Metagenomic sequencing of the human gut microbiome before and after bariatric surgery in obese patients with type 2 diabetes: correlation with inflammatory and metabolic parameters/Experiment 1

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Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks

Subjects

Location of subjects
Germany
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
Obesity Adiposis,Adiposity,Obese,Obese (finding),obesity,Obesity (disorder),Obesity [Ambiguous],obesity disease,obesity disorder,Obesity NOS,Obesity, unspecified,Overweight and obesity,Obesity
Group 0 name Corresponds to the control (unexposed) group for case-control studies
after surgery
Group 1 name Corresponds to the case (exposed) group for case-control studies
before surgery
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Roux-en-Y gastric-bypass operation were recruited according to the S3 guidelines of the German Society for Obesity
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
6
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
3 weeks

Lab analysis

Sequencing type
WMS
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

Statistical test
ANOVA
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


Signature 1

Reviewed Marked as Reviewed by Fatima on 2021/08/2

Curated date: 2021/01/10

Curator: Marianthi Thomatos

Revision editor(s): Fatima, WikiWorks

Source: Table 2 &Table 3

Description: gut microbiome before and after bariatric surgery in obese patients with type 2 diabetes

Abundance in Group 1: increased abundance in before surgery

NCBI Quality ControlLinks
Acinetobacter johnsonii
Anaerostipes
Anaerostipes caccae
Brachyspira hyodysenteriae
Coprococcus
Coprococcus comes
Faecalibacterium
Faecalibacterium prausnitzii
Fibrobacter succinogenes
Fusobacterium periodonticum
Helicobacter
Lactobacillus acidophilus
Leptospira interrogans
Limosilactobacillus reuteri
Mycobacterium kansasii
Nakamurella multipartita
Pseudomonas mendocina
Staphylococcus epidermidis
Thermomicrobium roseum
Treponema pallidum
Thomasclavelia spiroformis
Dictyostelium
Epidinium

Revision editor(s): Fatima, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Fatima on 2021/08/2

Curated date: 2021/01/10

Curator: Marianthi Thomatos

Revision editor(s): Fatima, WikiWorks

Source: Table 2 &Table 3

Description: gut microbiome before and after bariatric surgery in obese patients with type 2 diabetes

Abundance in Group 1: decreased abundance in before surgery

NCBI Quality ControlLinks
Citrobacter
Enterobacter
Enterobacter cancerogenus
Salmonella
Salmonella enterica
Shigella boydii
Veillonella
Veillonella dispar
Veillonella parvula
Neurospora

Revision editor(s): Fatima, WikiWorks