Gut microbiota modulate CD8+ T cell immunity in gastric cancer through Butyrate/GPR109A/HOPX/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by KateRasheed on 2025-6-6

Curated date: 2025/05/06

Curator: MyleeeA

Revision editor(s): MyleeeA

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
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
Gastric cancer Ca body - stomach,ca greater curvature of stomach,Ca lesser curvature - stomach,cancer of stomach,gastric cancer,gastric cancer, intestinal,gastric neoplasm,malignant gastric neoplasm,malignant gastric tumor,malignant neoplasm of body of stomach,malignant neoplasm of lesser curve of stomach,malignant neoplasm of stomach,malignant neoplasm of the stomach,malignant stomach neoplasm,malignant tumor of body of stomach,malignant tumor of greater curve of stomach,malignant tumor of lesser curve of stomach,malignant tumor of stomach,malignant tumor of the stomach,stomach cancer,Gastric cancer
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Normal Individuals (N)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Gastric Cancer patients (GC)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients admitted to the hospital with Gastric cancer.
Group 0 sample size Number of subjects in the control (unexposed) group
20
Group 1 sample size Number of subjects in the case (exposed) group
20
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
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)?
No
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-6

Curated date: 2025/05/06

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 1A, Supplementary Figure 2A and Supplementary Figure 3A

Description: Differential analysis of microbial community composition between Gastric Cancer-patients (GC) and Normal Individuals (N).

Abundance in Group 1: increased abundance in Gastric Cancer patients (GC)

NCBI Quality ControlLinks
Acidovorax
Akkermansia
Akkermansiaceae
Bacilli
Chloroflexota
Clostridium
Lactobacillaceae
Lactobacillales
Limosilactobacillus
Morganella
Morganella morganii
Morganellaceae
Peptostreptococcus
Rothia
Streptococcaceae
Streptococcus
Streptococcus mitis
Streptococcus parasanguinis
Streptococcus sp.
Verrucomicrobiales
Verrucomicrobiia
Verrucomicrobiota
[Ruminococcus] torques
unclassified Acidovorax
unclassified Akkermansia
unclassified Clostridia
unclassified Limosilactobacillus
unclassified Peptostreptococcus
unclassified Streptococcus
unclassified Tannerellaceae
uncultured Streptococcus sp.
Burkholderia Caballeronia ParaburkholderiaBurkholderia Caballeronia Paraburkholderia
Burkholderia Caballeronia Paraburkholderia UnclassifiedBurkholderia Caballeronia Paraburkholderia Unclassified

Revision editor(s): MyleeeA

Signature 2

Reviewed Marked as Reviewed by KateRasheed on 2025-6-6

Curated date: 2025/05/06

Curator: MyleeeA

Revision editor(s): MyleeeA

Source: Figure 1A, Supplementary Figure 2A and Supplementary Figure 3A

Description: Differential analysis of microbial community composition between Gastric Cancer-patients (GC) and Normal Individuals (N).

Abundance in Group 1: decreased abundance in Gastric Cancer patients (GC)

NCBI Quality ControlLinks
Agathobacter
Anaerostipes
Bacteria
Bacteria incertae sedis
Butyricicoccaceae
Butyricicoccus
Catenibacterium
Clostridia
Clostridiaceae
Clostridium
Coprobacillaceae
Coprococcus
Dorea
Eubacteriales
Faecalibacterium
Fusicatenibacter
Fusobacteriaceae
Fusobacteriales
Fusobacteriia
Fusobacteriota
Fusobacterium
Lachnoclostridium
Lachnoclostridium edouardi
Lachnospira
Lachnospira eligens
Lachnospiraceae
Lachnospirales
Monoglobaceae
Monoglobales
Monoglobus
Muribaculaceae
Oscillospiraceae
Peptostreptococcaceae
Phascolarctobacterium
Romboutsia
Roseburia
Roseburia faecis
Ruminococcus
Subdoligranulum
[Ruminococcus] torques
unclassified Agathobacter
unclassified Anaerostipes
unclassified Bacillota
unclassified Butyricicoccus
unclassified Catenibacterium
unclassified Dorea
unclassified Faecalibacterium
unclassified Fusicatenibacter
unclassified Fusobacterium
unclassified Lachnoclostridium
unclassified Lachnospira
unclassified Monoglobus
unclassified Muribaculaceae
unclassified Papillibacter
unclassified Romboutsia
unclassified Roseburia
unclassified Ruminococcus
unclassified Subdoligranulum
Erysipelotrichaceae UCG-003Erysipelotrichaceae UCG-003
Peptostreptococcaceae TissierellalesPeptostreptococcaceae Tissierellales
Erysipelotrichaceae UCG-003 UnclassifiedErysipelotrichaceae UCG-003 Unclassified
Ruminococcus torques group UnclassifiedRuminococcus torques group Unclassified
Eubacterium eligens group UnclassifiedEubacterium eligens group Unclassified
Unclassified Clostridium senso stricto 1Unclassified Clostridium senso stricto 1

Revision editor(s): MyleeeA