188","DOI":"10.1111\/ajgw.12436","article-title":"Oenococcus oeni, a species born and moulded in wine: a critical review of the stress impacts of wine and the physiological responses","volume":"26","author":"Bech-Terkilsen","year":"2020","journal-title":"Aust. J. Grape Wine Res."},{"key":"10.1016\/j.fm.2025.104886_bib9","doi-asserted-by":"crossref","first-page":"1291","DOI":"10.1128\/AEM.02563-08","article-title":"Multilocus sequence typing of Oenococcus oeni: detection of two subpopulations shaped by intergenic recombinations","volume":"75","author":"Bilh\u00e8re","year":"2009","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib10","doi-asserted-by":"crossref","first-page":"373","DOI":"10.1186\/1471-2164-13-373","article-title":"Comparative analysis of the Oenococcus oeni pan genome reveals genetic diversity in industrially-relevant pathways","volume":"13","author":"Borneman","year":"2012","journal-title":"BMC Genom."},{"key":"10.1016\/j.fm.2025.104886_bib11","doi-asserted-by":"crossref","first-page":"309","DOI":"10.20870\/oeno-one.2017.51.4.1861","article-title":"Two different Oenococcus oeni lineages are associated to either red or white wines in Burgundy : genomics and metabolomics insights","volume":"51","author":"Campbell-Sills","year":"2017","journal-title":"Oeno One"},{"key":"10.1016\/j.fm.2025.104886_bib12","doi-asserted-by":"crossref","first-page":"1506","DOI":"10.1093\/gbe\/evv084","article-title":"Phylogenomic analysis of Oenococcus oeni reveals specific domestication of strains to phylogenomic analysis of Oenococcus oeni reveals specific","volume":"7","author":"Campbell-Sills","year":"2015","journal-title":"Genome Biology Evolution"},{"key":"10.1016\/j.fm.2025.104886_bib13","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12864-016-3338-2","article-title":"Carbohydrate metabolism in Oenococcus oeni: a genomic insight","volume":"17","author":"Cibrario","year":"2016","journal-title":"BMC Genom."},{"key":"10.1016\/j.fm.2025.104886_bib15","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2018.00291","article-title":"Mapping the physiological response of Oenococcus oeni to ethanol stress using an extended genome-scale metabolic model","volume":"9","author":"Contreras","year":"2018","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib16","doi-asserted-by":"crossref","first-page":"114","DOI":"10.1016\/j.jprot.2015.04.019","article-title":"Complementing DIGE proteomics and DNA subarray analyses to shed light on Oenococcus oeni adaptation to ethanol in wine-simulated conditions","volume":"123","author":"Costantini","year":"2015","journal-title":"J. Proteonomics"},{"key":"10.1016\/j.fm.2025.104886_bib17","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/femsec\/fix048","article-title":"Unraveling microbial ecology of industrial-scale Kombucha fermentations by metabarcoding and culture-based methods","volume":"93","author":"Coton","year":"2017","journal-title":"FEMS Microbiol. Ecol."},{"key":"10.1016\/j.fm.2025.104886_bib18","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1016\/j.syapm.2018.12.006","article-title":"Oenococcus sicerae sp . nov ., isolated from French cider","volume":"42","author":"Cousin","year":"2019","journal-title":"Syst. Appl. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib19","doi-asserted-by":"crossref","first-page":"395","DOI":"10.1099\/00207713-45-2-395","article-title":"Proposal to reclassify Leuconostoc oenos as Oenococcus oeni [corrig.] gen. nov.,comb.nov","volume":"45","author":"Dicks","year":"1995","journal-title":"Int. J. Syst. Bacteriol."},{"key":"10.1016\/j.fm.2025.104886_bib20","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0098898","article-title":"Exopolysaccharide (EPS) synthesis by Oenococcus oeni: from genes to phenotypes","volume":"9","author":"Dimopoulou","year":"2014","journal-title":"PLoS One"},{"key":"10.1016\/j.fm.2025.104886_bib21","doi-asserted-by":"crossref","first-page":"2345","DOI":"10.1099\/ijs.0.64288-0","article-title":"Oenococcus kitaharae sp. nov., a non-acidophilic and non-malolactic-fermenting Oenococcus isolated from a composting distilled shochu residue","volume":"56","author":"Endo","year":"2006","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib22","doi-asserted-by":"crossref","DOI":"10.1016\/j.foodchem.2022.133860","article-title":"Exploring the unexplored: a characterization of vitamins and vitamers in white grape musts by high-performance liquid chromatography","volume":"398","author":"Evers","year":"2023","journal-title":"Food Chem."},{"key":"10.1016\/j.fm.2025.104886_bib23","doi-asserted-by":"crossref","DOI":"10.1016\/j.fm.2023.104330","article-title":"To be or not to be required: yeast vitaminic requirements in winemaking","volume":"115","author":"Evers","year":"2023","journal-title":"Food Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib24","first-page":"45","article-title":"Selection and characterization of autochthonous strains of Oenococcus oeni for vinification in Priorat (Catalonia , Spain)","volume":"51","author":"Franqu\u00e8s","year":"2018","journal-title":"OENO One"},{"key":"10.1016\/j.fm.2025.104886_bib25","doi-asserted-by":"crossref","first-page":"431","DOI":"10.1099\/00221287-48-3-431","article-title":"Leuconostoc oenos","volume":"48","author":"Garvie","year":"1967","journal-title":"J. Gen. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib26","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/1475-2859-10-S1-S22","article-title":"Specialized adaptation of a lactic acid bacterium to the milk environment: the comparative genomics of Streptococcus thermophilus LMD-9","volume":"10","author":"Goh","year":"2011","journal-title":"Microb. Cell Fact."},{"key":"10.1016\/j.fm.2025.104886_bib27","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1007\/s00248-011-9911-y","article-title":"Dynamics of indigenous lactic acid bacteria populations in wine fermentations from La Rioja (Spain) during three vintages","volume":"63","author":"Gonz\u00e1lez-Arenzana","year":"2012","journal-title":"Microb. Ecol."},{"key":"10.1016\/j.fm.2025.104886_bib28","doi-asserted-by":"crossref","first-page":"5614","DOI":"10.1128\/JB.187.16.5614-5623.2005","article-title":"CtsR is the master regulator of stress response gene expression in Oenococcus oeni","volume":"187","author":"Grandvalet","year":"2005","journal-title":"J. Bacteriol."},{"key":"10.1016\/j.fm.2025.104886_bib29","article-title":"Changes in membrane lipid composition in ethanol- and acid-adapted Oenococcus oeni cells","author":"Grandvalet","year":"2008","journal-title":"characterization of the cfa gene by heterologous complementation 2611\u20132619"},{"key":"10.1016\/j.fm.2025.104886_bib30","doi-asserted-by":"crossref","first-page":"3371","DOI":"10.1128\/AEM.00380-13","article-title":"Distribution and functions of phosphotransferase system genes in the genome of the lactic acid bacterium Oenococcus oeni","volume":"79","author":"Jamal","year":"2013","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib31","first-page":"729","article-title":"Chromosomal diversity in Lactococcus lactis and the origin of dairy starter cultures","volume":"2","author":"Kelly","year":"2010","journal-title":"Genome Biol Evol"},{"key":"10.1016\/j.fm.2025.104886_bib32","doi-asserted-by":"crossref","first-page":"953","DOI":"10.1007\/s00253-020-11080-2","article-title":"Thiamine: a key nutrient for yeasts during wine alcoholic fermentation","volume":"105","author":"Labuschagne","year":"2021","journal-title":"Appl. Microbiol. Biotechnol."},{"key":"10.1016\/j.fm.2025.104886_bib33","doi-asserted-by":"crossref","first-page":"325","DOI":"10.1016\/j.foodchem.2015.01.009","article-title":"Thiamin analysis in red wine by fluorescence reverse phase-HPLC","volume":"177","author":"Liddicoat","year":"2015","journal-title":"Food Chem."},{"key":"10.1016\/j.fm.2025.104886_bib34","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12864-019-5692-3","article-title":"Expanding the biodiversity of Oenococcus oeni through comparative genomics of apple cider and kombucha strains","volume":"20","author":"Lorentzen","year":"2019","journal-title":"BMC Genom."},{"key":"10.1016\/j.fm.2025.104886_bib35","doi-asserted-by":"crossref","first-page":"2973","DOI":"10.1128\/AEM.04178-13","article-title":"Adaptation of the wine bacterium Oenococcus oeni to ethanol stress: role of the small heat shock protein lo18 in membrane integrity","volume":"80","author":"Maitre","year":"2014","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib36","doi-asserted-by":"crossref","first-page":"15611","DOI":"10.1073\/pnas.0607117103","article-title":"Comparative genomics of the lactic acid bacteria","volume":"103","author":"Makarova","year":"2006","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.fm.2025.104886_bib37","doi-asserted-by":"crossref","first-page":"1554","DOI":"10.3389\/fmicb.2016.01554","article-title":"Transcriptomic and proteomic analysis of Oenococcus oeni adaptation to wine stress conditions","volume":"7","author":"Margalef-Catal\u00e0","year":"2016","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib38","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1016\/j.fm.2015.05.005","article-title":"Transcriptomic and proteomic analysis of Oenococcus oeni PSU-1 response to ethanol shock","volume":"51","author":"Olgu\u00edn","year":"2015","journal-title":"Food Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib39","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1016\/j.ijfoodmicro.2015.12.002","article-title":"Bacterial diversity of Grenache and Carignan grape surface from different vineyards at Priorat wine region (Catalonia, Spain)","volume":"219","author":"Portillo","year":"2016","journal-title":"Int. J. Food Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib40","series-title":"Handbook of Enology","article-title":"Handbook of enology: Volume 1, the microbiology of wine and vinifications","author":"Rib\u00e9reau-Gayon","year":"2006"},{"key":"10.1016\/j.fm.2025.104886_bib41","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1007\/s00203-003-0617-5","article-title":"Significance of phosphoglucose isomerase for the shift between heterolactic and mannitol fermentation of fructose by Oenococcus oeni","volume":"180","author":"Richter","year":"2003","journal-title":"Arch. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib42","doi-asserted-by":"crossref","first-page":"90","DOI":"10.3389\/fmicb.2018.00090","article-title":"Oenococcus oeni in Chilean red wines : technological and genomic characterization","volume":"9","author":"Romero","year":"2018","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib43","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1002\/j.2050-0416.1988.tb04545.x","article-title":"A survey of microbiological aspects of cider making","volume":"94","author":"Salih","year":"1988","journal-title":"J. Inst. Brew."},{"key":"10.1016\/j.fm.2025.104886_bib44","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.1574-6968.2008.01442.x","article-title":"Genomics of lactic acid bacteria","volume":"292","author":"Schroeter","year":"2009","journal-title":"FEMS Microbiol. Lett."},{"key":"10.1016\/j.fm.2025.104886_bib45","doi-asserted-by":"crossref","first-page":"5826","DOI":"10.1128\/AEM.69.10.5826-5832.2003","article-title":"Membrane fluidity adjustments in ethanol-stressed Oenococcus oeni cells","volume":"69","author":"Silveira","year":"2003","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.fm.2025.104886_bib46","doi-asserted-by":"crossref","first-page":"R381","DOI":"10.1016\/j.cub.2019.04.025","article-title":"Domestication of industrial microbes","volume":"29","author":"Steensels","year":"2019","journal-title":"Curr. Biol."},{"key":"10.1016\/j.fm.2025.104886_bib47","first-page":"1","article-title":"Consensus pan-genome assembly of the specialised wine bacterium Oenococcus oeni","volume":"17","author":"Sternes","year":"2016","journal-title":"BMC Genom."},{"key":"10.1016\/j.fm.2025.104886_bib48","doi-asserted-by":"crossref","first-page":"6028","DOI":"10.1021\/jf4002582","article-title":"Changes in RNA catabolites of sparkling wines during the biological aging","volume":"61","author":"Tudela","year":"2013","journal-title":"J. Agric. Food Chem."},{"key":"10.1016\/j.fm.2025.104886_bib49","doi-asserted-by":"crossref","first-page":"636","DOI":"10.1093\/nar\/gks1194","article-title":"MicroScope - an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data","volume":"41","author":"Vallenet","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.fm.2025.104886_bib50","doi-asserted-by":"crossref","first-page":"D517","DOI":"10.1093\/nar\/gkw1101","article-title":"MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes","volume":"45","author":"Vallenet","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.fm.2025.104886_bib51","first-page":"9274","article-title":"The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution","volume":"103","author":"Van de Guchte","year":"2006","journal-title":"FEMS Microbiol. Rev."},{"key":"10.1016\/j.fm.2025.104886_bib52","doi-asserted-by":"crossref","first-page":"9274","DOI":"10.1073\/pnas.0603024103","article-title":"The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution M","volume":"103","author":"van de Guchte","year":"2016","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.fm.2025.104886_bib53","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1371\/journal.pcbi.1005595","article-title":"Unicycler: resolving bacterial genome assemblies from short and long sequencing reads","volume":"13","author":"Wick","year":"2017","journal-title":"PLoS Comput. Biol."}],"container-title":["Food Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0740002025001662?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0740002025001662?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,3,6]],"date-time":"2026-03-06T08:30:38Z","timestamp":1772785838000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0740002025001662"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,1]]},"references-count":52,"alternative-id":["S0740002025001662"],"URL":"https:\/\/doi.org\/10.1016\/j.fm.2025.104886","relation":{},"ISSN":["0740-0020"],"issn-type":[{"value":"0740-0020","type":"print"}],"subject":[],"published":{"date-parts":[[2026,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Comparative genomics and phenotypes of Oenococcus alcoholitolerans and Oenococcus oeni, two sister species adapted to ethanol-rich environments","name":"articletitle","label":"Article Title"},{"value":"Food Microbiology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.fm.2025.104886","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 The Authors. Published by Elsevier Ltd.","name":"copyright","label":"Copyright"}],"article-number":"104886"}}