Longitudinal gut microbiota composition of South African and Nigerian infants in relation to tetanus vaccine responses/Experiment 1
From BugSigDB
Subjects
- Location of subjects
- Nigeria
- South Africa
- 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
- Blood , Blood plasma , Feces Portion of blood,Vertebrate blood,Whole blood,Blood,blood,Blood plasm,Plasma,Portion of blood plasma,Portion of plasma,Blood plasma,blood plasma,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
- HIV infection [X]Human immunodeficiency virus disease,[X]Human immunodeficiency virus disease (disorder),[X]Unspecified human immunodeficiency virus [HIV] disease,[X]Unspecified human immunodeficiency virus [HIV] disease (disorder),HIV - Human immunodeficiency virus infection,HIV INFECT,HIV Infection,HIV infection,HIV Infections,HIV infectious disease,HTLV III INFECT,HTLV III Infections,HTLV III LAV INFECT,HTLV III LAV Infections,HTLV WIII INFECTIONS,HTLV WIII LAV INFECTIONS,HTLV-III Infection,HTLV-III Infections,HTLV-III-LAV Infection,HTLV-III-LAV Infections,HUMAN IMMUNO VIRUS DIS,human immunodeficiency virus,Human immunodeficiency virus [HIV] disease,HUMAN IMMUNOdeficiency VIRUS [HIV] INFECTION,Human immunodeficiency virus caused disease or disorder,Human immunodeficiency virus disease,Human immunodeficiency virus disease (disorder),Human immunodeficiency virus disease or disorder,Human immunodeficiency virus infection,Human immunodeficiency virus infection (disorder),Human immunodeficiency virus infection, NOS,Human immunodeficiency virus infectious disease,human immunodeficiency virus infectious disease,Infection, HIV,Infection, HTLV-III,Infection, HTLV-III-LAV,Infections, HIV,Infections, HTLV-III,Infections, HTLV-III-LAV,LYMPHOTROPIC VIRUS TYPE III INFECTIONS HUMAN T,T LYMPHOTROPIC VIRUS TYPE III INFECT HUMAN,T Lymphotropic Virus Type III Infections, Human,T-Lymphotropic Virus Type III Infections, Human,Unspecified human immunodeficiency virus [HIV] disease (disorder),hIV infection
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Infants who are HIV unexposed and uninfected iHUU
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Infants who are HIV exposed but uninfected iHEU
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Infants born to mothers who have HIV but are not infected with HIV
- Group 0 sample size Number of subjects in the control (unexposed) group
- 76
- Group 1 sample size Number of subjects in the case (exposed) group
- 202
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
- ANCOM
- Chi-Square
- LASSO Regression
- PERMANOVA
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
Signature 1
Source: Figure 1A
Description: Heatmap of the top 20 taxa in the gut microbiota of South African (n = 63) and Nigerian (n = 141) infants in the first week of age. Study site, HIV exposure status, and community cluster types (based on PAM clustering; k = 3)
Abundance in Group 1: increased abundance in Infants who are HIV exposed but uninfected iHEU
| NCBI | Quality Control | Links |
|---|---|---|
| Corynebacterium accolens | ||
| Streptococcus pneumoniae | ||
| Haemophilus influenzae |
Revision editor(s): Aishat
Signature 2
Source: Figure 1A
Description: Heatmap of the top 20 taxa in the gut microbiota of South African (n = 63) and Nigerian (n = 141) infants in the first week of age. Study site, HIV exposure status, and community cluster types (based on PAM clustering; k = 3)
Abundance in Group 1: decreased abundance in Infants who are HIV exposed but uninfected iHEU
| NCBI | Quality Control | Links |
|---|---|---|
| Staphylococcus aureus | ||
| Staphylococcus epidermidis | ||
| Enterococcus faecalis |
Revision editor(s): Aishat
