Sex-specific differences in intestinal microbiota associated with cardiovascular diseases/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Chloe on 2024-1-25

Curated date: 2024/01/24

Curator: Andre

Revision editor(s): Andre

Subjects

Location of subjects
Spain
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
Cardiovascular disease [X]Cardiovascular disease, unspecified,[X]Cardiovascular disease, unspecified (disorder),[X]Other forms of heart disease,[X]Other forms of heart disease (disorder),[X]Other ill-defined heart diseases,[X]Other ill-defined heart diseases (disorder),[X]Other specified diseases of pericardium,[X]Other specified diseases of pericardium (disorder),ASCVD,CARDIOVASC DIS,cardiovascular disease,Cardiovascular Disease (CVD),cardiovascular disease (CVD),Cardiovascular disease, NOS,Cardiovascular disease, unspecified,Cardiovascular Diseases,Cardiovascular Disorder,cardiovascular disorder,Cardiovascular disorder, NOS,Cardiovascular Disorders,Cardiovascular system disease,cardiovascular system disease,cardiovascular system disease or disorder,Certain sequelae of myocardial infarction, not elsewhere classified,CIRCULATORY DISEASE NOS,circulatory system disease,Circulatory system disease NOS,Circulatory system disease NOS (disorder),CVD,CVD, NOS,CVS disease,Disease affecting entire cardiovascular system,Disease affecting entire cardiovascular system (disorder),Disease of cardiovascular system,disease of cardiovascular system,Disease of cardiovascular system (disorder),Disease of cardiovascular system, NOS,disease of subdivision of hemolymphoid system,disease or disorder of cardiovascular system,Disease, Cardiovascular,DISEASES OF THE CIRCULATORY SYSTEM,Diseases, Cardiovascular,Disorder of cardiovascular system,disorder of cardiovascular system,Disorder of cardiovascular system (disorder),Disorder of circulatory system,Disorder of circulatory system, NOS,Disorder of the circulatory system,Ill-defined descriptions and complications of heart disease,ILL-DEFINED HRT DIS NEC,Other diseases of endocardium,Other diseases of endocardium (disorder),Other diseases of pericardium,Other diseases of pericardium (disorder),Other disorders of papillary muscle,Other forms of heart disease,Other forms of heart disease (disorder),Other heart disease,Other heart disease (disorder),Other heart disease NOS,Other heart disease NOS (disorder),Other ill-defined heart disease,Other ill-defined heart disease (disorder),Other ill-defined heart disease NOS,Other ill-defined heart disease NOS (disorder),Other ill-defined heart diseases,Other pericardial disease NOS,Other pericardial disease NOS (disorder),OTHER SEQUELAE OF MI NEC,Other sequelae of myocardial infarction, not elsewhere classified,Other specified diseases of pericardium,Other specified pericardial disease NOS,Other specified pericardial disease NOS (disorder),PAPILLARY MUSCLE DIS NEC,PERICARDIAL DISEASE NEC,Unspecified circulatory system disorder,Cardiovascular disease
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Men without cardiovascular disease
Group 1 name Corresponds to the case (exposed) group for case-control studies
Men with coronary heart disease (CHD)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Men with coronary heart disease, and enrolled in the CORDIOPREV study.
Group 0 sample size Number of subjects in the control (unexposed) group
242
Group 1 sample size Number of subjects in the case (exposed) group
567
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
1 month

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified
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)?
Yes
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
decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness
decreased
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
unchanged

Signature 1

Reviewed Marked as Reviewed by Chloe on 2024-1-25

Curated date: 2024/01/24

Curator: Andre

Revision editor(s): Andre

Source: Fig. 4

Description: Linear discriminant analysis between CHD patients and non‑CVD subjects in Men

Abundance in Group 1: increased abundance in Men with coronary heart disease (CHD)

NCBI Quality ControlLinks
Acidaminococcaceae
Acidaminococcales
Actinomycetota
Akkermansia
Akkermansiaceae
Bacilli
Bacillota
Candidatus Saccharimonadales
Candidatus Saccharimonadia
Clostridia
Coriobacteriales
Coriobacteriia
Desulfovibrionaceae
Desulfovibrionales
Desulfovibrionia
Enterobacterales
Enterobacteriaceae
Escherichia
Haemophilus
Lactobacillaceae
Lactobacillales
Lactobacillus
Negativicutes
Oscillospiraceae
Pasteurellaceae
Pasteurellales
Patescibacteria group
Phascolarctobacterium
Roseburia
Selenomonadales
Shigella
Streptococcaceae
Streptococcus
Subdoligranulum
Thermodesulfobacteriota
Veillonella
Veillonellaceae
Veillonellales
Verrucomicrobiales
g_NK4A214_groupg_NK4A214_group
f_clostridia_UCG_014f_clostridia_UCG_014
g_clostridia_UCG_014g_clostridia_UCG_014
o_clostridia_UCG_014o_clostridia_UCG_014
g_Eubacterium_coprostanoligenesg_Eubacterium_coprostanoligenes
f_Eubacterium_coprostanoligenesf_Eubacterium_coprostanoligenes
g_UCG_002g_UCG_002
oscillospiralesoscillospirales

Revision editor(s): Andre

Signature 2

Reviewed Marked as Reviewed by Chloe on 2024-1-25

Curated date: 2024/01/24

Curator: Andre

Revision editor(s): Andre, MyleeeA

Source: Figure 4

Description: Linear discriminant analysis between CHD patients and non‑CVD subjects in Men

Abundance in Group 1: decreased abundance in Men with coronary heart disease (CHD)

NCBI Quality ControlLinks
Alistipes
Bacteroidaceae
Bacteroidales
Bacteroides
Bacteroidia
Bacteroidota
Barnesiella
Barnesiellaceae
Blautia
Burkholderiales
Butyricimonas
Coprobacter
Erysipelotrichales
Marinifilaceae
Odoribacter
Parabacteroides
Paraprevotella
Parasutterella
Peptostreptococcales
Pseudomonadota
Rikenellaceae
Ruminococcus
Sutterella
Sutterellaceae
Tannerellaceae
Thomasclavelia
Tissierellales
[Eubacterium] siraeum
g_unculturedg_uncultured

Revision editor(s): Andre, MyleeeA