The biodiversity Composition of Microbiome in Ovarian Carcinoma Patients

Study information

Needs review

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

30737418

DOI Digital object identifier for electronic documents.

10.1038/s41598-018-38031-2

URI Uniform resource identifier for web resources.

Authors

Zhou B, Sun C, Huang J, Xia M, Guo E, Li N, Lu H, Shan W, Wu Y, Li Y, Xu X, Weng D, Meng L, Hu J, Gao Q, Ma D, Chen G

Journal

Scientific reports

Year

2019

Ovarian carcinoma is caused by multiple factors, but its etiology associated with microbes and infection is unknown. Using 16S rRNA high-throughput sequencing methods, the diversity and composition of the microbiota from ovarian cancer tissues (25 samples) and normal distal fallopian tube tissues (25 samples) were analyzed. High-throughput sequencing showed that the diversity and richness indexes were significantly decreased in ovarian cancer tissues compared to tissues from normal distal fallopian tubes. The ratio of the two phyla for Proteobacteria/Firmicutes was notably increased in ovarian cancer, which revealed that microbial composition change might be associated with the process of ovarian cancer development. In addition, transcriptome-sequencing (RNA-seq) analyses suggested that the transcriptional profiles were statistically different between ovarian carcinoma and normal distal fallopian tubes. Moreover, a set of genes including 84 different inflammation-associated or immune-associated genes, which had been named as the human antibacterial-response genes were also modulated expression. Therefore, we hypothesize that the microbial composition change, as a novel risk factor, may be involving the initiation and progression of ovarian cancer via influencing and regulating the local immune microenvironment of fallopian tubes except for regular pathways.

Experiment 1

Edit History Delete

Mark reviewed

Your review change was submittedDuplicate this Experiment Add a new Signature

Needs review

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects: China

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: Uterus Uterus

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: ovarian cancer cancer of ovary,cancer of the ovary,malignant neoplasm of ovary,malignant neoplasm of the ovary,malignant ovarian neoplasm,malignant ovarian tumor,malignant ovary neoplasm,malignant tumor of ovary,malignant tumor of the ovary,malignant tumour of ovary,ovarian cancer,ovarian cancer, epithelial,ovarian malignant tumor,ovarian neoplasm,ovary cancer,ovary neoplasm,primary ovarian cancer,tumor of the ovary

Group 0 name Corresponds to the control (unexposed) group for case-control studies: normal tissue
Group 1 name Corresponds to the case (exposed) group for case-control studies: ovarian cancer
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: women diagnosed with high grade ovarian cancer
Group 0 sample size Number of subjects in the control (unexposed) group: 25
Group 1 sample size Number of subjects in the case (exposed) group: 25
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 3 months

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

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: 3.5

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness: decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness: unchanged

Signature 1

Edit History Delete

Mark reviewed

Your review change was submitted

Needs review

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks

Source: Figure 2, Fig S3

Description: Differentially abundant taxons between ovarian cancer tissues and normal tissues

Abundance in Group 1: increased abundance in ovarian cancer

NCBI	Links
Bacillota
Actinomycetota
Acidobacteriota
Fastidiosipila
Lactococcus
Lactococcus piscium

Revision editor(s): WikiWorks

Signature 2

Edit History Delete

Mark reviewed

Your review change was submitted

Needs review

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks

Source: Figure 2, Fig S3

Description: Differentially abundant taxons between ovarian cancer tissues and normal tissues

Abundance in Group 1: decreased abundance in ovarian cancer

NCBI	Links
Pseudomonadota
Enhydrobacter ⚠
Comamonas ⚠
Staphylococcus
Sphingobium ⚠
Methylobacterium ⚠
Cupriavidus ⚠
Providencia
Schlegelella ⚠
Sediminibacterium
Acidovorax ⚠
Sphingomonas ⚠
Acinetobacter ⚠
Moraxella osloensis
Sphingobium yanoikuyae ⚠
Providencia vermicola
Acinetobacter lwoffii ⚠
Sphingomonas azotifigens ⚠

Revision editor(s): WikiWorks