Ontology type: schema:ScholarlyArticle Open Access: True
2016-12
AUTHORSVibeke Børsholt Rudkjøbing, Trine Rolighed Thomsen, Yijuan Xu, Rachael Melton-Kreft, Azad Ahmed, Steffen Eickhardt, Thomas Bjarnsholt, Steen Seier Poulsen, Per Halkjær Nielsen, Joshua P. Earl, Garth D. Ehrlich, Claus Moser
ABSTRACTBACKGROUND: Necrotizing soft tissue infections (NSTIs) are a group of infections affecting all soft tissues. NSTI involves necrosis of the afflicted tissue and is potentially life threatening due to major and rapid destruction of tissue, which often leads to septic shock and organ failure. The gold standard for identification of pathogens is culture; however molecular methods for identification of microorganisms may provide a more rapid result and may be able to identify additional microorganisms that are not detected by culture. METHODS: In this study, tissue samples (n = 20) obtained after debridement of 10 patients with NSTI were analyzed by standard culture, fluorescence in situ hybridization (FISH) and multiple molecular methods. The molecular methods included analysis of microbial diversity by 1) direct 16S and D2LSU rRNA gene Microseq 2) construction of near full-length 16S rRNA gene clone libraries with subsequent Sanger sequencing for most samples, 3) the Ibis T5000 biosensor and 4) 454-based pyrosequencing. Furthermore, quantitative PCR (qPCR) was used to verify and determine the relative abundance of Streptococcus pyogenes in samples. RESULTS: For 70 % of the surgical samples it was possible to identify microorganisms by culture. Some samples did not result in growth (presumably due to administration of antimicrobial therapy prior to sampling). The molecular methods identified microorganisms in 90 % of the samples, and frequently detected additional microorganisms when compared to culture. Although the molecular methods generally gave concordant results, our results indicate that Microseq may misidentify or overlook microorganisms that can be detected by other molecular methods. Half of the patients were found to be infected with S. pyogenes, but several atypical findings were also made including infection by a) Acinetobacter baumannii, b) Streptococcus pneumoniae, and c) fungi, mycoplasma and Fusobacterium necrophorum. CONCLUSION: The study emphasizes that many pathogens can be involved in NSTIs, and that no specific "NSTI causing" combination of species exists. This means that clinicians should be prepared to diagnose and treat any combination of microbial pathogens. Some of the tested molecular methods offer a faster turnaround time combined with a high specificity, which makes supplemental use of such methods attractive for identification of microorganisms, especially for fulminant life-threatening infections such as NSTI. More... »
PAGES652
http://scigraph.springernature.com/pub.10.1186/s12879-016-1976-2
DOIhttp://dx.doi.org/10.1186/s12879-016-1976-2
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1004343137
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/27821087
JSON-LD is the canonical representation for SciGraph data.
TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT
[
{
"@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json",
"about": [
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/1108",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Medical Microbiology",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/11",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Medical and Health Sciences",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Aged",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Bacteriological Techniques",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Debridement",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Humans",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "In Situ Hybridization, Fluorescence",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Middle Aged",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Necrosis",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "RNA, Ribosomal, 16S",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Real-Time Polymerase Chain Reaction",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Sensitivity and Specificity",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Soft Tissue Infections",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Streptococcal Infections",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Streptococcus pyogenes",
"type": "DefinedTerm"
}
],
"author": [
{
"affiliation": {
"alternateName": "Aalborg University",
"id": "https://www.grid.ac/institutes/grid.5117.2",
"name": [
"Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"
],
"type": "Organization"
},
"familyName": "Rudkj\u00f8bing",
"givenName": "Vibeke B\u00f8rsholt",
"id": "sg:person.01034403636.76",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01034403636.76"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Danish Technological Institute",
"id": "https://www.grid.ac/institutes/grid.423962.8",
"name": [
"Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark",
"Life Science Division, The Danish Technological Institute, Taastrup, Denmark"
],
"type": "Organization"
},
"familyName": "Thomsen",
"givenName": "Trine Rolighed",
"id": "sg:person.01103267203.27",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01103267203.27"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Danish Technological Institute",
"id": "https://www.grid.ac/institutes/grid.423962.8",
"name": [
"Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark",
"Life Science Division, The Danish Technological Institute, Taastrup, Denmark"
],
"type": "Organization"
},
"familyName": "Xu",
"givenName": "Yijuan",
"id": "sg:person.01136407217.53",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01136407217.53"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Allegheny-Singer Research Institute",
"id": "https://www.grid.ac/institutes/grid.280673.8",
"name": [
"Center for Genomic Sciences, Allegheny-Singer Research Institute, Pittsburgh, USA"
],
"type": "Organization"
},
"familyName": "Melton-Kreft",
"givenName": "Rachael",
"id": "sg:person.01323060642.39",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01323060642.39"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Allegheny-Singer Research Institute",
"id": "https://www.grid.ac/institutes/grid.280673.8",
"name": [
"Center for Genomic Sciences, Allegheny-Singer Research Institute, Pittsburgh, USA"
],
"type": "Organization"
},
"familyName": "Ahmed",
"givenName": "Azad",
"id": "sg:person.0754221125.53",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0754221125.53"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Copenhagen",
"id": "https://www.grid.ac/institutes/grid.5254.6",
"name": [
"Department of Immunology and Microbiology, University of Copenhagen, Copenhagen, Denmark"
],
"type": "Organization"
},
"familyName": "Eickhardt",
"givenName": "Steffen",
"id": "sg:person.01264227460.64",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01264227460.64"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Copenhagen",
"id": "https://www.grid.ac/institutes/grid.5254.6",
"name": [
"Department of Immunology and Microbiology, University of Copenhagen, Copenhagen, Denmark",
"Department of Clinical Microbiology, Copenhagen University Hospital, Rigshospitalet, Denmark"
],
"type": "Organization"
},
"familyName": "Bjarnsholt",
"givenName": "Thomas",
"id": "sg:person.0724016336.83",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0724016336.83"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Copenhagen",
"id": "https://www.grid.ac/institutes/grid.5254.6",
"name": [
"Department of Biomedical Sciences, University of Copenhagen, Copenhagen, Denmark"
],
"type": "Organization"
},
"familyName": "Poulsen",
"givenName": "Steen Seier",
"id": "sg:person.01100632510.56",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01100632510.56"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Aalborg University",
"id": "https://www.grid.ac/institutes/grid.5117.2",
"name": [
"Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"
],
"type": "Organization"
},
"familyName": "Nielsen",
"givenName": "Per Halkj\u00e6r",
"id": "sg:person.01323706505.27",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01323706505.27"
],
"type": "Person"
},
{
"affiliation": {
"name": [
"Center for Genomic Sciences, Philadelphia, PA, USA",
"Departments of Microbiology and Immunology, Center for Advanced Microbial Processing, Institute for Molecular Medicine and Infectious Disease, Philadelphia, PA, USA",
"Departments of Microbiology and Immunology, Philadelphia, PA, USA"
],
"type": "Organization"
},
"familyName": "Earl",
"givenName": "Joshua P.",
"id": "sg:person.015030316477.18",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.015030316477.18"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Drexel University",
"id": "https://www.grid.ac/institutes/grid.166341.7",
"name": [
"Center for Genomic Sciences, Philadelphia, PA, USA",
"Departments of Microbiology and Immunology, Center for Advanced Microbial Processing, Institute for Molecular Medicine and Infectious Disease, Philadelphia, PA, USA",
"Departments of Microbiology and Immunology, Philadelphia, PA, USA",
"Otolaryngology-Head and Neck Surgery, Drexel University College of Medicine, Philadelphia, PA, USA"
],
"type": "Organization"
},
"familyName": "Ehrlich",
"givenName": "Garth D.",
"id": "sg:person.01324252605.57",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01324252605.57"
],
"type": "Person"
},
{
"affiliation": {
"name": [
"Department of Clinical Microbiology, Copenhagen University Hospital, Rigshospitalet, Denmark"
],
"type": "Organization"
},
"familyName": "Moser",
"givenName": "Claus",
"id": "sg:person.01307130410.96",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01307130410.96"
],
"type": "Person"
}
],
"citation": [
{
"id": "https://doi.org/10.1053/jinf.2000.0801",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001335503"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/01.prs.0000259040.71478.27",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001825781"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/01.prs.0000259040.71478.27",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001825781"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/01.prs.0000259040.71478.27",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001825781"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1574-695x.2010.00766.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002346110"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s004300000035",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004089811",
"https://doi.org/10.1007/s004300000035"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature12479",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006018456",
"https://doi.org/10.1038/nature12479"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/s0002-9610(00)00360-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006725643"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.jamcollsurg.2008.10.032",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008722634"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth.f.303",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009032055",
"https://doi.org/10.1038/nmeth.f.303"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth.f.303",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009032055",
"https://doi.org/10.1038/nmeth.f.303"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.3346/jkms.2011.26.1.131",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009437038"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1056/nejmoa042683",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1010304946"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkm864",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1010797283"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s12033-009-9143-2",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1010877279",
"https://doi.org/10.1007/s12033-009-9143-2"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pbio.0050230",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011986196"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2105-12-38",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014960196",
"https://doi.org/10.1186/1471-2105-12-38"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2105-12-38",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014960196",
"https://doi.org/10.1186/1471-2105-12-38"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1111/1523-1747.ep12276973",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015166000",
"https://doi.org/10.1111/1523-1747.ep12276973"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1136/bmj.330.7495.830",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1016826644"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1086/322592",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1017449936"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1592/phco.19.13.1094.31589",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021559289"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1001/jama.296.2.202",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1022325660"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.clindermatol.2004.06.014",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023629586"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/ndt/18.1.195",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023780267"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1177/000348949810700609",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024764401"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1177/000348949810700609",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024764401"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1146/annurev-pathol-121808-102135",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1025754918"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.jcf.2014.02.008",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1025849527"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0001969",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1028014377"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.3390/ijms13032535",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1028310343"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2334-12-252",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1029911813",
"https://doi.org/10.1186/1471-2334-12-252"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/cmr.16.3.451-462.2003",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1030218816"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2180-8-173",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1030255514",
"https://doi.org/10.1186/1471-2180-8-173"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/aem.66.11.4605-4614.2000",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1032660342"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1574-695x.2010.00704.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1033833999"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1080/11024150260284897",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034181609"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/aem.03006-05",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034568952"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1086/511638",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1037543857"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1155/2008/246468",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1037967270"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1155/2008/246468",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1037967270"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.injury.2007.10.030",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038024038"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1574-695x.2012.00949.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038088425"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrmicro1918",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038352578",
"https://doi.org/10.1038/nrmicro1918"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/aem.00556-06",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043016291"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1574-695x.2011.00793.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044364485"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/jcm.00847-11",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044610185"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1468-3083.2006.01487.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1046194895"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1468-3083.2006.01487.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1046194895"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/cmr.13.3.470-511.2000",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047035220"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/s0002-9343(97)00160-5",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047298841"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkh293",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047454621"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1086/653116",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047961932"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/jcm.01250-08",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1048123095"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1177/1534734610389598",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049017671"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1177/1534734610389598",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049017671"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1080/00365540210147985",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049691829"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1086/497143",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049941729"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1086/497143",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049941729"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.3233/jpi-2009-0150",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1050739399"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/cmr.14.2.244-269.2001",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1052080091"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1017/s095026880500484x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1054077123"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1089/sur.2008.062",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1059312048"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1089/sur.2009.022",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1059312125"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/00000658-199611000-00011",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1060134389"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/bco.0b013e318230efcf",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1060338985"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/bco.0b013e318230efcf",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1060338985"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1097/bco.0b013e318230efcf",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1060338985"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1099/jmm.0.05030-0",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1060391869"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/00004623-200308000-00005",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068895743"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.g.00838",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068900615"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.g.00838",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068900615"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.g.00838",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068900615"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.j.01181",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068902215"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.j.01181",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068902215"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.j.01181",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068902215"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.l.00210",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068903058"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.l.00210",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068903058"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.l.00210",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068903058"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2106/jbjs.l.00210",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1068903058"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.3233/jpi-2009-0150",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1071127897"
],
"type": "CreativeWork"
},
{
"id": "https://app.dimensions.ai/details/publication/pub.1077154420",
"type": "CreativeWork"
},
{
"id": "https://app.dimensions.ai/details/publication/pub.1078181179",
"type": "CreativeWork"
},
{
"id": "https://app.dimensions.ai/details/publication/pub.1078463618",
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/9781555816728.ch59",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1088808845"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/9781555816834.ch5",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1088812509"
],
"type": "CreativeWork"
}
],
"datePublished": "2016-12",
"datePublishedReg": "2016-12-01",
"description": "BACKGROUND: Necrotizing soft tissue infections (NSTIs) are a group of infections affecting all soft tissues. NSTI involves necrosis of the afflicted tissue and is potentially life threatening due to major and rapid destruction of tissue, which often leads to septic shock and organ failure. The gold standard for identification of pathogens is culture; however molecular methods for identification of microorganisms may provide a more rapid result and may be able to identify additional microorganisms that are not detected by culture.\nMETHODS: In this study, tissue samples (n\u2009=\u200920) obtained after debridement of 10 patients with NSTI were analyzed by standard culture, fluorescence in situ hybridization (FISH) and multiple molecular methods. The molecular methods included analysis of microbial diversity by 1) direct 16S and D2LSU rRNA gene Microseq 2) construction of near full-length 16S rRNA gene clone libraries with subsequent Sanger sequencing for most samples, 3) the Ibis T5000 biosensor and 4) 454-based pyrosequencing. Furthermore, quantitative PCR (qPCR) was used to verify and determine the relative abundance of Streptococcus pyogenes in samples.\nRESULTS: For 70\u00a0% of the surgical samples it was possible to identify microorganisms by culture. Some samples did not result in growth (presumably due to administration of antimicrobial therapy prior to sampling). The molecular methods identified microorganisms in 90\u00a0% of the samples, and frequently detected additional microorganisms when compared to culture. Although the molecular methods generally gave concordant results, our results indicate that Microseq may misidentify or overlook microorganisms that can be detected by other molecular methods. Half of the patients were found to be infected with S. pyogenes, but several atypical findings were also made including infection by a) Acinetobacter baumannii, b) Streptococcus pneumoniae, and c) fungi, mycoplasma and Fusobacterium necrophorum.\nCONCLUSION: The study emphasizes that many pathogens can be involved in NSTIs, and that no specific \"NSTI causing\" combination of species exists. This means that clinicians should be prepared to diagnose and treat any combination of microbial pathogens. Some of the tested molecular methods offer a faster turnaround time combined with a high specificity, which makes supplemental use of such methods attractive for identification of microorganisms, especially for fulminant life-threatening infections such as NSTI.",
"genre": "research_article",
"id": "sg:pub.10.1186/s12879-016-1976-2",
"inLanguage": [
"en"
],
"isAccessibleForFree": true,
"isFundedItemOf": [
{
"id": "sg:grant.2488072",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.2458520",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.2488387",
"type": "MonetaryGrant"
}
],
"isPartOf": [
{
"id": "sg:journal.1024946",
"issn": [
"1471-2334"
],
"name": "BMC Infectious Diseases",
"type": "Periodical"
},
{
"issueNumber": "1",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "16"
}
],
"name": "Comparing culture and molecular methods for the identification of microorganisms involved in necrotizing soft tissue infections",
"pagination": "652",
"productId": [
{
"name": "readcube_id",
"type": "PropertyValue",
"value": [
"14b1bd94bdc25af195bbb54ec20859ca529236c4b05fa7fbf514868d54d98995"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"27821087"
]
},
{
"name": "nlm_unique_id",
"type": "PropertyValue",
"value": [
"100968551"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1186/s12879-016-1976-2"
]
},
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1004343137"
]
}
],
"sameAs": [
"https://doi.org/10.1186/s12879-016-1976-2",
"https://app.dimensions.ai/details/publication/pub.1004343137"
],
"sdDataset": "articles",
"sdDatePublished": "2019-04-11T12:26",
"sdLicense": "https://scigraph.springernature.com/explorer/license/",
"sdPublisher": {
"name": "Springer Nature - SN SciGraph project",
"type": "Organization"
},
"sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000362_0000000362/records_87112_00000000.jsonl",
"type": "ScholarlyArticle",
"url": "https://link.springer.com/10.1186%2Fs12879-016-1976-2"
}
]Download the RDF metadata as: json-ld nt turtle xml License info
JSON-LD is a popular format for linked data which is fully compatible with JSON.
curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1186/s12879-016-1976-2'
N-Triples is a line-based linked data format ideal for batch operations.
curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/s12879-016-1976-2'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/s12879-016-1976-2'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/s12879-016-1976-2'
This table displays all metadata directly associated to this object as RDF triples.
435 TRIPLES
21 PREDICATES
109 URIs
34 LITERALS
22 BLANK NODES