{"id":"https://openalex.org/W2003012242","doi":"https://doi.org/10.1651/08-3020.1","title":"\u201cCOI-like\u201d Sequences Are Becoming Problematic in Molecular Systematic and DNA Barcoding Studies","display_name":"\u201cCOI-like\u201d Sequences Are Becoming Problematic in Molecular Systematic and DNA Barcoding Studies","publication_year":2009,"publication_date":"2009-01-01","ids":{"openalex":"https://openalex.org/W2003012242","doi":"https://doi.org/10.1651/08-3020.1","mag":"2003012242"},"language":"en","primary_location":{"id":"doi:10.1651/08-3020.1","doi":"https://doi.org/10.1651/08-3020.1","is_oa":false,"landing_page_url":"https://doi.org/10.1651/08-3020.1","pdf_url":null,"source":{"id":"https://openalex.org/S141356220","display_name":"Journal of Crustacean Biology","issn_l":"0278-0372","issn":["0278-0372","1937-240X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","jufo-1","norway-1","poland-40","russia-white-list-3"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Crustacean Biology","raw_type":"journal-article"},"parent_works":[],"lineage":["https://openalex.org/W2003012242"],"child_works_count":0,"type":"article","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018873685","display_name":"Jennifer E. Buhay","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I155781252","display_name":"University of South Carolina","ror":"https://ror.org/02b6qw903","country_code":"US","type":"education","lineage":["https://openalex.org/I155781252"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jennifer E. Buhay","raw_affiliation_strings":["University of South Carolina, Belle W. Baruch Institute of Marine and Coastal Sciences, Columbia, South Carolina 29208, U.S.A. and IAP World Services, NOAA, 705 Convent Avenue, Pascagoula, Mississippi 39567, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of South Carolina, Belle W. Baruch Institute of Marine and Coastal Sciences, Columbia, South Carolina 29208, U.S.A. and IAP World Services, NOAA, 705 Convent Avenue, Pascagoula, Mississippi 39567, U.S.A","institution_ids":["https://openalex.org/I155781252"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5018873685"],"corresponding_institution_ids":["https://openalex.org/I155781252"],"apc_list":{"value":4230,"currency":"USD","value_usd":4230},"apc_paid":null,"fwci":8.3662,"has_fulltext":false,"cited_by_count":335,"citation_normalized_percentile":{"value":0.98758507,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"29","issue":"1","first_page":"96","last_page":"110"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3546999990940094,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3546999990940094,"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/T11004","display_name":"Crustacean biology and ecology","score":0.2953999936580658,"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/T14399","display_name":"Invertebrate Taxonomy and Ecology","score":0.27880001068115234,"subfield":{"id":"https://openalex.org/subfields/1105","display_name":"Ecology, Evolution, Behavior and Systematics"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cytochrome-c-oxidase-subunit-i","display_name":"cytochrome c oxidase subunit I","score":0.972000002861023},{"id":"https://openalex.org/keywords/mitochondrial-pseudogenes","display_name":"mitochondrial pseudogenes","score":0.7279999852180481},{"id":"https://openalex.org/keywords/numts","display_name":"numts","score":0.7620000243186951},{"id":"https://openalex.org/keywords/sequencing-quality-control","display_name":"sequencing quality control","score":0.7310000061988831},{"id":"https://openalex.org/keywords/stop-codon","display_name":"stop codon","score":0.7730000019073486},{"id":"https://openalex.org/keywords/indels","display_name":"indels","score":0.7929999828338623},{"id":"https://openalex.org/keywords/open-reading-frames","display_name":"open reading frames","score":0.5609999895095825},{"id":"https://openalex.org/keywords/dna-barcoding","display_name":"DNA barcoding","score":0.7329999804496765},{"id":"https://openalex.org/keywords/freshwater-crayfish","display_name":"freshwater crayfish","score":0.7319999933242798},{"id":"https://openalex.org/keywords/orconectes","display_name":"Orconectes","score":0.9710000157356262},{"id":"https://openalex.org/keywords/crustaceans","display_name":"Crustacea","score":0.8299999833106995},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.527999997138977}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8975605368614197},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.7963597178459167},{"id":"https://openalex.org/C141732470","wikidata":"https://www.wikidata.org/wiki/Q1154642","display_name":"DNA barcoding","level":2,"score":0.7588847875595093},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.5580404996871948},{"id":"https://openalex.org/C24586158","wikidata":"https://www.wikidata.org/wiki/Q27075","display_name":"Mitochondrial DNA","level":3,"score":0.529424250125885},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.520012617111206},{"id":"https://openalex.org/C34957205","wikidata":"https://www.wikidata.org/wiki/Q277338","display_name":"Pseudogene","level":4,"score":0.508730947971344},{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.47458744049072266},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.47044649720191956},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3848489224910736},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.1399180293083191},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.09317877888679504},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1651/08-3020.1","doi":"https://doi.org/10.1651/08-3020.1","is_oa":false,"landing_page_url":"https://doi.org/10.1651/08-3020.1","pdf_url":null,"source":{"id":"https://openalex.org/S141356220","display_name":"Journal of Crustacean Biology","issn_l":"0278-0372","issn":["0278-0372","1937-240X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","jufo-1","norway-1","poland-40","russia-white-list-3"],"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Crustacean Biology","raw_type":"journal-article"},{"id":"pmh:10.1651/08-3020.1","doi":null,"is_oa":false,"landing_page_url":"http://www.bioone.org/doi/10.1651/08-3020.1","pdf_url":null,"source":{"id":"https://openalex.org/S4306402358","display_name":"BioOne Complete (BioOne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210111627","host_organization_name":"BioOne","host_organization_lineage":["https://openalex.org/I4210111627"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":62,"referenced_works":["https://openalex.org/W638862129","https://openalex.org/W1483247593","https://openalex.org/W1522592213","https://openalex.org/W1544979429","https://openalex.org/W1575547866","https://openalex.org/W1786673882","https://openalex.org/W1949176574","https://openalex.org/W1970347799","https://openalex.org/W1971529380","https://openalex.org/W1980848012","https://openalex.org/W1981697767","https://openalex.org/W1995656499","https://openalex.org/W1998304252","https://openalex.org/W2016596510","https://openalex.org/W2018590530","https://openalex.org/W2019368517","https://openalex.org/W2034278671","https://openalex.org/W2040452926","https://openalex.org/W2044268383","https://openalex.org/W2045295541","https://openalex.org/W2062692373","https://openalex.org/W2063050769","https://openalex.org/W2067589972","https://openalex.org/W2078379917","https://openalex.org/W2082928585","https://openalex.org/W2084292371","https://openalex.org/W2085079913","https://openalex.org/W2085525886","https://openalex.org/W2086217226","https://openalex.org/W2087529785","https://openalex.org/W2092690817","https://openalex.org/W2097297178","https://openalex.org/W2097793126","https://openalex.org/W2099901798","https://openalex.org/W2100002703","https://openalex.org/W2102234847","https://openalex.org/W2112284944","https://openalex.org/W2117062699","https://openalex.org/W2118411518","https://openalex.org/W2119424538","https://openalex.org/W2126580086","https://openalex.org/W2127586651","https://openalex.org/W2130253776","https://openalex.org/W2132323289","https://openalex.org/W2132926880","https://openalex.org/W2134936766","https://openalex.org/W2142249333","https://openalex.org/W2142431124","https://openalex.org/W2146058063","https://openalex.org/W2149370525","https://openalex.org/W2161444534","https://openalex.org/W2171405751","https://openalex.org/W2172820226","https://openalex.org/W2177777076","https://openalex.org/W2273619455","https://openalex.org/W2312710272","https://openalex.org/W2314657102","https://openalex.org/W2508867419","https://openalex.org/W4285719527","https://openalex.org/W6620717549","https://openalex.org/W6629003624","https://openalex.org/W6685423195"],"related_works":["https://openalex.org/W2809459002","https://openalex.org/W2885428107","https://openalex.org/W2563233958","https://openalex.org/W350419837","https://openalex.org/W3027519114","https://openalex.org/W2785803357","https://openalex.org/W2297419111","https://openalex.org/W2058538984","https://openalex.org/W2060492490","https://openalex.org/W2621273083"],"abstract_inverted_index":{"The":[0],"cytochrome":[1],"c":[2],"oxidase":[3],"subunit":[4],"I":[5],"(COI)":[6],"gene":[7,24,38],"plays":[8],"a":[9,13,23,40,138,152],"pivotal":[10],"role":[11],"in":[12,27,60,129,148],"global":[14],"effort":[15],"to":[16,21,33,56,95,121],"document":[17],"biodiversity":[18],"and":[19,29,45,52,101,127,160,172],"continues":[20],"be":[22,132],"of":[25,62,99,110,124,137,145,154],"choice":[26],"phylogenetic":[28],"phylogeographic":[30],"studies.":[31],"Due":[32],"increased":[34],"attention":[35],"on":[36,84],"this":[37,165],"as":[39,116],"species'":[41],"barcode,":[42],"quality":[43,169],"control":[44],"sequence":[46,173],"homology":[47],"issues":[48],"are":[49],"re-emerging.":[50],"Taylor":[51],"Knouft":[53],"(2006)":[54],"attempted":[55],"examine":[57],"gonopod":[58],"morphology":[59],"light":[61],"the":[63,68,96,111,122,133],"subgeneric":[64],"classification":[65],"scheme":[66],"within":[67],"freshwater":[69],"crayfish":[70],"genus":[71],"Orconectes":[72],"using":[73],"COI":[74],"sequences.":[75],"However,":[76],"their":[77],"erroneous":[78],"analyses":[79],"were":[80,114],"not":[81],"only":[82],"based":[83],"supposed":[85],"mitochondrial":[86],"sequences":[87,93,113],"but":[88],"also":[89],"incorporated":[90],"many":[91],"questionable":[92],"due":[94,120],"possible":[97],"presence":[98,123],"numts":[100],"manual":[102],"editing":[103],"or":[104],"sequencing":[105],"errors.":[106],"In":[107],"fact,":[108],"22":[109],"86":[112],"flagged":[115],"\u201cCOI-like\u201d":[117,146],"by":[118],"GenBank":[119,149],"stop":[125],"codons":[126],"indels":[128],"what":[130],"should":[131],"open":[134],"reading":[135],"frame":[136],"conservative":[139],"protein-coding":[140],"gene.":[141],"A":[142],"subsequent":[143],"search":[144],"accessions":[147],"turned":[150],"up":[151],"multitude":[153],"taxa":[155],"across":[156],"Crustacea":[157],"from":[158],"published":[159],"unpublished":[161],"studies":[162],"thereby":[163],"warranting":[164],"illustrated":[166],"discussion":[167],"about":[168],"control,":[170],"pseudogenes,":[171],"composition.":[174]},"counts_by_year":[{"year":2026,"cited_by_count":12},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":11},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":32},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":30},{"year":2019,"cited_by_count":12},{"year":2018,"cited_by_count":17},{"year":2017,"cited_by_count":24},{"year":2016,"cited_by_count":18},{"year":2015,"cited_by_count":22},{"year":2014,"cited_by_count":20},{"year":2013,"cited_by_count":23},{"year":2012,"cited_by_count":22}],"updated_date":"2026-11-12T12:28:57.059296","created_date":"2016-06-24T00:00:00"}