{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,8]],"date-time":"2025-07-08T06:51:37Z","timestamp":1751957497162,"version":"3.37.3"},"reference-count":30,"publisher":"Springer Science and Business Media LLC","issue":"10","license":[{"start":{"date-parts":[[2021,9,25]],"date-time":"2021-09-25T00:00:00Z","timestamp":1632528000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2021,9,25]],"date-time":"2021-09-25T00:00:00Z","timestamp":1632528000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"DOI":"10.13039\/501100003653","name":"Korea National Institute of Health","doi-asserted-by":"crossref","award":["2017-NG45004-00"],"award-info":[{"award-number":["2017-NG45004-00"]}],"id":[{"id":"10.13039\/501100003653","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Arch Microbiol"],"published-print":{"date-parts":[[2021,12]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>A Gram-positive, aerobic, rod-shaped bacterium, designated as strain 1605-214<jats:sup>T<\/jats:sup>, was isolated from the blood sample of a patient with cholangitis. Based on its 16S rRNA gene sequence, the strain 1605-214<jats:sup>T<\/jats:sup> belonged to the genus <jats:italic>Cohnella<\/jats:italic> and exhibited 97.9% sequence identity with <jats:italic>Cohnella luojiensis<\/jats:italic> DSM 24270<jats:sup>T<\/jats:sup> (GQ214052). DNA\u2013DNA hybridization, digital DNA\u2013DNA hybridization, and average nucleotide identity values between the two species were 23%\u2009\u00b1\u20091.9, 21.1%, and 77.2%, respectively. The cellular fatty acids of strain 1605-214<jats:sup>T<\/jats:sup> were mainly comprised of anteiso-C<jats:sub>15:0<\/jats:sub> (36.1%), iso-C<jats:sub>16:0<\/jats:sub> (16.5%), and C<jats:sub>16:0<\/jats:sub> (15.1%). The predominant quinone was menaquinone-7; predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, and aminophospholipid-1. The cell wall peptidoglycan of strain 1605-214<jats:sup>T<\/jats:sup> contained meso-diaminopimelic acid. DNA G\u2009+\u2009C content of strain 1605-214<jats:sup>T<\/jats:sup> was 50.6\u00a0mol%. 5187 genes out of a total of 5413 (94.6%) were assigned putative functions using eggNOG v5.0. Based on genotypic characteristics and genomic sequence analysis results, strain 1605-214<jats:sup>T<\/jats:sup> was confirmed to represent a novel species of genus <jats:italic>Cohnella<\/jats:italic>, for which the name <jats:italic>Cohnella cholangitidis<\/jats:italic> sp. nov., was proposed.<\/jats:p>","DOI":"10.1007\/s00203-021-02565-3","type":"journal-article","created":{"date-parts":[[2021,9,25]],"date-time":"2021-09-25T10:02:52Z","timestamp":1632564172000},"page":"6053-6060","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Cohnella cholangitidis sp. nov., a novel species of the genus Cohnella isolated from a clinical specimen in Korea"],"prefix":"10.1007","volume":"203","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3391-0356","authenticated-orcid":false,"given":"Joon Ki","family":"Kim","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8560-5230","authenticated-orcid":false,"given":"Chi-Hwan","family":"Choi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0917-1511","authenticated-orcid":false,"given":"Dae-Won","family":"Kim","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4474-9702","authenticated-orcid":false,"given":"Su Yeon","family":"Kim","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9499-8059","authenticated-orcid":false,"given":"Kyu Jam","family":"Hwang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Woo-Kon","family":"Lee","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Min Kyoung","family":"Shin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Myunghwan","family":"Jung","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7615-9884","authenticated-orcid":false,"given":"Young Sill","family":"Choi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2021,9,25]]},"reference":[{"key":"2565_CR27","doi-asserted-by":"publisher","unstructured":"Abou Abdallah R, Bou Khalil J, Andrieu C et al (2019) Draft genome and description of Cohnella massiliensis sp. nov. a new bacterial species isolated from the blood culture of a hemodialysis patient. Arch Microbiol 201:305\u2013312. https:\/\/doi.org\/10.1007\/s00203-018-1612-1","DOI":"10.1007\/s00203-018-1612-1"},{"key":"2565_CR1","doi-asserted-by":"publisher","first-page":"1605","DOI":"10.1099\/ijs.0.016790-0","volume":"60","author":"F Cai","year":"2010","unstructured":"Cai F, Wang Y, Qi H, Dai J, Yu B, An H, Rahman E, Fang C (2010) Cohnella luojiensis sp. nov., isolated from soil of a Euphrates poplar forest. Int J Syst Evol Microbiol 60:1605\u20131608. https:\/\/doi.org\/10.1099\/ijs.0.016790-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR2","doi-asserted-by":"publisher","first-page":"2259","DOI":"10.1099\/ijs.0.64915-0","volume":"57","author":"J Chun","year":"2007","unstructured":"Chun J, Lee J-H, Jung Y et al (2007) EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57:2259\u20132261. https:\/\/doi.org\/10.1099\/ijs.0.64915-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR3","doi-asserted-by":"publisher","first-page":"224","DOI":"10.1099\/00207713-39-3-224","volume":"39","author":"T Ezaki","year":"1989","unstructured":"Ezaki T, Hashimoto Y, Yabuuchi E (1989) Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224\u2013229","journal-title":"Int J Syst Bacteriol"},{"issue":"11","key":"2565_CR4","doi-asserted-by":"publisher","first-page":"e00483","DOI":"10.1128\/aac.00483-19","volume":"63","author":"M Feldgarden","year":"2019","unstructured":"Feldgarden M, Brover V, Haft DH et al (2019) Validating the AMRFinder tool and resistance gene database by using antimicrobial resistance genotype-phenotype correlations in a collection of isolates. Antimicrob Agents Chemother 63(11):e00483-e519. https:\/\/doi.org\/10.1128\/aac.00483-19","journal-title":"Antimicrob Agents Chemother"},{"key":"2565_CR5","doi-asserted-by":"publisher","first-page":"1855","DOI":"10.1099\/ijs.0.65468-0","volume":"58","author":"P Garcia-Fraile","year":"2008","unstructured":"Garcia-Fraile P, Velazquez E, Mateos PF, Martinez-Molina E, Rivas R (2008) Cohnella phaseoli sp. nov., isolated from root nodules of Phaseolus coccineus in Spain, and emended description of the genus Cohnella. Int J Syst and Evol Microbiol 58:1855\u20131859. https:\/\/doi.org\/10.1099\/ijs.0.65468-0","journal-title":"Int J Syst and Evol Microbiol"},{"key":"2565_CR6","doi-asserted-by":"publisher","first-page":"3563","DOI":"10.1128\/aac.00673-12","volume":"56","author":"LH Hansen","year":"2012","unstructured":"Hansen LH, Planellas MH, Long KS, Vester B (2012) The order Bacillales hosts functional homologs of the worrisome cfr antibiotic resistance gene. Antimicrob Agents Chemother 56:3563\u20133567. https:\/\/doi.org\/10.1128\/aac.00673-12","journal-title":"Antimicrob Agents Chemother"},{"key":"2565_CR7","doi-asserted-by":"publisher","first-page":"319","DOI":"10.2323\/jgam.29.319","volume":"29","author":"T Hasegawa","year":"1983","unstructured":"Hasegawa T, Takizawa M, Tanida S (1983) A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319\u2013322. https:\/\/doi.org\/10.2323\/jgam.29.319","journal-title":"J Gen Appl Microbiol"},{"key":"2565_CR8","doi-asserted-by":"publisher","first-page":"170","DOI":"10.1111\/j.1472-765X.1992.tb00676.x","volume":"14","author":"A Hiraishi","year":"1992","unstructured":"Hiraishi A, Shin YK, Sugiyama J (1992) Rapid profiling of bacterial quinones by two dimensional thin-layer chromatography. Lett Appl Microbiol 14:170\u2013173","journal-title":"Lett Appl Microbiol"},{"key":"2565_CR29","doi-asserted-by":"publisher","unstructured":"Huerta-Cepas J, Szklarczyk D, Heller D et al (2019) eggNOG 5.0: a hierarchical functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. Nucleic Acids Res 47:D309\u2013D314. https:\/\/doi.org\/10.1093\/nar\/gky1085","DOI":"10.1093\/nar\/gky1085"},{"key":"2565_CR9","doi-asserted-by":"publisher","first-page":"781","DOI":"10.1099\/ijs.0.63985-0","volume":"56","author":"P K\u00e4mpfer","year":"2006","unstructured":"K\u00e4mpfer P, Rossell\u00f3-Mora R, Falsen E et al (2006) Cohnella thermotolerans gen. nov., sp. nov., and classification of \u2018Paenibacillus hongkongensis\u2019 as Cohnella hongkongensis sp. nov. Int J Syst Evol Microbiol 56:781\u2013786. https:\/\/doi.org\/10.1099\/ijs.0.63985-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR10","doi-asserted-by":"publisher","first-page":"772","DOI":"10.1093\/molbev\/mst010","volume":"30","author":"K Katoh","year":"2013","unstructured":"Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772\u2013780. https:\/\/doi.org\/10.1093\/molbev\/mst010","journal-title":"Mol Biol Evol"},{"key":"2565_CR11","doi-asserted-by":"publisher","first-page":"1921","DOI":"10.1099\/ijs.0.032607-0","volume":"62","author":"S Khianngam","year":"2012","unstructured":"Khianngam S, Tanasupawat S, Akaracharanya A, Kim KK, Lee KC, Lee J-S (2012) Cohnella cellulosilytica sp. nov., isolated from buffalo faeces. Int J Syst Evol Microbiol 62:1921\u20131925. https:\/\/doi.org\/10.1099\/ijs.0.032607-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR12","doi-asserted-by":"publisher","first-page":"526","DOI":"10.1099\/ijs.0.013581-0","volume":"60","author":"S-J Kim","year":"2010","unstructured":"Kim S-J, Weon H-Y, Kim Y-S, Anandham R, Jeon Y-A, Hong S-B, Kwon S-W (2010) Cohnella yongneupensis sp. nov. and Cohnella ginsengisoli sp. nov., isolated from two different soils. Int J Syst Evol Microbiol 60:526\u2013530. https:\/\/doi.org\/10.1099\/ijs.0.013581-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR13","doi-asserted-by":"publisher","first-page":"1033","DOI":"10.1007\/s12275-011-1071-8","volume":"49","author":"S-J Kim","year":"2011","unstructured":"Kim S-J, Weon H-Y, Kim Y-S, Kwon S-W (2011) Cohnella soli sp. nov. and Cohnella suwonensis sp. nov. isolated from soil samples in Korea. J Microbiol 49:1033\u20131038. https:\/\/doi.org\/10.1007\/s12275-011-1071-8","journal-title":"J Microbiol"},{"key":"2565_CR14","doi-asserted-by":"publisher","first-page":"1870","DOI":"10.1093\/molbev\/msw054","volume":"33","author":"S Kumar","year":"2016","unstructured":"Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. J Microbiol 33:1870\u20131874. https:\/\/doi.org\/10.1093\/molbev\/msw054","journal-title":"J Microbiol"},{"key":"2565_CR15","first-page":"115","volume-title":"Nucleic acid techniques in bacterial systematics","author":"DJ Lane","year":"1991","unstructured":"Lane DJ (1991) 16S\/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp 115\u2013175"},{"key":"2565_CR30","doi-asserted-by":"publisher","unstructured":"Lee I, Ouk Kim Y, Park S-C, Chun J (2016) OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Micr 66:1100\u20131103. https:\/\/doi.org\/10.1099\/ijsem.0.000760","DOI":"10.1099\/ijsem.0.000760"},{"key":"2565_CR16","doi-asserted-by":"publisher","first-page":"D687","DOI":"10.1093\/nar\/gky1080","volume":"47","author":"B Liu","year":"2018","unstructured":"Liu B, Zheng D, Jin Q et al (2018) VFDB 2019: a comparative pathogenomic platform with an interactive web interface. Nucleic Acids Res 47:D687\u2013D692. https:\/\/doi.org\/10.1093\/nar\/gky1080","journal-title":"Nucleic Acids Res"},{"key":"2565_CR17","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-10210-3","author":"JP Meier-Kolthoff","year":"2019","unstructured":"Meier-Kolthoff JP, G\u00f6ker M (2019) TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun. https:\/\/doi.org\/10.1038\/s41467-019-10210-3","journal-title":"Nat Commun"},{"key":"2565_CR18","doi-asserted-by":"publisher","first-page":"60","DOI":"10.1186\/1471-2105-14-60","volume":"14","author":"JP Meier-Kolthoff","year":"2013","unstructured":"Meier-Kolthoff JP, Auch AF, Klenk H-P, G\u00f6ker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14:60. https:\/\/doi.org\/10.1186\/1471-2105-14-60","journal-title":"BMC Bioinformatics"},{"key":"2565_CR19","first-page":"861","volume":"18","author":"LT Miller","year":"1982","unstructured":"Miller LT (1982) Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters including hydroxy acid. J Clin Microbiol 18:861\u2013867","journal-title":"J Clin Microbiol"},{"key":"2565_CR20","doi-asserted-by":"publisher","first-page":"221","DOI":"10.1016\/S0021-9673(00)88433-2","volume":"188","author":"DE Minnikin","year":"1980","unstructured":"Minnikin DE, Hutchinson IG, Caldicott AB, Goodfellow M (1980) Thin layer chromatography of methanolysates of mycolic acid containing bacteria. J Chromatogr 188:221\u2013233","journal-title":"J Chromatogr"},{"key":"2565_CR21","doi-asserted-by":"publisher","first-page":"1825","DOI":"10.1099\/ijsem.0.002786","volume":"68","author":"AC Parte","year":"2018","unstructured":"Parte AC (2018) LPSN \u2013 List of prokaryotic names with standing in nomenclature (bacterio.net), 20 years on. Int J Syst Evol Micr 68:1825\u20131829. https:\/\/doi.org\/10.1099\/ijsem.0.002786","journal-title":"Int J Syst Evol Micr"},{"key":"2565_CR22","doi-asserted-by":"publisher","first-page":"384","DOI":"10.1099\/ijs.0.057091-0","volume":"64","author":"D Ramasamy","year":"2014","unstructured":"Ramasamy D, Mishra AK, Lagier J-C et al (2014) A polyphasic strategy incorporating genomic data for the taxonomic description of novel bacterial species. Int J Syst Evol Microbiol 64:384\u2013391. https:\/\/doi.org\/10.1099\/ijs.0.057091-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR23","doi-asserted-by":"publisher","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","volume":"30","author":"T Seemann","year":"2014","unstructured":"Seemann T (2014) Prokka: rapid prokaryotic genome annotation. Bioinformatics 30:2068\u20132069. https:\/\/doi.org\/10.1093\/bioinformatics\/btu153","journal-title":"Bioinformatics"},{"key":"2565_CR24","doi-asserted-by":"publisher","first-page":"1344","DOI":"10.1099\/ijs.0.014605-0","volume":"60","author":"H Shiratori","year":"2010","unstructured":"Shiratori H, Tagami Y, Beppu T, Ueda K (2010) Cohnella fontinalis sp. nov., a xylanolytic bacterium isolated from fresh water. Int J Syst Evol Microbiol 60:1344\u20131348. https:\/\/doi.org\/10.1099\/ijs.0.014605-0","journal-title":"Int J Syst Evol Microbiol"},{"key":"2565_CR25","doi-asserted-by":"publisher","first-page":"1312","DOI":"10.1093\/bioinformatics\/btu033","volume":"30","author":"A Stamatakis","year":"2014","unstructured":"Stamatakis A (2014) RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30:1312\u20131313. https:\/\/doi.org\/10.1093\/bioinformatics\/btu033","journal-title":"Bioinformatics"},{"key":"2565_CR28","doi-asserted-by":"publisher","unstructured":"Tatusova T, DiCuccio M, Badretdin A et al (2016) NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 44:6614\u20136624. https:\/\/doi.org\/10.1093\/nar\/gkw569","DOI":"10.1093\/nar\/gkw569"},{"key":"2565_CR26","doi-asserted-by":"publisher","first-page":"572","DOI":"10.1099\/ijsem.0.003228","volume":"69","author":"H-Z Zhu","year":"2019","unstructured":"Zhu H-Z, Liu X-D, Jiang C-Y, Liu S-J (2019) Cohnella faecalis sp. nov., isolated from animal faeces in a karst cave. Int J Syst Evol Microbiol 69:572\u2013577. https:\/\/doi.org\/10.1099\/ijsem.0.003228","journal-title":"Int J Syst Evol Microbiol"}],"container-title":["Archives of Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-021-02565-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00203-021-02565-3\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00203-021-02565-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,11,13]],"date-time":"2021-11-13T19:08:42Z","timestamp":1636830522000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s00203-021-02565-3"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,9,25]]},"references-count":30,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2021,12]]}},"alternative-id":["2565"],"URL":"https:\/\/doi.org\/10.1007\/s00203-021-02565-3","relation":{},"ISSN":["0302-8933","1432-072X"],"issn-type":[{"type":"print","value":"0302-8933"},{"type":"electronic","value":"1432-072X"}],"subject":[],"published":{"date-parts":[[2021,9,25]]},"assertion":[{"value":"18 August 2020","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"2 September 2021","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 September 2021","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 September 2021","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors declare that they have no conflict of interest.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Conflict of interest"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethical approval"}},{"value":"Not applicable.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent to participate"}},{"value":"Not applicable.","order":5,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}}]}}