Altered oral microbiota in chronic hepatitis B patients with different tongue coatings
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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.
URI Uniform resource identifier for web resources.
Authors
Zhao Y, Mao YF, Tang YS, Ni MZ, Liu QH, Wang Y, Feng Q, Peng JH, Hu YY
Journal
World journal of gastroenterology
Year
2018
AIM: To elucidate tongue coating microbiota and metabolic differences in chronic hepatitis B (CHB) patients with yellow or white tongue coatings. METHODS: Tongue coating samples were collected from 53 CHB patients (28 CHB yellow tongue coating patients and 25 CHB white tongue coating patients) and 22 healthy controls. Microbial DNA was extracted from the tongue samples, and the bacterial 16S ribosomal RNA gene V3 region was amplified from all samples and sequenced with the Ion Torrent PGM™ sequencing platform according to the standard protocols. The metabolites in the tongue coatings were evaluated using a liquid chromatography-mass spectrometry (LC-MS) platform. Statistical analyses were then performed. RESULTS: The relative compositions of the tongue coating microbiotas and metabolites in the CHB patients were significantly different from those of the healthy controls, but the tongue coating microbiota abundances and diversity levels were not significantly different. Compared with the CHB white tongue coating patients, the CHB yellow tongue coating patients had higher hepatitis B viral DNA (HBV-DNA) titers (median 21210 vs 500, respectively, P = 0.03) and a significantly lower level of Bacteroidetes (20.14% vs 27.93%, respectively, P = 0.013) and higher level of Proteobacteria (25.99% vs 18.17%, respectively, P = 0.045) in the microbial compositions at the phylum level. The inferred metagenomic pathways enriched in the CHB yellow tongue coating patients were mainly those involved in amino acid metabolism, which was consistent with the metabolic disorder. The abundances of bacteria from Bacteroidales at the order level were higher in the CHB white tongue coating patients (19.2% vs 27.22%, respectively, P = 0.011), whereas Neisseriales were enriched in the yellow tongue coating patients (21.85% vs 13.83%, respectively, P = 0.029). At the family level, the abundance of Neisseriaceae in the yellow tongue patients was positively correlated with the HBV-DNA level but negatively correlated with the S-adenosyl-L-methionine level. CONCLUSION: This research illustrates specific clinical features and bacterial structures in CHB patients with different tongue coatings, which facilitates understanding of the traditional tongue diagnosis.
Experiment 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Curated date: 2021/01/10
Curator: WikiWorks743
Revision editor(s): WikiWorks753, WikiWorks743, Claregrieve1
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled (if applicable)
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Tongue Glossus,Tongue
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- chronic hepatitis B virus infection chronic Hepatitis B,chronic hepatitis B infection,chronic hepatitis B virus infection,hepatitis B infection, chronic,hepatitis B, chronic
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- chronic hepatitis B yellow tongue coating patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients diagnosed with chronic hepatitis B per "The Guidelines for the Prevention and Treatment of Chronic Hepatitis B (2010 version)" with a yellow tongue coating
- Group 0 sample size Number of subjects in the control (unexposed) group
- 22
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
- 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
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- 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)?
- No
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between chronic hepatitis B yellow tongue coating patients and healthy controls
Abundance in Group 1: increased abundance in chronic hepatitis B yellow tongue coating patients
| NCBI | Links |
|---|---|
| Burkholderiaceae | |
| Cardiobacteriaceae | |
| Comamonadaceae | |
| Comamonas ⚠ | |
| Lautropia | |
| Neisseria | |
| Neisseriaceae | |
| Pseudomonadota |
Revision editor(s): WikiWorks743, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between chronic hepatitis B yellow tongue coating patients and healthy controls
Abundance in Group 1: decreased abundance in chronic hepatitis B yellow tongue coating patients
| NCBI | Links |
|---|---|
| Bifidobacteriaceae | |
| Campylobacter | |
| Campylobacteraceae | |
| Candidatus Saccharimonas | |
| Parvimonas | |
| Peptoclostridium | |
| Scardovia |
Revision editor(s): WikiWorks743, Claregrieve1
Experiment 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Curated date: 2021/01/10
Curator: WikiWorks743
Revision editor(s): WikiWorks753, WikiWorks743, Claregrieve1
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled (if applicable)
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Tongue Glossus,Tongue
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- chronic hepatitis B virus infection chronic Hepatitis B,chronic hepatitis B infection,chronic hepatitis B virus infection,hepatitis B infection, chronic,hepatitis B, chronic
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- chronic hepatitis B white tongue coating patients
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- chronic hepatitis B yellow tongue coating patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients diagnosed with chronic hepatitis B per "The Guidelines for the Prevention and Treatment of Chronic Hepatitis B (2010 version)" with a yellow tongue coating
- Group 0 sample size Number of subjects in the control (unexposed) group
- 25
- Group 1 sample size Number of subjects in the case (exposed) group
- 28
- 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
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- 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)?
- No
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Curated date: 2019-11-20
Curator: Rimsha Azhar
Revision editor(s): WikiWorks743, Fatima, Claregrieve1
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between chronic hepatitis B yellow and white tongue coating patients
Abundance in Group 1: increased abundance in chronic hepatitis B yellow tongue coating patients
| NCBI | Links |
|---|---|
| Candidatus Gracilibacteria | |
| Mycoplasma | |
| Neisseria | |
| Neisseriaceae | |
| Pseudomonadota |
Revision editor(s): WikiWorks743, Fatima, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between chronic hepatitis B yellow and white tongue coating patients
Abundance in Group 1: decreased abundance in chronic hepatitis B yellow tongue coating patients
| NCBI | Links |
|---|---|
| Bacteroidota | |
| Catonella | |
| Prevotella |
Revision editor(s): WikiWorks743, Claregrieve1
Experiment 3
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Curated date: 2021/01/10
Curator: WikiWorks743
Revision editor(s): WikiWorks753, WikiWorks743, Claregrieve1
Subjects
- Location of subjects
- China
- Host species Species from which microbiome was sampled (if applicable)
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Tongue Glossus,Tongue
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- chronic hepatitis B virus infection chronic Hepatitis B,chronic hepatitis B infection,chronic hepatitis B virus infection,hepatitis B infection, chronic,hepatitis B, chronic
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- healthy controls
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- chronic hepatitis B white tongue coating patients
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- patients diagnosed with chronic hepatitis B per "The Guidelines for the Prevention and Treatment of Chronic Hepatitis B (2010 version)" with a white tongue coating
- Group 0 sample size Number of subjects in the control (unexposed) group
- 22
- Group 1 sample size Number of subjects in the case (exposed) group
- 25
- 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
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Ion Torrent
Statistical Analysis
- 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)?
- No
- 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
- unchanged
Signature 1
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between healthy controls and chronic hepatitis B white tongue coating patients
Abundance in Group 1: increased abundance in chronic hepatitis B white tongue coating patients
| NCBI | Links |
|---|---|
| Bergeyella | |
| Bulleidia | |
| Centipeda | |
| Porphyromonadaceae | |
| Porphyromonas |
Revision editor(s): WikiWorks743, Claregrieve1
Signature 2
Reviewed Marked as Reviewed by Claregrieve1 on 2022/07/11
Source: Figure 2B, Figure 3A
Description: Differentially abundant taxa between healthy controls and chronic hepatitis B white tongue coating patients
Abundance in Group 1: decreased abundance in chronic hepatitis B white tongue coating patients
| NCBI | Links |
|---|---|
| Actinomyces | |
| Actinomycetaceae | |
| Alysiella | |
| Cardiobacteriaceae | |
| Mycoplasmataceae | |
| Pseudoramibacter ⚠ | |
| Scardovia |
Revision editor(s): WikiWorks743, Claregrieve1
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