{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,26]],"date-time":"2026-10-26T05:32:53Z","timestamp":1792992773908,"version":"4.5.0"},"reference-count":32,"publisher":"Springer Science and Business Media LLC","issue":"11","license":[{"start":{"date-parts":[[2026,8,13]],"date-time":"2026-08-13T00:00:00Z","timestamp":1786579200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2026,8,13]],"date-time":"2026-08-13T00:00:00Z","timestamp":1786579200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"name":"Ewha Womans University","id":[{"id":"https:\/\/ror.org\/053fp5c05","id-type":"ROR","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Arch Microbiol"],"published-print":{"date-parts":[[2026,11]]},"DOI":"10.1007\/s00203-026-05126-8","type":"journal-article","created":{"date-parts":[[2026,8,13]],"date-time":"2026-08-13T11:41:16Z","timestamp":1786621276000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Comparative genomic and functional analysis of Staphylococcus caprae clinical isolates: insights into genetic diversity and opportunistic pathogenic potential"],"prefix":"10.1007","volume":"208","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7804-9264","authenticated-orcid":false,"given":"Yu-Hee","family":"Kim","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6217-4351","authenticated-orcid":false,"given":"Junghun","family":"Park","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0002-0021-4124","authenticated-orcid":false,"given":"Ha Young","family":"Yun","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0003-5537-961X","authenticated-orcid":false,"given":"Bomi","family":"Yoon","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-9234-9582","authenticated-orcid":false,"given":"Minkyung","family":"Shin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6382-4099","authenticated-orcid":false,"given":"Hae-Sun","family":"Chung","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0972-9271","authenticated-orcid":false,"given":"Jae Hyang","family":"Lim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1468-4074","authenticated-orcid":false,"given":"Hee Jung","family":"Choi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,8,13]]},"reference":[{"key":"5126_CR1","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1186\/1471-2164-12-402","volume":"12","author":"NF Alikhan","year":"2011","unstructured":"Alikhan NF, Petty NK, Ben Zakour NL, Beatson SA (2011) BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons. BMC Genomics 12:402. https:\/\/doi.org\/10.1186\/1471-2164-12-402","journal-title":"BMC Genomics"},{"key":"5126_CR2","doi-asserted-by":"publisher","unstructured":"Argemi X, Hansmann Y, Prola K, Prevost G (2019) Coagulase-Negative Staphylococci Pathogenomics. Int J Mol Sci 20. https:\/\/doi.org\/10.3390\/ijms20051215","DOI":"10.3390\/ijms20051215"},{"key":"5126_CR3","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1089\/cmb.2012.0021","volume":"19","author":"A Bankevich","year":"2012","unstructured":"Bankevich A et al (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455\u2013477. https:\/\/doi.org\/10.1089\/cmb.2012.0021","journal-title":"J Comput Biol"},{"key":"5126_CR4","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1128\/CMR.00059-12","volume":"26","author":"A Beceiro","year":"2013","unstructured":"Beceiro A, Tomas M, Bou G (2013) Antimicrobial resistance and virulence: a successful or deleterious association in the bacterial world? Clin Microbiol Rev 26:185\u2013230. https:\/\/doi.org\/10.1128\/CMR.00059-12","journal-title":"Clin Microbiol Rev"},{"key":"5126_CR5","doi-asserted-by":"publisher","first-page":"870","DOI":"10.1128\/CMR.00109-13","volume":"27","author":"K Becker","year":"2014","unstructured":"Becker K, Heilmann C, Peters G (2014) Coagulase-negative staphylococci. Clin Microbiol Rev 27:870\u2013926. https:\/\/doi.org\/10.1128\/CMR.00109-13","journal-title":"Clin Microbiol Rev"},{"key":"5126_CR6","doi-asserted-by":"publisher","unstructured":"Braunstein M, Bensing BA, Sullam PM (2019) The Two Distinct Types of SecA2-Dependent Export Systems. Microbiol Spectr 7. https:\/\/doi.org\/10.1128\/microbiolspec.PSIB-0025-2018","DOI":"10.1128\/microbiolspec.PSIB-0025-2018"},{"key":"5126_CR7","doi-asserted-by":"publisher","first-page":"381","DOI":"10.1016\/j.ijmm.2006.02.018","volume":"296","author":"A Chokr","year":"2006","unstructured":"Chokr A et al (2006) Correlation between biofilm formation and production of polysaccharide intercellular adhesin in clinical isolates of coagulase-negative staphylococci. Int J Med Microbiol 296:381\u2013388. https:\/\/doi.org\/10.1016\/j.ijmm.2006.02.018","journal-title":"Int J Med Microbiol"},{"key":"5126_CR8","doi-asserted-by":"publisher","first-page":"661","DOI":"10.1046\/j.1462-5822.2003.00310.x","volume":"5","author":"PS Coburn","year":"2003","unstructured":"Coburn PS, Gilmore MS (2003) The Enterococcus faecalis cytolysin: a novel toxin active against eukaryotic and prokaryotic cells. Cell Microbiol 5:661\u2013669. https:\/\/doi.org\/10.1046\/j.1462-5822.2003.00310.x","journal-title":"Cell Microbiol"},{"key":"5126_CR9","doi-asserted-by":"publisher","first-page":"5427","DOI":"10.1128\/IAI.67.10.5427-5433.1999","volume":"67","author":"SE Cramton","year":"1999","unstructured":"Cramton SE, Gerke C, Schnell NF, Nichols WW, Gotz F (1999) The intercellular adhesion (ica) locus is present in Staphylococcus aureus and is required for biofilm formation. Infect Immun 67:5427\u20135433. https:\/\/doi.org\/10.1128\/IAI.67.10.5427-5433.1999","journal-title":"Infect Immun"},{"key":"5126_CR10","doi-asserted-by":"publisher","unstructured":"Diez de Los Rios J et al (2025) Clinical and Epidemiological Characteristics of Staphylococcus caprae Infections in Catalonia, Spain. Microorganisms 13. https:\/\/doi.org\/10.3390\/microorganisms13010053","DOI":"10.3390\/microorganisms13010053"},{"key":"5126_CR11","doi-asserted-by":"publisher","first-page":"D884","DOI":"10.1093\/nar\/gkaf1110","volume":"54","author":"HM Freese","year":"2026","unstructured":"Freese HM, Meier-Kolthoff JP, Sarda Carbasse J, Afolayan AO, Goker M (2026) TYGS and LPSN in 2025: a Global Core Biodata Resource for genome-based classification and nomenclature of prokaryotes within DSMZ Digital Diversity. Nucleic Acids Res 54:D884\u2013D891. https:\/\/doi.org\/10.1093\/nar\/gkaf1110","journal-title":"Nucleic Acids Res"},{"key":"5126_CR12","doi-asserted-by":"publisher","first-page":"e3485","DOI":"10.7759\/cureus.3485","volume":"10","author":"A Gowda","year":"2018","unstructured":"Gowda A, Pensiero AL, Packer CD (2018) Staphylococcus caprae: A Skin Commensal with Pathogenic Potential. Cureus 10:e3485. https:\/\/doi.org\/10.7759\/cureus.3485","journal-title":"Cureus"},{"key":"5126_CR13","doi-asserted-by":"publisher","unstructured":"Grazul M, Balcerczak E, Sienkiewicz M (2023) Analysis of the Presence of the Virulence and Regulation Genes from Staphylococcus aureus (S. aureus) in Coagulase Negative Staphylococci and the Influence of the Staphylococcal Cross-Talk on Their Functions. Int J Environ Res Public Health 20. https:\/\/doi.org\/10.3390\/ijerph20065155","DOI":"10.3390\/ijerph20065155"},{"key":"5126_CR14","doi-asserted-by":"publisher","unstructured":"Ha SM Application of the Whole Genome-Based Bacterial Identification System, TrueBac ID et al (2019) Using Clinical Isolates That Were Not Identified With Three Matrix-Assisted Laser Desorption\/Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS) Systems. Ann Lab Med 39:530\u2013536 https:\/\/doi.org\/10.3343\/alm.2019.39.6.530","DOI":"10.3343\/alm.2019.39.6.530"},{"key":"5126_CR15","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1186\/1471-2105-11-119","volume":"11","author":"D Hyatt","year":"2010","unstructured":"Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, Hauser LJ (2010) Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11:119. https:\/\/doi.org\/10.1186\/1471-2105-11-119","journal-title":"BMC Bioinformatics"},{"key":"5126_CR16","doi-asserted-by":"publisher","first-page":"e0222723","DOI":"10.1128\/spectrum.02227-23","volume":"12","author":"Y Jia","year":"2024","unstructured":"Jia Y et al (2024) Staphylococcus aureus beta-hemolysin causes skin inflammation by acting as an agonist of epidermal growth factor receptor. Microbiol Spectr 12:e0222723. https:\/\/doi.org\/10.1128\/spectrum.02227-23","journal-title":"Microbiol Spectr"},{"key":"5126_CR17","doi-asserted-by":"publisher","first-page":"174","DOI":"10.1128\/AAC.35.1.174","volume":"35","author":"K Kanda","year":"1991","unstructured":"Kanda K et al (1991) Identification of a methicillin-resistant strain of Staphylococcus caprae from a human clinical specimen. Antimicrob Agents Chemother 35:174\u2013176. https:\/\/doi.org\/10.1128\/AAC.35.1.174","journal-title":"Antimicrob Agents Chemother"},{"key":"5126_CR18","doi-asserted-by":"publisher","first-page":"1019","DOI":"10.1093\/infdis\/jiz219","volume":"220","author":"L Li","year":"2019","unstructured":"Li L, Wang G, Cheung A, Abdelhady W, Seidl K, Xiong YQ (2019) MgrA Governs Adherence, Host Cell Interaction, and Virulence in a Murine Model of Bacteremia Due to Staphylococcus aureus. J Infect Dis 220:1019\u20131028. https:\/\/doi.org\/10.1093\/infdis\/jiz219","journal-title":"J Infect Dis"},{"key":"5126_CR19","doi-asserted-by":"publisher","first-page":"2182","DOI":"10.1038\/s41467-019-10210-3","volume":"10","author":"JP Meier-Kolthoff","year":"2019","unstructured":"Meier-Kolthoff JP, Goker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 10:2182. https:\/\/doi.org\/10.1038\/s41467-019-10210-3","journal-title":"Nat Commun"},{"key":"5126_CR20","doi-asserted-by":"publisher","first-page":"273","DOI":"10.1111\/eva.12196","volume":"8","author":"AH Melnyk","year":"2015","unstructured":"Melnyk AH, Wong A, Kassen R (2015) The fitness costs of antibiotic resistance mutations. Evol Appl 8:273\u2013283. https:\/\/doi.org\/10.1111\/eva.12196","journal-title":"Evol Appl"},{"key":"5126_CR21","doi-asserted-by":"publisher","DOI":"10.3791\/2437","author":"GA O\u2019Toole","year":"2011","unstructured":"O\u2019Toole GA (2011) Microtiter dish biofilm formation assay. J Vis Exp. https:\/\/doi.org\/10.3791\/2437","journal-title":"J Vis Exp"},{"key":"5126_CR22","doi-asserted-by":"publisher","first-page":"667","DOI":"10.1038\/nrmicro3110","volume":"11","author":"A Peschel","year":"2013","unstructured":"Peschel A, Otto M (2013) Phenol-soluble modulins and staphylococcal infection. Nat Rev Microbiol 11:667\u2013673. https:\/\/doi.org\/10.1038\/nrmicro3110","journal-title":"Nat Rev Microbiol"},{"key":"5126_CR23","doi-asserted-by":"publisher","first-page":"40","DOI":"10.4103\/abr.abr_116_17","volume":"7","author":"F Poursina","year":"2018","unstructured":"Poursina F, Sepehrpour S, Mobasherizadeh S (2018) Biofilm Formation in Nonmultidrug-resistant Escherichia coli Isolated from Patients with Urinary Tract Infection in Isfahan, Iran. Adv Biomed Res 7:40. https:\/\/doi.org\/10.4103\/abr.abr_116_17","journal-title":"Adv Biomed Res"},{"key":"5126_CR24","doi-asserted-by":"publisher","first-page":"2537","DOI":"10.1128\/jcm.35.10.2537-2541.1997","volume":"35","author":"R Shuttleworth","year":"1997","unstructured":"Shuttleworth R, Behme RJ, McNabb A, Colby WD (1997) Human isolates of Staphylococcus caprae: association with bone and joint infections. J Clin Microbiol 35:2537\u20132541. https:\/\/doi.org\/10.1128\/jcm.35.10.2537-2541.1997","journal-title":"J Clin Microbiol"},{"key":"5126_CR25","doi-asserted-by":"publisher","first-page":"191","DOI":"10.1016\/j.biologicals.2014.05.003","volume":"42","author":"M Singh","year":"2014","unstructured":"Singh M, Singh A, Sharma A (2014) Production and applications of an N-terminally-truncated recombinant beta-haemolysin from Staphylococcus aureus. Biologicals 42:191\u2013198. https:\/\/doi.org\/10.1016\/j.biologicals.2014.05.003","journal-title":"Biologicals"},{"key":"5126_CR26","doi-asserted-by":"publisher","first-page":"e01962","DOI":"10.1016\/j.idcr.2024.e01962","volume":"36","author":"ZI Sulaiman","year":"2024","unstructured":"Sulaiman ZI, Tu PJ, Baer SL, Skidmore PJ (2024) A capricious case of Staphylococcus caprae thoracic osteomyelitis. IDCases 36:e01962. https:\/\/doi.org\/10.1016\/j.idcr.2024.e01962","journal-title":"IDCases"},{"key":"5126_CR27","doi-asserted-by":"publisher","first-page":"274","DOI":"10.3389\/fcimb.2020.00274","volume":"10","author":"Z Sun","year":"2020","unstructured":"Sun Z et al (2020) Determining the Genetic Characteristics of Resistance and Virulence of the Epidermidis Cluster Group Through Pan-Genome Analysis. Front Cell Infect Microbiol 10:274. https:\/\/doi.org\/10.3389\/fcimb.2020.00274","journal-title":"Front Cell Infect Microbiol"},{"key":"5126_CR28","doi-asserted-by":"publisher","first-page":"888","DOI":"10.1128\/jcm.33.4.888-892.1995","volume":"33","author":"F Vandenesch","year":"1995","unstructured":"Vandenesch F, Eykyn SJ, Bes M, Meugnier H, Fleurette J, Etienne J (1995) Identification and ribotypes of Staphylococcus caprae isolates isolated as human pathogens and from goat milk. J Clin Microbiol 33:888\u2013892. https:\/\/doi.org\/10.1128\/jcm.33.4.888-892.1995","journal-title":"J Clin Microbiol"},{"key":"5126_CR29","doi-asserted-by":"publisher","first-page":"4897","DOI":"10.12998\/wjcc.v11.i20.4897","volume":"11","author":"O Vazquez","year":"2023","unstructured":"Vazquez O et al (2023) Subacute osteomyelitis due to Staphylococcus caprae in a teenager: A case report and review of the literature. World J Clin Cases 11:4897\u20134902. https:\/\/doi.org\/10.12998\/wjcc.v11.i20.4897","journal-title":"World J Clin Cases"},{"key":"5126_CR30","doi-asserted-by":"publisher","first-page":"222","DOI":"10.1186\/s12864-016-2426-7","volume":"17","author":"B Warne","year":"2016","unstructured":"Warne B et al (2016) The Ess\/Type VII secretion system of Staphylococcus aureus shows unexpected genetic diversity. BMC Genomics 17:222. https:\/\/doi.org\/10.1186\/s12864-016-2426-7","journal-title":"BMC Genomics"},{"key":"5126_CR31","doi-asserted-by":"publisher","first-page":"810","DOI":"10.1186\/s12864-018-5185-9","volume":"19","author":"S Watanabe","year":"2018","unstructured":"Watanabe S et al (2018) Complete genome sequencing of three human clinical isolates of Staphylococcus caprae reveals virulence factors similar to those of S. epidermidis and S. capitis. BMC Genomics 19:810. https:\/\/doi.org\/10.1186\/s12864-018-5185-9","journal-title":"BMC Genomics"},{"key":"5126_CR32","doi-asserted-by":"publisher","unstructured":"Zheng B et al (2015) Whole-genome sequence of multidrug-resistant staphylococcus caprae strain 9557, isolated from cerebrospinal fluid. Genome Announc 3. https:\/\/doi.org\/10.1128\/genomeA.00718-15","DOI":"10.1128\/genomeA.00718-15"}],"container-title":["Archives of Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-026-05126-8.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00203-026-05126-8","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-026-05126-8.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,10,26]],"date-time":"2026-10-26T04:35:56Z","timestamp":1792989356000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00203-026-05126-8"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8,13]]},"references-count":32,"journal-issue":{"issue":"11","published-print":{"date-parts":[[2026,11]]}},"alternative-id":["5126"],"URL":"https:\/\/doi.org\/10.1007\/s00203-026-05126-8","relation":{},"ISSN":["0302-8933","1432-072X"],"issn-type":[{"value":"0302-8933","type":"print"},{"value":"1432-072X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,8,13]]},"assertion":[{"value":"12 March 2026","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"22 July 2026","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 July 2026","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"13 August 2026","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors report there are no competing interests to declare.","order":1,"name":"Ethics","label":"Conflict of interest","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"573"}}