{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T05:19:47Z","timestamp":1787721587911,"version":"build-2784847793"},"reference-count":46,"publisher":"MDPI AG","issue":"17","license":[{"start":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T00:00:00Z","timestamp":1787529600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100005076","name":"Agricultural Research Development Agency","doi-asserted-by":"publisher","award":["PRP6807030620"],"award-info":[{"award-number":["PRP6807030620"]}],"id":[{"id":"10.13039\/501100005076","id-type":"DOI","asserted-by":"publisher"}]},{"award":["PRP6807030620"],"award-info":[{"award-number":["PRP6807030620"]}],"id":[{"id":"https:\/\/ror.org\/01shbv660","id-type":"ROR","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Int. J. Mol. Sci.","IJMS"],"abstract":"<jats:p>Lactococcosis is an important bacterial disease affecting farmed fish worldwide and is primarily associated with Lactococcus garvieae, Lactococcus petauri, and Lactococcus formosensis. In Thailand, information on L. garvieae infection in tilapia remains limited, particularly regarding genome-based identification, virulence determinants, and antimicrobial resistance profiles. This study characterized two L. garvieae isolates, AAHM-LG2501 and AAHM-LG2509, recovered from a lactococcosis outbreak in cage-cultured Nile tilapia (Oreochromis niloticus) in Ubon Ratchathani province, Thailand. Both isolates exhibited typical phenotypic characteristics of L. garvieae, including Gram-positive cocci, alpha hemolysis, positive capsule staining, and positive carbohydrate fermentation. Whole-genome sequencing confirmed both isolates as L. garvieae, with genome sizes of approximately 1.95 Mb and a G + C content of 38.9%. Genome-based taxonomic analysis supported species identification based on dDDH and ANI values, and both isolates were assigned to sequence type ST95 and serotype I. Virulence factor analysis identified 288 virulence-associated genes representing 97 virulence factors across 14 functional categories. Capsule-associated genes were prominent, together with genes involved in heme uptake, adhesion, hemolysis, stress survival, biofilm formation, and host adaptation. Ten capsule biosynthesis genes, including cpsABCFGKO, cps4A, and cps4I, as well as LPxTG cell wall anchor protein genes, were detected. Antimicrobial susceptibility testing showed resistance to nalidixic acid, oxolinic acid, and oxacillin, while reduced inhibition zones were observed for enrofloxacin and sulfamethoxazole-trimethoprim. Genome analysis identified predicted antimicrobial resistance determinants, including lsaD, vanT, vanY, and mdtA. Resistance-associated protein variants were detected in gyrA and gyrB, suggesting that target alteration may contribute to fluoroquinolone resistance. Overall, this study provides genome-level evidence of virulence and antimicrobial resistance determinants in L. garvieae from Thai tilapia and highlights the importance of whole-genome sequencing for accurate diagnosis, epidemiological surveillance, and disease management in aquaculture.<\/jats:p>","DOI":"10.3390\/ijms27177582","type":"journal-article","created":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T17:20:28Z","timestamp":1787592028000},"page":"7582","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Whole-Genome Sequencing Reveals Virulence and Antimicrobial Resistance Determinants of Lactococcus garvieae Causing Lactococcosis in Cage-Cultured Nile Tilapia (Oreochromis niloticus) in Thailand"],"prefix":"10.3390","volume":"27","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6161-5477","authenticated-orcid":false,"given":"Putita","family":"Chokmangmeepisarn","sequence":"first","affiliation":[{"name":"Department of Microbiology, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-2445-2816","authenticated-orcid":false,"given":"Yosapon","family":"Adisornprasert","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-0087-0047","authenticated-orcid":false,"given":"Pakapon","family":"Meachasompop","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0005-1354-6883","authenticated-orcid":false,"given":"Benchawan","family":"Kumwan","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pimrawee","family":"Chaemlek","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0354-6538","authenticated-orcid":false,"given":"Prapansak","family":"Srisapoome","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kednapat","family":"Sriphairoj","sequence":"additional","affiliation":[{"name":"Faculty of Natural Resources and Agro-Industry, Kasetsart University, Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5201-2551","authenticated-orcid":false,"given":"Sittichai","family":"Hatachote","sequence":"additional","affiliation":[{"name":"Faculty of Natural Resources and Agro-Industry, Kasetsart University, Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Niyada","family":"Umputhorn","sequence":"additional","affiliation":[{"name":"Faculty of Natural Resources and Agro-Industry, Kasetsart University, Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chonthicha","family":"Choppradit","sequence":"additional","affiliation":[{"name":"Faculty of Natural Resources and Agro-Industry, Kasetsart University, Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pichasit","family":"Sangmek","sequence":"additional","affiliation":[{"name":"Faculty of Natural Resources and Agro-Industry, Kasetsart University, Chalermphrakiat Sakon Nakhon Province Campus, Sakon Nakhon 47000, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5711-9294","authenticated-orcid":false,"given":"Channarong","family":"Rodkhum","sequence":"additional","affiliation":[{"name":"Center of Excellence in Fish Infectious Diseases (CE FID), Faculty of Veterinary Science, Chulalongkorn University, Bangkok 10330, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1782-4079","authenticated-orcid":false,"given":"Anurak","family":"Uchuwittayakul","sequence":"additional","affiliation":[{"name":"Special Research Incubator Unit for Development and Application of Vaccine Delivery Systems for Aquatic Animals, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Center of Excellence in Aquatic Animal Health Management, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"},{"name":"Laboratory of Aquatic Animal Health Management, Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Bangkok 10900, Thailand"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,8,24]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"e0234923","DOI":"10.1128\/aem.02349-23","article-title":"Redefining piscine lactococcosis","volume":"90","author":"Heckman","year":"2024","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_2","doi-asserted-by":"crossref","unstructured":"Adisornprasert, Y., Kumwan, B., Meachasompop, P., Rajitdumrong, C., Chaemlek, P., Srisapoome, P., Buncharoen, W., Paankhao, N., Umputhorn, N., and Choppradit, C. (2026). Isolation, Identification, Virulence and Pathogenic Features of Lactococcus garvieae from Cage-Cultured Tilapia (Oreochromis niloticus) in Thailand. Int. J. Mol. Sci., 27.","DOI":"10.3390\/ijms27083469"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"63","DOI":"10.3147\/jsfp.59.63","article-title":"Development of a Discriminating Method for Pathogenic Bacteria that Cause Lactococcal Infections in Marine Fish Farms in Japan","volume":"59","author":"Araki","year":"2024","journal-title":"Fish Pathol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"739093","DOI":"10.1016\/j.aquaculture.2022.739093","article-title":"Emerging fish pathogens Lactococcus petauri and L. garvieae in Nile tilapia (Oreochromis niloticus) farmed in Brazil","volume":"565","author":"Egger","year":"2023","journal-title":"Aquaculture"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"829","DOI":"10.1111\/jfd.13792","article-title":"Comparative genome analyses of three serotypes of Lactococcus bacteria isolated from diseased cultured striped jack (Pseudocaranx dentex)","volume":"46","author":"Mahmoud","year":"2023","journal-title":"J. Fish Dis."},{"key":"ref_6","doi-asserted-by":"crossref","unstructured":"Sirakov, I., Strateva, T.V., Boyanov, V.S., Orozova, P., Yordanov, D., Rusenova, N., Gergova, R., Dimov, S.G., Sirakova, B., and Radosavljevic, V. (2025). Identification, Characterization, and Epidemiological Analysis of Lactococcus garvieae Fish Isolates Obtained in a Period of Eighteen Years. Microorganisms, 13.","DOI":"10.3390\/microorganisms13020436"},{"key":"ref_7","first-page":"1542","article-title":"Research Article: Biotyping and serotyping of Lactococcus garvieae isolates in affected farmed rainbow trout (Oncorhynchus mykiss) in north Iran","volume":"20","author":"Soltani","year":"2021","journal-title":"IFRO"},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"e14113","DOI":"10.1111\/jfd.14113","article-title":"Identification and Pathogenicity of Lactococcus Species in Nile Tilapia (Oreochromis niloticus) and Asian Sea Bass (Lates calcarifer)","volume":"48","author":"Wongkaew","year":"2025","journal-title":"J. Fish Dis."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"177","DOI":"10.1016\/j.cimid.2006.06.003","article-title":"Lactococcus garvieae in fish: A review","volume":"29","author":"Vendrell","year":"2006","journal-title":"Comp. Immunol. Microbiol. Infect. Dis."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1002\/aah.10217","article-title":"Characterization of Lactococcus garvieae and Streptococcus agalactiae in cultured red tilapia Oreochromis sp. in Thailand","volume":"36","author":"Jantrakajorn","year":"2024","journal-title":"J. Aquat. Anim. Health"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"e70147","DOI":"10.1002\/mbo3.70147","article-title":"Comparative Genomics of Lactococcus spp. From Global Aquaculture Outbreaks Reveals Virulence Determinants, Antibiotic Resistance, and Phage Defence Mechanisms","volume":"14","author":"Blanchard","year":"2025","journal-title":"Microbiologyopen"},{"key":"ref_12","doi-asserted-by":"crossref","unstructured":"Morita, H., Toh, H., Oshima, K., Yoshizaki, M., Kawanishi, M., Nakaya, K., Suzuki, T., Miyauchi, E., Ishii, Y., and Tanabe, S. (2011). Complete genome sequence and comparative analysis of the fish pathogen Lactococcus garvieae. PLoS ONE, 6.","DOI":"10.1371\/journal.pone.0023184"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"741887","DOI":"10.1016\/j.aquaculture.2024.741887","article-title":"Comparative proteomic and genomic analysis of Lactococcus garvieae and Lactococcus petauri isolates from Turkey","volume":"596","author":"Altun","year":"2025","journal-title":"Aquaculture"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1292\/jvms.25-0412","article-title":"Characterization of Lactococcus isolated from diseased yellowtail in Japan using whole-genome sequencing","volume":"88","author":"Ozawa","year":"2026","journal-title":"J. Vet. Med. Sci."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"e0054124","DOI":"10.1128\/spectrum.00541-24","article-title":"Genomic investigation of Lactococcus formosensis, Lactococcus garvieae, and Lactococcus petauri reveals differences in species distribution by human and animal sources","volume":"12","author":"Chan","year":"2024","journal-title":"Microbiol. Spectr."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"1357","DOI":"10.1007\/s42770-025-01653-6","article-title":"Characteristics and virulence gene profiles of a pathogenic Lactococcus garvieae isolated from diseased Macrobrachium rosenbergii","volume":"56","author":"Paul","year":"2025","journal-title":"Braz. J. Microbiol."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"3370","DOI":"10.1128\/AEM.00039-09","article-title":"A Transferable 20-Kilobase Multiple Drug Resistance-Conferring R Plasmid (pKL0018) from a Fish Pathogen (Lactococcus garvieae) Is Highly Homologous to a Conjugative Multiple Drug Resistance-Conferring Enterococcal Plasmid","volume":"75","author":"Maki","year":"2009","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_18","doi-asserted-by":"crossref","unstructured":"Xu, R., He, Z., Deng, Y., Cen, Y., Mo, Z., Dan, X., and Li, Y. (2024). Lactococcus garvieae as a Novel Pathogen in Cultured Pufferfish (Takifugu obscurus) in China. Fishes, 9.","DOI":"10.3390\/fishes9100406"},{"key":"ref_19","first-page":"533","article-title":"Isolation and Characterization of Lactococcus garvieae from Diseased Rainbow Trout (Oncorhynchus mykiss, Walbaum) Cultured in Northern Iran Based on the Nucleotide Sequences of the 16s rRNA Gene","volume":"12","author":"Adel","year":"2015","journal-title":"Walailak J. Sci. Technol."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"e0089022","DOI":"10.1128\/mra.00890-22","article-title":"Complete Genome Sequence of Lactococcus garvieae MS210922A, Isolated from Farmed Greater Amberjack (Seriola dumerili) in Japan","volume":"11","author":"Akmal","year":"2022","journal-title":"Microbiol. Resour. Announc."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"119","DOI":"10.3147\/jsfp.59.119","article-title":"Characterization and Epidemiological Study of Newly Emerging Lactococcus garvieae Serotype III in Farmed Fish in Japan","volume":"59","author":"Araki","year":"2024","journal-title":"Fish Pathol."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"111097","DOI":"10.1016\/j.fsi.2026.111097","article-title":"Streptococcus agalactiae 1a capsule (cpsE) and hemolysin (cylE) deletion mutants display attenuated virulence in Nile tilapia (Oreochromis niloticus)","volume":"170","author":"Fyrand","year":"2026","journal-title":"Fish Shellfish Immunol."},{"key":"ref_23","doi-asserted-by":"crossref","unstructured":"Locke, J.B., Aziz, R.K., Vicknair, M.R., Nizet, V., and Buchanan, J.T. (2008). Streptococcus iniae M-like protein contributes to virulence in fish and is a target for live attenuated vaccine development. PLoS ONE, 3.","DOI":"10.1371\/journal.pone.0002824"},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"6203","DOI":"10.1128\/JB.00592-09","article-title":"Capsular polysaccharide production in Enterococcus faecalis and contribution of CpsF to capsule serospecificity","volume":"191","author":"Thurlow","year":"2009","journal-title":"J. Bacteriol."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"e137686","DOI":"10.1172\/jci.insight.137686","article-title":"Streptococcus pyogenes genes that promote pharyngitis in primates","volume":"5","author":"Zhu","year":"2020","journal-title":"JCI Insight"},{"key":"ref_26","doi-asserted-by":"crossref","unstructured":"Akbari, M.S., Doran, K.S., and Burcham, L.R. (2022). Metal Homeostasis in Pathogenic Streptococci. Microorganisms, 10.","DOI":"10.3390\/microorganisms10081501"},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"3326","DOI":"10.1038\/s41467-019-11318-2","article-title":"The Salmonella virulence protein MgtC promotes phosphate uptake inside macrophages","volume":"10","author":"Choi","year":"2019","journal-title":"Nat. Commun."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"6255","DOI":"10.1128\/JB.01424-12","article-title":"The C-terminal domain of the virulence factor MgtC is a divergent ACT domain","volume":"194","author":"Yang","year":"2012","journal-title":"J. Bacteriol."},{"key":"ref_29","first-page":"630","article-title":"Current antibiotic sensitivity of Lactococcus garvieae in rainbow trout (Oncorhynchus mykiss) farms from Southwestern Turkey","volume":"29","author":"Sezgin","year":"2023","journal-title":"J. Agric. Sci."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: A flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"e102","DOI":"10.1002\/cpbi.102","article-title":"Using SPAdes De Novo Assembler","volume":"70","author":"Prjibelski","year":"2020","journal-title":"Curr. Protoc. Bioinform."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"1043","DOI":"10.1101\/gr.186072.114","article-title":"CheckM: Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes","volume":"25","author":"Parks","year":"2015","journal-title":"Genome Res."},{"key":"ref_33","doi-asserted-by":"crossref","unstructured":"Hyatt, D., Chen, G.L., Locascio, P.F., Land, M.L., Larimer, F.W., and Hauser, L.J. (2010). Prodigal: Prokaryotic gene recognition and translation initiation site identification. BMC Bioinform., 11.","DOI":"10.1186\/1471-2105-11-119"},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: Tool for the unification of biology","volume":"25","author":"Ashburner","year":"2000","journal-title":"Nat. Genet."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"3150","DOI":"10.1093\/bioinformatics\/bts565","article-title":"CD-HIT: Accelerated for clustering the next-generation sequencing data","volume":"28","author":"Fu","year":"2012","journal-title":"Bioinformatics"},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"D277","DOI":"10.1093\/nar\/gkh063","article-title":"The KEGG resource for deciphering the genome","volume":"32","author":"Kanehisa","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"D389","DOI":"10.1093\/nar\/gkac1022","article-title":"eggNOG 6.0: Enabling comparative genomics across 12 535 organisms","volume":"51","author":"Szklarczyk","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_38","doi-asserted-by":"crossref","unstructured":"Bland, C., Ramsey, T.L., Sabree, F., Lowe, M., Brown, K., Kyrpides, N.C., and Hugenholtz, P. (2007). CRISPR recognition tool (CRT): A tool for automatic detection of clustered regularly interspaced palindromic repeats. BMC Bioinform., 8.","DOI":"10.1186\/1471-2105-8-209"},{"key":"ref_39","first-page":"e000206","article-title":"MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies","volume":"4","author":"Robertson","year":"2018","journal-title":"Microb. Genom."},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"D884","DOI":"10.1093\/nar\/gkaf1110","article-title":"TYGS and LPSN in 2025: A Global Core Biodata Resource for genome-based classification and nomenclature of prokaryotes within DSMZ Digital Diversity","volume":"54","author":"Freese","year":"2026","journal-title":"Nucleic Acids Res."},{"key":"ref_41","doi-asserted-by":"crossref","unstructured":"Meier-Kolthoff, J.P., Auch, A.F., Klenk, H.P., and Goker, M. (2013). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform., 14.","DOI":"10.1186\/1471-2105-14-60"},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"929","DOI":"10.1093\/bioinformatics\/btv681","article-title":"JSpeciesWS: A web server for prokaryotic species circumscription based on pairwise genome comparison","volume":"32","author":"Richter","year":"2016","journal-title":"Bioinformatics"},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"46","DOI":"10.3147\/jsfp.52.46","article-title":"PCR-mediated Identification of the Newly Emerging Pathogen Lactococcus garvieae Serotype II from Seriola quinqueradiata and S. dumerili","volume":"52","author":"Ohbayashi","year":"2017","journal-title":"Fish Pathol."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"D690","DOI":"10.1093\/nar\/gkac920","article-title":"CARD 2023: Expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database","volume":"51","author":"Alcock","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref_45","first-page":"000748","article-title":"ResFinder\u2014An open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes","volume":"8","author":"Florensa","year":"2022","journal-title":"Microb. Genom."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"D871","DOI":"10.1093\/nar\/gkae968","article-title":"VFDB 2025: An integrated resource for exploring anti-virulence compounds","volume":"53","author":"Zhou","year":"2025","journal-title":"Nucleic Acids Res."}],"container-title":["International Journal of Molecular Sciences"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1422-0067\/27\/17\/7582\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T04:26:49Z","timestamp":1787718409000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1422-0067\/27\/17\/7582"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8,24]]},"references-count":46,"journal-issue":{"issue":"17","published-online":{"date-parts":[[2026,9]]}},"alternative-id":["ijms27177582"],"URL":"https:\/\/doi.org\/10.3390\/ijms27177582","relation":{},"ISSN":["1422-0067"],"issn-type":[{"value":"1422-0067","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,8,24]]}}}