Gut microbial diversity and genus-level differences identified in cervical cancer patients versus healthy controls
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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
Sims TT, Colbert LE, Zheng J, Delgado Medrano AY, Hoffman KL, Ramondetta L, Jazaeri A, Jhingran A, Schmeler KM, Daniel CR, Klopp A
Journal
Gynecologic oncology
Year
2019
Keywords:
Cervical cancer, Gut microbiota, Gynecologic cancer, Microbiome
OBJECTIVES: The aim of this study was to characterize variation in the gut microbiome of women with locally advanced cervical cancer and compare it to healthy controls. METHODS: We characterized the 16S rDNA fecal microbiome in 42 cervical cancer patients and 46 healthy female controls. Shannon diversity index (SDI) was used to evaluate alpha (within sample) diversity. Beta (between sample) diversity was examined using principle coordinate analysis (PCoA) of unweighted Unifrac distances. Relative abundance of microbial taxa was compared between samples using Linear Discriminant Analysis Effect Size (LEfSe). RESULTS: Within cervical cancer patients, bacterial alpha diversity was positively correlated with age (p = 0.22) but exhibited an inverse relationship in control subjects (p < 0.01). Alpha diversity was significantly higher in cervical cancer patients as compared to controls (p < 0.05), though stratification by age suggested this relationship was restricted to older women (>50 years; p < 0.01). Beta diversity (unweighted Unifrac; p < 0.01) also significantly differed between cervical cancer patients and controls. Based on age- and race-adjusted LEfSe analysis, multiple taxa significantly differed between cervical cancer patients and controls. Prevotella, Porphyromonas, and Dialister were significantly enriched in cervical cancer patients, while Bacteroides, Alistipes and members of the Lachnospiracea family were significantly enriched in healthy subjects. CONCLUSION: Our study suggests differences in gut microbiota diversity and composition between cervical cancer patients and controls. Associations within the gut microbiome by age may reflect etiologic/clinical differences. These findings provide rationale for further study of the gut microbiome in cervical cancer.
Experiment 1
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Subjects
- Location of subjects
- United States of America
- 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
- Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Cervical cancer cancer of uterine cervix,cervical neoplasm,cervix cancer,cervix uteri cancer,malignant cervical neoplasm,malignant cervical tumor,malignant cervix neoplasm,malignant cervix tumor,malignant cervix uteri neoplasm,malignant cervix uteri tumor,malignant neoplasm of cervix,malignant neoplasm of cervix uteri,malignant neoplasm of the cervix,malignant neoplasm of the cervix uteri,malignant neoplasm of the uterine cervix,malignant neoplasm of uterine cervix,malignant tumor of cervix,malignant tumor of cervix uteri,malignant tumor of the cervix,malignant tumor of the cervix uteri,malignant tumor of the uterine cervix,malignant tumor of uterine cervix,malignant uterine cervix neoplasm,malignant uterine cervix tumor,tumor of the cervix uteri,uterine cervical neoplasm,uterine cervix cancer,Cervical cancer,cervical cancer
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- cervical cancer patient
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients with biopsy-proven carcinoma of the cervix
- Group 0 sample size Number of subjects in the control (unexposed) group
- 46
- Group 1 sample size Number of subjects in the case (exposed) group
- 42
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 1 month- controls only
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- 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
- 3
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4A
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals
Abundance in Group 1: increased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella | ||
| Porphyromonas | ||
| Dialister | ||
| Lachnoclostridium | ||
| Sutterella | ||
| Thomasclavelia | ||
| Moryella | ||
| Flavonifractor | ||
| Oscillibacter | ||
| Streptococcus |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4A
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals
Abundance in Group 1: decreased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Alistipes | ||
| Anaerostipes | ||
| Bacteroides | ||
| Blautia | ||
| Christensenellaceae | ||
| Enterobacter | ||
| Escherichia | ||
| Fusicatenibacter | ||
| Intestinibacter | ||
| Parabacteroides | ||
| Romboutsia | ||
| Shigella | ||
| Butyricimonas |
Experiment 2
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Differences from previous experiment shown
Subjects
Lab analysis
Statistical Analysis
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4B
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals after adjusting for age
Abundance in Group 1: increased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella | ||
| Porphyromonas | ||
| Dialister | ||
| Lachnoclostridium | ||
| Thomasclavelia | ||
| Flavonifractor | ||
| Moryella |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4B
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals after adjusting for age
Abundance in Group 1: decreased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Romboutsia | ||
| Anaerostipes | ||
| Blautia | ||
| Alistipes |
Revision editor(s): WikiWorks
Experiment 3
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Differences from previous experiment shown
Subjects
Lab analysis
Statistical Analysis
- Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
- race
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4C
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals after adjusting for race
Abundance in Group 1: increased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Prevotella | ||
| Porphyromonas | ||
| Dialister | ||
| Lachnoclostridium | ||
| Streptococcus | ||
| Thomasclavelia | ||
| Moryella |
Revision editor(s): WikiWorks
Signature 2
Reviewed Marked as Reviewed by Fatima Zohra on 2021/02/09
Source: Figure 4C
Description: The fecal microbiota of individuals with cervical cancer statistically significantly different from that of healthy individuals after adjusting for race
Abundance in Group 1: decreased abundance in cervical cancer patient
| NCBI | Quality Control | Links |
|---|---|---|
| Intestinibacter | ||
| Romboutsia | ||
| Fusicatenibacter | ||
| Anaerostipes | ||
| Enterobacter | ||
| Alistipes |
Revision editor(s): WikiWorks
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