Exploring the relationship between the gut microbiome and mental health outcomes in a posttraumatic stress disorder cohort relative to trauma-exposed controls/Experiment 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-3-25

Curated date: 2024/03/05

Curator: Keamy

Revision editor(s): Keamy, ChiomaBlessing

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: Post-traumatic stress disorder ACUTE POST TRAUMATIC STRESS DIS,Acute Post Traumatic Stress Disorder,Acute Post-Traumatic Stress Disorder,CHRONIC POST TRAUMATIC STRESS DIS,Chronic Post Traumatic Stress Disorder,Chronic Post-Traumatic Stress Disorder,combat neurosis,DELAYED ONSET POST TRAUMATIC STRESS DIS,Delayed Onset Post Traumatic Stress Disorder,Delayed Onset Post-Traumatic Stress Disorder,disorder, post-traumatic stress,Neuroses, Post Traumatic,Neuroses, Post-Traumatic,Neuroses, Posttraumatic,POST TRAUMATIC STRESS DIS,Post Traumatic Stress Disorders,Post-Traumatic Neuroses,Post-Traumatic Neurosis,post-traumatic stress disease,post-traumatic stress disorder,Post-Traumatic Stress Disorders,Post-traumatic stress syndrome,Posttraumatic Neuroses,POSTTRAUMATIC STRESS DIS,Posttraumatic stress disorder,Posttraumatic stress disorder (disorder),Posttraumatic stress disorder, NOS,POSTTRAUMATIC STRESS DISORDERS,PTSD,PTSD - Post-traumatic stress disorder,STRESS DIS POST TRAUMATIC,STRESS DIS POSTTRAUMATIC,Stress Disorder, Post Traumatic,Stress Disorder, Post-Traumatic,Stress Disorder, Posttraumatic,Stress Disorders, Post Traumatic,Stress Disorders, Post-Traumatic,Stress Disorders, Posttraumatic,traumatic neurosis,Post-traumatic stress disorder

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Trauma exposed controls (TECs)

Group 1 name Corresponds to the case (exposed) group for case-control studies: Post Traumatic Stress Disorder (PTSD)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Individuals with Post Traumatic Stress Disorder (PTSD). Post traumatic stress disorder (PTSD) cases met the DSM-5 criteria of PTSD, in accordance with diagnostic evaluation using the Clinician Administered Post Traumatic Stress Disorder Scale for DSM–5 (CAPS-5) and had a CAPS 5 severity score greater than 23.

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): Antibiotic use within 4 weeks before stool sampling.

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.1

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment: age, body mass index, sex, Confounders controlled for: "gastrointestinal disease" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.gastrointestinal disease, Confounders controlled for: "unidentified bowel diseases" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.unidentified bowel diseases

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