Formulation of traditional Chinese medicine and its application on intestinal flora of constipated rats

From BugSigDB
Reviewed Marked as Reviewed by KateRasheed on 2025-6-16
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI Uniform resource identifier for web resources.
Authors
Li S, He Y, Zhang H, Zheng R, Xu R, Liu Q, Tang S, Ke X, Huang M
Journal
Microbial cell factories
Year
2020
Keywords:
Constipation, Firmicutes, Gut microbiota, Lactobacillus, Traditional Chinese medicine
In this study, the self-extracted constipation treatment of traditional Chinese medicine extracts was applied to constipated rats. To explore the mechanism and role of the Chinese medicine for the treatment of constipation, the 16S rRNA sequencing and qRT-PCR technology were used to analyze the intestinal flora. We found that the relative abundance of Firmicutes with constipation was significantly higher accounted for 86.7%, while the gut microbiota was significantly changed after taking a certain dose of Chinese medicine, greatly increased the relative abundance of Lactobacillus accounted for 23.1%, enhanced the symbiotic relationships of Lactobacillus with other intestinal flora. The total copies of intestinal bacteria in the constipated rats decreased after taking the traditional Chinese medicine. Finally, this study results provides a theoretical basis for the treatment and understand the mechanism and effect of traditional Chinese medicine on rate constipation.

Experiment 1


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/23

Curator: Tosin

Revision editor(s): Tosin

Subjects

Location of subjects
China
Host species Species from which microbiome was sampled. Contact us to have more species added.
Rattus norvegicus
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
Traditional Chinese medicine type TCM type,Traditional Chinese medicine type,traditional Chinese medicine type
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Functional constipation (FC) model (control) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Low dose group (DI)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a low dose 5.15 g/(kg d) of traditional Chinese medicine
Group 0 sample size Number of subjects in the control (unexposed) group
10
Group 1 sample size Number of subjects in the case (exposed) group
10

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
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

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2C

Description: Relative abundance of significant taxa between Functional constipation (FC) and Low Dose (DI) groups

Abundance in Group 1: increased abundance in Low dose group (DI)

NCBI Quality ControlLinks
Bacteroidota

Revision editor(s): Tosin

Signature 2

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2B

Description: Relative abundance of significant taxa between Functional constipation (FC) and Low Dose (DI) groups

Abundance in Group 1: decreased abundance in Low dose group (DI)

NCBI Quality ControlLinks
Bacillota

Revision editor(s): Tosin

Experiment 2


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Blank control (KO) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Functional constipation (FC) model group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were given 4 ml normal saline every time and gavage for 2 weeks.

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
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2B

Description: Relative abundance between Functional constipation (FC) model group and Blank control (KO) group

Abundance in Group 1: increased abundance in Functional constipation (FC) model group

NCBI Quality ControlLinks
Bacillota

Revision editor(s): Tosin

Signature 2

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2C

Description: Relative abundance between Functional constipation (FC) model and Blank control (KO) groups

Abundance in Group 1: decreased abundance in Functional constipation (FC) model group

NCBI Quality ControlLinks
Bacteroidota

Revision editor(s): Tosin

Experiment 3


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Low dose (DI) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Medium dose (ZH) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a medium dose 10.3 g/(kg d) of traditional Chinese medicine

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2B, 2F

Description: Relative abundance between Low dose group (DI) and Medium dose group (ZH)

Abundance in Group 1: increased abundance in Medium dose (ZH) group

NCBI Quality ControlLinks
Bacillota
Lactobacillus

Revision editor(s): Tosin

Signature 2

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2C, 2E

Description: Relative abundance between Low dose (DI) group and Medium dose (ZH) group

Abundance in Group 1: decreased abundance in Medium dose (ZH) group

NCBI Quality ControlLinks
Lachnospiraceae
Bacteroidota

Revision editor(s): Tosin

Experiment 4


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Blank control (KO) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
High dose (GA) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a high dose 20.6 g/(kg d) of traditional Chinese medicine

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
decreased
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2B, 2F

Description: Relative abundance between Blank control (KO) group and High dose group (GA)

Abundance in Group 1: increased abundance in High dose (GA) group

NCBI Quality ControlLinks
Lactobacillus
Bacillota

Revision editor(s): Tosin

Experiment 5


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Functional constipation (FC) model (control) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
Mosapride (MO) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were given mosapride 2 mg/(kg d) gavage, with a volume of 4ml per animal each time

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
increased
Chao1 Abundance-based estimator of species richness
unchanged
Richness Number of species
increased

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2E

Description: Relative abundance between Functional constipation (FC) group and Mosapride (MO) group

Abundance in Group 1: decreased abundance in Mosapride (MO) group

NCBI Quality ControlLinks
Lachnospiraceae

Revision editor(s): Tosin

Experiment 6


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Blank control (KO) group

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
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2E

Description: Relative abundance between Blank control (KO) group and Mosapride (MO) group

Abundance in Group 1: decreased abundance in Mosapride (MO) group

NCBI Quality ControlLinks
Lachnospiraceae

Revision editor(s): Tosin

Experiment 7


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Medium dose (ZH) group
Group 1 name Corresponds to the case (exposed) group for case-control studies
High dose (GA) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a high dose 20.6 g/(kg d) of traditional Chinese medicine

Lab analysis

Statistical Analysis

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
decreased
Chao1 Abundance-based estimator of species richness
decreased
Richness Number of species
decreased

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2F

Description: Relative abundance between Medium dose (ZH) group and High dose (GA) group

Abundance in Group 1: increased abundance in High dose (GA) group

NCBI Quality ControlLinks
Lactobacillus

Revision editor(s): Tosin

Signature 2

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2C, 2E

Description: Relative abundance between Medium dose (ZH) group and High dose (GA) group

Abundance in Group 1: decreased abundance in High dose (GA) group

NCBI Quality ControlLinks
Bacteroidota
Lachnospiraceae

Revision editor(s): Tosin

Experiment 8


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Functional constipation (FC) model (control) group

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
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 2F

Description: Relative abundance between Functional constipation (FC) model (control) group and High dose (GA) group

Abundance in Group 1: increased abundance in High dose (GA) group

NCBI Quality ControlLinks
Lactobacillus

Revision editor(s): Tosin

Experiment 9


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Blank control (KO), Functional constipation model (FC), Mosapride (MO), Low dose (DI) and High dose (GA) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Medium dose (ZH) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a medium dose 10.3 g/(kg d) of traditional Chinese medicine
Group 0 sample size Number of subjects in the control (unexposed) group
50

Lab analysis

Statistical Analysis

Statistical test
LEfSe
LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
2


Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in Medium dose (ZH) group

NCBI Quality ControlLinks
Christensenellaceae
Erysipelotrichaceae
Erysipelotrichales
Erysipelotrichia
Methanobacteria
Methanobacteriaceae
Methanobacteriales

Revision editor(s): Tosin

Experiment 10


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Blank control (KO), Functional constipation (FC) , Low dose (DI), Medium dose (ZH) and High dose (GA) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Mosapride (MO) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were given mosapride 2 mg/(kg d) gavage, with a volume of 4ml per animal each time

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in Mosapride (MO) group

NCBI Quality ControlLinks
Aerococcaceae
Anaerovoracaceae
Bifidobacteriaceae
Bifidobacteriales
Clostridiaceae
Deferribacteraceae
Deferribacterales
Deferribacteres
Defluviitaleaceae
Oscillospiraceae
Peptococcaceae
Family XIIIFamily XIII
Acidimicrobiia

Revision editor(s): Tosin

Experiment 11


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Blank control (KO), Functional constipation (FC), Mosapride (MO), Medium dose (ZH) and High dose (GA) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Low dose group (DI)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a low dose 5.15 g/(kg d) of traditional Chinese medicine

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in Low dose group (DI)

NCBI Quality ControlLinks
Porphyromonadaceae
Lachnospiraceae

Revision editor(s): Tosin

Experiment 12


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Blank control (KO), Functional constipation (FC), Mosapride (MO), Low dose (DI), Medium dose (ZH) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
High dose (GA) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were treated with a high dose 20.6 g/(kg d) of traditional Chinese medicine

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in High dose (GA) group

NCBI Quality ControlLinks
Lactobacillaceae
Lactobacillales
Bacilli
Peptostreptococcaceae

Revision editor(s): Tosin

Experiment 13


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Functional constipation (FC), Mosapride (MO), Low dose (DI), Medium dose (ZH) and High dose (GA) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Blank control (KO) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were fed SPF standard diet until the end of the experiment and given 4 ml normal saline every time and gavage for 2 weeks.

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in Blank control (KO) group

NCBI Quality ControlLinks
Alcaligenaceae
Bacillales
Bacteroidaceae
Bacteroidales
Bacteroidia
Betaproteobacteria
Burkholderiales
Candidatus Gastranaerophilales
Comamonadaceae
Desulfovibrionaceae
Elusimicrobia
Elusimicrobiaceae
Elusimicrobiales
Enterococcaceae
Eubacteriaceae
Micrococcaceae
Micrococcales
Muribaculaceae
Negativicutes
Prevotellaceae
Rikenellaceae
Selenomonadales
Staphylococcaceae
Streptococcaceae
Veillonellaceae
Clostridiales vadinBB60 groupClostridiales vadinBB60 group
Candidatus Melainabacteria

Revision editor(s): Tosin

Experiment 14


Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/04/30

Curator: Tosin

Revision editor(s): Tosin

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Combination of Blank control (KO), Mosapride (MO), Low dose (DI), Medium dose (ZH) and High dose (GA) groups
Group 1 name Corresponds to the case (exposed) group for case-control studies
Functional constipation (FC) model (control) group
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Rats in this group were given 4 ml normal saline every time and gavage for 2 weeks.

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by KateRasheed on 2025-6-16

Curated date: 2025/05/01

Curator: Tosin

Revision editor(s): Tosin

Source: Figure 3a

Description: Taxonomic cladogram obtained from LEfSe at six groups.

Abundance in Group 1: increased abundance in Functional constipation (FC) model (control) group

NCBI Quality ControlLinks
Carnobacteriaceae
Clostridia
Eubacteriales

Revision editor(s): Tosin