Gut microbiome dysbiosis contributes to the pathophysiology of both gestational diabetes mellitus (GDM) and its associated adverse outcomes in the woman and offspring. Even though GDM prevalence, complications, and outcomes vary among different ethnic groups, limited information is available about the influence of ethnicity on gut microbiome dysbiosis in pregnancies complicated by GDM. This pilot prospective cohort study examined the impact of ethnicity on gut dysbiosis in GDM among three Asian ethnic groups (Chinese, Malay, Indian) living in Singapore, and investigated the potential modulatory roles of diet and lifestyle modifications on gut microbiome post-GDM diagnosis. Women with GDM (n = 53) and without GDM (n = 16) were recruited. Fecal samples were collected at 24-28- and 36-40-weeks' gestation and analyzed by targeted 16S rRNA gene-based amplicon sequencing. Permutational multivariate analysis of variance (PERMANOVA) analysis was performed to evaluate differences between groups. Differentially abundant taxa were identified by DeSeq2 based analysis. Functional prediction was performed using the phylogenetic investigation of communities by reconstruction of unobserved states (PICRUSt2). Among women with GDM, gut microbiome from different ethnicities harbored common microbial features. However, among those without GDM, there was contrasting microbiome composition between ethnic groups. Microbial members such as Collinsella, Blautia, Ruminococcus, Ruminococcus gnavus, Ruminococcus torques, and Eubacterium hallii groups were differentially enriched (p < 0.05) in women with GDM compared to those without. Among women with GDM, no differences in alpha- and beta- diversity were observed when comparing 24-28 weeks' samples with 36-40 weeks' samples, a period covering intense dietary and lifestyle modification, suggesting an inability to modulate gut microbiota through classic GDM management. Women with GDM have a distinct gut microbiome profile which harbours common features across different Asian ethnic groups, consistent with the notion that specific microbes are involved in the pathogenesis of insulin resistance, pro-inflammatory conditions, and other metabolic dysregulation known to be present in GDM.
Experiment 1
Needs review
Curated date: 2024/10/25
Curator: Rahila
Revision editor(s): Rahila
Subjects
- Location of subjects
- Singapore
- 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
- Gestational diabetes diabetes in pregnancy,GDM,gestational diabetes,gestational diabetes mellitus,maternal gestational diabetes mellitus,Gestational diabetes
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Malay (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Control_Indian (non-GDM)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women without gestational diabetes mellitus (GDM)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 5
- Group 1 sample size Number of subjects in the case (exposed) group
- 5
- 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
- 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).
- raw counts
- Statistical test
- DESeq2
- 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
Signature 1
Needs review
Curated date: 2024/10/25
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Malay and Indian ethnic groups.
Abundance in Group 1: increased abundance
in
Control_Indian (non-GDM)
| NCBI | Quality Control | Links |
|---|
| Acidothermus | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacteroides | | |
| Dialister | | |
| Dubosiella | | |
| Faecalibacterium | | |
| Helicobacter | | |
| Klebsiella | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Megamonas | | |
| Oribacterium | | |
| Parabacteroides | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Streptomyces | | |
| Veillonella | | |
| Vibrio | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| [Ruminococcus] torques | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/27
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Malay and Indian ethnic groups.
Abundance in Group 1: decreased abundance
in
Control_Indian (non-GDM)
| NCBI | Quality Control | Links |
|---|
| Achromobacter | | |
| Acidaminococcus | | |
| Agathobacter | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacillus | | |
| Bacteroides | | |
| Barnesiella | | |
| Bilophila | | |
| Bradyrhizobium | | |
| Butyricimonas | | |
| Butyrivibrio | | |
| Citrobacter | | |
| Comamonas | | |
| Coprobacter | | |
| Desulfovibrio | | |
| Dialister | | |
| Dubosiella | | |
| Eisenbergiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Flavonifractor | | |
| Haemophilus | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Megamonas | | |
| Megasphaera | | |
| Nitrospira | | |
| Paludicola | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Pseudomonas | | |
| Romboutsia | | |
| Ruminococcus | | |
| Sphingomonas | | |
| Stenotrophomonas | | |
| Sutterella | | |
| Turicibacter | | |
| Veillonella | | |
| TuzzerellaTuzzerella | | |
| UCG-003UCG-003 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae AC2044 groupLachnospiraceae AC2044 group | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| [Clostridium] innocuum | | |
| Eubacterium ventriosum | | |
| Clostridium | | |
Revision editor(s): Rahila
Experiment 2
Needs review
Curated date: 2024/10/25
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Control_Chinese(non-GDM)
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
Lab analysis
Statistical Analysis
Signature 1
Needs review
Curated date: 2024/10/27
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Malay and Chinese ethnic groups.
Abundance in Group 1: increased abundance
in
Control_Chinese(non-GDM)
| NCBI | Quality Control | Links |
|---|
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Allobaculum | | |
| Alloprevotella | | |
| Anaerostipes | | |
| Asteroleplasma | | |
| Bacteroides | | |
| Barnesiella | | |
| Butyricicoccus | | |
| Butyricimonas | | |
| Chryseobacterium | | |
| Cloacibacillus | | |
| Colidextribacter | | |
| Comamonas | | |
| Coprobacter | | |
| Cronobacter | | |
| Denitrobacterium | | |
| Desulfovibrio | | |
| Dialister | | |
| Diplocloster | | |
| Dubosiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Fenollaria | | |
| Fusicatenibacter | | |
| Gemella | | |
| Haemophilus | | |
| Helicobacter | | |
| Howardella | | |
| Hungatella | | |
| Intestinimonas | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Ligilactobacillus | | |
| Megasphaera | | |
| Mitsuokella | | |
| Muribaculum | | |
| Negativibacillus | | |
| Odoribacter | | |
| Olsenella | | |
| Oscillibacter | | |
| Oscillospira | | |
| Oxalobacter | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Pluralibacter | | |
| Pseudomonas | | |
| Ralstonia | | |
| Roseburia | | |
| Ruminococcus | | |
| Salmonella | | |
| Stenotrophomonas | | |
| Subdoligranulum | | |
| Sutterella | | |
| Veillonella | | |
| Vibrio | | |
| Victivallis | | |
| Lachnospiraceae UCG-004Lachnospiraceae UCG-004 | | |
| NK4A214 groupNK4A214 group | | |
| Incertae SedisIncertae Sedis | | |
| UCG-003UCG-003 | | |
| UCG-005UCG-005 | | |
| AquamonasAquamonas | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| [Ruminococcus] torques | | |
| [Eubacterium] siraeum | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/27
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Malay and Chinese ethnic groups.
Abundance in Group 1: decreased abundance
in
Control_Chinese(non-GDM)
| NCBI | Quality Control | Links |
|---|
| Achromobacter | | |
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacillus | | |
| Bacteroides | | |
| Barnesiella | | |
| Bilophila | | |
| Bradyrhizobium | | |
| Butyricimonas | | |
| Butyrivibrio | | |
| Citrobacter | | |
| Comamonas | | |
| Coprobacter | | |
| Desulfovibrio | | |
| Dialister | | |
| Dubosiella | | |
| Eisenbergiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Flavonifractor | | |
| Haemophilus | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Megamonas | | |
| Megasphaera | | |
| Nitrospira | | |
| Paludicola | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Pseudomonas | | |
| Romboutsia | | |
| Ruminococcus | | |
| Sphingomonas | | |
| Stenotrophomonas | | |
| Sutterella | | |
| Turicibacter | | |
| Veillonella | | |
| [Clostridium] innocuum | | |
| Eubacterium ventriosum | | |
| Clostridium | | |
| TuzzerellaTuzzerella | | |
| UCG-003UCG-003 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae AC2044 groupLachnospiraceae AC2044 group | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 3
Needs review
Curated date: 2024/10/25
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Indian (non-GDM)
Lab analysis
Statistical Analysis
Signature 1
Needs review
Curated date: 2024/10/27
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Indian and Chinese ethnic groups.
Abundance in Group 1: increased abundance
in
Control_Chinese(non-GDM)
| NCBI | Quality Control | Links |
|---|
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Allobaculum | | |
| Alloprevotella | | |
| Anaerostipes | | |
| Asteroleplasma | | |
| Bacteroides | | |
| Barnesiella | | |
| Butyricicoccus | | |
| Butyricimonas | | |
| Chryseobacterium | | |
| Cloacibacillus | | |
| Colidextribacter | | |
| Comamonas | | |
| Coprobacter | | |
| Cronobacter | | |
| Denitrobacterium | | |
| Desulfovibrio | | |
| Dialister | | |
| Diplocloster | | |
| Dubosiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Fenollaria | | |
| Fusicatenibacter | | |
| Gemella | | |
| Haemophilus | | |
| Helicobacter | | |
| Howardella | | |
| Hungatella | | |
| Intestinimonas | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Ligilactobacillus | | |
| Megasphaera | | |
| Mitsuokella | | |
| Muribaculum | | |
| Negativibacillus | | |
| Odoribacter | | |
| Olsenella | | |
| Oscillibacter | | |
| Oscillospira | | |
| Oxalobacter | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Pluralibacter | | |
| Pseudomonas | | |
| Ralstonia | | |
| Roseburia | | |
| Ruminococcus | | |
| Salmonella | | |
| Stenotrophomonas | | |
| Subdoligranulum | | |
| Sutterella | | |
| Veillonella | | |
| Vibrio | | |
| Victivallis | | |
| [Ruminococcus] torques | | |
| [Eubacterium] siraeum | | |
| Lachnospiraceae UCG-004Lachnospiraceae UCG-004 | | |
| NK4A214 groupNK4A214 group | | |
| Incertae SedisIncertae Sedis | | |
| UCG-003UCG-003 | | |
| UCG-005UCG-005 | | |
| AquamonasAquamonas | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/27
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis within ethnicity of non-GDM (Control) mothers belonging to Indian and Chinese ethnic groups.
Abundance in Group 1: decreased abundance
in
Control_Chinese(non-GDM)
| NCBI | Quality Control | Links |
|---|
| Acidothermus | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacteroides | | |
| Dialister | | |
| Dubosiella | | |
| Faecalibacterium | | |
| Helicobacter | | |
| Klebsiella | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Megamonas | | |
| Oribacterium | | |
| Parabacteroides | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Streptomyces | | |
| Veillonella | | |
| Vibrio | | |
| [Ruminococcus] torques | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Experiment 4
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Malay (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Malay
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Malay ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
- Matched on Factors on which subjects have been matched on in a case-control study
- body height, body mass index, body weight, maternal age
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (b) Malay ethnic groups.
Abundance in Group 1: increased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Akkermansia | | |
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Eggerthella | | |
| Enterococcus | | |
| Lachnoclostridium | | |
| Ligilactobacillus | | |
| Megamonas | | |
| Megasphaera | | |
| Roseburia | | |
| Ruminococcus | | |
| Streptococcus | | |
| Weissella | | |
| Anaerobutyricum hallii | | |
| [Eubacterium] brachy | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (b) Malay ethnic groups.
Abundance in Group 1: decreased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Achromobacter | | |
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacillus | | |
| Bacteroides | | |
| Barnesiella | | |
| Bilophila | | |
| Bradyrhizobium | | |
| Butyricimonas | | |
| Butyrivibrio | | |
| Citrobacter | | |
| Comamonas | | |
| Coprobacter | | |
| Desulfovibrio | | |
| Dialister | | |
| Dubosiella | | |
| Eisenbergiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Flavonifractor | | |
| Haemophilus | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Megamonas | | |
| Megasphaera | | |
| Nitrospira | | |
| Paludicola | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Pseudomonas | | |
| Romboutsia | | |
| Ruminococcus | | |
| Sphingomonas | | |
| Stenotrophomonas | | |
| Sutterella | | |
| Turicibacter | | |
| Veillonella | | |
| [Clostridium] innocuum | | |
| Clostridium | | |
| Eubacterium ventriosum | | |
| TuzzerellaTuzzerella | | |
| UCG-003UCG-003 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae AC2044 groupLachnospiraceae AC2044 group | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 5
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Indian (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Indian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Indian ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 11
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (c) Indian ethnic groups.
Abundance in Group 1: increased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Alistipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Collinsella | | |
| Fusicatenibacter | | |
| Intestinibacter | | |
| Megamonas | | |
| Monoglobus | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Streptococcus | | |
| Anaerobutyricum hallii | | |
| [Ruminococcus] torques | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae FCS020 groupLachnospiraceae FCS020 group | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (c) Indian ethnic groups.
Abundance in Group 1: decreased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Acidothermus | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacteroides | | |
| Dialister | | |
| Dubosiella | | |
| Faecalibacterium | | |
| Helicobacter | | |
| Klebsiella | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Megamonas | | |
| Oribacterium | | |
| Parabacteroides | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Streptomyces | | |
| Veillonella | | |
| Vibrio | | |
| [Ruminococcus] torques | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Experiment 6
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Chinese (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Chinese
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Chinese ethnicity
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 27
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (a) Chinese ethnic groups.
Abundance in Group 1: increased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Butyricicoccus | | |
| Collinsella | | |
| Cutibacterium | | |
| Dorea | | |
| Eggerthella | | |
| Finegoldia | | |
| Fusicatenibacter | | |
| Hungatella | | |
| Intestinibacter | | |
| Megasphaera | | |
| Parabacteroides | | |
| Parasutterella | | |
| Romboutsia | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Staphylococcus | | |
| Streptococcus | | |
| Sutterella | | |
| Weissella | | |
| [Ruminococcus] torques | | |
| Mediterraneibacter gnavus | | |
| Lachnospira eligens | | |
| [Eubacterium] brachy | | |
| Thomasclavelia | | |
| Anaerobutyricum hallii | | |
| TuzzerellaTuzzerella | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM and non GDM mothers belonging to the (a) Chinese ethnic groups.
Abundance in Group 1: decreased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Allobaculum | | |
| Alloprevotella | | |
| Anaerostipes | | |
| Asteroleplasma | | |
| Bacteroides | | |
| Barnesiella | | |
| Butyricicoccus | | |
| Butyricimonas | | |
| Chryseobacterium | | |
| Cloacibacillus | | |
| Colidextribacter | | |
| Comamonas | | |
| Coprobacter | | |
| Cronobacter | | |
| Denitrobacterium | | |
| Desulfovibrio | | |
| Dialister | | |
| Diplocloster | | |
| Dubosiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Fenollaria | | |
| Fusicatenibacter | | |
| Gemella | | |
| Haemophilus | | |
| Helicobacter | | |
| Howardella | | |
| Hungatella | | |
| Intestinimonas | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Ligilactobacillus | | |
| Megasphaera | | |
| Mitsuokella | | |
| Muribaculum | | |
| Negativibacillus | | |
| Odoribacter | | |
| Olsenella | | |
| Oscillibacter | | |
| Oscillospira | | |
| Oxalobacter | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Pluralibacter | | |
| Pseudomonas | | |
| Ralstonia | | |
| Roseburia | | |
| Ruminococcus | | |
| Salmonella | | |
| Stenotrophomonas | | |
| Subdoligranulum | | |
| Sutterella | | |
| Veillonella | | |
| Vibrio | | |
| Victivallis | | |
| [Eubacterium] siraeum | | |
| [Ruminococcus] torques | | |
| Lachnospiraceae UCG-004Lachnospiraceae UCG-004 | | |
| NK4A214 groupNK4A214 group | | |
| Incertae SedisIncertae Sedis | | |
| UCG-003UCG-003 | | |
| UCG-005UCG-005 | | |
| AquamonasAquamonas | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 7
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Malay (non-GDM)
- Group 0 sample size Number of subjects in the control (unexposed) group
- 5
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Chinese and non-GDM Malay pregnant women
Abundance in Group 1: increased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Butyricicoccus | | |
| Collinsella | | |
| Cutibacterium | | |
| Dorea | | |
| Eggerthella | | |
| Finegoldia | | |
| Fusicatenibacter | | |
| Hungatella | | |
| Intestinibacter | | |
| Megasphaera | | |
| Parabacteroides | | |
| Parasutterella | | |
| Romboutsia | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Staphylococcus | | |
| Streptococcus | | |
| Sutterella | | |
| Weissella | | |
| Lachnospira eligens | | |
| [Ruminococcus] torques | | |
| Thomasclavelia | | |
| Anaerobutyricum hallii | | |
| Mediterraneibacter gnavus | | |
| [Eubacterium] brachy | | |
| TuzzerellaTuzzerella | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Chinese and non-GDM Malay pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Achromobacter | | |
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacillus | | |
| Bacteroides | | |
| Barnesiella | | |
| Bilophila | | |
| Bradyrhizobium | | |
| Butyricimonas | | |
| Butyrivibrio | | |
| Citrobacter | | |
| Comamonas | | |
| Coprobacter | | |
| Desulfovibrio | | |
| Dialister | | |
| Dubosiella | | |
| Eisenbergiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Flavonifractor | | |
| Haemophilus | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Megamonas | | |
| Megasphaera | | |
| Nitrospira | | |
| Paludicola | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Pseudomonas | | |
| Romboutsia | | |
| Ruminococcus | | |
| Sphingomonas | | |
| Stenotrophomonas | | |
| Sutterella | | |
| Turicibacter | | |
| Veillonella | | |
| [Clostridium] innocuum | | |
| Eubacterium ventriosum | | |
| Clostridium | | |
| TuzzerellaTuzzerella | | |
| UCG-003UCG-003 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae AC2044 groupLachnospiraceae AC2044 group | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 8
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Indian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Indian ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 11
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Indian and non-GDM Malay pregnant women
Abundance in Group 1: increased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Alistipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Collinsella | | |
| Fusicatenibacter | | |
| Intestinibacter | | |
| Megamonas | | |
| Monoglobus | | |
| Roseburia | | |
| Sellimonas | | |
| Streptococcus | | |
| [Ruminococcus] torques | | |
| Anaerobutyricum hallii | | |
| Lachnospiraceae FCS020 groupLachnospiraceae FCS020 group | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| UCG-002UCG-002 | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description:
Abundance in Group 1: decreased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Achromobacter | | |
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacillus | | |
| Bacteroides | | |
| Barnesiella | | |
| Bilophila | | |
| Bradyrhizobium | | |
| Butyricimonas | | |
| Butyrivibrio | | |
| Citrobacter | | |
| Comamonas | | |
| Coprobacter | | |
| Desulfovibrio | | |
| Dialister | | |
| Dubosiella | | |
| Eisenbergiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Flavonifractor | | |
| Haemophilus | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Megamonas | | |
| Megasphaera | | |
| Nitrospira | | |
| Paludicola | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Pseudomonas | | |
| Ruminococcus | | |
| Sphingomonas | | |
| Stenotrophomonas | | |
| Sutterella | | |
| Turicibacter | | |
| Veillonella | | |
| [Clostridium] innocuum | | |
| Eubacterium ventriosum | | |
| Clostridium | | |
| TuzzerellaTuzzerella | | |
| UCG-003UCG-003 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae AC2044 groupLachnospiraceae AC2044 group | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 9
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Indian (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Malay
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Malay ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Malay and non-GDM Indian pregnant women
Abundance in Group 1: increased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Akkermansia | | |
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Eggerthella | | |
| Enterococcus | | |
| Lachnoclostridium | | |
| Ligilactobacillus | | |
| Megamonas | | |
| Megasphaera | | |
| Roseburia | | |
| Ruminococcus | | |
| Streptococcus | | |
| Weissella | | |
| [Eubacterium] brachy | | |
| Anaerobutyricum hallii | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Malay and non-GDM Indian pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Acidothermus | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacteroides | | |
| Dialister | | |
| Dubosiella | | |
| Faecalibacterium | | |
| Helicobacter | | |
| Klebsiella | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Megamonas | | |
| Oribacterium | | |
| Parabacteroides | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Streptomyces | | |
| Veillonella | | |
| Vibrio | | |
| [Ruminococcus] torques | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Experiment 10
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Indian (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Chinese
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Chinese ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 27
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Chinese and non-GDM Indian pregnant women
Abundance in Group 1: increased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Anaerobutyricum hallii | | |
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Butyricicoccus | | |
| Collinsella | | |
| Cutibacterium | | |
| Dorea | | |
| Eggerthella | | |
| Fusicatenibacter | | |
| Hungatella | | |
| Intestinibacter | | |
| Lachnospira eligens | | |
| Mediterraneibacter gnavus | | |
| Megasphaera | | |
| Parabacteroides | | |
| Parasutterella | | |
| Romboutsia | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Staphylococcus | | |
| Streptococcus | | |
| Sutterella | | |
| Thomasclavelia | | |
| Weissella | | |
| [Eubacterium] brachy | | |
| [Ruminococcus] torques | | |
| Finegoldia | | |
| TuzzerellaTuzzerella | | |
| Prevotella 7Prevotella 7 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Chinese and non-GDM Indian pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Chinese
| NCBI | Quality Control | Links |
|---|
| Acidothermus | | |
| Alistipes | | |
| Alloprevotella | | |
| Bacteroides | | |
| Dialister | | |
| Dubosiella | | |
| Faecalibacterium | | |
| Helicobacter | | |
| Klebsiella | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Megamonas | | |
| Oribacterium | | |
| Parabacteroides | | |
| Phascolarctobacterium | | |
| Prevotella | | |
| Streptomyces | | |
| Veillonella | | |
| Vibrio | | |
| [Ruminococcus] torques | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
Revision editor(s): Rahila
Experiment 11
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Chinese (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Malay
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Malay and non-GDM Chinese pregnant women
Abundance in Group 1: increased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Akkermansia | | |
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Eggerthella | | |
| Enterococcus | | |
| Lachnoclostridium | | |
| Ligilactobacillus | | |
| Megamonas | | |
| Megasphaera | | |
| Roseburia | | |
| Ruminococcus | | |
| Streptococcus | | |
| Weissella | | |
| Anaerobutyricum hallii | | |
| [Eubacterium] brachy | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Malay and non-GDM Chinese pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Allobaculum | | |
| Alloprevotella | | |
| Anaerostipes | | |
| Asteroleplasma | | |
| Bacteroides | | |
| Barnesiella | | |
| Butyricicoccus | | |
| Butyricimonas | | |
| Chryseobacterium | | |
| Cloacibacillus | | |
| Colidextribacter | | |
| Comamonas | | |
| Coprobacter | | |
| Cronobacter | | |
| Denitrobacterium | | |
| Desulfovibrio | | |
| Dialister | | |
| Diplocloster | | |
| Dubosiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Fenollaria | | |
| Fusicatenibacter | | |
| Gemella | | |
| Haemophilus | | |
| Helicobacter | | |
| Howardella | | |
| Hungatella | | |
| Intestinimonas | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Ligilactobacillus | | |
| Megasphaera | | |
| Mitsuokella | | |
| Muribaculum | | |
| Negativibacillus | | |
| Odoribacter | | |
| Olsenella | | |
| Oscillibacter | | |
| Oscillospira | | |
| Oxalobacter | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Pluralibacter | | |
| Pseudomonas | | |
| Ralstonia | | |
| Roseburia | | |
| Ruminococcus | | |
| Salmonella | | |
| Stenotrophomonas | | |
| Subdoligranulum | | |
| Sutterella | | |
| Veillonella | | |
| Vibrio | | |
| Victivallis | | |
| [Eubacterium] siraeum | | |
| [Ruminococcus] torques | | |
| Lachnospiraceae UCG-004Lachnospiraceae UCG-004 | | |
| NK4A214 groupNK4A214 group | | |
| Incertae SedisIncertae Sedis | | |
| UCG-003UCG-003 | | |
| UCG-005UCG-005 | | |
| AquamonasAquamonas | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 12
Needs review
Curated date: 2024/10/28
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control_Chinese (non-GDM)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Indian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Indian ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 11
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Signature 1
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Indian and non-GDM Chinese pregnant women
Abundance in Group 1: increased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Alistipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Collinsella | | |
| Fusicatenibacter | | |
| Intestinibacter | | |
| Megamonas | | |
| Monoglobus | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Streptococcus | | |
| [Ruminococcus] torques | | |
| Anaerobutyricum hallii | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae FCS020 groupLachnospiraceae FCS020 group | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/29
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM Indian and non-GDM Chinese pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Acidaminococcus | | |
| Agathobacter | | |
| Akkermansia | | |
| Alistipes | | |
| Allobaculum | | |
| Alloprevotella | | |
| Anaerostipes | | |
| Asteroleplasma | | |
| Bacteroides | | |
| Barnesiella | | |
| Butyricicoccus | | |
| Butyricimonas | | |
| Chryseobacterium | | |
| Cloacibacillus | | |
| Colidextribacter | | |
| Comamonas | | |
| Coprobacter | | |
| Cronobacter | | |
| Denitrobacterium | | |
| Desulfovibrio | | |
| Dialister | | |
| Diplocloster | | |
| Dubosiella | | |
| Enterobacter | | |
| Escherichia/Shigella sp. | | |
| Faecalibacterium | | |
| Fenollaria | | |
| Fusicatenibacter | | |
| Gemella | | |
| Haemophilus | | |
| Helicobacter | | |
| Howardella | | |
| Hungatella | | |
| Intestinimonas | | |
| Klebsiella | | |
| Lachnoclostridium | | |
| Lachnospira | | |
| Lachnospiraceae bacterium NK4A136 | | |
| Lactobacillus | | |
| Lelliottia | | |
| Ligilactobacillus | | |
| Megasphaera | | |
| Mitsuokella | | |
| Muribaculum | | |
| Negativibacillus | | |
| Odoribacter | | |
| Olsenella | | |
| Oscillibacter | | |
| Oscillospira | | |
| Oxalobacter | | |
| Parabacteroides | | |
| Parasutterella | | |
| Pediococcus | | |
| Phascolarctobacterium | | |
| Pluralibacter | | |
| Pseudomonas | | |
| Ralstonia | | |
| Roseburia | | |
| Ruminococcus | | |
| Salmonella | | |
| Stenotrophomonas | | |
| Subdoligranulum | | |
| Sutterella | | |
| Veillonella | | |
| Vibrio | | |
| Victivallis | | |
| [Ruminococcus] torques | | |
| [Eubacterium] siraeum | | |
| AquamonasAquamonas | | |
| Lachnospiraceae UCG-004Lachnospiraceae UCG-004 | | |
| NK4A214 groupNK4A214 group | | |
| Incertae SedisIncertae Sedis | | |
| UCG-003UCG-003 | | |
| UCG-005UCG-005 | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae UCG-010Lachnospiraceae UCG-010 | | |
| Lachnospiraceae UCG-001Lachnospiraceae UCG-001 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
| Prevotellaceae UCG-001Prevotellaceae UCG-001 | | |
| Prevotella 9Prevotella 9 | | |
Revision editor(s): Rahila
Experiment 13
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- GDM_Chinese
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Malay
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Malay ethnicity
- Group 0 sample size Number of subjects in the control (unexposed) group
- 27
- Group 1 sample size Number of subjects in the case (exposed) group
- 15
Lab analysis
Statistical Analysis
- Matched on Factors on which subjects have been matched on in a case-control study
- Not specified
Signature 1
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Chinese vs GDM_Malay pregnant women
Abundance in Group 1: increased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| [Eubacterium] brachy | | |
| Bifidobacterium | | |
| Enterococcus | | |
| Lachnoclostridium | | |
| Eggerthella | | |
| Roseburia | | |
| Streptococcus | | |
| Ruminococcus | | |
| Weissella | | |
| Akkermansia | | |
| Anaerostipes | | |
| Anaerobutyricum hallii | | |
| Blautia | | |
| Megamonas | | |
| Megasphaera | | |
| Ligilactobacillus | | |
| Bacteroides | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Chinese vs GDM_Malay pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Malay
| NCBI | Quality Control | Links |
|---|
| Anaerobutyricum hallii | | |
| Anaerostipes | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Butyricicoccus | | |
| Collinsella | | |
| Cutibacterium | | |
| Dorea | | |
| Eggerthella | | |
| Finegoldia | | |
| Fusicatenibacter | | |
| Hungatella | | |
| Intestinibacter | | |
| Lachnospira eligens | | |
| Mediterraneibacter gnavus | | |
| Megasphaera | | |
| Parabacteroides | | |
| Parasutterella | | |
| Romboutsia | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Staphylococcus | | |
| Streptococcus | | |
| Sutterella | | |
| Thomasclavelia | | |
| Weissella | | |
| [Eubacterium] brachy | | |
| [Ruminococcus] torques | | |
| Prevotella 9Prevotella 9 | | |
| Prevotella 7Prevotella 7 | | |
| TuzzerellaTuzzerella | | |
Revision editor(s): Rahila
Experiment 14
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- GDM_Indian
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) of Indian ethnicity
- Group 1 sample size Number of subjects in the case (exposed) group
- 11
Lab analysis
Statistical Analysis
Signature 1
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Chinese vs GDM_Indian pregnant women
Abundance in Group 1: increased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Alistipes | | |
| Anaerobutyricum hallii | | |
| Bacteroides | | |
| Bifidobacterium | | |
| Blautia | | |
| Collinsella | | |
| Fusicatenibacter | | |
| Intestinibacter | | |
| Megamonas | | |
| Monoglobus | | |
| Roseburia | | |
| Ruminococcus | | |
| Sellimonas | | |
| Streptococcus | | |
| [Ruminococcus] torques | | |
| UCG-002UCG-002 | | |
| Lachnospiraceae FCS020 groupLachnospiraceae FCS020 group | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Chinese vs GDM_Indian pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Fusicatenibacter | | |
| Dorea | | |
| Butyricicoccus | | |
| Mediterraneibacter gnavus | | |
| Romboutsia | | |
| [Eubacterium] brachy | | |
| Finegoldia | | |
| Roseburia | | |
| Thomasclavelia | | |
| Anaerobutyricum hallii | | |
| Eggerthella | | |
| [Ruminococcus] torques | | |
| Parasutterella | | |
| Weissella | | |
| Intestinibacter | | |
| Megasphaera | | |
| Collinsella | | |
| Anaerostipes | | |
| Cutibacterium | | |
| Lachnospira eligens | | |
| Parabacteroides | | |
| Sellimonas | | |
| Bacteroides | | |
| Streptococcus | | |
| Blautia | | |
| Staphylococcus | | |
| TuzzerellaTuzzerella | | |
| Prevotella 7Prevotella 7 | | |
| Prevotella 9Prevotella 9 | | |
| Bifidobacterium | | |
| Sutterella | | |
| Ruminococcus | | |
| Hungatella | | |
Revision editor(s): Rahila
Experiment 15
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- GDM_Malay
- Group 0 sample size Number of subjects in the control (unexposed) group
- 15
Lab analysis
Statistical Analysis
Signature 1
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Malay vs GDM_Indian pregnant women
Abundance in Group 1: increased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| Fusicatenibacter | | |
| Streptococcus | | |
| Blautia | | |
| Megamonas | | |
| Roseburia | | |
| Collinsella | | |
| Anaerobutyricum hallii | | |
| Sellimonas | | |
| Intestinibacter | | |
| [Ruminococcus] torques | | |
| Ruminococcus | | |
| Alistipes | | |
| Bifidobacterium | | |
| Bacteroides | | |
| Monoglobus | | |
| Lachnospiraceae FCS020 groupLachnospiraceae FCS020 group | | |
| UCG-002UCG-002 | | |
| Christensenellaceae R-7 groupChristensenellaceae R-7 group | | |
Revision editor(s): Rahila
Signature 2
Needs review
Curated date: 2024/10/30
Curator: Rahila
Revision editor(s): Rahila
Source: Supplementary Fig. S1
Description: Differentially abundant ASVs identified from DeSeq2 based analysis between GDM_Malay vs GDM_Indian pregnant women
Abundance in Group 1: decreased abundance
in
GDM_Indian
| NCBI | Quality Control | Links |
|---|
| [Eubacterium] brachy | | |
| Bifidobacterium | | |
| Enterococcus | | |
| Lachnoclostridium | | |
| Eggerthella | | |
| Roseburia | | |
| Streptococcus | | |
| Ruminococcus | | |
| Weissella | | |
| Akkermansia | | |
| Anaerostipes | | |
| Anaerobutyricum hallii | | |
| Blautia | | |
| Megamonas | | |
| Ligilactobacillus | | |
| Bacteroides | | |
| Megasphaera | | |
Revision editor(s): Rahila
Experiment 16
Needs review
Curated date: 2024/11/01
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Women with GDM 24–28 weeks of gestation (first time point soon after GDM diagnosis)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Women with GDM 36–40 weeks of gestation (second time point just prior to delivery)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM).
- Group 0 sample size Number of subjects in the control (unexposed) group
- 46
- Group 1 sample size Number of subjects in the case (exposed) group
- 41
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
Experiment 17
Needs review
Curated date: 2024/11/01
Curator: Rahila
Revision editor(s): Rahila
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Women without GDM (36–40 weeks of gestation)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Pregnant women with gestational diabetes mellitus (GDM) at 36–40 weeks.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 16
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- unchanged
