{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,11]],"date-time":"2025-12-11T20:56:49Z","timestamp":1765486609898,"version":"build-2065373602"},"reference-count":52,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T00:00:00Z","timestamp":1630454400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2021,5,11]],"date-time":"2021-05-11T00:00:00Z","timestamp":1620691200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100002924","name":"FEDER","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100002924","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000272","name":"NIHR","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000272","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000691","name":"Academy of Medical Sciences","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000691","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Global Antimicrobial Resistance"],"published-print":{"date-parts":[[2021,9]]},"DOI":"10.1016\/j.jgar.2021.04.018","type":"journal-article","created":{"date-parts":[[2021,5,27]],"date-time":"2021-05-27T17:41:51Z","timestamp":1622137311000},"page":"77-83","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":4,"special_numbering":"C","title":["Whole-genome analysis uncovers loss of blaZ associated with carriage isolates belonging to methicillin-resistant Staphylococcus aureus (MRSA) clone ST5-VI in Cape Verde"],"prefix":"10.1016","volume":"26","author":[{"given":"Magdalena","family":"Wysocka","sequence":"first","affiliation":[]},{"given":"Tamar","family":"Monteiro","sequence":"additional","affiliation":[]},{"given":"Carine","family":"de Pina","sequence":"additional","affiliation":[]},{"given":"Deisy","family":"Gon\u00e7alves","sequence":"additional","affiliation":[]},{"given":"Sandrine","family":"de Pina","sequence":"additional","affiliation":[]},{"given":"Antonio","family":"Ludgero-Correia","sequence":"additional","affiliation":[]},{"given":"Joao","family":"Moreno","sequence":"additional","affiliation":[]},{"given":"Roxana","family":"Zamudio","sequence":"additional","affiliation":[]},{"given":"Nada","family":"Almebairik","sequence":"additional","affiliation":[]},{"given":"Laura J.","family":"Gray","sequence":"additional","affiliation":[]},{"given":"Manish","family":"Pareek","sequence":"additional","affiliation":[]},{"given":"David R.","family":"Jenkins","sequence":"additional","affiliation":[]},{"given":"Marta","family":"Aires-de-Sousa","sequence":"additional","affiliation":[]},{"given":"Herminia","family":"De Lencastre","sequence":"additional","affiliation":[]},{"given":"Sandra","family":"Beleza","sequence":"additional","affiliation":[]},{"given":"Isabel I.","family":"Araujo","sequence":"additional","affiliation":[]},{"given":"Teresa","family":"Concei\u00e7\u00e3o","sequence":"additional","affiliation":[]},{"given":"Marco R.","family":"Oggioni","sequence":"additional","affiliation":[]}],"member":"78","reference":[{"key":"10.1016\/j.jgar.2021.04.018_bib0001","doi-asserted-by":"crossref","first-page":"e34768","DOI":"10.1371\/journal.pone.0034768","article-title":"High genetic diversity among community-associated Staphylococcus aureus in Europe: results from a multicenter study","volume":"7","author":"Rolo","year":"2012","journal-title":"PLoS One"},{"key":"10.1016\/j.jgar.2021.04.018_bib0002","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pmed.1000215","article-title":"Geographic distribution of Staphylococcus aureus causing invasive infections in Europe: a molecular-epidemiological analysis","volume":"7","author":"Grundmann","year":"2010","journal-title":"PLoS Med"},{"key":"10.1016\/j.jgar.2021.04.018_bib0003","doi-asserted-by":"crossref","first-page":"2842","DOI":"10.1128\/JCM.00521-08","article-title":"Molecular epidemiology of methicillin-resistant and methicillin-susceptible Staphylococcus aureus isolates from global clinical trials","volume":"46","author":"Goering","year":"2008","journal-title":"J Clin Microbiol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0004","doi-asserted-by":"crossref","first-page":"842.e1","DOI":"10.1016\/j.cmi.2015.05.010","article-title":"Staphylococcus aureus in former Portuguese colonies from Africa and the Far East: missing data to help fill the world map","volume":"21","author":"Concei\u00e7\u00e3o","year":"2015","journal-title":"Clin Microbiol Infect"},{"key":"10.1016\/j.jgar.2021.04.018_bib0005","doi-asserted-by":"crossref","first-page":"1048","DOI":"10.1111\/j.1365-3156.2012.03027.x","article-title":"Health research in Africa: getting priorities right","volume":"17","author":"Olesen","year":"2012","journal-title":"Trop Med Int Health"},{"key":"10.1016\/j.jgar.2021.04.018_bib0006","doi-asserted-by":"crossref","first-page":"133","DOI":"10.1089\/107662900419447","article-title":"Epidemiological study of staphylococcal colonization and cross-infection in two West African hospitals","volume":"6","author":"Aires-de-Sousa","year":"2000","journal-title":"Microb Drug Resist"},{"key":"10.1016\/j.jgar.2021.04.018_bib0007","doi-asserted-by":"crossref","first-page":"3790","DOI":"10.1128\/JCM.01192-06","article-title":"Unusual high prevalence of nosocomial Panton-Valentine leukocidin-positive Staphylococcus aureus isolates in Cape Verde islands","volume":"44","author":"Aires-de-Sousa","year":"2006","journal-title":"J Clin Microbiol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0008","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1089\/mdr.2013.0136","article-title":"Staphylococcus aureus nasal carriage among patients and health care workers in S\u00e3o Tom\u00e9 and Pr\u00edncipe","volume":"20","author":"Concei\u00e7\u00e3o","year":"2014","journal-title":"Microb Drug Resist"},{"key":"10.1016\/j.jgar.2021.04.018_bib0009","first-page":"3200","article-title":"Frequent occurrence of oxacillin-susceptible mecA-positive Staphylococcus aureus (OS-MRSA) strains in two African countries","volume":"70","author":"Concei\u00e7\u00e3o","year":"2015","journal-title":"J Antimicrob Chemother"},{"year":"2019","series-title":"Surveillance of antimicrobial resistance in Europe 2018","key":"10.1016\/j.jgar.2021.04.018_bib0010"},{"key":"10.1016\/j.jgar.2021.04.018_bib0011","doi-asserted-by":"crossref","first-page":"5150","DOI":"10.1128\/JCM.43.10.5150-5157.2005","article-title":"Comparison of genetic backgrounds of methicillin-resistant and -susceptible Staphylococcus aureus isolates from Portuguese hospitals and the community","volume":"43","author":"Aires-de-Sousa","year":"2005","journal-title":"J Clin Microbiol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0012","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0188855","article-title":"Carriage of Staphylococcus aureus among Portuguese nursing students: a longitudinal cohort study over four years of education","volume":"12","author":"Concei\u00e7\u00e3o","year":"2017","journal-title":"PLoS One"},{"key":"10.1016\/j.jgar.2021.04.018_bib0013","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"1","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgar.2021.04.018_bib0014","series-title":"Research in Computational Molecular Biology. RECOMB 2013. Lecture notes in computer science, Vol. 7821","first-page":"158","article-title":"Assembling genomes and mini-metagenomes from highly chimeric reads","author":"Nurk","year":"2013"},{"key":"10.1016\/j.jgar.2021.04.018_bib0015","doi-asserted-by":"crossref","first-page":"i142","DOI":"10.1093\/bioinformatics\/bty266","article-title":"Versatile genome assembly evaluation with QUAST-LG","volume":"34","author":"Mikheenko","year":"2018","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgar.2021.04.018_bib0016","doi-asserted-by":"crossref","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","article-title":"Prokka: rapid prokaryotic genome annotation","volume":"30","author":"Seemann","year":"2014","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgar.2021.04.018_bib0017","doi-asserted-by":"crossref","first-page":"3691","DOI":"10.1093\/bioinformatics\/btv421","article-title":"Roary: rapid large-scale prokaryote pan genome analysis","volume":"31","author":"Page","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgar.2021.04.018_bib0018","doi-asserted-by":"crossref","first-page":"1792","DOI":"10.1093\/nar\/gkh340","article-title":"MUSCLE: multiple sequence alignment with high accuracy and high throughput","volume":"32","author":"Edgar","year":"2004","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/j.jgar.2021.04.018_bib0019","doi-asserted-by":"crossref","first-page":"1312","DOI":"10.1093\/bioinformatics\/btu033","article-title":"RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies","volume":"30","author":"Stamatakis","year":"2014","journal-title":"Bioinformatics"},{"key":"10.1016\/j.jgar.2021.04.018_bib0020","doi-asserted-by":"crossref","first-page":"28","DOI":"10.1111\/2041-210X.12628","article-title":"ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data","volume":"8","author":"Yu","year":"2017","journal-title":"Meth Ecol Evol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0021","doi-asserted-by":"crossref","first-page":"93","DOI":"10.12688\/wellcomeopenres.14694.1","article-title":"RhierBAPS: an R implementation of the population clustering algorithm hierBAPS","volume":"3","author":"Tonkin-Hill","year":"2018","journal-title":"Wellcome Open Res"},{"key":"10.1016\/j.jgar.2021.04.018_bib0022","doi-asserted-by":"crossref","first-page":"1224","DOI":"10.1093\/molbev\/mst028","article-title":"Hierarchical and spatially explicit clustering of DNA sequences with BAPS software","volume":"30","author":"Cheng","year":"2013","journal-title":"Mol Biol Evol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0023","doi-asserted-by":"crossref","first-page":"80","DOI":"10.4161\/fly.19695","article-title":"A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3","volume":"6","author":"Cingolani","year":"2012","journal-title":"Fly (Austin)"},{"year":"2021","series-title":"ABRicate","author":"Seemann","key":"10.1016\/j.jgar.2021.04.018_sbref0024"},{"key":"10.1016\/j.jgar.2021.04.018_bib0025","doi-asserted-by":"crossref","first-page":"D566","DOI":"10.1093\/nar\/gkw1004","article-title":"CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database","volume":"45","author":"Jia","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/j.jgar.2021.04.018_bib0026","doi-asserted-by":"crossref","first-page":"D694","DOI":"10.1093\/nar\/gkv1239","article-title":"VFDB 2016: hierarchical and refined dataset for big data analysis\u201410 years on","volume":"44","author":"Chen","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/j.jgar.2021.04.018_bib0027","doi-asserted-by":"crossref","first-page":"3895","DOI":"10.1128\/AAC.02412-14","article-title":"In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing","volume":"58","author":"Carattoli","year":"2014","journal-title":"Antimicrob Agents Chemother"},{"key":"10.1016\/j.jgar.2021.04.018_bib0028","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/j.vetmic.2016.05.006","article-title":"The pathogenicity and host adaptation of livestock-associated MRSA CC398","volume":"200","author":"Ballhausen","year":"2017","journal-title":"Vet Microbiol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0029","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0175340","article-title":"Frequent isolation of methicillin resistant Staphylococcus aureus (MRSA) ST398 among healthy pigs in Portugal","volume":"12","author":"Concei\u00e7\u00e3o","year":"2017","journal-title":"PLoS One"},{"key":"10.1016\/j.jgar.2021.04.018_bib0030","doi-asserted-by":"crossref","first-page":"373","DOI":"10.1016\/j.cmi.2016.11.002","article-title":"Methicillin-resistant Staphylococcus aureus among animals: current overview","volume":"23","author":"Aires-de-Sousa","year":"2017","journal-title":"Clin Microbiol Infect"},{"key":"10.1016\/j.jgar.2021.04.018_bib0031","series-title":"Gram-positive pathogens","first-page":"381","article-title":"The Staphylococcus aureus NCTC 8325 genome","author":"Gillaspy","year":"2006"},{"key":"10.1016\/j.jgar.2021.04.018_bib0032","doi-asserted-by":"crossref","first-page":"e01692","DOI":"10.1128\/mBio.01692-14","article-title":"Absence of patient-to-patient intrahospital transmission of Staphylococcus aureus as determined by whole-genome sequencing","volume":"5","author":"Long","year":"2014","journal-title":"mBio"},{"key":"10.1016\/j.jgar.2021.04.018_bib0033","doi-asserted-by":"crossref","first-page":"609","DOI":"10.1093\/cid\/cit807","article-title":"Whole-genome sequencing shows that patient-to-patient transmission rarely accounts for acquisition of Staphylococcus aureus in an intensive care unit","volume":"58","author":"Price","year":"2014","journal-title":"Clin Infect Dis"},{"key":"10.1016\/j.jgar.2021.04.018_bib0034","doi-asserted-by":"crossref","first-page":"e61319","DOI":"10.1371\/journal.pone.0061319","article-title":"Within-host evolution of Staphylococcus aureus during asymptomatic carriage","volume":"8","author":"Golubchik","year":"2013","journal-title":"PLoS One"},{"key":"10.1016\/j.jgar.2021.04.018_bib0035","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1186\/s13100-019-0182-3","article-title":"The Transposon Registry","volume":"10","author":"Tansirichaiya","year":"2019","journal-title":"Mob DNA"},{"key":"10.1016\/j.jgar.2021.04.018_bib0036","doi-asserted-by":"crossref","first-page":"3029","DOI":"10.1128\/JB.186.10.3029-3037.2004","article-title":"Transcription of the Staphylococcus aureus cid and lrg murein hydrolase regulators is affected by sigma factor B","volume":"186","author":"Rice","year":"2004","journal-title":"J Bacteriol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0037","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1016\/j.ajic.2016.05.015","article-title":"Infection control in the new age of genomic epidemiology","volume":"45","author":"Tang","year":"2017","journal-title":"Am J Infect Control"},{"key":"10.1016\/j.jgar.2021.04.018_bib0038","doi-asserted-by":"crossref","first-page":"589","DOI":"10.1111\/1469-0691.12690","article-title":"New epidemiology ofStaphylococcus aureus infection in Africa","volume":"20","author":"Schaumburg","year":"2014","journal-title":"Clin Microbiol Infect"},{"key":"10.1016\/j.jgar.2021.04.018_bib0039","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1186\/1756-0500-4-453","article-title":"Detection of macrolide and disinfectant resistance genes in clinical Staphylococcus aureus and coagulase-negative staphylococci","volume":"4","author":"Zmantar","year":"2011","journal-title":"BMC Res Notes"},{"key":"10.1016\/j.jgar.2021.04.018_bib0040","doi-asserted-by":"crossref","first-page":"911","DOI":"10.1007\/s10096-018-3205-y","article-title":"CC398 Staphylococcus aureus subpopulations in Belgian patients","volume":"37","author":"Argud\u00edn","year":"2018","journal-title":"Eur J Clin Microbiol Infect Dis"},{"key":"10.1016\/j.jgar.2021.04.018_bib0041","doi-asserted-by":"crossref","first-page":"483","DOI":"10.1016\/j.jgar.2020.04.002","article-title":"A five-year retrospective study shows increasing rates of antimicrobial drug resistance in Cabo Verde for both Staphylococcus aureus and Escherichia coli","volume":"22","author":"Monteiro","year":"2020","journal-title":"J Glob Antimicrob Res"},{"key":"10.1016\/j.jgar.2021.04.018_bib0042","doi-asserted-by":"crossref","first-page":"2337","DOI":"10.1093\/jac\/dku176","article-title":"Antimicrobial drug resistance among clinically relevant bacterial isolates in sub-Saharan Africa: a systematic review","volume":"69","author":"Leopold","year":"2014","journal-title":"J Antimicrob Chemother"},{"key":"10.1016\/j.jgar.2021.04.018_bib0043","doi-asserted-by":"crossref","first-page":"616","DOI":"10.1186\/s12879-017-2713-1","article-title":"Antimicrobial resistance in Africa: a systematic review","volume":"17","author":"Tadesse","year":"2017","journal-title":"BMC Infect Dis"},{"key":"10.1016\/j.jgar.2021.04.018_bib0044","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1093\/jac\/47.2.239","article-title":"Resistance to tetracycline and distribution of tetracycline resistance genes in European Staphylococcus aureus isolates","volume":"47","author":"Schmitz","year":"2001","journal-title":"J Antimicrob Chemother"},{"key":"10.1016\/j.jgar.2021.04.018_bib0045","doi-asserted-by":"crossref","first-page":"644.e1","DOI":"10.1016\/j.cmi.2016.04.009","article-title":"Unveiling the molecular basis of antimicrobial resistance in Staphylococcus aureus from the Democratic Republic of the Congo using whole genome sequencing","volume":"22","author":"Phaku","year":"2016","journal-title":"Clin Microbiol Infect"},{"key":"10.1016\/j.jgar.2021.04.018_bib0046","doi-asserted-by":"crossref","first-page":"1512","DOI":"10.1086\/313522","article-title":"Unusual spread of a penicillin-susceptible methicillin-resistant Staphylococcus aureus clone in a geographic area of low incidence","volume":"29","author":"Blanc","year":"1999","journal-title":"Clin Infect Dis"},{"key":"10.1016\/j.jgar.2021.04.018_bib0047","doi-asserted-by":"crossref","first-page":"3037","DOI":"10.1128\/AAC.02621-12","volume":"57","author":"Arede","year":"2013","journal-title":"Antimicrob Agents Chemother"},{"key":"10.1016\/j.jgar.2021.04.018_bib0048","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1086\/648613","article-title":"Augmented production of Panton\u2013Valentine leukocidin toxin in methicillin-resistant and methicillin-susceptibleStaphylococcus aureus is associated with worse outcome in a murine skin infection model","volume":"201","author":"Varshney","year":"2010","journal-title":"J Infect Dis"},{"key":"10.1016\/j.jgar.2021.04.018_bib0049","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1016\/S0195-6701(07)60025-5","article-title":"Virulence determinants in community and hospital meticillin-resistant Staphylococcus aureus","volume":"65","author":"Tristan","year":"2007","journal-title":"J Hosp Infect"},{"key":"10.1016\/j.jgar.2021.04.018_bib0050","doi-asserted-by":"crossref","first-page":"469","DOI":"10.1126\/science.1182395","article-title":"Evolution of MRSA during hospital transmission and intercontinental spread","volume":"327","author":"Harris","year":"2010","journal-title":"Science"},{"key":"10.1016\/j.jgar.2021.04.018_bib0051","doi-asserted-by":"crossref","first-page":"2869","DOI":"10.1128\/JCM.01193-15","article-title":"Defining and evaluating a core genome multilocus sequence typing scheme for whole-genome sequence-based typing of Listeria monocytogenes","volume":"53","author":"Ruppitsch","year":"2015","journal-title":"J Clin Microbiol"},{"key":"10.1016\/j.jgar.2021.04.018_bib0052","doi-asserted-by":"crossref","first-page":"16185","DOI":"10.1038\/nmicrobiol.2016.185","article-title":"Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes","volume":"2","author":"Moura","year":"2016","journal-title":"Nat Microbiol"}],"container-title":["Journal of Global Antimicrobial Resistance"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S221371652100117X?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S221371652100117X?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2022,7,20]],"date-time":"2022-07-20T08:51:40Z","timestamp":1658307100000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S221371652100117X"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,9]]},"references-count":52,"alternative-id":["S221371652100117X"],"URL":"https:\/\/doi.org\/10.1016\/j.jgar.2021.04.018","relation":{},"ISSN":["2213-7165"],"issn-type":[{"type":"print","value":"2213-7165"}],"subject":[],"published":{"date-parts":[[2021,9]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Whole-genome analysis uncovers loss of blaZ associated with carriage isolates belonging to methicillin-resistant Staphylococcus aureus (MRSA) clone ST5-VI in Cape Verde","name":"articletitle","label":"Article Title"},{"value":"Journal of Global Antimicrobial Resistance","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.jgar.2021.04.018","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2021 The Authors. Published by Elsevier Ltd on behalf of International Society for Antimicrobial Chemotherapy.","name":"copyright","label":"Copyright"}]}}