{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T16:56:08Z","timestamp":1791219368086,"version":"4.1.0"},"reference-count":60,"publisher":"Frontiers Media SA","funder":[{"DOI":"10.13039\/100005825","name":"National Institute of Food and Agriculture","doi-asserted-by":"publisher","award":["W3112-TEN00506"],"award-info":[{"award-number":["W3112-TEN00506"]}],"id":[{"id":"10.13039\/100005825","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2017.01047","type":"journal-article","created":{"date-parts":[[2017,6,8]],"date-time":"2017-06-08T11:38:59Z","timestamp":1496921939000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":77,"title":["Vaginal and Uterine Bacterial Communities in Postpartum Lactating Cows"],"prefix":"10.3389","volume":"8","author":[{"given":"Brooke A.","family":"Clemmons","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sydney T.","family":"Reese","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Felipe G.","family":"Dantas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gessica A.","family":"Franco","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Timothy P. L.","family":"Smith","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Olusoji I.","family":"Adeyosoye","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ky G.","family":"Pohler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Phillip R.","family":"Myer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2017,6,8]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"W3","DOI":"10.1093\/nar\/gkw343","article-title":"The galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update.","volume":"44","author":"Afgan","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"B2","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1128\/MMBR.59.1.143-169.1995","article-title":"Phylogenetic identification and in situ detection of individual microbial cells without cultivation.","volume":"59","author":"Amann","year":"1995","journal-title":"Microbiol. Rev."},{"key":"B3","doi-asserted-by":"publisher","first-page":"26","DOI":"10.15232\/S1080-7446(15)31480-7","article-title":"Review: cost of reproductive diseases and conditions in cattle1.","volume":"18","author":"Bellows","year":"2002","journal-title":"Prof. Anim. Sci."},{"key":"B4","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1017\/S1751731114000743","article-title":"Genetics and genomics of reproductive performance in dairy and beef cattle.","volume":"8","author":"Berry","year":"2014","journal-title":"Animal"},{"key":"B5","doi-asserted-by":"publisher","first-page":"543","DOI":"10.1016\/S1286-4579(00)00313-0","article-title":"Role played by lactobacilli in controlling the population of vaginal pathogens.","volume":"2","author":"Boris","year":"2000","journal-title":"Microbes Infect."},{"key":"B6","doi-asserted-by":"publisher","first-page":"1809","DOI":"10.1093\/humrep\/16.9.1809","article-title":"Origins of vaginal acidity: high D\/L lactate ratio is consistent with bacteria being the primary source.","volume":"16","author":"Boskey","year":"2001","journal-title":"Hum. Reprod."},{"key":"B7","doi-asserted-by":"crossref","first-page":"5170","DOI":"10.1128\/IAI.67.10.5170-5175.1999","article-title":"Acid production by vaginal flora in vitro is consistent with the rate and extent of vaginal acidification.","volume":"67","author":"Boskey","year":"1999","journal-title":"Infect. Immun."},{"key":"B8","doi-asserted-by":"publisher","first-page":"483","DOI":"10.1136\/sti.2005.014621","article-title":"Factors affecting vaginal pH levels among female adolescents attending genitourinary medicine clinics.","volume":"81","author":"Brabin","year":"2005","journal-title":"Sex. Trans. Infect."},{"key":"B9","doi-asserted-by":"publisher","first-page":"335","DOI":"10.1038\/nmeth.f.303","article-title":"QIIME allows analysis of high-throughput community sequencing data.","volume":"7","author":"Caporaso","year":"2010","journal-title":"Nat. Method"},{"key":"B10","doi-asserted-by":"publisher","first-page":"695","DOI":"10.1017\/S1751731114000354","article-title":"Risk factors associated with detailed reproductive phenotypes in dairy and beef cows.","volume":"8","author":"Carthy","year":"2014","journal-title":"Animal"},{"key":"B11","doi-asserted-by":"publisher","first-page":"405","DOI":"10.1099\/00207713-36-3-405","article-title":"Intra- and intergeneric similarities of the bordetella ribosomal ribonucleic acid cistrons: proposal for a new family, alcaligenaceae.","volume":"36","author":"De Ley","year":"1986","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"B12","doi-asserted-by":"publisher","first-page":"3876","DOI":"10.3168\/jds.S0022-0302(06)72430-4","article-title":"Economic value of pregnancy in dairy cattle1.","volume":"89","author":"De Vries","year":"2006","journal-title":"J. Dairy Sci."},{"key":"B13","doi-asserted-by":"publisher","first-page":"11060","DOI":"10.1073\/pnas.1502875112","article-title":"Temporal and spatial variation of the human microbiota during pregnancy.","volume":"112","author":"DiGiulio","year":"2015","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B14","doi-asserted-by":"publisher","first-page":"269","DOI":"10.1111\/j.1439-0388.2008.00788.x","article-title":"Estimation of genetic parameters and genome scan for 15 semen characteristics traits of Holstein bulls.","volume":"126","author":"Druet","year":"2009","journal-title":"J. Anim. Breed. Genet."},{"key":"B15","first-page":"129","article-title":"\u201cDiversity of microbiomes in beef cattle,\u201d in","author":"Durso","year":"2015","journal-title":"Encyclopedia of Metagenomics: Environmental Metagenomics"},{"key":"B16","doi-asserted-by":"publisher","first-page":"2460","DOI":"10.1093\/bioinformatics\/btq461","article-title":"Search and clustering orders of magnitude faster than BLAST.","volume":"26","author":"Edgar","year":"2010","journal-title":"Bioinformatics"},{"key":"B17","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.3003605","article-title":"Temporal dynamics of the human vaginal microbiota.","volume":"4","author":"Gajer","year":"2012","journal-title":"Sci. Transl. Med."},{"key":"B18","doi-asserted-by":"publisher","first-page":"1285","DOI":"10.1016\/0024-3205(75)90313-6","article-title":"Hormone and metabolite differences between lactating beef and dairy cattle.","volume":"16","author":"Hart","year":"1975","journal-title":"Life Sci."},{"key":"B19","doi-asserted-by":"publisher","first-page":"176","DOI":"10.1111\/j.1365-2052.2008.01815.x","article-title":"A genome map of divergent artificial selection between Bos taurus dairy cattle and Bos taurus beef cattle.","volume":"40","author":"Hayes","year":"2009","journal-title":"Anim. Genet."},{"key":"B20","doi-asserted-by":"publisher","first-page":"747","DOI":"10.1016\/j.cll.2014.08.006","article-title":"The changing landscape of the vaginal microbiome.","volume":"34","author":"Huang","year":"2014","journal-title":"Clin. Lab. Med."},{"key":"B21","doi-asserted-by":"publisher","first-page":"190","DOI":"10.1016\/0167-7799(96)10025-1","article-title":"Identifying microbial diversity in the natural environment: a molecular phylogenetic approach.","volume":"14","author":"Hugenholtz","year":"1996","journal-title":"Trends Biotechnol."},{"key":"B22","doi-asserted-by":"publisher","first-page":"207","DOI":"10.1038\/nature11234","article-title":"Structure, function and diversity of the healthy human microbiome.","volume":"486","year":"2012","journal-title":"Nature"},{"key":"B23","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1177\/1933719113488838","article-title":"Diversity of the vaginal microbiome correlates with preterm birth.","volume":"21","author":"Hyman","year":"2014","journal-title":"Reprod. Sci."},{"key":"B24","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0033306","article-title":"Composition and similarity of bovine rumen microbiota across individual animals.","volume":"7","author":"Jami","year":"2012","journal-title":"PLoS ONE"},{"key":"B25","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0085423","article-title":"Potential role of the bovine rumen microbiome in modulating milk composition and feed efficiency.","volume":"9","author":"Jami","year":"2014","journal-title":"PLoS ONE"},{"key":"B26","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1111\/j.1574-695X.2006.00124.x","article-title":"Selection and identification of anaerobic lactobacilli producing inhibitory compounds against vaginal pathogens.","volume":"48","author":"Kaewsrichan","year":"2006","journal-title":"FEMS Immunol. Med. Microbiol."},{"key":"B27","doi-asserted-by":"publisher","first-page":"94","DOI":"10.1093\/infdis\/164.1.94","article-title":"Control of the microbial flora of the vagina by H2O2-generating lactobacilli.","volume":"164","author":"Klebanoff","year":"1991","journal-title":"J. Infect. Dis."},{"key":"B28","article-title":"\u201cInvestigating the microbiome of the bovine uterus in relation to endometritis, a costly disease for dairy farmers,\u201d in","author":"Knudsen","year":"2012","journal-title":"Proceedings of the 14th International Symposium on Microbial Ecology"},{"key":"B29","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0143294","article-title":"Vaginal microbiome characterization of nellore cattle using metagenomic analysis.","volume":"10","author":"Laguardia-Nascimento","year":"2015","journal-title":"PLoS ONE"},{"key":"B30","doi-asserted-by":"publisher","first-page":"541","DOI":"10.1038\/nature12506","article-title":"Richness of human gut microbiome correlates with metabolic markers.","volume":"500","author":"Le Chatelier","year":"2013","journal-title":"Nature"},{"key":"B31","doi-asserted-by":"publisher","first-page":"11070","DOI":"10.1073\/pnas.0504978102","article-title":"Obesity alters gut microbial ecology.","volume":"102","author":"Ley","year":"2005","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B32","doi-asserted-by":"publisher","first-page":"8228","DOI":"10.1128\/AEM.71.12.8228-8235.2005","article-title":"UniFrac: a new phylogenetic method for comparing microbial communities.","volume":"71","author":"Lozupone","year":"2005","journal-title":"Appl. Environ. Microbiol."},{"key":"B33","doi-asserted-by":"publisher","first-page":"629","DOI":"10.1586\/eog.11.63","article-title":"Vaginal innate immunity: alteration during pregnancy and its impact on pregnancy outcomes.","volume":"6","author":"Mendez-Figueroa","year":"2011","journal-title":"Exp. Rev. Obstet. Gynecol."},{"key":"B34","doi-asserted-by":"publisher","first-page":"781","DOI":"10.1016\/j.theriogenology.2015.10.037","article-title":"A review of sexually transmitted bovine trichomoniasis and campylobacteriosis affecting cattle reproductive health.","volume":"85","author":"Michi","year":"2016","journal-title":"Theriogenology"},{"key":"B35","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0129174","article-title":"Rumen microbiome from steers differing in feed efficiency.","volume":"10","author":"Myer","year":"2015","journal-title":"PLoS ONE"},{"key":"B36","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.tria.2016.02.001","article-title":"The structure and function of the cervix during pregnancy.","volume":"2","author":"Nott","year":"2016","journal-title":"Trans. Res. Anat."},{"key":"B37","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0080074","article-title":"Vaginal pH and microbicidal lactic acid when lactobacilli dominate the microbiota.","volume":"8","author":"O\u2019Hanlon","year":"2013","journal-title":"PLoS ONE"},{"key":"B38","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0009490","article-title":"FastTree 2 \u2013 approximately maximum-likelihood trees for large alignments.","volume":"5","author":"Price","year":"2010","journal-title":"PLoS ONE"},{"key":"B39","doi-asserted-by":"publisher","first-page":"e1","DOI":"10.1016\/j.ajog.2016.01.193","article-title":"The placental microbiome is altered among subjects with spontaneous preterm birth with and without chorioamnionitis.","volume":"214","author":"Prince","year":"2016","journal-title":"Am. J. Obstet. Gynecol"},{"key":"B40","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1007\/s00404-015-3810-2","article-title":"Restoring vaginal microbiota: biological control of bacterial vaginosis. A prospective case\u2013control study using Lactobacillus rhamnosus BMX 54 as adjuvant treatment against bacterial vaginosis.","volume":"293","author":"Recine","year":"2016","journal-title":"Arch. Gynecol. Obstet."},{"key":"B41","doi-asserted-by":"publisher","DOI":"10.1186\/2049-2618-2-4","article-title":"The composition and stability of the vaginal microbiota of normal pregnant women is different from that of non-pregnant women.","volume":"2","author":"Romero","year":"2014","journal-title":"Microbiome"},{"key":"B42","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0053048","article-title":"Diversity and succession of bacterial communities in the uterine fluid of postpartum metritic, endometritic and healthy dairy cows.","volume":"7","author":"Santos","year":"2012","journal-title":"PLoS ONE"},{"key":"B43","doi-asserted-by":"publisher","first-page":"7537","DOI":"10.1128\/AEM.01541-09","article-title":"Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities.","volume":"75","author":"Schloss","year":"2009","journal-title":"Appl. Environ. Microbiol."},{"key":"B44","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1038\/nmeth1156","article-title":"Next-generation sequencing transforms today\u2019s biology.","volume":"200","author":"Schuster","year":"2007","journal-title":"Nature"},{"key":"B45","doi-asserted-by":"publisher","first-page":"531","DOI":"10.1136\/vr.151.18.531","article-title":"Effect of postpartum manual examination of the vagina on uterine bacterial contamination in cows.","volume":"151","author":"Sheldon","year":"2002","journal-title":"Vet. Rec."},{"key":"B46","doi-asserted-by":"publisher","first-page":"69","DOI":"10.1097\/MOG.0000000000000139","article-title":"The gut microbiome in health and in disease.","volume":"31","author":"Shreiner","year":"2015","journal-title":"Curr. Opin. Gastroenterol."},{"key":"B47","first-page":"13","author":"Singer","year":"2009","journal-title":"The Functional Anatomy of the Cervix, the Cervical Epithelium and the Stroma. The Cervix"},{"key":"B48","doi-asserted-by":"publisher","first-page":"301","DOI":"10.1016\/j.tvjl.2007.02.003","article-title":"The immune status of the bovine uterus during the peripartum period.","volume":"175","author":"Singh","year":"2008","journal-title":"Vet. J."},{"key":"B49","doi-asserted-by":"publisher","first-page":"338","DOI":"10.1046\/j.1523-1739.1996.10020338.x","article-title":"Limitations of captive breeding in endangered species recovery.","volume":"10","author":"Snyder","year":"1996","journal-title":"Conserv. Biol."},{"key":"B50","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1128\/CMR.9.2.216","article-title":"Clostridial enteric diseases of domestic animals.","volume":"9","author":"Songer","year":"1996","journal-title":"Clin. Microbiol. Rev."},{"key":"B51","doi-asserted-by":"publisher","first-page":"2111","DOI":"10.2527\/jas.2014-8391","article-title":"Progesterone status, parity, body condition, and days postpartum before estrus or ovulation synchronization in suckled beef cattle influence artificial insemination pregnancy outcomes.","volume":"93","author":"Stevenson","year":"2015","journal-title":"J. Anim. Sci."},{"key":"B52","doi-asserted-by":"publisher","DOI":"10.3389\/fvets.2014.00019","article-title":"Characterization of the vaginal microbiota of ewes and cows reveals a unique microbiota with low levels of Lactobacilli and near-neutral pH.","volume":"1","author":"Swartz","year":"2014","journal-title":"Front. Vet. Sci."},{"key":"B53","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1016\/j.rbms.2016.09.003","article-title":"IVF global histories, USA: between rock and a marketplace.","volume":"2","author":"Thompson","year":"2016","journal-title":"Reprod. Biomed.Soc.Online"},{"key":"B54","doi-asserted-by":"publisher","first-page":"480","DOI":"10.1038\/nature07540","article-title":"A core gut microbiome in obese and lean twins.","volume":"457","author":"Turnbaugh","year":"2009","journal-title":"Nature"},{"key":"B55","doi-asserted-by":"publisher","DOI":"10.1038\/nature06244","article-title":"The human microbiome project: exploring the microbial part of ourselves in a changing world.","volume":"449","author":"Turnbaugh","year":"2007","journal-title":"Nature"},{"key":"B56","doi-asserted-by":"publisher","first-page":"32","DOI":"10.2527\/af.2015-0006","article-title":"Dairy cattle reproduction is a tightly regulated genetic process: highlights on genes, pathways, and biological processes.","volume":"5","author":"Valour","year":"2015","journal-title":"Anim. Front."},{"key":"B57","doi-asserted-by":"publisher","first-page":"1809","DOI":"10.1093\/humrep\/det096","article-title":"Risks associated with bacterial vaginosis in infertility patients: a systematic review and meta-analysis.","volume":"28","author":"van Oostrum","year":"2013","journal-title":"Hum. Reprod."},{"key":"B58","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-017-0237-y","article-title":"Normalization and microbial differential abundance strategies depend upon data characteristics.","volume":"5","author":"Weiss","year":"2017","journal-title":"Microbiome"},{"key":"B59","doi-asserted-by":"publisher","first-page":"213","DOI":"10.1111\/j.1574-6976.1997.tb00351.x","article-title":"Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis.","volume":"21","author":"Wintzingerode","year":"1997","journal-title":"FEMS Microbiol. Rev."},{"key":"B60","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1093\/jn\/134.2.465","article-title":"Molecular ecological analysis of the gastrointestinal microbiota: a review.","volume":"134","author":"Zoetendal","year":"2004","journal-title":"J. Nutr."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"http:\/\/journal.frontiersin.org\/article\/10.3389\/fmicb.2017.01047\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,10,9]],"date-time":"2020-10-09T19:42:38Z","timestamp":1602272558000},"score":1,"resource":{"primary":{"URL":"http:\/\/journal.frontiersin.org\/article\/10.3389\/fmicb.2017.01047\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,6,8]]},"references-count":60,"alternative-id":["10.3389\/fmicb.2017.01047"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2017.01047","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,6,8]]},"article-number":"1047"}}