Midtrimester microbial DNA variations in maternal serum of women who experience spontaneous preterm birth

References

• Arias E, MacDorman MF, Strobino DM, et al. Annual summary of vital statistics—2002. Pediatrics 2003;112:1215–1230.
   PubMed Web of Science ®Google Scholar
• Iams JD. Prediction and early detection of preterm labor. Obstet Gynecol. 2003;101:402–412.
   PubMed Web of Science ®Google Scholar
• Institute of Medicine. Preterm Birth: causes, Consequences, and Prevention. Washington, DC: National Academies Press; 2007.
   Google Scholar
• Goldenberg RL, Hauth JC, Andrews WW. Intrauterine infection and preterm delivery. N Engl J Med. 2000;342:1500–1507.
   PubMed Web of Science ®Google Scholar
• Simhan HN, Iams JD, Romero R, Preterm birth. In: Gabbe SG, Niebyl JR, Simpson JL, et al., editors. Obstetrics: normal and Problem Pregnancies. 6th ed. Philadelphia: Elsevier; 2012.
   Google Scholar
• Andrews WW, Hauth JC, Goldenberg RL. Infection and preterm birth. Am J Perinatol. 2000;17:357–365.
   PubMed Web of Science ®Google Scholar
• Nadeau HC, Subramaniam A, Andrews WW. Infection and preterm birth. Semin Fetal Neonat Med. 2016;21:100–105.
   PubMed Web of Science ®Google Scholar
• Hyman RW, Fukushima M, Jiang H, et al. Diversity of the vaginal microbiome correlates with preterm birth. Reprod Sci. 2014;21:32–40.
   PubMed Web of Science ®Google Scholar
• Romero R, Hassan SS, Gajer P, et al. The vaginal microbiota of pregnant women who subsequently have spontaneous preterm labor and delivery and those with a normal delivery at term. Microbiome 2014;2:18.
   PubMed Web of Science ®Google Scholar
• Kacerovsky M, Vrbacky F, Kutova R, et al. Cervical microbiota in women with preterm prelabor rupture of membranes. Plos One. 2015;10:e0126884.
   PubMed Web of Science ®Google Scholar
• Baldwin EA, Walther-Antonio M, MacLean AM, et al. Persistent microbial dysbiosis in preterm premature rupture of membranes from onset until delivery. PeerJ. 2015;3:e1398.
   PubMed Web of Science ®Google Scholar
• Nelson DB, Shin H, Wu J, et al. The Gestational Vaginal microbiome and Spontaneous preterm Birth among nulliparous African American Women. Am. Amer J Perinatol. 2016;33:887–893.
   PubMed Web of Science ®Google Scholar
• Subramaniam A, Kumar R, Cliver SP, et al. Vaginal microbiota in pregnancy: evaluation based on vaginal flora, birth outcome, and race. Am J Perinatol. 2015; Mar33:401–408.
   PubMed Web of Science ®Google Scholar
• Aagaard K, Ma J, Antony KM, et al. The placenta harbors a unique microbiome. Sci Transl Med. 2014;6:237ra65.
   PubMed Web of Science ®Google Scholar
• Prince AL, Ma J, Kannan PS, et al. The placental membrane microbiome is altered among subjects with spontaneous preterm birth with and without chorioamnionitis. Am J Obstet Gynecol. 2016;214:627.e1–627.e16.
   Web of Science ®Google Scholar
• DiGiulio DB, Callahan BJ, McMurdie PJ, et al. Temporal and spatial variation of the human microbiota during pregnancy. Proc Natl Acad Sci USA. USA 2015;1112:11060–11065.
   PubMed Web of Science ®Google Scholar
• Elovitz M, Gajer P, Downes K, et al. Distinct microbiota in the cervicovaginal space are associated with spontaneous preterm birth: findings from a large cohort and validation study. Am J Obstet Gynecol. 2017;216:S8–SS9.
   Web of Science ®Google Scholar
• Carey JC, Klebanoff MA. Is a change in the vaginal flora associated with an increased risk of preterm birth? Am J Obstet Gynecol. 2005;192:1341–1346.
   PubMed Web of Science ®Google Scholar
• Callahan BJ, DiGiulio DB, Goltsman DSA, et al. Replication and refinement of a vaginal microbial signature of preterm birth in two racially distinct cohorts of US women. Proc Natl Acad Sci USA. 2017;114:9966–9971.
   PubMed Web of Science ®Google Scholar
• Stout MJ, Zhou Y, Wylie KM, et al. Early pregnancy vaginal microbiome trends and preterm birth. Am J Obstet Gynecol. 2017;217:356.e1–356.e18.
   Web of Science ®Google Scholar
• Chu D, Stewart C, Seferovic M, et al. Profiling of microbiota in second trimester amniotic fluid reveals a distinctive community present in the mid trimester and predictive of the placental microbiome at parturition. Am J Obstet Gynecol. 2017;216:S18–S19.
   Web of Science ®Google Scholar
• Esplin MS, Elovitz MA, Iams JD, et al. Predictive accuracy of serial transvaginal cervical lengths and quantitative vaginal fetal fibronectin levels for spontaneous preterm birth among nulliparous women. JAMA 2017;317:1047–1056.
   PubMed Web of Science ®Google Scholar
• Kozich JJ, Westcott SL, Baxter NT, et al. Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. Appl Environ Microbiol. 2013;79:5112–5120.
   PubMed Web of Science ®Google Scholar
• Kumar R, Eipers P, Little RB, et al. Getting started with microbiome analysis: sample acquisition to bioinformatics. Curr Protoc Hum Genet. 2014;82:18.8.1–18.829.
   Google Scholar
• Subramaniam A, Ptacek T, Lobashevsky E, et al. Midtrimester cervicovaginal microbiota: identification of microbial variations associated with puerperal infection at term. Am J Perinatol. 2016;33:1165–1175.
   PubMed Web of Science ®Google Scholar
• Edwards RK, Kumar R, Zhi D, et al. Gravidas with class III obesity: evaluating the abdominal skin microbiota above and below the panniculus. J Matern Fetal Neonatal Med. 2015;29:1–3316.
   Web of Science ®Google Scholar
• Navas-Molina JA, Peralta-Sánchez JM, González A, et al. Advancing our understanding of the human microbiome using QIIME. Methods Enzymol 2013;531:371–444.
   PubMed Web of Science ®Google Scholar
• Caporaso JG, Bittinger K, Bushman FD, et al. PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics 2010;26:266–267.
   PubMed Web of Science ®Google Scholar
• Edgar RC. Search and clustering orders of magnitude faster than BLAST. Bioinformatics. 2010;26:2460–2461.
   PubMed Web of Science ®Google Scholar
• Caporaso JG, Lauber CL, Walters WA, et al. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci USA. 2011;108:4516–4522.
   PubMed Web of Science ®Google Scholar
• Lozupone CA, Hamady M, Kelley ST, et al. Quantitative and qualitative beta diversity measures lead to different insights into factors that structure microbial communities. Appl Environ Microbiol. 2007;73:1576–1585.
   PubMed Web of Science ®Google Scholar
• McDonald D, Price MN, Goodrich J, et al. An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. Isme J. 2012;6:610–618.
   PubMed Web of Science ®Google Scholar
• Fredricks DN, Fiedler TL, Marrazzo JM. Molecular identification of bacteria associated with bacterial vaginosis. N Engl J Med. 2005;353:1899–1911.
   PubMed Web of Science ®Google Scholar
• Srinivasan S, Hoffman NG, Morgan MT, et al. Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria. Plos One. 2012;7:e37818.
   PubMed Web of Science ®Google Scholar
• Caporaso JG, Kuczynski J, Stombaugh J, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 2010;7:335–336.
   PubMed Web of Science ®Google Scholar
• Lozupone C, Hamady M, Knight R. UniFrac – an online tool for comparing microbial community diversity in a phylogenetic context. BMC Bioinformatics. 2006;7:7:371.
   PubMed Web of Science ®Google Scholar
• Vázquez-Baeza Y, Pirrung M, Gonzalez A, et al. EMPeror: a tool for visualizing high-throughput microbial community data. Gigasci. 2013;262:16.
   PubMed Web of Science ®Google Scholar
• DiGiulio DB, Romero R, Kusanovic JP, et al. Prevalence and diversity of microbes in the amniotic fluid, the fetal inflammatory response, and pregnancy outcome in women with preterm pre-labor rupture of membranes. Am J Reprod Immunol 2010;164:38–57.
   PubMed Web of Science ®Google Scholar
• DiGiulio DB, Romero R, Amogan HP, et al. Microbial prevalence, diversity and abundance in amniotic fluid during preterm labor: a molecular and culture-based investigation. Plos One. 2008;3:e3056.
   PubMed Web of Science ®Google Scholar
• Wei SQ, Fraser W, Luo ZC. Inflammatory cytokines and spontaneous preterm birth in asymptomatic women: a systematic review. Obstet Gynecol. 2010;116:393.
   PubMed Web of Science ®Google Scholar
• Vogel I, Goepfert AR, Thorsen P, et al. Early second-trimester inflammatory markers and short cervical length and the risk of recurrent preterm birth. J Reprod Immunol. 2007;75:133–140.
   PubMed Web of Science ®Google Scholar
• Nikkari S, McLaughlin IJ, Bi W, et al. Does blood of healthy subjects contain bacterial ribosomal DNA? J Clin Microbiol. 2001;39:1956–1959.
   PubMed Web of Science ®Google Scholar
• Bassis CM, Allsworth JE, Wahl HN, et al. Effects of intrauterine contraception on the vaginal microbiota. Contraception 2017;96:189–195.
   PubMed Web of Science ®Google Scholar
• Borgdorff H, van der Veer C, van Houdt R, et al. The association between ethnicity and vaginal microbiota composition in Amsterdam, the Netherlands. Plos One. 2017;12:e0181135.
   PubMed Web of Science ®Google Scholar
• Corwin EJ, Hogue CJ, Pearce B, et al. Protocol for the Emory University African American vaginal, oral, and gut microbiome in pregnancy cohort study. BMC Pregnancy Childbirth. 2017;17:161.
   PubMed Web of Science ®Google Scholar