{"id":"https://openalex.org/W2006509711","doi":"https://doi.org/10.1371/journal.pone.0071806","title":"Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment","display_name":"Fungi of the Murine Gut: Episodic Variation and Proliferation during Antibiotic Treatment","publication_year":2013,"publication_date":"2013-08-19","ids":{"openalex":"https://openalex.org/W2006509711","doi":"https://doi.org/10.1371/journal.pone.0071806","mag":"2006509711","pmid":"https://pubmed.ncbi.nlm.nih.gov/23977147","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3747063"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pone.0071806","doi":"https://doi.org/10.1371/journal.pone.0071806","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0071806","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0071806&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0071806&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031545073","display_name":"Serena Dollive","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Serena Dollive","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100692978","display_name":"Yingyu Chen","orcid":"https://orcid.org/0000-0003-1243-3607","observed_orcids":["https://orcid.org/0000-0003-1243-3607"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ying-Yu Chen","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015075471","display_name":"Stephanie Grunberg","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephanie Grunberg","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066967353","display_name":"Kyle L. Bittinger","orcid":"https://orcid.org/0000-0003-3472-5934","observed_orcids":["https://orcid.org/0000-0003-3472-5934"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kyle Bittinger","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032228669","display_name":"Christian Hoffmann","orcid":"https://orcid.org/0000-0003-1736-8007","observed_orcids":["https://orcid.org/0000-0003-1736-8007"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christian Hoffmann","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086173555","display_name":"Lee E. Vandivier","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lee Vandivier","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111193162","display_name":"Christopher F. Cuff","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher Cuff","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041936168","display_name":"James D. Lewis","orcid":"https://orcid.org/0000-0003-3107-3862","observed_orcids":["https://orcid.org/0000-0003-3107-3862"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James D. Lewis","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032759284","display_name":"Gary D. Wu","orcid":"https://orcid.org/0000-0002-1829-8795","observed_orcids":["https://orcid.org/0000-0002-1829-8795"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gary D. Wu","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016535188","display_name":"Frederic D. Bushman","orcid":"https://orcid.org/0000-0003-4740-4056","observed_orcids":["https://orcid.org/0000-0003-4740-4056"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Frederic D. Bushman","raw_affiliation_strings":["University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Pennsylvania School of Medicine, Department of Microbiology, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5016535188","https://openalex.org/A5032759284"],"corresponding_institution_ids":["https://openalex.org/I79576946"],"apc_list":{"value":2382,"currency":"USD","value_usd":2382},"apc_paid":{"value":2382,"currency":"USD","value_usd":2382},"fwci":5.1477,"has_fulltext":true,"cited_by_count":236,"citation_normalized_percentile":{"value":0.96937913,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"8","issue":"8","first_page":"e71806","last_page":"e71806"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9922000169754028,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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"}},"topics":[{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9922000169754028,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"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"}},{"id":"https://openalex.org/T10150","display_name":"Antifungal resistance and susceptibility","score":0.00279999990016222,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.0006000000284984708,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/gut-fungi","display_name":"gut fungi","score":0.7990000247955322},{"id":"https://openalex.org/keywords/gut-microbiota","display_name":"gut microbiota","score":0.8230000138282776},{"id":"https://openalex.org/keywords/antibiotic-therapy","display_name":"antibiotic therapy","score":0.8790000081062317},{"id":"https://openalex.org/keywords/vancomycin","display_name":"vancomycin","score":0.8289999961853027},{"id":"https://openalex.org/keywords/ampicillin","display_name":"ampicillin","score":0.9649999737739563},{"id":"https://openalex.org/keywords/neomycin","display_name":"neomycin","score":0.9980000257492065},{"id":"https://openalex.org/keywords/metronidazole","display_name":"metronidazole","score":1.0},{"id":"https://openalex.org/keywords/fungal-abundance","display_name":"fungal abundance","score":0.4659999907016754},{"id":"https://openalex.org/keywords/bacterial-abundance","display_name":"bacterial abundance","score":0.7279999852180481},{"id":"https://openalex.org/keywords/candida","display_name":"Candida","score":0.8690000176429749},{"id":"https://openalex.org/keywords/microbial-community-recovery","display_name":"microbial community recovery","score":0.531000018119812},{"id":"https://openalex.org/keywords/mouse-model","display_name":"mouse model","score":0.4650000035762787},{"id":"https://openalex.org/keywords/16s-rrna-gene-sequencing","display_name":"16S rRNA gene sequencing","score":0.6299999952316284}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7883206605911255},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.7723336815834045},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.6277734041213989},{"id":"https://openalex.org/C539455810","wikidata":"https://www.wikidata.org/wiki/Q739734","display_name":"Gut flora","level":2,"score":0.5661890506744385},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.5316867232322693},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.5293522477149963},{"id":"https://openalex.org/C125009961","wikidata":"https://www.wikidata.org/wiki/Q2342248","display_name":"Pyrosequencing","level":3,"score":0.5285324454307556},{"id":"https://openalex.org/C2780512811","wikidata":"https://www.wikidata.org/wiki/Q11829360","display_name":"Gastrointestinal tract","level":2,"score":0.5207335948944092},{"id":"https://openalex.org/C2779841869","wikidata":"https://www.wikidata.org/wiki/Q423098","display_name":"Neomycin","level":3,"score":0.4664579927921295},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.1659906506538391},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13725879788398743},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10096627473831177},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002175","descriptor_name":"Candida","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D002175","descriptor_name":"Candida","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005243","descriptor_name":"Feces","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008810","descriptor_name":"Mice, Inbred C57BL","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012337","descriptor_name":"RNA, Ribosomal, 18S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015373","descriptor_name":"Bacterial Typing Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016533","descriptor_name":"Mycological Typing Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021903","descriptor_name":"DNA, Ribosomal Spacer","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D025341","descriptor_name":"Principal Component Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D041981","descriptor_name":"Gastrointestinal Tract","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058885","descriptor_name":"Multilocus Sequence Typing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pone.0071806","doi":"https://doi.org/10.1371/journal.pone.0071806","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0071806","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0071806&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},{"id":"pmh:oai:europepmc.org:2741401","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3747063","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:3747063","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3747063","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":"PLoS One","raw_type":"Text"},{"id":"pmid:23977147","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23977147","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":"PloS one","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.797.2815","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.797.2815","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/4a/52/pone.0071806.PMC3747063.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:0029825a2daf4359b6f86d837d4b4e3c","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/0029825a2daf4359b6f86d837d4b4e3c","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS ONE, Vol 8, Iss 8, p e71806 (2013)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/776083","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_Fungi_of_the_Murine_Gut_Episodic_Variation_and_Proliferation_during_Antibiotic_Treatment_/776083","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pone.0071806","doi":"https://doi.org/10.1371/journal.pone.0071806","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0071806","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0071806&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.9763000011444092}],"study_designs":[],"awards":[{"id":"https://openalex.org/G1534979490","display_name":"Dietary Patterns and the Course of Inflammatory Bowel Disease","funder_award_id":"K24DK078228","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G256492535","display_name":null,"funder_award_id":"UL1 RR024134","funder_id":"https://openalex.org/F4320309370","funder_display_name":"University of Pennsylvania"},{"id":"https://openalex.org/G2673162305","display_name":"Training Program in Cell and Molecular Biology","funder_award_id":"T32GM007229","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G453267231","display_name":null,"funder_award_id":"and K24","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5359544430","display_name":"Institutional Clinical and Translational Science Award","funder_award_id":"UL1RR024134","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G711070939","display_name":"Immune modulation by intestinal cell differentiation","funder_award_id":"R01AI039368","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G831023905","display_name":null,"funder_award_id":"AI39368","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G8347287995","display_name":"Diet, Genetic Factors, and the Gut Microbiome in Crohn's Disease","funder_award_id":"UH2DK083981","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G8775174929","display_name":"Purchase of the Roche GS SLX Sequencing System","funder_award_id":"S10RR024525","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G9000073871","display_name":null,"funder_award_id":"DK050306","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G9000909123","display_name":"Center for Molecular Studies in Digestive and Liver Diseases","funder_award_id":"P30DK050306","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"}],"funders":[{"id":"https://openalex.org/F4320308109","display_name":"Pennsylvania Department of Health","ror":"https://ror.org/00ra1fg11"},{"id":"https://openalex.org/F4320309370","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332582","display_name":"Center for AIDS Research, University of Washington","ror":"https://ror.org/00cvxb145"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2006509711.pdf","grobid_xml":"https://content.openalex.org/works/W2006509711.grobid-xml"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W131912594","https://openalex.org/W1754015722","https://openalex.org/W1864518864","https://openalex.org/W1965521901","https://openalex.org/W1965925525","https://openalex.org/W1967821667","https://openalex.org/W1970785533","https://openalex.org/W1979853218","https://openalex.org/W1982652385","https://openalex.org/W1990473825","https://openalex.org/W2003836872","https://openalex.org/W2006069224","https://openalex.org/W2007506470","https://openalex.org/W2009880891","https://openalex.org/W2011996612","https://openalex.org/W2018367988","https://openalex.org/W2024248096","https://openalex.org/W2036743290","https://openalex.org/W2046749843","https://openalex.org/W2048773195","https://openalex.org/W2049131811","https://openalex.org/W2054924162","https://openalex.org/W2055057012","https://openalex.org/W2068014127","https://openalex.org/W2072970694","https://openalex.org/W2076938504","https://openalex.org/W2089575764","https://openalex.org/W2093474433","https://openalex.org/W2096525273","https://openalex.org/W2097866617","https://openalex.org/W2098322640","https://openalex.org/W2099119185","https://openalex.org/W2099817249","https://openalex.org/W2107369528","https://openalex.org/W2109476076","https://openalex.org/W2110375946","https://openalex.org/W2115980431","https://openalex.org/W2117778326","https://openalex.org/W2125826054","https://openalex.org/W2126536749","https://openalex.org/W2127880913","https://openalex.org/W2128769815","https://openalex.org/W2131908875","https://openalex.org/W2132002261","https://openalex.org/W2133211453","https://openalex.org/W2134564677","https://openalex.org/W2136552678","https://openalex.org/W2139884694","https://openalex.org/W2145664556","https://openalex.org/W2152885278","https://openalex.org/W2154818679","https://openalex.org/W2157430661","https://openalex.org/W2159597013","https://openalex.org/W2159876087","https://openalex.org/W2160316132","https://openalex.org/W2161185537","https://openalex.org/W2166559909","https://openalex.org/W2166731855","https://openalex.org/W2168332876","https://openalex.org/W2169538646","https://openalex.org/W2170024099","https://openalex.org/W2170925079","https://openalex.org/W4250297812"],"related_works":["https://openalex.org/W3084464652","https://openalex.org/W1573874857","https://openalex.org/W3031323799","https://openalex.org/W7096583238","https://openalex.org/W4362736352","https://openalex.org/W4385579935","https://openalex.org/W6939354211","https://openalex.org/W3175380823","https://openalex.org/W6920860518","https://openalex.org/W3091864945"],"abstract_inverted_index":{"Antibiotic":[0],"use":[1],"in":[2,93,143,168,215,234],"humans":[3],"has":[4],"been":[5],"associated":[6],"with":[7,27,223],"outgrowth":[8],"of":[9,25,46,53,66,73,86,97,113,182,220],"fungi.":[10],"Here":[11],"we":[12],"used":[13],"a":[14,41,160],"murine":[15],"model":[16],"to":[17,78,119,176,195,229],"investigate":[18],"the":[19,44,47,63,67,101,144,150,185,216,236],"gut":[20,202,217],"microbiome":[21],"over":[22,140],"76":[23],"days":[24],"treatment":[26,152,172],"vancomycin,":[28],"ampicillin,":[29],"neomycin,":[30],"and":[31,33,55,62,123,225,238],"metronidazole":[32],"subsequent":[34],"recovery.":[35],"Mouse":[36],"stool":[37],"was":[38,57],"studied":[39],"as":[40],"surrogate":[42],"for":[43],"microbiota":[45],"lower":[48],"gastrointestinal":[49],"tract.":[50],"The":[51],"abundance":[52,94,169,179],"fungi":[54,82,212],"bacteria":[56,80,91],"measured":[58],"using":[59,70],"quantitative":[60],"PCR,":[61],"proportional":[64],"composition":[65],"communities":[68,116,129,137,222],"quantified":[69],"454/Roche":[71],"pyrosequencing":[72],"rRNA":[74],"gene":[75],"tags.":[76],"Prior":[77],"treatment,":[79,90,114],"outnumbered":[81],"by":[83],">3":[84,95],"orders":[85,96],"magnitude.":[87],"Upon":[88,111],"antibiotic":[89,171],"dropped":[92],"magnitude,":[98],"so":[99],"that":[100,200],"predominant":[102],"16S":[103],"sequences":[104],"detected":[105],"became":[106],"transients":[107],"derived":[108],"from":[109,133],"food.":[110],"cessation":[112,181],"bacterial":[115,221,239],"mostly":[117],"returned":[118],"their":[120,177],"previous":[121],"numbers":[122],"types":[124],"after":[125,180],"8":[126],"weeks,":[127],"though":[128],"remained":[130,190],"detectably":[131],"different":[132],"untreated":[134,145],"controls.":[135,146],"Fungal":[136],"varied":[138],"substantially":[139],"time,":[141],"even":[142],"Separate":[147],"cages":[148],"within":[149,159],"same":[151],"group":[153],"showed":[154],"radical":[155],"differences,":[156],"but":[157,173],"mice":[158],"cage":[161],"generally":[162],"behaved":[163],"similarly.":[164],"Fungi":[165],"increased":[166],"\u223c40-fold":[167],"upon":[170,218],"declined":[174],"back":[175],"original":[178],"treatment.":[183,196],"At":[184],"last":[186],"time":[187],"point,":[188],"Candida":[189],"more":[191],"abundant":[192],"than":[193],"prior":[194],"These":[197],"data":[198],"show":[199],"1)":[201],"fungal":[203,237],"populations":[204],"change":[205],"radically":[206],"during":[207],"normal":[208],"mouse":[209],"husbandry,":[210],"2)":[211],"grow":[213],"out":[214],"suppression":[219],"antibiotics,":[224],"3)":[226],"perturbations":[227],"due":[228],"antibiotics":[230],"persist":[231],"long":[232],"term":[233],"both":[235],"microbiota.":[240]},"counts_by_year":[{"year":2026,"cited_by_count":11},{"year":2025,"cited_by_count":16},{"year":2024,"cited_by_count":13},{"year":2023,"cited_by_count":17},{"year":2022,"cited_by_count":28},{"year":2021,"cited_by_count":18},{"year":2020,"cited_by_count":27},{"year":2019,"cited_by_count":27},{"year":2018,"cited_by_count":15},{"year":2017,"cited_by_count":23},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":18},{"year":2014,"cited_by_count":11},{"year":2013,"cited_by_count":1}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}