Diversity of the Vaginal Microbiome Correlates With Preterm Birth

Reproductive tract infection is a major initiator of preterm birth (PTB). The objective of this prospective cohort study of 88 participants was to determine whether PTB correlates with the vaginal microbiome during pregnancy. Total DNA was purified from posterior vaginal fornix swabs during gestation. The 16S ribosomal RNA gene was amplified using polymerase chain reaction primers, followed by chain-termination sequencing. Bacteria were identified by comparing contig consensus sequences with the Ribosomal Database Project. Dichotomous responses were summarized via proportions and continuous variables via means ± standard deviation. Mean Shannon Diversity index differed by Welch t test (P = .00016) between caucasians with PTB and term gestation. Species diversity was greatest among African Americans (P = .0045). Change in microbiome/Lactobacillus content and presence of putative novel/noxious bacteria did not correlate with PTB. We conclude that uncultured vaginal bacteria play an important role in PTB and race/ethnicity and sampling location are important determinants of the vaginal microbiome.

[1]  Jennifer M. Fettweis,et al.  Species-level classification of the vaginal microbiome , 2012, BMC Genomics.

[2]  William A. Walters,et al.  Using QIIME to Analyze 16S rRNA Gene Sequences from Microbial Communities , 2012, Current protocols in microbiology.

[3]  J. Martin,et al.  Births: final data for 2010. , 2012, National vital statistics reports : from the Centers for Disease Control and Prevention, National Center for Health Statistics, National Vital Statistics System.

[4]  Aleksandar Milosavljevic,et al.  A Metagenomic Approach to Characterization of the Vaginal Microbiome Signature in Pregnancy , 2012, PloS one.

[5]  Lynn K. Carmichael,et al.  Evaluation of 16S rDNA-Based Community Profiling for Human Microbiome Research , 2012, PloS one.

[6]  Katherine H. Huang,et al.  Structure, Function and Diversity of the Healthy Human Microbiome , 2012, Nature.

[7]  Rob Knight,et al.  Selection of primers for optimal taxonomic classification of environmental 16S rRNA gene sequences , 2012, The ISME Journal.

[8]  Joy E. Lawn,et al.  Born too soon: the global action report on preterm birth , 2012 .

[9]  Ronald W. Davis,et al.  The dynamics of the vaginal microbiome during infertility therapy with in vitro fertilization-embryo transfer , 2012, Journal of Assisted Reproduction and Genetics.

[10]  K. Nelson,et al.  The vaginal microbiome in health and disease , 2011, Trends in Endocrinology & Metabolism.

[11]  C. Hernández-Guerrero,et al.  Vaginal Microbiota of Healthy Pregnant Mexican Women is Constituted by Four Lactobacillus Species and Several Vaginosis-Associated Bacteria , 2011, Infectious diseases in obstetrics and gynecology.

[12]  R. Knight,et al.  UniFrac: an effective distance metric for microbial community comparison , 2011, The ISME Journal.

[13]  J. Neu,et al.  Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns , 2011 .

[14]  Ronald W. Davis,et al.  A direct comparison of the KB™ Basecaller and phred for identifying the bases from DNA sequencing using chain termination chemistry , 2010, BMC Research Notes.

[15]  Daniel B. DiGiulio,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 , 2010, American journal of reproductive immunology.

[16]  P. Gajer,et al.  Vaginal microbiome of reproductive-age women , 2010, Proceedings of the National Academy of Sciences.

[17]  William A. Walters,et al.  QIIME allows analysis of high-throughput community sequencing data , 2010, Nature Methods.

[18]  M. Vaneechoutte,et al.  Bmc Microbiology , 2022 .

[19]  G. Olsen,et al.  Heterogeneity of Vaginal Microbial Communities within Individuals , 2009, Journal of Clinical Microbiology.

[20]  James R. Cole,et al.  The Ribosomal Database Project: improved alignments and new tools for rRNA analysis , 2008, Nucleic Acids Res..

[21]  G. Olsen,et al.  Critical Evaluation of Two Primers Commonly Used for Amplification of Bacterial 16S rRNA Genes , 2008, Applied and Environmental Microbiology.

[22]  N. Sakuragi,et al.  Association between Lactobacillus species and bacterial vaginosis-related bacteria, and bacterial vaginosis scores in pregnant Japanese women , 2007, BMC infectious diseases.

[23]  W. Kneifel,et al.  Vaginal Lactobacillus microbiota of healthy women in the late first trimester of pregnancy , 2007, BJOG : an international journal of obstetrics and gynaecology.

[24]  J. Tiedje,et al.  Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy , 2007, Applied and Environmental Microbiology.

[25]  Assuring Healthy Outcomes,et al.  Preterm Birth : Causes , Consequences , and Prevention , 2005 .

[26]  Eoin L. Brodie,et al.  Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB , 2006, Applied and Environmental Microbiology.

[27]  Sang Joon Kim,et al.  A Mathematical Theory of Communication , 2006 .

[28]  Ronald W. Davis,et al.  Microbes on the human vaginal epithelium , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[29]  Thomas Huber,et al.  Bellerophon: a program to detect chimeric sequences in multiple sequence alignments , 2004, Bioinform..

[30]  J. Krieger,et al.  Identification and sequencing of bacterial rDNAs in culture-negative amniotic fluid from women in premature labor. , 2004, American journal of perinatology.

[31]  M. Vaneechoutte,et al.  Cloning of 16S rRNA genes amplified from normal and disturbed vaginal microflora suggests a strong association between Atopobium vaginae, Gardnerella vaginalis and bacterial vaginosis , 2004, BMC Microbiology.

[32]  W. Whitman,et al.  Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. , 2002, International journal of systematic and evolutionary microbiology.

[33]  R. Romero,et al.  Intrauterine infection and prematurity. , 2002, Mental retardation and developmental disabilities research reviews.

[34]  J. Hughes,et al.  Counting the Uncountable: Statistical Approaches to Estimating Microbial Diversity , 2001, Applied and Environmental Microbiology.

[35]  T. Schmidt,et al.  rRNA Operon Copy Number Reflects Ecological Strategies of Bacteria , 2000, Applied and Environmental Microbiology.

[36]  N. Schaumberger Generalization , 1989, Whitehead and Philosophy of Education.

[37]  N. Pace A molecular view of microbial diversity and the biosphere. , 1997, Science.

[38]  E. Stackebrandt,et al.  Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species , 1995, Applied and environmental microbiology.

[39]  John A. Nelder,et al.  Generalized linear models. 2nd ed. , 1993 .

[40]  M. Zweig,et al.  Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine. , 1993, Clinical chemistry.

[41]  O. Kandler,et al.  International Committee on Systematic Bacteriology: announcement of the report of the ad hoc Committee on Reconciliation of Approaches to Bacterial Systematics. , 1987, Zentralblatt fur Bakteriologie, Mikrobiologie, und Hygiene. Series A, Medical microbiology, infectious diseases, virology, parasitology.

[42]  A. Chao Nonparametric estimation of the number of classes in a population , 1984 .

[43]  Welch Bl THE GENERALIZATION OF ‘STUDENT'S’ PROBLEM WHEN SEVERAL DIFFERENT POPULATION VARLANCES ARE INVOLVED , 1947 .