The DOI matches its Crossref record; 13 of the 13 references it cites were found in a registry or an index.
Lack of detection of a human placenta microbiome in samples from preterm and term deliveries
Open accessAbstract
BACKGROUND: Historically, the human womb has been thought to be sterile in healthy pregnancies, but this idea has been challenged by recent studies using DNA sequence-based methods, which have suggested that the womb is colonized with bacteria. For example, analysis of DNA from placenta samples yielded small proportions of microbial sequences which were proposed to represent normal bacterial colonization. However, an analysis by our group showed no distinction between background negative controls and placenta samples. Also supporting the idea that the womb is sterile is the observation that germ-free mammals can be generated by sterile delivery of neonates into a sterile isolator, after which neonates remain germ-free, which would seem to provide strong data in support of sterility of the womb. RESULTS: To probe this further and to investigate possible placental colonization associated with spontaneous preterm birth, we carried out another study comparing microbiota in placenta samples from 20 term and 20 spontaneous preterm deliveries. Both 16S rRNA marker gene sequencing and shotgun metagenomic sequencing were used to characterize placenta and control samples. We first quantified absolute amounts of bacterial 16S rRNA gene sequences using 16S rRNA gene quantitative PCR (qPCR). As in our previous study, levels were found to be low in the placenta samples and indistinguishable from negative controls. Analysis by DNA sequencing did not yield a placenta microbiome distinct from negative controls, either using marker gene sequencing as in our previous work, or with shotgun metagenomic sequencing. Several types of artifacts, including erroneous read classifications and barcode misattribution, needed to be identified and removed from the data to clarify this point. CONCLUSIONS: Our findings do not support the existence of a consistent placental microbiome, in either placenta from term deliveries or spontaneous preterm births.
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Cites
Trimmomatic: a flexible trimmer for Illumina sequence data
Bolger, A. M., Lohse, M., & Usadel, B. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu170 · Cited by 65,548
DADA2: High–resolution sample inference from Illumina amplicon data
Callahan, B. J., McMurdie, P. J., Rosen, M. J., Han, A. W., Johnson, A. J. A., & Holmes, S. P. (2016) · Nature Methods · doi:10.1038/nmeth.3869 · Cited by 35,698
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P., Peplies, J., & Glöckner, F. O. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1219 · Cited by 33,055
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Structure, function and diversity of the healthy human microbiome
The Human Microbiome Project Consortium (2012) · Nature · doi:10.1038/nature11234 · Cited by 11,726
O'Leary, N. A., Wright, M. W., Brister, J. R., Ciufo, S., Haddad, D., McVeigh, R., Rajput, B., Robbertse, B., Smith-White, B., Ako-Adjei, D., et al. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkv1189 · Cited by 6,357
Kraken: ultrafast metagenomic sequence classification using exact alignments
Wood, D. E., & Salzberg, S. L. (2014) · Genome Biology · doi:10.1186/gb-2014-15-3-r46 · Cited by 4,521
Reagent and laboratory contamination can critically impact sequence-based microbiome analyses
Salter, S. J., Cox, M. J., Turek, E. M., Calus, S. T., Cookson, W. O., Moffatt, M. F., Turner, P., Parkhill, J., Loman, N. J., & Walker, A. W. (2014) · BMC Biology · doi:10.1186/s12915-014-0087-z · Cited by 3,463
Preterm labor: One syndrome, many causes
Romero, R., Dey, S. K., & Fisher, S. J. (2014) · Science · doi:10.1126/science.1251816 · Cited by 1,984
Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract
Charlson, E. S., Bittinger, K., Haas, A. R., Fitzgerald, A. S., Frank, I., Yadav, A., Bushman, F. D., & Collman, R. G. (2011) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201104-0655oc · Cited by 1,144
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Human placenta has no microbiome but can contain potential pathogens
de Goffau, M. C., Lager, S., Sovio, U., Gaccioli, F., Cook, E., Peacock, S. J., Parkhill, J., Charnock-Jones, D. S., & Smith, G. C. S. (2019) · Nature · doi:10.1038/s41586-019-1451-5 · Cited by 691
Identifying biases and their potential solutions in human microbiome studies
Nearing, J. T., Comeau, A. M., & Langille, M. G. I. (2021) · Microbiome · doi:10.1186/s40168-021-01059-0 · Cited by 240
Maternal vertical transmission affecting early-life microbiota development
Wang, S., Ryan, C. A., Boyaval, P., Dempsey, E. M., Ross, R. P., & Stanton, C. (2020) · Trends in Microbiology · doi:10.1016/j.tim.2019.07.010 · Cited by 243
Bile acids drive the newborn’s gut microbiota maturation
van Best, N., Rolle-Kampczyk, U., Schaap, F. G., Basic, M., Olde Damink, S. W. M., Bleich, A., Savelkoul, P. H. M., von Bergen, M., Penders, J., & Hornef, M. W. (2020) · Nature Communications · doi:10.1038/s41467-020-17183-8 · Cited by 226
Deep microbial analysis of multiple placentas shows no evidence for a placental microbiome
Kuperman, A., Zimmerman, A., Hamadia, S., Ziv, O., Gurevich, V, Fichtman, B., Gavert, N., Straussman, R., Rechnitzer, H., Barzilay, M., et al. (2020) · BJOG: An International Journal of Obstetrics & Gynaecology · doi:10.1111/1471-0528.15896 · Cited by 143
Cerritelli, F., Frasch, M. G., Antonelli, M. C., Viglione, C., Vecchi, S., Chiera, M., & Manzotti, A. (2021) · Frontiers in Neuroscience · doi:10.3389/fnins.2021.721605 · Cited by 108
Maternal microbiome in preeclampsia pathophysiology and implications on offspring health
Ishimwe, J. A. (2021) · Physiological Reports · doi:10.14814/phy2.14875 · Cited by 45
Social Determinants of Placental Health and Future Disease Risks for Babies
Thornburg, K. L., Boone-Heinonen, J., & Valent, A. M. (2020) · Obstetrics and Gynecology Clinics of North America · doi:10.1016/j.ogc.2019.11.002 · Cited by 25
Metadata
- Authors
- Leiby, J. S., McCormick, K., Sherrill-Mix, S., Clarke, E. L., Kessler, L. R., Taylor, L. J., Hofstaedter, C. E., Roche, A. M., Mattei, L. M., Bittinger, K., Elovitz, M. A., Leite, R., Parry, S., & Bushman, F. D.
- Venue
- Microbiome
- Published
- 2018-10-30
- Volume
- 6
- Issue
- 1
- Pages
- 196-196
- ISSN
- 2049-2618 (ISSN-L)
- OpenAlex
- W2899101060
- Cited by
- 271
- References
- 13
- FWCI
- 12.56
- Type
- journal article
- Language
- en
- Open access
- gold
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