Immunoregulatory role of the gut microbiota in inflammatory depression

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Reviewed Marked as Reviewed by Svetlana up on 2024-8-5
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Liu P, Liu Z, Wang J, Wang J, Gao M, Zhang Y, Yang C, Zhang A, Li G, Li X, Liu S, Liu L, Sun N, Zhang K
Journal
Nature communications
Year
2024
Inflammatory depression is a treatment-resistant subtype of depression. A causal role of the gut microbiota as a source of low-grade inflammation remains unclear. Here, as part of an observational trial, we first analyze the gut microbiota composition in the stool, inflammatory factors and short-chain fatty acids (SCFAs) in plasma, and inflammatory and permeability markers in the intestinal mucosa of patients with inflammatory depression (ChiCTR1900025175). Gut microbiota of patients with inflammatory depression exhibits higher Bacteroides and lower Clostridium, with an increase in SCFA-producing species with abnormal butanoate metabolism. We then perform fecal microbiota transplantation (FMT) and probiotic supplementation in animal experiments to determine the causal role of the gut microbiota in inflammatory depression. After FMT, the gut microbiota of the inflammatory depression group shows increased peripheral and central inflammatory factors and intestinal mucosal permeability in recipient mice with depressive and anxiety-like behaviors. Clostridium butyricum administration normalizes the gut microbiota, decreases inflammatory factors, and displays antidepressant-like effects in a mouse model of inflammatory depression. These findings suggest that inflammatory processes derived from the gut microbiota can be involved in neuroinflammation of inflammatory depression.

Experiment 1


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Subjects

Location of subjects
China
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
Major depressive disorder major depression,major depressive disorder,recurrent major depression,single major depressive episode,unipolar depression,Major depressive disorder
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls (HC)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Major depressive disorder (MDD)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
First-episode, drug-naïve patients with major depressive disorder (MDD) ages of 18–55.
Group 0 sample size Number of subjects in the control (unexposed) group
85
Group 1 sample size Number of subjects in the case (exposed) group
85
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
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

Alpha Diversity

Pielou Quantifies how equal the community is numerically
unchanged
Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
increased
Simpson Estimator of species richness and species evenness: more weight on species evenness
unchanged
Richness Number of species
increased
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
increased

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 1 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with major depressive disorder (MDD) compared to healthy controls (HC)

Abundance in Group 1: increased abundance in Major depressive disorder (MDD)

NCBI Quality ControlLinks
Adlercreutzia
Anaerolineae
Micromonosporaceae
Myxococcales
Rhodospirillaceae
Rhodospirillales
Thermoleophilia
Ellin6529Ellin6529
iiil_15iiil_15
Acidobacteria_6Acidobacteria_6

Revision editor(s): Rahila, Scholastica

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/02

Curator: Scholastica

Revision editor(s): Scholastica

Source: FIG 1 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with major depressive disorder (MDD) compared to healthy controls (HC)

Abundance in Group 1: decreased abundance in Major depressive disorder (MDD)

NCBI Quality ControlLinks
Roseburia
Clostridiaceae
Clostridium
Pasteurellaceae
Pasteurellales
Haemophilus
SMBS3SMBS3
Turicibacter
Turicibacteraceae
TuricibacteralesTuricibacterales
Peptostreptococcaceae

Revision editor(s): Scholastica

Experiment 2


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Gut microbiome measurement Gut microbiome measurement,gut microbiome measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls (HC) and inflammatory depression group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Non-inflammatory depression
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with major depressive disorder (MDD) who had non-inflammatory depression
Group 0 sample size Number of subjects in the control (unexposed) group
127
Group 1 sample size Number of subjects in the case (exposed) group
43

Lab analysis

Statistical Analysis

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.72


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (A1)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three groups

Abundance in Group 1: increased abundance in Non-inflammatory depression

NCBI Quality ControlLinks
Bacillota
Clostridia
Eubacteriales
Faecalibacterium
Haemophilus
Oscillospiraceae
Pasteurellaceae
Pasteurellales

Revision editor(s): Rahila, Scholastica

Experiment 3


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls (HC) and non-inflammatory depression group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Inflammatory depression
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with major depressive disorder (MDD) who had inflammatory depression
Group 0 sample size Number of subjects in the control (unexposed) group
128
Group 1 sample size Number of subjects in the case (exposed) group
42

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (A1)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three groups

Abundance in Group 1: increased abundance in Inflammatory depression

NCBI Quality ControlLinks
Aquincola
Bacteroidaceae
Bacteroidales
Bacteroides
Bacteroidia
Brevundimonas
Candidatus Entotheonella sp.
Candidatus Xiphinematobacter
Chlamydia
Chlamydiota
Chloroflexia
Erythrobacteraceae
Gaiella
Kaistibacter
Lactococcus
Micromonosporaceae
Nakamurellaceae
Noviherbaspirillum malthae
Peniophoraceae
Skermanella
Steroidobacter
Streptosporangiaceae
Woodsholea
Ellin517Ellin517
OM190OM190
MVS_107MVS_107
CL_500_15CL_500_15
C0119C0119
DS_100DS_100
N31jN31j
SHA 20SHA 20
TM6TM6
0319_6E20319_6E2
BSV26BSV26

Revision editor(s): Rahila, Scholastica

Experiment 4


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Non-inflammatory depression
Group 0 sample size Number of subjects in the control (unexposed) group
43

Lab analysis

Statistical Analysis

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.45


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (A1)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with inflammatory versus non-inflammatory depression

Abundance in Group 1: increased abundance in Inflammatory depression

NCBI Quality ControlLinks
Bacteroidaceae
Bacteroidales
Bacteroides
Bacteroidia
Haemophilus
Lactococcus
Parabacteroides
Porphyromonadaceae
Promicromonosporaceae
Solirubrobacter
Xanthobacteraceae
PRR_10PRR_10
SHA_20SHA_20
XG30_KF_CM45XG30_KF_CM45

Revision editor(s): Rahila, Scholastica

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (A2)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with inflammatory versus non-inflammatory depression

Abundance in Group 1: decreased abundance in Inflammatory depression

NCBI Quality ControlLinks
Bacillota
Clostridia
Clostridiaceae
Eubacteriales
Faecalibacterium
Haemophilus
Oscillospiraceae
Pasteurellaceae
Pasteurellales

Revision editor(s): Rahila, Scholastica

Experiment 5


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Major depressive disorder major depression,major depressive disorder,recurrent major depression,single major depressive episode,unipolar depression,Major depressive disorder
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy controls (HC)
Group 0 sample size Number of subjects in the control (unexposed) group
20
Group 1 sample size Number of subjects in the case (exposed) group
20

Lab analysis

Sequencing type
WMS
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified

Statistical Analysis

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.0


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with inflammatory depression compared to healthy controls (HC) at species level using shotgun metagenomic sequencing

Abundance in Group 1: increased abundance in Inflammatory depression

NCBI Quality ControlLinks
Actinomyces bouchesdurhonensis
Actinomyces graevenitzii
Actinomyces sp. ICM47
Clostridium sp. CAG:138
Mogibacterium diversum
Schaalia odontolytica
Solobacterium moorei
Streptococcus parasanguinis
Streptococcus pneumoniae

Revision editor(s): Rahila, Scholastica

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/02

Curator: Scholastica

Revision editor(s): Scholastica

Source: FIG 3 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant in patients with inflammatory depression compared to healthy controls (HC) at species level using shotgun metagenomic sequencing

Abundance in Group 1: decreased abundance in Inflammatory depression

NCBI Quality ControlLinks
Faecalibacterium prausnitzii
Gemmiger formicilis
Sarcina ventriculi
Subdoligranulum sp. 60_17
Geosporobacter subterraneus
Clostridium sp. CAG:417
Faecalibacterium sp. AF28-13AC
Blautia sp. AF22-5LB
Eubacterium sp. AF17-7
Alistipes communis
Clostridium perfringens
Lachnospira eligens
Clostridium butyricum
Blautia sp. AF19-1
Eubacterium sp. AF36-5BH
Romboutsia timonensis
Clostridium sp. CAG:343
Blautia sp. CAG:37_48_57
Faecalibacterium sp. AF10-46
Blautia sp. AF14-40
Blautia sp. OF03-13
Blautia sp. AF32-4BH
Blautia sp. AF19-13LB
Faecalibacterium sp. AF27-11BH
Blautia sp. AF17-9LB
Faecalibacterium sp. OM04-11BH
Eubacterium sp. AF34-35BH
Oscillibacter sp. 57_20
Roseburia sp. CAG:18
Eubacterium sp. CAG:192
Alistipes ihumii
Oscillibacter sp. CAG:241
Clostridium sp.
Oscillibacter sp.
Fournierella massiliensis
Faecalibacterium sp. AM43-5AT
Butyricicoccus sp. AM42-5AC
Faecalibacterium sp. CAG:74_58_120
Oscillibacter sp. CAG:241_62_21
Fusicatenibacter saccharivorans
Blautia sp. CAG:37

Revision editor(s): Scholastica

Experiment 6


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy control (HC)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Inflammatory and non-inflammatory depression
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients with major depressive disorder (MDD) grouped into inflammatory and non-inflammatory depression groups
Group 0 sample size Number of subjects in the control (unexposed) group
85
Group 1 sample size Number of subjects in the case (exposed) group
85

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V4

Statistical Analysis

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2.72


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 3 (A1)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three groups

Abundance in Group 1: decreased abundance in Inflammatory and non-inflammatory depression

NCBI Quality ControlLinks
Roseburia
Clostridiaceae
Peptostreptococcaceae
Clostridium
SMBS3SMBS3

Revision editor(s): Rahila, Scholastica

Experiment 7


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Host species Species from which microbiome was sampled. Contact us to have more species added.
Mus musculus
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Gut microbiome measurement Gut microbiome measurement,gut microbiome measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Low-inflammatory, healthy control and blank groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
High-inflammatory group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice classified into the high-inflammatory group
Group 0 sample size Number of subjects in the control (unexposed) group
24
Group 1 sample size Number of subjects in the case (exposed) group
20
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
None

Lab analysis

Statistical Analysis

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Not specified
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
4.31


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 4 (D3)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among four mice groups

Abundance in Group 1: increased abundance in High-inflammatory group

NCBI Quality ControlLinks
Allobaculum
Erysipelotrichia
Erysipelotrichaceae
Erysipelotrichales
Turicibacteraceae
Turicibacter
TuricibacteralesTuricibacterales

Revision editor(s): Rahila, Scholastica

Experiment 8


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
High-inflammatory, healthy control and blank groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Low-inflammatory group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice classified into the low-inflammatory group
Group 0 sample size Number of subjects in the control (unexposed) group
36
Group 1 sample size Number of subjects in the case (exposed) group
8

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 4 (D3)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among four mice groups

Abundance in Group 1: increased abundance in Low-inflammatory group

NCBI Quality ControlLinks
Clostridia
Eubacteriales
Paracoccus

Revision editor(s): Rahila, Scholastica

Experiment 9


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Healthy control (HC) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
High-inflammatory, low-inflammatory and blank groups
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice classified into the high-inflammatory, low-inflammatory and blank groups
Group 0 sample size Number of subjects in the control (unexposed) group
7
Group 1 sample size Number of subjects in the case (exposed) group
37

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 4 (D3)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among four mice groups

Abundance in Group 1: decreased abundance in High-inflammatory, low-inflammatory and blank groups

NCBI Quality ControlLinks
Pseudomonadota
Bacteroidaceae
Bacteroides
Gammaproteobacteria
Enterobacteriaceae
Shigella
Enterobacterales

Revision editor(s): Rahila, Scholastica

Experiment 10


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
High-inflammatory, low-inflammatory and healthy control groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Blank group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice administered normal saline and classified into the blank group
Group 0 sample size Number of subjects in the control (unexposed) group
35
Group 1 sample size Number of subjects in the case (exposed) group
9

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/04/18

Curator: Rahila

Revision editor(s): Rahila, Scholastica

Source: FIG 4 (D3)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among four mice groups

Abundance in Group 1: increased abundance in Blank group

NCBI Quality ControlLinks
Muribaculaceae
Lachnospiraceae
Desulfovibrio

Revision editor(s): Rahila, Scholastica

Experiment 11


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Clostridium butyricum (CB) and normal saline (NS) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
High-inflammatory group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice classified into the high-inflammatory group
Group 0 sample size Number of subjects in the control (unexposed) group
13
Group 1 sample size Number of subjects in the case (exposed) group
7

Lab analysis

Statistical Analysis

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
4.22


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Source: FIG 6 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three mice groups

Abundance in Group 1: increased abundance in High-inflammatory group

NCBI Quality ControlLinks
Clostridia
Eubacteriales
Bacillota
Lachnospiraceae
Oscillospiraceae
Desulfovibrio
Deltaproteobacteria

Revision editor(s): Scholastica

Experiment 12


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
High-inflammatory and normal saline (NS) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Clostridium butyricum (CB)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice administered probiotics (Clostridium butyricum)

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Source: FIG 6 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three mice groups

Abundance in Group 1: increased abundance in Clostridium butyricum (CB)

NCBI Quality ControlLinks
Gammaproteobacteria
Pseudomonadota
Bacteroidaceae
Bacteroides
Enterobacteriaceae
Enterobacterales
Shigella
Butyricimonas
Odoribacteraceae

Revision editor(s): Scholastica

Experiment 13


Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Normal saline (NS)
Group 1 name Corresponds to the case (exposed) group for case-control studies
High-inflammatory and Clostridium butyricum (CB) groups
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Mice administered normal saline (NS)
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
14

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-8-5

Curated date: 2024/08/05

Curator: Scholastica

Revision editor(s): Scholastica

Source: FIG 6 (C)

Description: A linear discriminant analysis (LDA) effect size (LEfSe) analysis showing taxa differentially abundant among three mice groups

Abundance in Group 1: decreased abundance in High-inflammatory and Clostridium butyricum (CB) groups

NCBI Quality ControlLinks
Muribaculaceae
Bacteroidia
Bacteroidota
Bacteroidales

Revision editor(s): Scholastica