Characterization of the Gut Microbial Community of Obese Patients Following a Weight-Loss Intervention Using Whole Metagenome Shotgun Sequencing/Experiment 2

From BugSigDB


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
3 months participants
Group 1 name Corresponds to the case (exposed) group for case-control studies
6 months
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
A threshold of 10% weight loss and maintenance of it over one year has been proposed as definition for successful weight loss maintenance
Group 0 sample size Number of subjects in the control (unexposed) group
16
Group 1 sample size Number of subjects in the case (exposed) group
16
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
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
Mann-Whitney (Wilcoxon)
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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged

Signature 1

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

Curated date: 2021/01/10

Curator: Marianthi Thomatos

Revision editor(s): WikiWorks

Source: Figure 3

Description: Gut microbial community of obese patients following weight-loss intervention

Abundance in Group 1: increased abundance in 6 months

NCBI Quality ControlLinks
Alistipes finegoldii
Dysgonomonas gadei
Enterocloster asparagiformis
Lacrimispora saccharolytica
Desulfovibrio desulfuricans
Escherichia coli
Eggerthella lenta
Gordonibacter pamelaeae
Thermanaerovibrio acidaminovorans

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Fatima on 2021/08/7

Curated date: 2021/01/10

Curator: Marianthi Thomatos

Revision editor(s): Fatima, WikiWorks

Source: Figure 3

Description: Gut microbial community of obese patients following weight-loss intervention

Abundance in Group 1: decreased abundance in 6 months

NCBI Quality ControlLinks
Anaerobiospirillum succiniciproducens
Lactococcus lactis
Micavibrio aeruginosavorus
Parasutterella excrementihominis
Roseburia inulinivorans
Streptococcus thermophilus
Veillonella parvula
Burkholderiales bacterium 1_1_47

Revision editor(s): Fatima, WikiWorks