{"id":"https://openalex.org/W4200313772","doi":"https://doi.org/10.1111/1755-0998.13573","title":"Recovered microbiome of an oviparous lizard differs across gut and reproductive tissues, cloacal swabs, and faeces","display_name":"Recovered microbiome of an oviparous lizard differs across gut and reproductive tissues, cloacal swabs, and faeces","publication_year":2021,"publication_date":"2021-12-11","ids":{"openalex":"https://openalex.org/W4200313772","doi":"https://doi.org/10.1111/1755-0998.13573","pmid":"https://pubmed.ncbi.nlm.nih.gov/34894079"},"language":"en","primary_location":{"id":"doi:10.1111/1755-0998.13573","doi":"https://doi.org/10.1111/1755-0998.13573","is_oa":false,"landing_page_url":"https://doi.org/10.1111/1755-0998.13573","pdf_url":null,"source":{"id":"https://openalex.org/S64961995","display_name":"Molecular Ecology Resources","issn_l":"1755-098X","issn":["1755-098X","1755-0998"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","jufo-2","ki-jl-1","medline","norway-1","poland-140","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Ecology Resources","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.authorea.com/doi/pdf/10.22541/au.162303107.75525410","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043773076","display_name":"Marie E. Bunker","orcid":"https://orcid.org/0000-0002-4822-771X","observed_orcids":["https://orcid.org/0000-0002-4822-771X"]},"institutions":[{"id":"https://openalex.org/I146552867","display_name":"University of Puget Sound","ror":"https://ror.org/042drmv40","country_code":"US","type":"education","lineage":["https://openalex.org/I146552867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marie E. Bunker","raw_affiliation_strings":["Department of Biology, University of Puget Sound, Tacoma, Washington, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Puget Sound, Tacoma, Washington, USA","institution_ids":["https://openalex.org/I146552867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035258044","display_name":"Mark O. Martin","orcid":"https://orcid.org/0000-0002-7927-0104","observed_orcids":["https://orcid.org/0000-0002-7927-0104"]},"institutions":[{"id":"https://openalex.org/I146552867","display_name":"University of Puget Sound","ror":"https://ror.org/042drmv40","country_code":"US","type":"education","lineage":["https://openalex.org/I146552867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark O. Martin","raw_affiliation_strings":["Department of Biology, University of Puget Sound, Tacoma, Washington, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, University of Puget Sound, Tacoma, Washington, USA","institution_ids":["https://openalex.org/I146552867"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068002398","display_name":"Stacey L. Weiss","orcid":"https://orcid.org/0000-0003-3571-9667","observed_orcids":["https://orcid.org/0000-0003-3571-9667"]},"institutions":[{"id":"https://openalex.org/I146552867","display_name":"University of Puget Sound","ror":"https://ror.org/042drmv40","country_code":"US","type":"education","lineage":["https://openalex.org/I146552867"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Stacey L. Weiss","raw_affiliation_strings":["Department of Biology, University of Puget Sound, Tacoma, Washington, USA"],"raw_orcid":"https://orcid.org/0000-0003-3571-9667","affiliations":[{"raw_affiliation_string":"Department of Biology, University of Puget Sound, Tacoma, Washington, USA","institution_ids":["https://openalex.org/I146552867"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5068002398"],"corresponding_institution_ids":["https://openalex.org/I146552867"],"apc_list":{"value":4300,"currency":"USD","value_usd":4300},"apc_paid":null,"fwci":1.7955,"has_fulltext":false,"cited_by_count":35,"citation_normalized_percentile":{"value":0.86662225,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"22","issue":"5","first_page":"1693","last_page":"1705"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.861299991607666,"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":0.861299991607666,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.03319999948143959,"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/T12134","display_name":"Insect symbiosis and bacterial influences","score":0.013899999670684338,"subfield":{"id":"https://openalex.org/subfields/1109","display_name":"Insect Science"},"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/sceloporus-virgatus","display_name":"Sceloporus virgatus","score":0.9919999837875366},{"id":"https://openalex.org/keywords/cloacal-microbiome","display_name":"cloacal microbiome","score":0.8820000290870667},{"id":"https://openalex.org/keywords/gut-microbiota","display_name":"gut microbiota","score":0.8529999852180481},{"id":"https://openalex.org/keywords/fecal-microbiota","display_name":"fecal microbiota","score":0.699999988079071},{"id":"https://openalex.org/keywords/fecal-contamination","display_name":"fecal contamination","score":0.5910000205039978},{"id":"https://openalex.org/keywords/enterobacteriaceae","display_name":"Enterobacteriaceae","score":0.7599999904632568},{"id":"https://openalex.org/keywords/proteobacteria","display_name":"Proteobacteria","score":0.781000018119812},{"id":"https://openalex.org/keywords/helicobacteraceae","display_name":"Helicobacteraceae","score":0.902999997138977},{"id":"https://openalex.org/keywords/oviparity","display_name":"oviparity","score":0.6039999723434448},{"id":"https://openalex.org/keywords/reproductive-tract","display_name":"reproductive tract","score":0.42399999499320984}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.93719482421875},{"id":"https://openalex.org/C138981284","wikidata":"https://www.wikidata.org/wiki/Q19035","display_name":"Cloaca","level":2,"score":0.8464115858078003},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.7807104587554932},{"id":"https://openalex.org/C70055658","wikidata":"https://www.wikidata.org/wiki/Q212306","display_name":"Oviparity","level":2,"score":0.6819011569023132},{"id":"https://openalex.org/C2779704485","wikidata":"https://www.wikidata.org/wiki/Q3825240","display_name":"Lachnospiraceae","level":5,"score":0.6594910621643066},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.6156670451164246},{"id":"https://openalex.org/C61716771","wikidata":"https://www.wikidata.org/wiki/Q496","display_name":"Feces","level":2,"score":0.6092497110366821},{"id":"https://openalex.org/C2777695942","wikidata":"https://www.wikidata.org/wiki/Q149075","display_name":"Firmicutes","level":4,"score":0.5518825054168701},{"id":"https://openalex.org/C2777385719","wikidata":"https://www.wikidata.org/wiki/Q1061265","display_name":"Bacteroidetes","level":4,"score":0.5051367878913879},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.3053869307041168},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.07400748133659363},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.06503483653068542},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0604897141456604},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.0576309859752655}],"mesh":[{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008116","descriptor_name":"Lizards","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D052287","descriptor_name":"Oviparity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1111/1755-0998.13573","doi":"https://doi.org/10.1111/1755-0998.13573","is_oa":false,"landing_page_url":"https://doi.org/10.1111/1755-0998.13573","pdf_url":null,"source":{"id":"https://openalex.org/S64961995","display_name":"Molecular Ecology Resources","issn_l":"1755-098X","issn":["1755-098X","1755-0998"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","jufo-2","ki-jl-1","medline","norway-1","poland-140","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Molecular Ecology Resources","raw_type":"journal-article"},{"id":"doi:10.22541/au.162303107.75525410/v1","doi":"https://doi.org/10.22541/au.162303107.75525410/v1","is_oa":true,"landing_page_url":"https://doi.org/10.22541/au.162303107.75525410/v1","pdf_url":"https://www.authorea.com/doi/pdf/10.22541/au.162303107.75525410","source":null,"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},{"id":"pmid:34894079","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34894079","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":"Molecular ecology resources","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.22541/au.162303107.75525410/v1","doi":"https://doi.org/10.22541/au.162303107.75525410/v1","is_oa":true,"landing_page_url":"https://doi.org/10.22541/au.162303107.75525410/v1","pdf_url":"https://www.authorea.com/doi/pdf/10.22541/au.162303107.75525410","source":null,"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G8328602396","display_name":null,"funder_award_id":"1755408","funder_id":"https://openalex.org/F4320337399","funder_display_name":"Division of Integrative Organismal Systems"},{"id":"https://openalex.org/G8778028936","display_name":"RUI:  Antifungal protection of eggs by maternal cloacal microbiota","funder_award_id":"1755408","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337399","display_name":"Division of Integrative Organismal Systems","ror":"https://ror.org/01rvays47"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4200313772.pdf","grobid_xml":"https://content.openalex.org/works/W4200313772.grobid-xml"},"referenced_works_count":62,"referenced_works":["https://openalex.org/W65903277","https://openalex.org/W570388965","https://openalex.org/W1506910355","https://openalex.org/W1619768312","https://openalex.org/W1810028515","https://openalex.org/W1964306176","https://openalex.org/W1970415462","https://openalex.org/W1984378100","https://openalex.org/W1999056594","https://openalex.org/W2001841975","https://openalex.org/W2008194879","https://openalex.org/W2018793243","https://openalex.org/W2034064733","https://openalex.org/W2034285706","https://openalex.org/W2046846930","https://openalex.org/W2056279562","https://openalex.org/W2064728879","https://openalex.org/W2075685714","https://openalex.org/W2076913782","https://openalex.org/W2085696605","https://openalex.org/W2103761010","https://openalex.org/W2129675095","https://openalex.org/W2132560900","https://openalex.org/W2133360663","https://openalex.org/W2150570211","https://openalex.org/W2153732314","https://openalex.org/W2244312894","https://openalex.org/W2296350961","https://openalex.org/W2296974025","https://openalex.org/W2401404581","https://openalex.org/W2406445961","https://openalex.org/W2424784766","https://openalex.org/W2432815617","https://openalex.org/W2462303459","https://openalex.org/W2556521897","https://openalex.org/W2582743722","https://openalex.org/W2608116348","https://openalex.org/W2729367667","https://openalex.org/W2762266352","https://openalex.org/W2764207751","https://openalex.org/W2785846143","https://openalex.org/W2791304536","https://openalex.org/W2885323255","https://openalex.org/W2911131218","https://openalex.org/W2913372117","https://openalex.org/W2923310297","https://openalex.org/W2951455780","https://openalex.org/W2952463830","https://openalex.org/W2992050935","https://openalex.org/W3024035444","https://openalex.org/W3037102180","https://openalex.org/W3040725548","https://openalex.org/W3113111295","https://openalex.org/W3137262447","https://openalex.org/W3167066789","https://openalex.org/W3174993126","https://openalex.org/W3195530744","https://openalex.org/W4246597368","https://openalex.org/W4399650520","https://openalex.org/W4412303962","https://openalex.org/W6603912641","https://openalex.org/W6929814323"],"related_works":["https://openalex.org/W3126899172","https://openalex.org/W2075685714","https://openalex.org/W4312098092","https://openalex.org/W4310376540","https://openalex.org/W4323348057","https://openalex.org/W2729367667","https://openalex.org/W4399756777","https://openalex.org/W3024035444","https://openalex.org/W2556521897","https://openalex.org/W4238364509"],"abstract_inverted_index":{"Microbial":[0],"diversity":[1,140],"and":[2,7,42,59,76,108,117,130,141,194,234],"community":[3],"function":[4,30],"are":[5],"related,":[6],"can":[8],"be":[9,214],"highly":[10],"specialized":[11,29,34],"in":[12,57,169,190,242],"different":[13,89],"gut":[14,93,164,191],"regions.":[15,165],"The":[16,98,166],"cloacal":[17,74,99,131,176,207,246],"microbiome":[18,44,55,100],"of":[19,54,82,91,127,175,199],"Sceloporus":[20],"virgatus":[21,47],"females":[22],"provides":[23],"antifungal":[24],"protection":[25],"to":[26,51,125,162,180],"eggshells,":[27],"a":[28,33,142,223,229],"that":[31,88,126,206],"suggests":[32],"microbiome.":[35,202],"Here,":[36],"we":[37,204],"describe":[38],"the":[39,92,115,183,187,200],"cloacal,":[40],"intestinal,":[41],"oviductal":[43],"from":[45],"S.":[46],"gravid":[48],"females,":[49],"adding":[50],"growing":[52],"evidence":[53],"localization":[56],"reptiles":[58],"other":[60],"taxa.":[61],"We":[62,86],"further":[63],"assessed":[64],"whether":[65],"common":[66,153,167,188],"methods":[67],"for":[68,231],"sampling":[69],"gastrointestinal":[70],"(GI)":[71],"microbes":[72],"-":[73,78],"swabs":[75,121,208],"faeces":[77,227],"provide":[79],"accurate":[80],"representations":[81],"these":[83],"microbial":[84,96],"communities.":[85,97],"found":[87,205],"regions":[90],"had":[94,137],"unique":[95],"showed":[101],"extreme":[102],"specialization":[103],"averaging":[104],"99%":[105],"Proteobacteria":[106],"(Phylum)":[107],"83%":[109],"Enterobacteriacaea":[110,112],"(Family).":[111],"decreased":[113],"up":[114,173,197],"GI":[116,232],"reproductive":[118],"tracts.":[119],"Cloacal":[120],"recovered":[122],"communities":[123],"similar":[124],"lower":[128],"intestine":[129],"tissues.":[132],"In":[133],"contrast,":[134],"faecal":[135,170,201,217],"samples":[136,171],"much":[138],"higher":[139],"distinct":[143],"composition":[144],"(common":[145],"Phyla:":[146],"62%":[147],"Firmicutes,":[148],"18%":[149],"Bacteroidetes,":[150],"10%":[151],"Proteobacteria;":[152],"families:":[154],"39%":[155],"Lachnospiraceae,":[156],"11%":[157,159],"Ruminococcaceae,":[158],"Bacteroidaceae)":[160],"relative":[161],"all":[163],"families":[168,189],"made":[172,196],"<1%":[174,198],"tissue":[177,192],"samples,":[178],"increasing":[179],"43%":[181],"at":[182],"upper":[184],"intestine.":[185],"Similarly,":[186],"(Enterobacteriaceae":[193],"Helicobacteraceae)":[195],"Further,":[203],"taken":[209],"shortly":[210],"after":[211],"defaecation":[212],"may":[213,235],"contaminated":[215],"with":[216],"matter.":[218],"Our":[219],"results":[220],"serve":[221],"as":[222,228],"caution":[224],"against":[225],"using":[226,245],"proxy":[230],"microbes,":[233],"help":[236],"explain":[237],"high":[238],"between-sample":[239],"variation":[240],"seen":[241],"some":[243],"studies":[244],"swabs.":[247]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":8}],"updated_date":"2026-11-03T10:50:19.383937","created_date":"2021-12-31T00:00:00"}