{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,7]],"date-time":"2026-11-07T04:39:56Z","timestamp":1794026396569,"version":"4.8.0"},"reference-count":85,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2023,6,27]],"date-time":"2023-06-27T00:00:00Z","timestamp":1687824000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"},{"start":{"date-parts":[[2023,6,27]],"date-time":"2023-06-27T00:00:00Z","timestamp":1687824000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2023,6,27]],"date-time":"2023-06-27T00:00:00Z","timestamp":1687824000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32072915"],"award-info":[{"award-number":["32072915"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31872517"],"award-info":[{"award-number":["31872517"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32172917"],"award-info":[{"award-number":["32172917"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004608","name":"Natural Science Foundation of Jiangsu Province","doi-asserted-by":"publisher","award":["BK20170710"],"award-info":[{"award-number":["BK20170710"]}],"id":[{"id":"10.13039\/501100004608","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004608","name":"Natural Science Foundation of Jiangsu Province","doi-asserted-by":"publisher","award":["BK20210402"],"award-info":[{"award-number":["BK20210402"]}],"id":[{"id":"10.13039\/501100004608","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32072915"],"award-info":[{"award-number":["32072915"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31872517"],"award-info":[{"award-number":["31872517"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["32172917"],"award-info":[{"award-number":["32172917"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004608","name":"Natural Science Foundation of Jiangsu Province","doi-asserted-by":"publisher","award":["BK20170710"],"award-info":[{"award-number":["BK20170710"]}],"id":[{"id":"10.13039\/501100004608","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004608","name":"Natural Science Foundation of Jiangsu Province","doi-asserted-by":"publisher","award":["BK20210402"],"award-info":[{"award-number":["BK20210402"]}],"id":[{"id":"10.13039\/501100004608","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Prophages play important roles in the transduction of various functional traits, including virulence factors, but remain debatable in harboring and transmitting antimicrobial resistance genes (ARGs). Herein we characterize a prevalent family of prophages in Streptococcus, designated SMphages, which harbor twenty-five ARGs that collectively confer resistance to ten antimicrobial classes, including vanG-type vancomycin resistance locus and oxazolidinone resistance gene optrA. SMphages integrate into four chromosome attachment sites by utilizing three types of integration modules and undergo excision in response to phage induction. Moreover, we characterize four subtypes of Alp-related surface proteins within SMphages, the lethal effects of which are extensively validated in cell and animal models. SMphages transfer via high-frequency conjugation that is facilitated by integrative and conjugative elements from either donors or recipients. Our findings explain the widespread of SMphages and the rapid dissemination of ARGs observed in members of the Streptococcus genus.<\/jats:p>","DOI":"10.1038\/s41396-023-01463-4","type":"journal-article","created":{"date-parts":[[2023,6,27]],"date-time":"2023-06-27T07:02:25Z","timestamp":1687849345000},"page":"1467-1481","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":59,"title":["Conjugative transfer of streptococcal prophages harboring antibiotic resistance and virulence genes"],"prefix":"10.1093","volume":"17","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8149-1486","authenticated-orcid":false,"given":"Jinhu","family":"Huang","sequence":"first","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xingyang","family":"Dai","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zuowei","family":"Wu","sequence":"additional","affiliation":[{"name":"Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University , Ames, IA 50011, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3309-9575","authenticated-orcid":false,"given":"Xiao","family":"Hu","sequence":"additional","affiliation":[{"name":"Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University , Ames, IA 50011, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Junjie","family":"Sun","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yijun","family":"Tang","sequence":"additional","affiliation":[{"name":"Ruminant Nutrition and Feed Engineering Technology Research Center, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"},{"name":"Laboratory of Gastrointestinal Microbiology, Jiangsu Key Laboratory of Gastrointestinal Nutrition and Animal Health, National Center for International Research on Animal Gut Nutrition, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wanqiu","family":"Zhang","sequence":"additional","affiliation":[{"name":"Ruminant Nutrition and Feed Engineering Technology Research Center, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"},{"name":"Laboratory of Gastrointestinal Microbiology, Jiangsu Key Laboratory of Gastrointestinal Nutrition and Animal Health, National Center for International Research on Animal Gut Nutrition, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peizhao","family":"Han","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiaqi","family":"Zhao","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guangjin","family":"Liu","sequence":"additional","affiliation":[{"name":"Key Lab of Animal Bacteriology, Ministry of Agriculture, OIE Reference Lab for Swine Streptococcosis, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaoming","family":"Wang","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0089-9314","authenticated-orcid":false,"given":"Shengyong","family":"Mao","sequence":"additional","affiliation":[{"name":"Ruminant Nutrition and Feed Engineering Technology Research Center, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"},{"name":"Laboratory of Gastrointestinal Microbiology, Jiangsu Key Laboratory of Gastrointestinal Nutrition and Animal Health, National Center for International Research on Animal Gut Nutrition, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5928-9377","authenticated-orcid":false,"given":"Yang","family":"Wang","sequence":"additional","affiliation":[{"name":"Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Veterinary Medicine, China Agricultural University , Beijing 100193, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Douglas R","family":"Call","sequence":"additional","affiliation":[{"name":"Paul G. Allen School for Global Health, Washington State University , Pullman, WA 99164, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5302-866X","authenticated-orcid":false,"given":"Jinxin","family":"Liu","sequence":"additional","affiliation":[{"name":"Ruminant Nutrition and Feed Engineering Technology Research Center, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"},{"name":"Laboratory of Gastrointestinal Microbiology, Jiangsu Key Laboratory of Gastrointestinal Nutrition and Animal Health, National Center for International Research on Animal Gut Nutrition, College of Animal Science and Technology, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4648-8155","authenticated-orcid":false,"given":"Liping","family":"Wang","sequence":"additional","affiliation":[{"name":"MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University , Nanjing 210095, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,6,27]]},"reference":[{"key":"2024011017475462600_CR1","doi-asserted-by":"publisher","first-page":"641","DOI":"10.1038\/nrmicro3527","article-title":"A new perspective on lysogeny: prophages as active regulatory switches of bacteria","volume":"13","author":"Feiner","year":"2015","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR2","doi-asserted-by":"publisher","first-page":"1511","DOI":"10.1038\/ismej.2017.16","article-title":"Lysogeny in nature: mechanisms, impact and ecology of temperate phages","volume":"11","author":"Howard-Varona","year":"2017","journal-title":"ISME J."},{"key":"2024011017475462600_CR3","doi-asserted-by":"publisher","first-page":"171","DOI":"10.1016\/j.mib.2014.11.019","article-title":"Bacteriophage-mediated spread of bacterial virulence genes","volume":"23","author":"Penades","year":"2015","journal-title":"Curr Opin Microbiol"},{"key":"2024011017475462600_CR4","doi-asserted-by":"publisher","first-page":"560","DOI":"10.1128\/MMBR.68.3.560-602.2004","article-title":"Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion","volume":"68","author":"Brussow","year":"2004","journal-title":"Microbiol Mol Biol Rev"},{"key":"2024011017475462600_CR5","doi-asserted-by":"publisher","first-page":"fnw015","DOI":"10.1093\/femsle\/fnw015","article-title":"The role of temperate bacteriophages in bacterial infection","volume":"363","author":"Davies","year":"2016","journal-title":"FEMS Microbiol Lett"},{"key":"2024011017475462600_CR6","doi-asserted-by":"publisher","first-page":"3985","DOI":"10.1128\/IAI.70.8.3985-3993.2002","article-title":"Bacteriophage control of bacterial virulence","volume":"70","author":"Wagner","year":"2002","journal-title":"Infect Immun"},{"key":"2024011017475462600_CR7","doi-asserted-by":"publisher","first-page":"O456","DOI":"10.1111\/1469-0691.12446","article-title":"Bacteriophages as a reservoir of extended-spectrum beta-lactamase and fluoroquinolone resistance genes in the environment","volume":"20","author":"Marti","year":"2014","journal-title":"Clin Microbiol Infect"},{"key":"2024011017475462600_CR8","doi-asserted-by":"publisher","first-page":"219","DOI":"10.1038\/nature12212","article-title":"Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome","volume":"499","author":"Modi","year":"2013","journal-title":"Nature."},{"key":"2024011017475462600_CR9","doi-asserted-by":"publisher","first-page":"237","DOI":"10.1038\/ismej.2016.90","article-title":"Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses","volume":"11","author":"Enault","year":"2017","journal-title":"ISME J"},{"key":"2024011017475462600_CR10","doi-asserted-by":"publisher","first-page":"981","DOI":"10.1016\/j.envpol.2016.11.059","article-title":"Exploring the contribution of bacteriophages to antibiotic resistance","volume":"220","author":"Lekunberri","year":"2017","journal-title":"Environ Pollut"},{"key":"2024011017475462600_CR11","doi-asserted-by":"publisher","first-page":"681","DOI":"10.7164\/antibiotics.28.681","article-title":"Transduction of drug resistance to tetracycline, chloramphenicol, macrolides, lincomycin and clindamycin with phages induced from Streptococcus pyogenes","volume":"28","author":"Ubukata","year":"1975","journal-title":"J Antibiot"},{"key":"2024011017475462600_CR12","doi-asserted-by":"publisher","first-page":"559","DOI":"10.1111\/j.1472-765X.2011.03043.x","article-title":"Bacteriophage-mediated transduction of antibiotic resistance in enterococci","volume":"52","author":"Mazaheri Nezhad Fard","year":"2011","journal-title":"Lett Appl Microbiol"},{"key":"2024011017475462600_CR13","doi-asserted-by":"publisher","DOI":"10.1038\/s41426-018-0169-z","article-title":"The disparate effects of bacteriophages on antibiotic-resistant bacteria","volume":"7","author":"Torres-Barcelo","year":"2018","journal-title":"Emerg Microbes Infect"},{"key":"2024011017475462600_CR14"},{"key":"2024011017475462600_CR15","doi-asserted-by":"publisher","first-page":"1361","DOI":"10.1007\/s10096-013-1914-9","article-title":"The pathogenicity of the Streptococcus genus","volume":"32","author":"Krzysciak","year":"2013","journal-title":"Eur J Clin Microbiol Infect Dis"},{"key":"2024011017475462600_CR16","volume-title":"Antibiotic resistance threats in the United States, 2019","author":"CDC","year":"2019"},{"key":"2024011017475462600_CR17","doi-asserted-by":"publisher","first-page":"118","DOI":"10.3389\/fcimb.2016.00118","article-title":"Evolution and diversity of the antimicrobial resistance associated mobilome in Streptococcus suis: a probable mobile genetic elements reservoir for other streptococci","volume":"6","author":"Huang","year":"2016","journal-title":"Front Cell Infect Microbiol"},{"key":"2024011017475462600_CR18","doi-asserted-by":"publisher","first-page":"235","DOI":"10.3389\/fmicb.2011.00235","article-title":"Streptococcus suis, an emerging drug-resistant animal and human pathogen","volume":"2","author":"Palmieri","year":"2011","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR19","doi-asserted-by":"publisher","first-page":"e0005019","DOI":"10.1128\/CMR.00050-19","article-title":"Evolutionary pathways and trajectories in antibiotic resistance","volume":"34","author":"Baquero","year":"2021","journal-title":"Clin Microbiol Rev"},{"key":"2024011017475462600_CR20","doi-asserted-by":"publisher","first-page":"206","DOI":"10.1038\/s41579-021-00650-4","article-title":"Horizontal gene transfer and adaptive evolution in bacteria","volume":"20","author":"Arnold","year":"2022","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR21","doi-asserted-by":"publisher","first-page":"e00088","DOI":"10.1128\/CMR.00088-17","article-title":"Mobile genetic elements associated with antimicrobial resistance","volume":"31","author":"Partridge","year":"2018","journal-title":"Clin Microbiol Rev"},{"key":"2024011017475462600_CR22","doi-asserted-by":"publisher","first-page":"22","DOI":"10.3390\/pathogens9010022","article-title":"Chromosomal conjugative and mobilizable elements in Streptococcus suis: major actors in the spreading of antimicrobial resistance and bacteriocin synthesis genes","volume":"9","author":"Libante","year":"2019","journal-title":"Pathogens"},{"key":"2024011017475462600_CR23","doi-asserted-by":"publisher","first-page":"343","DOI":"10.1128\/AAC.00781-08","article-title":"Genetic elements responsible for erythromycin resistance in streptococci","volume":"53","author":"Varaldo","year":"2009","journal-title":"Antimicrob Agents Chemother"},{"key":"2024011017475462600_CR24","first-page":"1483","article-title":"New insights into the classification and integration specificity of Streptococcus integrative conjugative elements through extensive genome exploration","volume":"6","author":"Ambroset","year":"2015","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR25","doi-asserted-by":"publisher","first-page":"552","DOI":"10.1038\/nrmicro2382","article-title":"Integrative and conjugative elements: mosaic mobile genetic elements enabling dynamic lateral gene flow","volume":"8","author":"Wozniak","year":"2010","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR26","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.mib.2017.03.003","article-title":"Diverse mobilization strategies facilitate transfer of non-conjugative mobile genetic elements","volume":"38","author":"Ramsay","year":"2017","journal-title":"Curr Opin Microbiol"},{"key":"2024011017475462600_CR27","doi-asserted-by":"publisher","first-page":"337","DOI":"10.3390\/genes8110337","article-title":"The obscure world of integrative and mobilizable elements, highly widespread elements that pirate bacterial conjugative systems","volume":"8","author":"Gu\u00e9don","year":"2017","journal-title":"Genes"},{"key":"2024011017475462600_CR28","doi-asserted-by":"publisher","first-page":"4464","DOI":"10.1128\/AAC.01318-09","article-title":"Lysogenic transfer of mef(A) and tet(O) genes carried by \u03a6m46.1 among group A streptococci","volume":"54","author":"Di Luca","year":"2010","journal-title":"Antimicrob Agents Chemother"},{"key":"2024011017475462600_CR29","doi-asserted-by":"publisher","first-page":"207","DOI":"10.1126\/science.aat5867","article-title":"Genome hypermobility by lateral transduction","volume":"362","author":"Chen","year":"2018","journal-title":"Science"},{"key":"2024011017475462600_CR30","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-021-26520-4","article-title":"Lateral transduction is inherent to the life cycle of the archetypical Salmonella phage P22","volume":"12","author":"Fillol-Salom","year":"2021","journal-title":"Nat Commun"},{"key":"2024011017475462600_CR31","doi-asserted-by":"publisher","first-page":"e02115","DOI":"10.1128\/mBio.02115-16","article-title":"Novel \u201csuperspreader\u201d bacteriophages promote horizontal gene transfer by transformation","volume":"8","author":"Keen","year":"2017","journal-title":"mBio"},{"key":"2024011017475462600_CR32","doi-asserted-by":"publisher","DOI":"10.1038\/ncomms13333","article-title":"Bacterial viruses enable their host to acquire antibiotic resistance genes from neighbouring cells","volume":"7","author":"Haaber","year":"2016","journal-title":"Nat Commun"},{"key":"2024011017475462600_CR33","doi-asserted-by":"publisher","first-page":"95","DOI":"10.1016\/j.mib.2017.04.011","article-title":"Beyond the canonical strategies of horizontal gene transfer in prokaryotes","volume":"38","author":"Garcia-Aljaro","year":"2017","journal-title":"Curr Opin Microbiol"},{"key":"2024011017475462600_CR34","doi-asserted-by":"publisher","first-page":"287","DOI":"10.1089\/fpd.2005.2.287","article-title":"Evolution of foodborne pathogens via temperate bacteriophage-mediated gene transfer","volume":"2","author":"Brabban","year":"2005","journal-title":"Foodborne Pathog Dis"},{"key":"2024011017475462600_CR35","doi-asserted-by":"publisher","first-page":"221","DOI":"10.1128\/AAC.00499-09","article-title":"\u03a6m46.1, the main Streptococcus pyogenes element carrying mef(A) and tet(O) genes","volume":"54","author":"Brenciani","year":"2010","journal-title":"Antimicrob Agents Chemother"},{"key":"2024011017475462600_CR36","doi-asserted-by":"publisher","first-page":"1898","DOI":"10.1086\/379897","article-title":"Structure and distribution of an unusual chimeric genetic element encoding macrolide resistance in phylogenetically diverse clones of group A Streptococcus","volume":"188","author":"Banks","year":"2003","journal-title":"J Infect Dis"},{"key":"2024011017475462600_CR37","doi-asserted-by":"publisher","first-page":"13950","DOI":"10.1073\/pnas.0506758102","article-title":"Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial \u201cpan-genome\u201d","volume":"102","author":"Tettelin","year":"2005","journal-title":"Proc Natl Acad Sci Usa"},{"key":"2024011017475462600_CR38","doi-asserted-by":"publisher","first-page":"631","DOI":"10.1128\/AAC.00965-10","article-title":"Different genetic elements carrying the tet(W) gene in two human clinical isolates of Streptococcus suis","volume":"55","author":"Palmieri","year":"2011","journal-title":"Antimicrob Agents Chemother"},{"key":"2024011017475462600_CR39","doi-asserted-by":"publisher","first-page":"927","DOI":"10.1111\/j.1469-0691.2005.01250.x","article-title":"Distribution of mef(A)-containing genetic elements in erythromycin-resistant isolates of Streptococcus pyogenes from Italy","volume":"11","author":"D\u2019Ercole","year":"2005","journal-title":"Clin Microbiol Infect"},{"key":"2024011017475462600_CR40","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1038\/s41579-019-0311-5","article-title":"Phage diversity, genomics and phylogeny","volume":"18","author":"Dion","year":"2020","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR41","doi-asserted-by":"publisher","first-page":"2026","DOI":"10.3389\/fmicb.2019.02026","article-title":"Characterization of a linezolid- and vancomycin-resistant Streptococcus suis isolate that harbors optrA and vanG operons","volume":"10","author":"Du","year":"2019","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR42","doi-asserted-by":"publisher","first-page":"5210","DOI":"10.1128\/JB.00473-07","article-title":"Identification of a novel streptococcal gene cassette mediating SOS mutagenesis in Streptococcus uberis","volume":"189","author":"Varhimo","year":"2007","journal-title":"J Bacteriol"},{"key":"2024011017475462600_CR43","doi-asserted-by":"publisher","first-page":"e01386","DOI":"10.1128\/mBio.01386-14","article-title":"vanG element insertions within a conserved chromosomal site conferring vancomycin resistance to Streptococcus agalactiae and Streptococcus anginosus","volume":"5","author":"Srinivasan","year":"2014","journal-title":"mBio"},{"key":"2024011017475462600_CR44","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1038\/nrmicro3199","article-title":"Bacterial transformation: distribution, shared mechanisms and divergent control","volume":"12","author":"Johnston","year":"2014","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR45","doi-asserted-by":"publisher","first-page":"1308","DOI":"10.1111\/mmi.14364","article-title":"HtrA-mediated selective degradation of DNA uptake apparatus accelerates termination of pneumococcal transformation","volume":"112","author":"Liu","year":"2019","journal-title":"Mol Microbiol"},{"key":"2024011017475462600_CR46","first-page":"746","article-title":"Transduction of the Streptococcus pyogenes bacteriophage \u03a6m46.1, carrying resistance genes mef(A) and tet(O), to other Streptococcus species","volume":"5","author":"Giovanetti","year":"2014","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR47","doi-asserted-by":"publisher","first-page":"761","DOI":"10.1084\/jem.119.5.761","article-title":"The role of temperate bacteriophage in the production of erythrogenic toxin by group A streptococci","volume":"119","author":"Zabriskie","year":"1964","journal-title":"J Exp Med"},{"key":"2024011017475462600_CR48","doi-asserted-by":"publisher","first-page":"7681","DOI":"10.1073\/pnas.112464599","article-title":"Induction of natural competence in Streptococcus pneumoniae triggers lysis and DNA release from a subfraction of the cell population","volume":"99","author":"Steinmoen","year":"2002","journal-title":"Proc Natl Acad Sci Usa"},{"key":"2024011017475462600_CR49","doi-asserted-by":"publisher","first-page":"834","DOI":"10.1177\/039139880803100912","article-title":"The alpha-like surface proteins: an example of an expanding family of adhesins","volume":"31","author":"Creti","year":"2008","journal-title":"Int J Artif Organs"},{"key":"2024011017475462600_CR50","doi-asserted-by":"publisher","first-page":"13251","DOI":"10.1073\/pnas.94.24.13251","article-title":"Inactivation of the alpha C protein antigen gene, bca, by a novel shuttle\/suicide vector results in attenuation of virulence and immunity in group B Streptococcus","volume":"94","author":"Li","year":"1997","journal-title":"Proc Natl Acad Sci Usa"},{"key":"2024011017475462600_CR51","doi-asserted-by":"publisher","first-page":"208","DOI":"10.1046\/j.1365-2958.1999.01470.x","article-title":"The R28 protein of Streptococcus pyogenes is related to several group B streptococcal surface proteins, confers protective immunity and promotes binding to human epithelial cells","volume":"33","author":"St\u00e5lhammar-Carlemalm","year":"1999","journal-title":"Mol Microbiol"},{"key":"2024011017475462600_CR52","doi-asserted-by":"publisher","first-page":"224","DOI":"10.1111\/j.1472-765X.2006.02045.x","article-title":"Lateral transfer of alpha-like protein gene cassettes among streptococci: identification of a new family member in Streptococcus dysgalactiae subsp. equisimilis","volume":"44","author":"Creti","year":"2007","journal-title":"Lett Appl Microbiol"},{"key":"2024011017475462600_CR53","doi-asserted-by":"publisher","first-page":"6653","DOI":"10.1128\/JB.01788-12","article-title":"Complete genome sequence of Streptococcus agalactiae GD201008-001, isolated in China from tilapia with meningoencephalitis","volume":"194","author":"Liu","year":"2012","journal-title":"J Bacteriol"},{"key":"2024011017475462600_CR54","doi-asserted-by":"publisher","first-page":"e1004219","DOI":"10.1371\/journal.ppat.1004219","article-title":"Bacteriophages as vehicles for antibiotic resistance genes in the environment","volume":"10","author":"Balcazar","year":"2014","journal-title":"PLoS Pathog"},{"key":"2024011017475462600_CR55","first-page":"97","article-title":"Why bacteriophage encode exotoxins and other virulence factors","volume":"1","author":"Abedon","year":"2007","journal-title":"Evol Bioinform Online"},{"key":"2024011017475462600_CR56","doi-asserted-by":"publisher","first-page":"e00260","DOI":"10.1128\/mBio.00260-11","article-title":"Antibiotics in feed induce prophages in swine fecal microbiomes","volume":"2","author":"Allen","year":"2011","journal-title":"mBio."},{"key":"2024011017475462600_CR57","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1007\/s00284-019-01817-2","article-title":"Phage transduction is involved in the intergeneric spread of antibiotic resistance-associated blaCTX-M, mel, and tetM loci in natural populations of some human and animal bacterial pathogens","volume":"77","author":"Gabashvili","year":"2020","journal-title":"Curr Microbiol"},{"key":"2024011017475462600_CR58","doi-asserted-by":"publisher","first-page":"443","DOI":"10.3389\/fmicb.2017.00443","article-title":"A glimpse into the world of integrative and mobilizable elements in streptococci reveals an unexpected diversity and novel families of mobilization proteins","volume":"8","author":"Coluzzi","year":"2017","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR59","doi-asserted-by":"publisher","first-page":"153","DOI":"10.1128\/CVI.00643-14","article-title":"Survey of immunological features of the alpha-like proteins of Streptococcus agalactiae","volume":"22","author":"Maeland","year":"2015","journal-title":"Clin Vaccin Immunol"},{"key":"2024011017475462600_CR60","doi-asserted-by":"publisher","first-page":"102","DOI":"10.1128\/CMR.18.1.102-127.2005","article-title":"Surface proteins of Streptococcus agalactiae and related proteins in other bacterial pathogens","volume":"18","author":"Lindahl","year":"2005","journal-title":"Clin Microbiol Rev"},{"key":"2024011017475462600_CR61","doi-asserted-by":"publisher","first-page":"706","DOI":"10.3390\/antibiotics11060706","article-title":"Are virulence and antibiotic resistance genes linked? A comprehensive analysis of bacterial chromosomes and plasmids","volume":"11","author":"Darmancier","year":"2022","journal-title":"Antibiotics (Basel)"},{"key":"2024011017475462600_CR62","doi-asserted-by":"publisher","first-page":"1549","DOI":"10.1128\/AAC.44.6.1549-1555.2000","article-title":"A new class of genetic element, Staphylococcus cassette chromosome mec, encodes methicillin resistance in Staphylococcus aureus","volume":"44","author":"Katayama","year":"2000","journal-title":"Antimicrob Agents Chemother"},{"key":"2024011017475462600_CR63","doi-asserted-by":"publisher","first-page":"541","DOI":"10.1038\/nrmicro2393","article-title":"The phage-related chromosomal islands of Gram-positive bacteria","volume":"8","author":"Novick","year":"2010","journal-title":"Nat Rev Microbiol"},{"key":"2024011017475462600_CR64","doi-asserted-by":"publisher","first-page":"e1002222","DOI":"10.1371\/journal.pgen.1002222","article-title":"The repertoire of ICE in prokaryotes underscores the unity, diversity, and ubiquity of conjugation","volume":"7","author":"Guglielmini","year":"2011","journal-title":"PLoS Genet"},{"key":"2024011017475462600_CR65","doi-asserted-by":"publisher","first-page":"576","DOI":"10.1111\/j.1365-2958.2010.07364.x","article-title":"Integrating conjugative elements of the SXT\/R391 family trigger the excision and drive the mobilization of a new class of Vibrio genomic islands","volume":"78","author":"Daccord","year":"2010","journal-title":"Mol Microbiol"},{"key":"2024011017475462600_CR66","doi-asserted-by":"publisher","first-page":"537","DOI":"10.1111\/j.1365-2958.2010.07365.x","article-title":"Mobilizable genomic islands: going mobile with oriT mimicry","volume":"78","author":"Waldor","year":"2010","journal-title":"Mol Microbiol"},{"key":"2024011017475462600_CR67","doi-asserted-by":"publisher","first-page":"55","DOI":"10.3389\/fmicb.2016.00055","article-title":"Comparative genomic analysis of the ICESa2603 family ICEs and spread of erm(B)- and tet(O)-carrying transferable 89K-subtype ICEs in swine and bovine isolates in China","volume":"7","author":"Huang","year":"2016","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR68","volume-title":"Performance Standards for Antimicrobial Susceptibility Testing","author":"CLSI","year":"2023","edition":"33rd"},{"key":"2024011017475462600_CR69","doi-asserted-by":"publisher","first-page":"2640","DOI":"10.1093\/jac\/dks261","article-title":"Identification of acquired antimicrobial resistance genes","volume":"67","author":"Zankari","year":"2012","journal-title":"J Antimicrob Chemother"},{"key":"2024011017475462600_CR70","doi-asserted-by":"publisher","first-page":"D32","DOI":"10.1093\/nar\/gkj014","article-title":"ISfinder: the reference centre for bacterial insertion sequences","volume":"34","author":"Siguier","year":"2006","journal-title":"Nucleic Acids Res"},{"key":"2024011017475462600_CR71","doi-asserted-by":"publisher","first-page":"W327","DOI":"10.1093\/nar\/gkh454","article-title":"CD-Search: protein domain annotations on the fly","volume":"32","author":"Marchler-Bauer","year":"2004","journal-title":"Nucleic Acids Res"},{"key":"2024011017475462600_CR72","doi-asserted-by":"publisher","first-page":"140","DOI":"10.1006\/plas.2001.1532","article-title":"Thermosensitive suicide vectors for gene replacement in Streptococcus suis","volume":"46","author":"Takamatsu","year":"2001","journal-title":"Plasmid"},{"key":"2024011017475462600_CR73","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1006\/plas.2000.1510","article-title":"Construction and characterization of Streptococcus suis-Escherichia coli shuttle cloning vectors","volume":"45","author":"Takamatsu","year":"2001","journal-title":"Plasmid"},{"key":"2024011017475462600_CR74","doi-asserted-by":"publisher","first-page":"6186","DOI":"10.1128\/IAI.69.10.6186-6192.2001","article-title":"Proteins PblA and PblB of Streptococcus mitis, which promote binding to human platelets, are encoded within a lysogenic bacteriophage","volume":"69","author":"Bensing","year":"2001","journal-title":"Infect Immun"},{"key":"2024011017475462600_CR75","doi-asserted-by":"publisher","first-page":"336","DOI":"10.1016\/j.ygeno.2013.04.005","article-title":"Comparative genomic analysis of twelve Streptococcus suis (pro)phages","volume":"101","author":"Tang","year":"2013","journal-title":"Genomics"},{"key":"2024011017475462600_CR76","doi-asserted-by":"publisher","first-page":"207","DOI":"10.2217\/fmb-2018-0279","article-title":"Utilization of the ComRS system for the rapid markerless deletion of chromosomal genes in Streptococcus suis","volume":"14","author":"Zhu","year":"2019","journal-title":"Future Microbiol"},{"key":"2024011017475462600_CR77","doi-asserted-by":"publisher","first-page":"e99394","DOI":"10.1371\/journal.pone.0099394","article-title":"Control of competence for DNA transformation in Streptococcus suis by genetically transferable pherotypes","volume":"9","author":"Zaccaria","year":"2014","journal-title":"PLoS One"},{"key":"2024011017475462600_CR78","doi-asserted-by":"publisher","first-page":"628740","DOI":"10.3389\/fmicb.2021.628740","article-title":"Horizontal transfer of different erm(B)-carrying mobile elements among Streptococcus suis strains with different serotypes","volume":"12","author":"Chen","year":"2021","journal-title":"Front Microbiol"},{"key":"2024011017475462600_CR79","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1128\/JCM.41.6.2498-2502.2003","article-title":"Analysis of genetic diversity of Streptococcus suis clinical isolates from pigs in Spain by pulsed-field gel electrophoresis","volume":"41","author":"Vela","year":"2003","journal-title":"J Clin Microbiol"},{"key":"2024011017475462600_CR80","doi-asserted-by":"publisher","first-page":"1454","DOI":"10.1002\/jsfa.6841","article-title":"Genetic diversity of Streptococcus suis isolated from three pig farms of China obtained by acquiring antibiotic resistance genes","volume":"95","author":"Huang","year":"2015","journal-title":"J Sci Food Agr"},{"key":"2024011017475462600_CR81","doi-asserted-by":"publisher","first-page":"287","DOI":"10.4103\/ijmy.ijmy_97_19","article-title":"Competitive fitness of Mycobacterium tuberculosis in vitro","volume":"8","author":"Kodio","year":"2019","journal-title":"Int J Mycobacteriol"},{"key":"2024011017475462600_CR82"},{"key":"2024011017475462600_CR83","doi-asserted-by":"publisher","first-page":"e136737","DOI":"10.1172\/JCI136737","article-title":"CC17 group B Streptococcus exploits integrins for neonatal meningitis development","volume":"131","author":"Deshayes de Cambronne","year":"2021","journal-title":"J Clin Investig"},{"key":"2024011017475462600_CR84","doi-asserted-by":"publisher","first-page":"3904","DOI":"10.1128\/IAI.70.7.3904-3914.2002","article-title":"Streptococcus-zebrafish model of bacterial pathogenesis","volume":"70","author":"Neely","year":"2002","journal-title":"Infect Immun"},{"key":"2024011017475462600_CR85","doi-asserted-by":"publisher","first-page":"493","DOI":"10.1093\/oxfordjournals.aje.a118408","article-title":"A simple method of estimating fifty per cent endpoints","volume":"27","author":"Reed","year":"1938","journal-title":"Am J Epidemiol"}],"container-title":["The ISME Journal"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41396-023-01463-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41396-023-01463-4","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/17\/9\/1467\/55362848\/41396_2023_article_1463.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/www.nature.com\/articles\/s41396-023-01463-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/17\/9\/1467\/55362848\/41396_2023_article_1463.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,14]],"date-time":"2024-02-14T13:15:57Z","timestamp":1707916557000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/ismej\/article\/17\/9\/1467-1481\/7505831"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,6,27]]},"references-count":85,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2023,9,1]]}},"URL":"https:\/\/doi.org\/10.1038\/s41396-023-01463-4","relation":{},"ISSN":["1751-7362","1751-7370"],"issn-type":[{"value":"1751-7362","type":"print"},{"value":"1751-7370","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2023,9]]},"published":{"date-parts":[[2023,6,27]]},"assertion":[{"value":"19 February 2023","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"6 June 2023","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"16 June 2023","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 June 2023","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"Animal experiments were carried out at the Laboratory Animal Center of Nanjing Agricultural University, according to the guidelines of Experimental Animal Management Measures of Jiangsu Province and were approved by the Laboratory Animal Monitoring Committee of Jiangsu Province, China [Permit number: SYXK (Su) 2017-0007].","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics statement"}}]}}