Effect of the HXBM408 bacteria on rat intestinal bacterial diversity and the metabolism of soybean isoflavones
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
Xiaobin L, Jinglong X, Fang Z, Chenchen W, Kailun Y
Journal
PloS one
Year
2021
The purpose of this study was to investigate the effect of the HXBM408 bacteria on the diversity of rat intestinal bacteria and the metabolism of soybean isoflavones. The control group was administered sterilized water and daidzein by gavage for 7 days. Conversely, the experimental group was administered HXBM408 solution and daidzein by gavage for 7 days. The content of the daidzein metabolite equol in rat feces in the experimental group was significantly higher than that in the control group (P < 0.05) on the 7th and 14th days. However, the content of daidzein and its metabolites in feces was not significantly different (P > 0.05). On the 7th day, the relative abundance of Streptococcus in the feces of the experimental group was significantly higher than that of the control group (P < 0.05), but the difference disappeared over time (P > 0.05). In the intestinal digesta of rats, the proteobacteria of the experimental group was significantly lower than those of the control group (P < 0.05). HXBM408 can increase the degradation ability of soybean isoflavones in a short period after ingestion, increase the number of beneficial intestinal flora, and improve the structure of the flora.
Experiment 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
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
- Treatment outcome measurement Treatment outcome measurement,treatment outcome measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Trial group; 7d (Feces)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Fecal samples collected from rats after 7 days of intragastric administration of HXBM408 bacteria.
- 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
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- Not specified
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- relative abundances
- Statistical test
- Metastats
- 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
- Chao1 Abundance-based estimator of species richness
- decreased
- Simpson Estimator of species richness and species evenness: more weight on species evenness
- unchanged
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Table 6
Description: Effects of feeding HXBM408 on the abundance of bacterium in rat feces and intestinal digesta by phylum and genus.
Abundance in Group 1: increased abundance in Trial group; 7d (Feces)
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus |
Revision editor(s): Shulamite
Experiment 2
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Trial group 21d (Feces)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Fecal samples collected from rats after 21 days of intragastric administration of HXBM408 bacteria.
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
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Table 6
Description: Effect of feeding HXBM408 on the abundance of bacterium in rat feces and intestinal digesta and by phylum and by genus.
Abundance in Group 1: increased abundance in Trial group 21d (Feces)
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus |
Revision editor(s): Shulamite
Experiment 4
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Differences from previous experiment shown
Subjects
- 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
- Intestine Bowel,Intestinal tract,Intestine,intestine
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Trial group; 35d (Intestinal)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Intestinal content samples collected from rats after 35 days of intrasgastric administration of HXBM408 bacteria
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
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Table 6
Description: Effect of feeding HXBM408 on the abundance of bacterium in rat feces and intestinal digesta and by phylum and genus.
Abundance in Group 1: increased abundance in Trial group; 35d (Intestinal)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroides | ||
| Blautia |
Revision editor(s): Shulamite
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Table 5 and 6
Description: Effect of feeding HXBM408 on the abundance of bacterium in rat feces and intestinal digesta and by phylum and genus.
Abundance in Group 1: decreased abundance in Trial group; 35d (Intestinal)
| NCBI | Quality Control | Links |
|---|---|---|
| Streptococcus | ||
| Romboutsia | ||
| Pseudomonadota |
Revision editor(s): Shulamite
Experiment 5
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
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
- Trial group; 7d (Feces)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Fecal samples collected from rats after 7 days of intrasgastric administration of HXBM408 bacteria.
Statistical Analysis
- Statistical test
- LEfSe
- LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool
- 2
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
- Richness Number of species
- decreased
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Fig. 2A
Description: The LEfSe profile of bacterial flora in rat feces and intestinal digesta.
Abundance in Group 1: increased abundance in Trial group; 7d (Feces)
| NCBI | Quality Control | Links |
|---|---|---|
| Acetanaerobacterium | ||
| Bacteroidaceae | ||
| Bacteroides |
Revision editor(s): Shulamite
Experiment 6
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group; 21d (Feces)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Trial group
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Fecal samples collected from rats after 21 days of intragastric administration of HXBM408 bacteria
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
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Fig 2B
Description: The LEfSe profile of bacterial flora in rat feces and intestinal digesta.
Abundance in Group 1: decreased abundance in Trial group
| NCBI | Quality Control | Links |
|---|---|---|
| Lactobacillaceae | ||
| Lactobacillus | ||
| Ligilactobacillus murinus | ||
| Ruminococcaceae bacterium UCG-005 |
Revision editor(s): Shulamite
Experiment 7
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group; 35d(Feces)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Fecal samples collected from rats after 35 days of intragastric administration of HXBM408 bacteria
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
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Fig 2C
Description: The LEfSe profile of bacterial flora in rat feces and intestinal digesta.
Abundance in Group 1: decreased abundance in Trial group
| NCBI | Quality Control | Links |
|---|---|---|
| Ruminococcaceae bacterium UCG-005 |
Revision editor(s): Shulamite
Experiment 8
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Differences from previous experiment shown
Subjects
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Intestine Bowel,Intestinal tract,Intestine,intestine
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Trial group; 35d (Intestinal)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Intestinal content samples collected from rats after 35 days of intragastric administration of HXBM408 bacteria.
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
- Richness Number of species
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Fig 2D
Description: The LEfSe profile of bacterial flora in rat feces and intestinal digesta.
Abundance in Group 1: increased abundance in Trial group; 35d (Intestinal)
| NCBI | Quality Control | Links |
|---|---|---|
| Bacteroidaceae | ||
| Bacteroides | ||
| Blautia |
Revision editor(s): Shulamite
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-5-13
Source: Fig 2D
Description: The LEfSe profile of bacterial flora in rat feces and intestinal digesta.
Abundance in Group 1: decreased abundance in Trial group; 35d (Intestinal)
| NCBI | Quality Control | Links |
|---|---|---|
| Lachnospiraceae bacterium NK4A136 |
Revision editor(s): Shulamite
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