{"id":"https://openalex.org/W2065639715","doi":"https://doi.org/10.1371/journal.pcbi.1001061","title":"PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data","display_name":"PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data","publication_year":2011,"publication_date":"2011-01-20","ids":{"openalex":"https://openalex.org/W2065639715","doi":"https://doi.org/10.1371/journal.pcbi.1001061","mag":"2065639715","pmid":"https://pubmed.ncbi.nlm.nih.gov/21283775"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1001061","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1001061","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1001061&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1001061&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076795528","display_name":"Thomas J. Sharpton","orcid":"https://orcid.org/0000-0002-5996-7764"},"institutions":[{"id":"https://openalex.org/I1321430492","display_name":"Gladstone Institutes","ror":"https://ror.org/038321296","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1321430492"]},{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Thomas J. Sharpton","raw_affiliation_strings":["The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America. thomas.sharpton@gladstone.ucsf.edu","The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America. thomas.sharpton@gladstone.ucsf.edu","institution_ids":["https://openalex.org/I1321430492"]},{"raw_affiliation_string":"The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1321430492","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051621618","display_name":"Samantha J. Riesenfeld","orcid":"https://orcid.org/0000-0001-9144-021X"},"institutions":[{"id":"https://openalex.org/I1321430492","display_name":"Gladstone Institutes","ror":"https://ror.org/038321296","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1321430492"]},{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Samantha J. Riesenfeld","raw_affiliation_strings":["The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1321430492","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001473679","display_name":"Steven W. Kembel","orcid":"https://orcid.org/0000-0001-5224-0952"},"institutions":[{"id":"https://openalex.org/I181233156","display_name":"University of Oregon","ror":"https://ror.org/0293rh119","country_code":"US","type":"education","lineage":["https://openalex.org/I181233156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven W. Kembel","raw_affiliation_strings":["Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America"],"affiliations":[{"raw_affiliation_string":"Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America","institution_ids":["https://openalex.org/I181233156"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012824312","display_name":"Joshua Ladau","orcid":"https://orcid.org/0000-0003-1454-2225"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I1321430492","display_name":"Gladstone Institutes","ror":"https://ror.org/038321296","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1321430492"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joshua Ladau","raw_affiliation_strings":["The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1321430492","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019708820","display_name":"James P. O\u2019Dwyer","orcid":"https://orcid.org/0000-0003-1180-8622"},"institutions":[{"id":"https://openalex.org/I181233156","display_name":"University of Oregon","ror":"https://ror.org/0293rh119","country_code":"US","type":"education","lineage":["https://openalex.org/I181233156"]},{"id":"https://openalex.org/I130828816","display_name":"University of Leeds","ror":"https://ror.org/024mrxd33","country_code":"GB","type":"education","lineage":["https://openalex.org/I130828816"]}],"countries":["GB","US"],"is_corresponding":false,"raw_author_name":"James P. O'Dwyer","raw_affiliation_strings":["Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America","Institute of Integrative and Comparative Biology, University of Leeds, Leeds, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America","institution_ids":["https://openalex.org/I181233156"]},{"raw_affiliation_string":"Institute of Integrative and Comparative Biology, University of Leeds, Leeds, United Kingdom","institution_ids":["https://openalex.org/I130828816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111218805","display_name":"Jessica L. Green","orcid":null},"institutions":[{"id":"https://openalex.org/I181233156","display_name":"University of Oregon","ror":"https://ror.org/0293rh119","country_code":"US","type":"education","lineage":["https://openalex.org/I181233156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jessica L. Green","raw_affiliation_strings":["Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America"],"affiliations":[{"raw_affiliation_string":"Center for Ecology and Evolutionary Biology, University of Oregon, Eugene, Oregon, United States of America","institution_ids":["https://openalex.org/I181233156"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059066311","display_name":"Jonathan A. Eisen","orcid":"https://orcid.org/0000-0002-0159-2197"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonathan A. Eisen","raw_affiliation_strings":["Department of Evolution and Ecology, University of California Davis, Davis, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Evolution and Ecology, University of California Davis, Davis, California, United States of America","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005062415","display_name":"Katherine S. Pollard","orcid":"https://orcid.org/0000-0002-9870-6196"},"institutions":[{"id":"https://openalex.org/I1321430492","display_name":"Gladstone Institutes","ror":"https://ror.org/038321296","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1321430492"]},{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Katherine S. Pollard","raw_affiliation_strings":["Institute for Human Genetics & Division of Biostatistics, University of California San Francisco, San Francisco, California, United States of America","The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Institute for Human Genetics & Division of Biostatistics, University of California San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"The J. David Gladstone Institutes, University of California San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1321430492","https://openalex.org/I180670191"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5076795528"],"corresponding_institution_ids":["https://openalex.org/I1321430492","https://openalex.org/I180670191"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":13.0108,"has_fulltext":true,"cited_by_count":87,"citation_normalized_percentile":{"value":0.99131303,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"7","issue":"1","first_page":"e1001061","last_page":"e1001061"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9998999834060669,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.9980999827384949,"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/metagenomics","display_name":"Metagenomics","score":0.9611347913742065},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7862438559532166},{"id":"https://openalex.org/keywords/shotgun-sequencing","display_name":"Shotgun sequencing","score":0.7111960649490356},{"id":"https://openalex.org/keywords/ribosomal-rna","display_name":"Ribosomal RNA","score":0.6490565538406372},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5818577408790588},{"id":"https://openalex.org/keywords/environmental-dna","display_name":"Environmental DNA","score":0.563972532749176},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.5213109850883484},{"id":"https://openalex.org/keywords/phylum","display_name":"Phylum","score":0.5018043518066406},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.48442700505256653},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4329119026660919},{"id":"https://openalex.org/keywords/16s-ribosomal-rna","display_name":"16S ribosomal RNA","score":0.42114585638046265},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.41849151253700256},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3948417901992798},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2422429323196411},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.19768789410591125},{"id":"https://openalex.org/keywords/biodiversity","display_name":"Biodiversity","score":0.10921308398246765}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.9611347913742065},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7862438559532166},{"id":"https://openalex.org/C101985253","wikidata":"https://www.wikidata.org/wiki/Q1073526","display_name":"Shotgun sequencing","level":4,"score":0.7111960649490356},{"id":"https://openalex.org/C67905577","wikidata":"https://www.wikidata.org/wiki/Q215980","display_name":"Ribosomal RNA","level":3,"score":0.6490565538406372},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5818577408790588},{"id":"https://openalex.org/C2779969263","wikidata":"https://www.wikidata.org/wiki/Q25098939","display_name":"Environmental DNA","level":3,"score":0.563972532749176},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.5213109850883484},{"id":"https://openalex.org/C91066513","wikidata":"https://www.wikidata.org/wiki/Q38348","display_name":"Phylum","level":3,"score":0.5018043518066406},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.48442700505256653},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4329119026660919},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.42114585638046265},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.41849151253700256},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3948417901992798},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2422429323196411},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.19768789410591125},{"id":"https://openalex.org/C130217890","wikidata":"https://www.wikidata.org/wiki/Q47041","display_name":"Biodiversity","level":2,"score":0.10921308398246765}],"mesh":[{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1001061","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1001061","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1001061&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},{"id":"pmid:21283775","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21283775","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,"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 computational biology","raw_type":null},{"id":"pmh:oai:RePEc:plo:pcbi00:1001061","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1001061","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:24d4cdf0a5f44171b23d5603c457cb8b","is_oa":true,"landing_page_url":"https://doaj.org/article/24d4cdf0a5f44171b23d5603c457cb8b","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"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 Computational Biology, Vol 7, Iss 1, p e1001061 (2011)","raw_type":"article"},{"id":"pmh:oai:escholarship.org:ark:/13030/qt5940z7cd","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/5940z7cd","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"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":"PLOS Computational Biology, vol 7, iss 1","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/139429","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/PhylOTU_A_High_Throughput_Procedure_Quantifies_Microbial_Community_Diversity_and_Resolves_Novel_Taxa_from_Metagenomic_Data/139429","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,"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"},{"id":"pmh:oai:pubmedcentral.nih.gov:3024254","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3024254","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1001061","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1001061","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1001061&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/14","score":0.8799999952316284,"display_name":"Life below water"}],"awards":[{"id":"https://openalex.org/G7476521709","display_name":null,"funder_award_id":"EP/G051402/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G8642875158","display_name":"Field theoretic techniques for macroecology and community assembly","funder_award_id":"EP/G051402/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320306202","display_name":"Gordon and Betty Moore Foundation","ror":"https://ror.org/006wxqw41"},{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2065639715.pdf","grobid_xml":"https://content.openalex.org/works/W2065639715.grobid-xml"},"referenced_works_count":50,"referenced_works":["https://openalex.org/W1492617550","https://openalex.org/W1969295076","https://openalex.org/W1971536609","https://openalex.org/W1974066189","https://openalex.org/W1985544238","https://openalex.org/W1988925586","https://openalex.org/W1998459277","https://openalex.org/W2017973083","https://openalex.org/W2020302957","https://openalex.org/W2026469821","https://openalex.org/W2031611770","https://openalex.org/W2048818637","https://openalex.org/W2057802951","https://openalex.org/W2060797027","https://openalex.org/W2066684304","https://openalex.org/W2073548709","https://openalex.org/W2073909558","https://openalex.org/W2087671769","https://openalex.org/W2089748217","https://openalex.org/W2091232725","https://openalex.org/W2091922579","https://openalex.org/W2093830129","https://openalex.org/W2101181144","https://openalex.org/W2102840198","https://openalex.org/W2107594154","https://openalex.org/W2107794977","https://openalex.org/W2108718991","https://openalex.org/W2113601822","https://openalex.org/W2116895571","https://openalex.org/W2121152355","https://openalex.org/W2121918723","https://openalex.org/W2122233144","https://openalex.org/W2125230147","https://openalex.org/W2125826054","https://openalex.org/W2132598047","https://openalex.org/W2136688305","https://openalex.org/W2139436782","https://openalex.org/W2149573313","https://openalex.org/W2150914285","https://openalex.org/W2151409320","https://openalex.org/W2151980445","https://openalex.org/W2154184384","https://openalex.org/W2155066423","https://openalex.org/W2155652097","https://openalex.org/W2156465688","https://openalex.org/W2159480438","https://openalex.org/W2162315106","https://openalex.org/W2166130574","https://openalex.org/W4246728774","https://openalex.org/W6629479966"],"related_works":["https://openalex.org/W2807888504","https://openalex.org/W2437388877","https://openalex.org/W3043668926","https://openalex.org/W2741645994","https://openalex.org/W3036436206","https://openalex.org/W4238948313","https://openalex.org/W3111832393","https://openalex.org/W3000916974","https://openalex.org/W3183189600","https://openalex.org/W3134948850"],"abstract_inverted_index":{"Microbial":[0],"diversity":[1,136],"is":[2],"typically":[3],"characterized":[4],"by":[5,58,157],"clustering":[6],"ribosomal":[7],"RNA":[8],"(SSU-rRNA)":[9],"sequences":[10],"into":[11,103],"operational":[12],"taxonomic":[13,135],"units":[14],"(OTUs).":[15],"Targeted":[16],"sequencing":[17],"of":[18,37,83,106,137,159,171,173,181],"environmental":[19,40],"SSU-rRNA":[20,77,111],"markers":[21,112],"via":[22],"PCR":[23,107,122,160],"may":[24],"fail":[25],"to":[26,30],"detect":[27],"OTUs":[28,74,126,153],"due":[29],"biases":[31],"in":[32,148],"priming":[33],"and":[34,86,108,146],"amplification.":[35],"Analysis":[36],"shotgun":[38,109],"sequenced":[39,110,128],"DNA,":[41],"known":[42],"as":[43],"metagenomics,":[44],"avoids":[45],"amplification":[46],"bias":[47],"but":[48],"generates":[49],"fragmentary,":[50],"non-overlapping":[51],"sequence":[52,78,88],"reads":[53,102],"that":[54,72,120,167],"cannot":[55],"be":[56],"clustered":[57],"existing":[59],"OTU-finding":[60],"methods.":[61],"To":[62],"circumvent":[63],"these":[64,164],"limitations,":[65],"we":[66,94,141],"developed":[67],"PhylOTU,":[68],"a":[69,133],"computational":[70],"workflow":[71],"identifies":[73],"from":[75,114,154,178],"metagenomic":[76,92,130,150],"data":[79],"through":[80],"the":[81,96,115,149,174],"use":[82],"phylogenetic":[84],"principles":[85],"probabilistic":[87],"profiles.":[89],"Using":[90],"simulated":[91],"data,":[93],"quantified":[95],"accuracy":[97],"with":[98],"which":[99],"PhylOTU":[100,168],"clusters":[101],"OTUs.":[104,138],"Comparisons":[105],"derived":[113],"global":[116],"open":[117],"ocean":[118],"revealed":[119],"while":[121],"libraries":[123,131],"identify":[124],"more":[125],"per":[127],"residue,":[129],"recover":[132],"greater":[134],"In":[139],"addition,":[140],"discover":[142],"novel":[143],"species,":[144],"genera":[145],"families":[147],"libraries,":[151],"including":[152],"phyla":[155],"missed":[156],"analysis":[158],"sequences.":[161],"Taken":[162],"together,":[163],"results":[165],"suggest":[166],"enables":[169],"characterization":[170],"part":[172],"biosphere":[175],"currently":[176],"hidden":[177],"PCR-based":[179],"surveys":[180],"diversity?":[182]},"counts_by_year":[{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":10},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":14},{"year":2013,"cited_by_count":13},{"year":2012,"cited_by_count":11}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}