Changes in the stool and oropharyngeal microbiome in obsessive-compulsive disorder

From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
Domènech L, Willis J, Alemany-Navarro M, Morell M, Real E, Escaramís G, Bertolín S, Sánchez Chinchilla D, Balcells S, Segalàs C, Estivill X, Menchón JM, Gabaldón T, Alonso P, Rabionet R
Journal
Scientific reports
Year
2022
Although the etiology of obsessive-compulsive disorder (OCD) is largely unknown, it is accepted that OCD is a complex disorder. There is a known bi-directional interaction between the gut microbiome and brain activity. Several authors have reported associations between changes in gut microbiota and neuropsychiatric disorders, including depression or autism. Furthermore, a pediatric-onset neuropsychiatric OCD-related syndrome occurs after streptococcal infection, which might indicate that exposure to certain microbes could be involved in OCD susceptibility. However, only one study has investigated the microbiome of OCD patients to date. We performed 16S ribosomal RNA gene-based metagenomic sequencing to analyze the stool and oropharyngeal microbiome composition of 32 OCD cases and 32 age and gender matched controls. We estimated different α- and β-diversity measures and performed LEfSe and Wilcoxon tests to assess differences in bacterial distribution. OCD stool samples showed a trend towards lower bacterial α-diversity, as well as an increase of the relative abundance of Rikenellaceae, particularly of the genus Alistipes, and lower relative abundance of Prevotellaceae, and two genera within the Lachnospiraceae: Agathobacer and Coprococcus. However, we did not observe a different Bacteroidetes to Firmicutes ratio between OCD cases and controls. Analysis of the oropharyngeal microbiome composition showed a lower Fusobacteria to Actinobacteria ratio in OCD cases. In conclusion, we observed an imbalance in the gut and oropharyngeal microbiomes of OCD cases, including, in stool, an increase of bacteria from the Rikenellaceae family, associated with gut inflammation, and a decrease of bacteria from the Coprococcus genus, associated with DOPAC synthesis.

Experiment 1


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Claregrieve1

Subjects

Location of subjects
Spain
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
Obsessive-compulsive disorder Anancastic neurosis,obsessive compulsive disorder,obsessive-compulsive disorder,OCD,Obsessive-compulsive disorder
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Control (healthy group)
Group 1 name Corresponds to the case (exposed) group for case-control studies
OCD T0 (Baseline)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with Obsessive-compulsive disorder (OCD), which is a neuropsychiatric condition characterized by intrusive and unwanted thoughts (termed obsessions) and repetitive behaviors or mental acts (termed compulsions), which are carried out to at least partially alleviate the anxiety or distress brought on by the obsessions. Timepoint 0 was the baseline timepoint prior to three months of pharmacological treatment and cognitive behavioral therapy (referred to as T0).
Group 0 sample size Number of subjects in the control (unexposed) group
33
Group 1 sample size Number of subjects in the case (exposed) group
32

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
LEfSe
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
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.0
Matched on Factors on which subjects have been matched on in a case-control study
age, sex

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
decreased
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
unchanged
Richness Number of species
decreased
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
decreased

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Source: Figure 3A

Description: Differential microbial abundance in stool samples between controls and OCD patients at the T0 timepoint

Abundance in Group 1: increased abundance in OCD T0 (Baseline)

NCBI Quality ControlLinks
Alistipes
Anaerostipes
Barnesiellaceae
Coprobacter
Flavonifractor
Hungatella
Oscillibacter
Rikenellaceae
Mollicutes
Oscillospiraceae bacterium

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Merit, Claregrieve1

Source: Figure 3A

Description: Differential microbial abundance in stool samples between controls and OCD patients at the T0 timepoint

Abundance in Group 1: decreased abundance in OCD T0 (Baseline)

NCBI Quality ControlLinks
Agathobacter
Butyricicoccus
Catenibacterium
Clostridiaceae
Clostridium
Coprococcus
Dialister
Howardella
Lachnospira
Negativicutes
Paraprevotella
Prevotellaceae
Romboutsia
Selenomonadales
Veillonellaceae

Revision editor(s): Kahvecirem, Merit, Claregrieve1

Experiment 2


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Claregrieve1

Differences from previous experiment shown

Subjects

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Oropharynx Mesopharynx,Oral part of pharynx,Pars oralis pharyngis,Oropharynx,oropharynx
Group 1 name Corresponds to the case (exposed) group for case-control studies
OCD T0
Group 0 sample size Number of subjects in the control (unexposed) group
32

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
unchanged
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Source: Figure 4A

Description: Differential microbial abundance in oropharyngeal samples between controls and T0 OCD patients

Abundance in Group 1: increased abundance in OCD T0

NCBI Quality ControlLinks
Oribacterium
Actinomyces
Actinomycetales
Atopobiaceae
Atopobium
Coriobacteriales
Coriobacteriia
Lachnoanaerobaculum
Lachnospiraceae
Mogibacterium
Oribacterium sp.

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/24

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Source: Figure 4A

Description: Differential microbial abundance in oropharyngeal samples between controls and T0 OCD patients

Abundance in Group 1: decreased abundance in OCD T0

NCBI Quality ControlLinks
Fusobacteriaceae
Fusobacteriales
Fusobacteriia
Peptostreptococcaceae bacterium

Revision editor(s): Kahvecirem, Aiyshaaaa, Merit, Claregrieve1

Experiment 3


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/28

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Claregrieve1

Differences from previous experiment shown

Subjects

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
Group 1 name Corresponds to the case (exposed) group for case-control studies
OCD T3
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with obsessive-compulsive disorder (OCD) which is a neuropsychiatric condition characterized by intrusive and unwanted thoughts (termed obsessions) and repetitive behaviors or mental acts (termed compulsions), which are carried out to at least partially alleviate the anxiety or distress brought on by the obsessions. Timepoint 3 is following three months of pharmacological treatment and cognitive behavioral therapy (referred to as T3).
Group 0 sample size Number of subjects in the control (unexposed) group
33
Group 1 sample size Number of subjects in the case (exposed) group
31

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
unchanged
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/29

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Atrayees, Merit, Claregrieve1

Source: Figure S4

Description: Differential microbial abundance in stool samples between controls and OCD patients at the T3 timepoint

Abundance in Group 1: increased abundance in OCD T3

NCBI Quality ControlLinks
Alistipes
Anaerostipes
Anaerotruncus
Barnesiellaceae
Bilophila
Coprobacter
Eisenbergiella
Flavonifractor
Holdemania
Hungatella
Oscillibacter
Pygmaiobacter
Rikenellaceae
Ruminiclostridium

Revision editor(s): Kahvecirem, Atrayees, Merit, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/29

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Merit, Claregrieve1

Source: Figure S4

Description: Differential microbial abundance in stool samples between controls and OCD patients at the T3 timepoint

Abundance in Group 1: decreased abundance in OCD T3

NCBI Quality ControlLinks
Catenibacterium
Coprococcus
Intestinibacter
Lachnospira sp.
Paraprevotella
Peptostreptococcaceae
Prevotellaceae
Romboutsia
Veillonellaceae

Revision editor(s): Kahvecirem, Merit, Claregrieve1

Experiment 4


Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/29

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Claregrieve1

Differences from previous experiment shown

Subjects

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Oropharynx Mesopharynx,Oral part of pharynx,Pars oralis pharyngis,Oropharynx,oropharynx
Group 0 sample size Number of subjects in the control (unexposed) group
32

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa
unchanged
Richness Number of species
unchanged
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
unchanged

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/29

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Aiyshaaaa, Claregrieve1

Source: Figure S6

Description: Differential microbial abundance in oropharyngeal samples between controls and T3 OCD patients

Abundance in Group 1: increased abundance in OCD T3

NCBI Quality ControlLinks
Actinomyces
Actinomycetaceae
Actinomycetales
Atopobiaceae
Atopobium
Catonella
Coriobacteriales
Coriobacteriia
Lachnospiraceae
Mogibacterium

Revision editor(s): Kahvecirem, Aiyshaaaa, Claregrieve1

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2023-5-22

Curated date: 2023/03/29

Curator: Kahvecirem

Revision editor(s): Kahvecirem, Aiyshaaaa, Claregrieve1

Source: Figure S6

Description: Differential microbial abundance in oropharyngeal samples between controls and T3 OCD patients

Abundance in Group 1: decreased abundance in OCD T3

NCBI Quality ControlLinks
Butyrivibrio
Corynebacteriaceae
Corynebacterium
Johnsonella

Revision editor(s): Kahvecirem, Aiyshaaaa, Claregrieve1