{"id":"https://openalex.org/W1543376881","doi":"https://doi.org/10.1186/1471-2164-15-1145","title":"Genomic and transcriptomic differences in community acquired methicillin resistant Staphylococcus aureus USA300 and USA400 strains","display_name":"Genomic and transcriptomic differences in community acquired methicillin resistant Staphylococcus aureus USA300 and USA400 strains","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W1543376881","doi":"https://doi.org/10.1186/1471-2164-15-1145","mag":"1543376881","pmid":"https://pubmed.ncbi.nlm.nih.gov/25527145","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/4630920"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2164-15-1145","doi":"https://doi.org/10.1186/1471-2164-15-1145","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2164-15-1145","pdf_url":"https://bmcgenomics.biomedcentral.com/counter/pdf/10.1186/1471-2164-15-1145","source":{"id":"https://openalex.org/S28614077","display_name":"BMC Genomics","issn_l":"1471-2164","issn":["1471-2164"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Genomics","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcgenomics.biomedcentral.com/counter/pdf/10.1186/1471-2164-15-1145","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072556527","display_name":"Marcus B. Jones","orcid":"https://orcid.org/0000-0001-6018-1067","observed_orcids":["https://orcid.org/0000-0001-6018-1067"]},"institutions":[{"id":"https://openalex.org/I1301553790","display_name":"J. Craig Venter Institute","ror":"https://ror.org/049r1ts75","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1301553790"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Marcus B Jones","raw_affiliation_strings":["J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, CA, 92037, USA. mjones@jcvi.org","J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, CA, 92037, USA. mjones@jcvi.org","institution_ids":["https://openalex.org/I1301553790"]},{"raw_affiliation_string":"J. Craig Venter Institute, 4120 Capricorn Lane, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I1301553790"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091808129","display_name":"Christopher P. Montgomery","orcid":"https://orcid.org/0000-0001-7247-0683","observed_orcids":["https://orcid.org/0000-0001-7247-0683"]},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher P Montgomery","raw_affiliation_strings":["Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA. cmontgomery@bsd.uchicago.edu","Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA. cmontgomery@bsd.uchicago.edu","institution_ids":["https://openalex.org/I40347166"]},{"raw_affiliation_string":"Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077897813","display_name":"Susan Boyle\u2010Vavra","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Susan Boyle-Vavra","raw_affiliation_strings":["Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA. sboyle@peds.bsd.uchicago.edu","Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA. sboyle@peds.bsd.uchicago.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039354716","display_name":"Kenneth Shatzkes","orcid":"https://orcid.org/0000-0002-1603-5326","observed_orcids":["https://orcid.org/0000-0002-1603-5326"]},"institutions":[{"id":"https://openalex.org/I102322142","display_name":"Rutgers, The State University of New Jersey","ror":"https://ror.org/05vt9qd57","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142"]},{"id":"https://openalex.org/I4390039302","display_name":"Rutgers Health","ror":"https://ror.org/029z02k15","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I102322142","https://openalex.org/I4390039302"]},{"id":"https://openalex.org/I4402554120","display_name":"Rutgers New Jersey Medical School","ror":"https://ror.org/014ye1258","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142","https://openalex.org/I4390039302","https://openalex.org/I4402554120"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kenneth Shatzkes","raw_affiliation_strings":["Department of Medicine, Center for Emerging and Re-emerging Pathogens, New Jersey Medical School, Rutgers Biomedical and Health Sciences, Rutgers University, Newark, NJ, 07103, USA. Kenneth.shatzkes@rutgers.edu","Department of Medicine, Center for Emerging and Re-emerging Pathogens, New Jersey Medical School, Rutgers Biomedical and Health Sciences, Rutgers University, Newark, NJ, 07103, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medicine, Center for Emerging and Re-emerging Pathogens, New Jersey Medical School, Rutgers Biomedical and Health Sciences, Rutgers University, Newark, NJ, 07103, USA. Kenneth.shatzkes@rutgers.edu","institution_ids":["https://openalex.org/I102322142","https://openalex.org/I4390039302","https://openalex.org/I4402554120"]},{"raw_affiliation_string":"Department of Medicine, Center for Emerging and Re-emerging Pathogens, New Jersey Medical School, Rutgers Biomedical and Health Sciences, Rutgers University, Newark, NJ, 07103, USA","institution_ids":["https://openalex.org/I102322142","https://openalex.org/I4390039302","https://openalex.org/I4402554120"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032916385","display_name":"Rosslyn A. Maybank","orcid":"https://orcid.org/0009-0006-9584-6456","observed_orcids":["https://orcid.org/0009-0006-9584-6456"]},"institutions":[{"id":"https://openalex.org/I1325736334","display_name":"Battelle","ror":"https://ror.org/01h5tnr73","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1325736334"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rosslyn Maybank","raw_affiliation_strings":["Battelle National Biodefense Institute, National Biodefense Analysis and Countermeasures Center, Frederick, MD, 21702, USA. rosslyn.maybank@nbacc.dhs.gov","Battelle National Biodefense Institute, National Biodefense Analysis and Countermeasures Center, Frederick, MD, 21702, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Battelle National Biodefense Institute, National Biodefense Analysis and Countermeasures Center, Frederick, MD, 21702, USA. rosslyn.maybank@nbacc.dhs.gov","institution_ids":["https://openalex.org/I1325736334"]},{"raw_affiliation_string":"Battelle National Biodefense Institute, National Biodefense Analysis and Countermeasures Center, Frederick, MD, 21702, USA","institution_ids":["https://openalex.org/I1325736334"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113934610","display_name":"Bryan C. Frank","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1301553790","display_name":"J. Craig Venter Institute","ror":"https://ror.org/049r1ts75","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1301553790"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bryan C Frank","raw_affiliation_strings":["J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, 20850, USA. BFrank@jcvi.org","J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, 20850, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, 20850, USA. BFrank@jcvi.org","institution_ids":["https://openalex.org/I1301553790"]},{"raw_affiliation_string":"J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD, 20850, USA","institution_ids":["https://openalex.org/I1301553790"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108382215","display_name":"Scott N. Peterson","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I188891513","display_name":"Sanford Burnham Prebys Medical Discovery Institute","ror":"https://ror.org/03m1g2s55","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I188891513"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott N Peterson","raw_affiliation_strings":["Sanford Burnham Medical Research Institute, 10901 N. Torrey Pines Rd, La Jolla, CA, 92037, USA. speterson@sanfordburnham.org","Sanford Burnham Medical Research Institute, 10901 N. Torrey Pines Rd, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Sanford Burnham Medical Research Institute, 10901 N. Torrey Pines Rd, La Jolla, CA, 92037, USA. speterson@sanfordburnham.org","institution_ids":["https://openalex.org/I188891513"]},{"raw_affiliation_string":"Sanford Burnham Medical Research Institute, 10901 N. Torrey Pines Rd, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I188891513"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108384034","display_name":"Robert S. Daum","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert S Daum","raw_affiliation_strings":["Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA. rdaum@peds.bsd.uchicago.edu","Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA. rdaum@peds.bsd.uchicago.edu","Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Critical Care, University of Chicago, Chicago, IL, 60637, USA. rdaum@peds.bsd.uchicago.edu","institution_ids":["https://openalex.org/I40347166"]},{"raw_affiliation_string":"Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA. rdaum@peds.bsd.uchicago.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Pediatrics, Section of Infectious Diseases, Chicago, IL, 60637, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5072556527"],"corresponding_institution_ids":["https://openalex.org/I1301553790"],"apc_list":{"value":3090,"currency":"USD","value_usd":3090},"apc_paid":{"value":3090,"currency":"USD","value_usd":3090},"fwci":0.651,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.69039978,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":98},"biblio":{"volume":"15","issue":"1","first_page":"1145","last_page":"1145"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10195","display_name":"Antimicrobial Resistance in Staphylococcus","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10195","display_name":"Antimicrobial Resistance in Staphylococcus","score":1.0,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11153","display_name":"Streptococcal Infections and Treatments","score":0.0,"subfield":{"id":"https://openalex.org/subfields/2739","display_name":"Public Health, Environmental and Occupational Health"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/methicillin-resistant-staphylococcus-aureus","display_name":"methicillin-resistant Staphylococcus aureus","score":0.9570000171661377},{"id":"https://openalex.org/keywords/usa300","display_name":"USA300","score":0.9599999785423279},{"id":"https://openalex.org/keywords/community-associated-mrsa","display_name":"community-acquired MRSA","score":0.8679999709129333},{"id":"https://openalex.org/keywords/virulence-factors","display_name":"virulence factors","score":0.5569999814033508},{"id":"https://openalex.org/keywords/exotoxins","display_name":"exotoxins","score":0.9259999990463257},{"id":"https://openalex.org/keywords/prophage-genes","display_name":"prophage genes","score":0.7419999837875366},{"id":"https://openalex.org/keywords/mobile-genetic-elements","display_name":"mobile genetic elements","score":0.9179999828338623},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"gene expression profiling","score":0.7960000038146973},{"id":"https://openalex.org/keywords/bacterial-fitness","display_name":"bacterial fitness","score":0.3059999942779541}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.835619330406189},{"id":"https://openalex.org/C2779489039","wikidata":"https://www.wikidata.org/wiki/Q188121","display_name":"Staphylococcus aureus","level":3,"score":0.739844799041748},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.568047285079956},{"id":"https://openalex.org/C2777052132","wikidata":"https://www.wikidata.org/wiki/Q595158","display_name":"Methicillin-resistant Staphylococcus aureus","level":4,"score":0.5364693999290466},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.48578837513923645},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.4848683774471283},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4762706458568573},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.45587271451950073},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2793719172477722},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.16255459189414978},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08208692073822021}],"mesh":[{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D013203","descriptor_name":"Staphylococcal Infections","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D013203","descriptor_name":"Staphylococcal Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D013203","descriptor_name":"Staphylococcal Infections","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017714","descriptor_name":"Community-Acquired Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":true},{"descriptor_ui":"D017714","descriptor_name":"Community-Acquired Infections","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D055624","descriptor_name":"Methicillin-Resistant Staphylococcus aureus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2164-15-1145","doi":"https://doi.org/10.1186/1471-2164-15-1145","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2164-15-1145","pdf_url":"https://bmcgenomics.biomedcentral.com/counter/pdf/10.1186/1471-2164-15-1145","source":{"id":"https://openalex.org/S28614077","display_name":"BMC Genomics","issn_l":"1471-2164","issn":["1471-2164"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Genomics","raw_type":"journal-article"},{"id":"pmh:oai:europepmc.org:3606784","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4630920","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:4630920","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4630920","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Genomics","raw_type":"Text"},{"id":"pmid:25527145","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25527145","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC genomics","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2164-15-1145","doi":"https://doi.org/10.1186/1471-2164-15-1145","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2164-15-1145","pdf_url":"https://bmcgenomics.biomedcentral.com/counter/pdf/10.1186/1471-2164-15-1145","source":{"id":"https://openalex.org/S28614077","display_name":"BMC Genomics","issn_l":"1471-2164","issn":["1471-2164"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Genomics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.9391000270843506,"id":"https://metadata.un.org/sdg/3"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G1468467698","display_name":null,"funder_award_id":"HD047349","funder_id":"https://openalex.org/F4320337364","funder_display_name":"National Institute of Child Health and Human Development"},{"id":"https://openalex.org/G1984680618","display_name":null,"funder_award_id":"HD-047349","funder_id":"https://openalex.org/F4320337611","funder_display_name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development"},{"id":"https://openalex.org/G33680809","display_name":"Pathogen Functional Genomics Resource Center ","funder_award_id":"n01ai15447-36-0-3","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4393179445","display_name":null,"funder_award_id":"N01 AI015447","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G4782922664","display_name":null,"funder_award_id":"AI040481","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5965806553","display_name":"Role of Signal Transduction in Resistance to Cell-Wall Antimicrobials in MRSA","funder_award_id":"R56AI040481","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G6630097147","display_name":"Pathophysiology of Staphylococcus aureaus Necrotizing Pneumonia and Severe Sepsis","funder_award_id":"K08AI076596","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G7521090353","display_name":"Mechanisms of Glycopeptide Resistance in Staphylococci","funder_award_id":"R01AI040481","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G880134982","display_name":null,"funder_award_id":"AI076596","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G9000883827","display_name":"Pediatric Critical Care and Trauma Scientist Development Program (PCCTSDP)","funder_award_id":"K12HD047349","funder_id":"https://openalex.org/F4320337611","funder_display_name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development"}],"funders":[{"id":"https://openalex.org/F4320306714","display_name":"Grant Healthcare Foundation","ror":"https://ror.org/044ynya14"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337364","display_name":"National Institute of Child Health and Human Development","ror":"https://ror.org/04byxyr05"},{"id":"https://openalex.org/F4320337611","display_name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development","ror":"https://ror.org/04byxyr05"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1543376881.pdf","grobid_xml":"https://content.openalex.org/works/W1543376881.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W326456734","https://openalex.org/W1775790926","https://openalex.org/W1826627541","https://openalex.org/W1876613901","https://openalex.org/W1963912540","https://openalex.org/W1969544545","https://openalex.org/W1982056585","https://openalex.org/W1986761093","https://openalex.org/W1992328309","https://openalex.org/W2001203391","https://openalex.org/W2005795335","https://openalex.org/W2006840128","https://openalex.org/W2027012399","https://openalex.org/W2027888467","https://openalex.org/W2031500180","https://openalex.org/W2040159335","https://openalex.org/W2041628594","https://openalex.org/W2043213314","https://openalex.org/W2044750677","https://openalex.org/W2048464606","https://openalex.org/W2049876083","https://openalex.org/W2059207526","https://openalex.org/W2059349393","https://openalex.org/W2070793015","https://openalex.org/W2097879657","https://openalex.org/W2108949844","https://openalex.org/W2112652622","https://openalex.org/W2115127793","https://openalex.org/W2118772273","https://openalex.org/W2122909249","https://openalex.org/W2123109660","https://openalex.org/W2124616140","https://openalex.org/W2130746543","https://openalex.org/W2131477870","https://openalex.org/W2132145187","https://openalex.org/W2133607623","https://openalex.org/W2139388314","https://openalex.org/W2146389959","https://openalex.org/W2156396250","https://openalex.org/W2157878294","https://openalex.org/W2159300858","https://openalex.org/W2165903704","https://openalex.org/W2171668723","https://openalex.org/W2316321535","https://openalex.org/W2333344031","https://openalex.org/W2470023868","https://openalex.org/W4245663047","https://openalex.org/W4253603614"],"related_works":["https://openalex.org/W2001203391","https://openalex.org/W2005636153","https://openalex.org/W2149221864","https://openalex.org/W2001053429","https://openalex.org/W2943806679","https://openalex.org/W2148798566","https://openalex.org/W2213302744","https://openalex.org/W2006840128","https://openalex.org/W2158685996","https://openalex.org/W7143383686"],"abstract_inverted_index":{"BACKGROUND:":[0],"Staphylococcus":[1,40],"aureus":[2,41,63,94],"is":[3,33,275],"a":[4,18,81,122,152,155,270],"human":[5,21],"pathogen":[6],"responsible":[7],"for":[8],"substantial":[9],"morbidity":[10],"and":[11,26,36,89,105,118,141,154,168,216,250,261,287,294],"mortality":[12],"through":[13],"its":[14],"ability":[15],"to":[16,47,177,180,184,231,279],"cause":[17],"number":[19,123],"of":[20,38,53,74,84,92,102,112,115,124,151,171,188,197,236,248,258,266],"infections":[22,64],"including":[23],"bacteremia,":[24],"pneumonia":[25,272],"soft":[27],"tissue":[28],"infections.":[29],"Of":[30],"great":[31],"concern":[32],"the":[34,54,67,72,85,116,132,142,185,195,232,237,245,276,281],"emergence":[35,52],"dissemination":[37],"methicillin-resistant":[39],"strains":[42,289],"(MRSA)":[43],"that":[44,219],"are":[45],"resistant":[46],"nearly":[48],"all":[49],"\u03b2-lactams.":[50],"The":[51,165],"USA300":[55,95,104,117,153,175,189,201,238,249,286],"MRSA":[56,157],"genetic":[57,246],"background":[58],"among":[59],"community":[60],"associated":[61],"S.":[62,93],"(CA-MRSA)":[65],"in":[66,126,133,143,149,174,200,227,244,259,262,269,292,295],"USA":[68],"was":[69],"followed":[70],"by":[71,138,159,212,229],"disappearance":[73],"USA400":[75,107,119,156,181,251,288],"CA-MRSA":[76],"isolates.":[77,109],"RESULTS:":[78],"To":[79],"gain":[80],"greater":[82],"understanding":[83],"potential":[86],"fitness":[87],"advantages":[88],"virulence":[90,187,234],"capacity":[91],"clones,":[96],"we":[97,192],"performed":[98],"whole":[99],"genome":[100,128,162],"sequencing":[101],"15":[103],"4":[106],"clinical":[108],"A":[110],"comparison":[111],"representative":[113],"genomes":[114],"pulsotypes":[120],"indicates":[121],"differences":[125,243,257,284],"mobile":[127,267],"elements.":[129],"We":[130,241],"examined":[131],"vitro":[134,260,293],"gene":[135,264],"expression":[136,170,265],"profiles":[137],"microarray":[139],"hybridization":[140],"vivo":[144,228,263,296],"transcriptomes":[145],"during":[146,205,290],"lung":[147,207,271],"infection":[148,208],"mice":[150],"strain":[158],"performing":[160],"complete":[161],"qRT-PCR":[163],"analysis.":[164],"unique":[166],"presence":[167],"increased":[169,186],"6":[172],"exotoxins":[173],"(12-":[176],"600-fold)":[178],"compared":[179],"may":[182,222],"contribute":[183],"clones.":[190],"Importantly,":[191],"also":[193],"observed":[194,242],"up-regulation":[196],"prophage":[198],"genes":[199,210],"(compared":[202],"with":[203],"USA400)":[204],"mouse":[206],"(including":[209],"encoded":[211],"both":[213,291],"prophages":[214,221],"\u03a6Sa2usa":[215],"\u03a6Sa3usa),":[217],"suggesting":[218],"these":[220],"play":[223],"an":[224],"important":[225],"role":[226],"contributing":[230],"elevated":[233],"characteristic":[235],"clone.":[239],"CONCLUSIONS:":[240],"content":[247],"strains,":[252],"as":[253,255],"well":[254],"significant":[256],"elements":[268],"model.":[273],"This":[274],"first":[277],"study":[278],"document":[280],"global":[282],"transcription":[283],"between":[285],"growth.":[297]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}