Microbiome of the lower genital tract in Chinese women with endometriosis by 16s-rRNA sequencing technique: a pilot study/Experiment 1

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Reviewed Marked as Reviewed by Folakunmi on 2023-12-8

Curated date: 2021/08/11

Curator: Samara.Khan

Revision editor(s): WikiWorks, Samara.Khan, Peace Sandy, Folakunmi

Subjects

Location of subjects
China
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
Cervical cavity Canal of the cervix,Cavity of cervix,Cervical canal,Cervical canal of uterus,Endocervical,Endocervical canal,Endocervix,Lumen of cervix of uterus,Cervical cavity,cervical cavity
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Endometriosis , Adenomyosis endometriosis,Endometriosis (clinical),endometriosis (disease),Endometriosis (disorder),Endometriosis (morphologic abnormality),ENDOMETRIOSIS NEC,Endometriosis NOS,Endometriosis NOS (disorder),Endometriosis of other specified sites,Endometriosis, site unspecified,Endometriosis,uterine corpus adenomyosis,Adenomyosis,adenomyosis
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Endometriosis patients (EM) and Patients without endometriosis(Control-CT)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Endometriosis/ adenomyosis patients (AMEM)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
All participants were diagnosed with adenomyosis accompanied with endometriosis (a condition where endometrial tissue grows into the uterine wall) through laparoscopic surgery
Group 0 sample size Number of subjects in the control (unexposed) group
92
Group 1 sample size Number of subjects in the case (exposed) group
14
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
No antibiotic use within 30 days

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

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2023-12-8

Curated date: 2021/08/11

Curator: Samara.Khan

Revision editor(s): Samara.Khan, Folakunmi

Source: within results text(under "Microbiota composition of different diseases" ,paragraph 5, lines 4-7), figure 6

Description: The following taxa were increased in patients with endometriosis and adenomyosis compared to those with just endometriosis, as well as those without endometriosis (control).

Abundance in Group 1: increased abundance in Endometriosis/ adenomyosis patients (AMEM)

NCBI Quality ControlLinks
Atopobium
Campylobacter
Campylobacteraceae
Coriobacteriaceae
Escherichia/Shigella sp.
Ezakiella
Faecalibacterium

Revision editor(s): Samara.Khan, Folakunmi