Transition in vaginal Lactobacillus species during pregnancy and prediction of preterm birth in Korean women
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
You YA, Park S, Kim K, Kwon EJ, Hur YM, Kim SM, Lee G, Ansari A, Park J, Kim YJ
Journal
Scientific reports
Year
2022
The predominance of vaginal Lactobacillus species, specifically L. crispatus, is important for pregnancy maintenance, but varies by race. The composition of the vaginal microbiome can affect susceptibility to adverse pregnancy outcomes. We performed 16S rRNA gene amplicon sequencing on vaginal swabs taken from Korean pregnant women. Here, we report the transition of Lactobacillus spp. in samples of full-term birth (FTB) collected longitudinally in the second and third trimesters of pregnancy in a cohort study (n = 23) and their association with Lactobacillus abundance and preterm birth (PTB) in a case-control study (n = 200). Lactobacillus species, which was dominant in FTB samples including those that received interventions in the second trimester, did not change until 37 weeks of gestation. However, L. crispatus was replaced by other Lactobacillus species after 37 weeks. The PTB risk showed a closer association with the Lactobacillus abundance than with community state type determined by Lactobacillus species. PTB was associated with less than 90% of Lactobacillus abundance and an increase in Ureplasma parvum in the second trimester. Thus, the vaginal microbiome may change in preparation for childbirth in response to multiple intrinsic factors after 37 weeks of gestation. Monitoring the Lactobacillus abundance may help improve the reliability of microbial PTB biomarkers.
Experiment 1
Needs review
Curated date: 2025/02/12
Curator:
Revision editor(s):
Subjects
- Location of subjects
- Republic of Korea
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Posterior fornix of vagina Pars posterior fornicis vaginae,Posterior fornix,Posterior part of fornix of vagina,Posterior fornix of vagina,posterior fornix of vagina
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Birth measurement Birth measurement,birth measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling < 24weeks (GAS < 24weeks) - Timepoint A
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling < 24weeks (GAS < 24weeks) - Timepoint A
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Preterm birth (PTB) is defined as delivery at less than 37 weeks of gestation and accounts for 8% of childbirths in South Korea
- Group 0 sample size Number of subjects in the control (unexposed) group
- 42
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- LEfSe
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Fig. 2A
Description: FTB- or PTB-associated microbiome using linear discriminant analysis effect size
Abundance in Group 1: decreased abundance in
Revision editor(s): KateRasheed, WikiWorks
Experiment 2
Needs review
Curated date: 2025/02/12
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling 24 - < 32weeks (GAS 24 - < 32weeks) - Timepoint B
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling 24 - < 32weeks (GAS 24 - < 32weeks) - Timepoint B
- Group 0 sample size Number of subjects in the control (unexposed) group
- 26
- Group 1 sample size Number of subjects in the case (exposed) group
- 23
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Needs review
Source: Fig. 2A
Description: FTB- or PTB-associated microbiome using linear discriminant analysis effect size
Abundance in Group 1: increased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Moraxella osloensis | ||
| Cutibacterium acnes | ||
| Ureaplasma parvum |
Revision editor(s): KateRasheed, WikiWorks
Experiment 3
Needs review
Curated date: 2025/02/12
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 0 sample size Number of subjects in the control (unexposed) group
- 17
- Group 1 sample size Number of subjects in the case (exposed) group
- 37
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Fig. 2A
Description: FTB- or PTB-associated microbiome using linear discriminant analysis effect size
Abundance in Group 1: increased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Finegoldia magna | ||
| Staphylococcus epidermidis | ||
| Pseudescherichia vulneris |
Revision editor(s): KateRasheed, WikiWorks
Experiment 4
Needs review
Curated date: 2025/02/14
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling < 24weeks (GAS < 24weeks) - Timepoint A
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling < 24weeks (GAS < 24weeks) - Timepoint A
- Group 0 sample size Number of subjects in the control (unexposed) group
- 42
- Group 1 sample size Number of subjects in the case (exposed) group
- 14
Lab analysis
Statistical Analysis
- Statistical test
- Mann-Whitney (Wilcoxon)
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- Yes
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- Not specified
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Fig. 2B
Description: Differential abundance of the vaginal microbiome in women with FTB and PTB at each sampling time point using STAMP
Abundance in Group 1: decreased abundance in
Revision editor(s): KateRasheed, WikiWorks
Experiment 5
Needs review
Curated date: 2025/02/14
Curator:
Revision editor(s):
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling 24 - < 32weeks (GAS 24 - < 32weeks) - Timepoint B
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling 24 - < 32weeks (GAS 24 - < 32weeks) - Timepoint B
- Group 0 sample size Number of subjects in the control (unexposed) group
- 26
- Group 1 sample size Number of subjects in the case (exposed) group
- 23
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Needs review
Source: Fig. 2B
Description: Differential abundance of the vaginal microbiome in women with FTB and PTB at each sampling time point using STAMP
Abundance in Group 1: increased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Moraxella osloensis |
Revision editor(s): KateRasheed, WikiWorks
Signature 2
Needs review
Source: Fig. 2B
Description: Differential abundance of the vaginal microbiome in women with FTB and PTB at each sampling time point using STAMP
Abundance in Group 1: decreased abundance in
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillus iners DSM 13335 |
Revision editor(s): KateRasheed, WikiWorks
Experiment 6
Needs review
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Full Term or Term Birth (FTB or TB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Preterm birth (PTB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
- Group 0 sample size Number of subjects in the control (unexposed) group
- 17
- Group 1 sample size Number of subjects in the case (exposed) group
- 37
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Needs review
Source: Fig. 2B
Description: Differential abundance of the vaginal microbiome in women with FTB and PTB at each sampling time point using STAMP
Abundance in Group 1: increased abundance in Preterm birth (PTB) by Gestational Age at Sampling 32 - < 37weeks (GAS 32 - < 37weeks) - Timepoint C
| NCBI | Quality Control | Links |
|---|---|---|
| Dialister invisus |
Revision editor(s): KateRasheed, WikiWorks
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