Taxonomic and Functional Differences in Cervical Microbiome Associated with Cervical Cancer Development

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PMID PubMed identifier for scientific articles.
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Tango CN, Seo SS, Kwon M, Lee DO, Chang HK, Kim MK
Scientific reports
The cervical microbiome is associated with cervical cancer risk, but how microbial diversity and functional profiles change in cervical cancer remains unclear. Herein, we investigated microbial-compositional and functional differences between a control group and a high-grade cervical intraepithelial neoplasia and cervical cancer (CIN2/3-CC) group. After retrospective collection of 92 cervical swab samples, we carried out 16S rRNA amplicon sequencing on 50 and 42 samples from the control and CIN2/3-CC groups, respectively. The EzBioCloud pipeline was applied to identify the genomic features associated with the groups using 16S rRNA data. A linear discriminant analysis effect size (LEfSe) was performed to assess the enrichment in the assigned taxonomic and functional profiles. We found a lower richness in the control group relative to the CIN2/3-CC group; however, the β-diversity tended to be similar between the groups. The LEfSe analysis showed that a phylum Sacchaaribacteria_TM7, 11 genera, and 21 species were more abundant in the CIN2/3-CC group and that one uncharacterized Gardnerella species was more abundant only in the control group. Further characterization of the functional pathways using EzBioCloud showed that the 4 KEGG orthologs (Phosphotransferase system [PTS] sucrose-specific IIA, IIB, IIC components and PTS cellubiose-specific IIC component) were involved in the KEGG pathway of starch and sucrose metabolism. The two pathways of folate biosynthesis and oxidative phosphorylation were more abundant in the CIN2/3-CC group. Further confirmation of these results in larger samples can help to elucidate the potential association between the cervical microbiome and cervical cancer.

Experiment 1

Needs review

Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks743, WikiWorks753


Location of subjects
South Korea
Host species Species from which microbiome was sampled (if applicable)
Homo sapiens
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Uterine cervix Canalis cervicis uteri,Caudal segment of uterus,Cervical canal,Cervical canal of uterus,Cervix,Cervix of uterus,Cervix uteri,Neck of uterus,Uterine cervix
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
cervical glandular intraepithelial neoplasia , cervical cancer cervical glandular intraepithelial neoplasia,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
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
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
patients diagnosed with CIN2/3 or cervical cancer during screening of the cervical tract
Group 0 sample size Number of subjects in the control (unexposed) group
Group 1 sample size Number of subjects in the case (exposed) group
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
antibiotic therapy within 3 months

Lab analysis

Sequencing type
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Statistical Analysis

Statistical test
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
Chao1 Abundance-based estimator of species richness
Simpson Estimator of species richness and species evenness: more weight on species evenness
Richness Number of species

Signature 1

Needs review

Curated date: 2020-07-14

Curator: Cynthia Anderson

Revision editor(s): WikiWorks743

Source: figure 2

Description: Diferences in relative abundances of microbial taxa (genus and species) between groups by LEfSe analysis

Abundance in Group 1: increased abundance in CIN2/3-CC

NCBI Links
Streptococcus pneumoniae
Prevotella amnii
Latilactobacillus sakei
Lactobacillus fornicalis
Enhydrobacter aerosaccus
Weissella koreensis
Cutibacterium acnes
Micrococcus luteus
Corynebacterium striatum
Fusobacterium nucleatum
Massilia alkalitolerans

Revision editor(s): WikiWorks743