Gut microbiota dysbiosis and bacterial community assembly associated with cholesterol gallstones in large-scale study
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BACKGROUND: Elucidating gut microbiota among gallstone patients as well as the complex bacterial colonization of cholesterol gallstones may help in both the prediction and subsequent lowered risk of cholelithiasis. To this end, we studied the composition of bacterial communities of gut, bile, and gallstones from 29 gallstone patients as well as the gut of 38 normal individuals, examining and analyzing some 299, 217 bacterial 16S rRNA gene sequences from 120 samples. RESULTS: First, as compared with normal individuals, in gallstone patients there were significant (P < 0.001) increases of gut bacterial phylum Proteobacteria and decreases of three gut bacterial genera, Faecalibacterium, Lachnospira, and Roseburia. Second, about 70% of gut bacterial operational taxonomic units (OTUs) from gallstone patients were detectable in the biliary tract and bacteria diversity of biliary tract was significantly (P < 0.001) higher than that of gut. Third, analysis of the biliary tract core microbiome (represented by 106 bacteria OTUs) among gallstone patients showed that 33.96% (36/106) of constituents can be matched to known bacterial species (15 of which have publicly available genomes). A genome-wide search of MDR, BSH, bG, and phL genes purpotedly associated with the formation of cholesterol gallstones showed that all 15 species with known genomes (e.g., Propionibacterium acnes, Bacteroides vulgates, and Pseudomonas putida) contained at least contained one of the four genes. This finding could potentially provide underlying information needed to explain the association between biliary tract microbiota and the formation of cholesterol gallstones. CONCLUSIONS: To the best of our knowledge, this is the first study to discover gut microbiota dysbiosis among gallstone patients, the presence of which may be a key contributor to the complex bacteria community assembly linked with the presence of cholesterol gallstones. Likewise, this study also provides the first large-scale glimpse of biliary tract microbiota potentially associated with cholesterol gallstones. Such a characterization of the biliary tract core microbiome has potentially important biological and medical implications regarding the role of bacteria in the formation cholesterol gallstones.
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Decreased Lachnospira abundance has been reported in the gut microbiota of subjects with cholesterol gallstones and in the rectal mucosa of patients with HIV.
“Decrease in Lachnospira abundance was recently highlighted in the gut microbiota of subjects with cholesterol gallstones 62 as well as in the rectal mucosa of patients with HIV, 63”
From High-level adherence to a Mediterranean diet beneficially impacts the gut microbiota and associated metabolome (2016) · cites this paper as [62]
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- Authors
- Wu, T., Zhang, Z., Liu, B., Hou, D., Liang, Y., Zhang, J., & Shi, P.
- Affiliations
- Kunming Institute of Zoology (CN)
- First Affiliated Hospital of Kunming Medical University (CN)
- Kunming Medical University (CN)
- Corresponding author
- Zhang, Jie
- Shi, Peng
- Venue
- BMC Genomics
- Published
- 2013-10-01
- Volume
- 14
- Issue
- 1
- Pages
- 669-669
- ISSN
- 1471-2164 (ISSN-L)
- PMC
- PMC3851472
- OpenAlex
- W2116463764
- Cited by
- 234
- References
- 74
- Citations by year
- 2026: 13 · 2025: 20 · 2024: 29 · 2023: 29 · 2022: 29 · 2021: 29 · 2020: 19 · 2019: 17 · 2018: 15 · 2017: 10 · 2016: 12 · 2015: 9 · 2014: 3
- FWCI
- 3.58
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- BMC Genomics (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Natural Science Foundation of China (31100916)
- Chinese Academy of Sciences
- Natural Science Foundation of Yunnan Province
- Institute of Zoology, Chinese Academy of Sciences
- Kunming Institute of Zoology, Chinese Academy of Sciences
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Gallbladder and Bile Duct Disorders
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Keywords
- cholesterol gallstones, gallstones, gut dysbiosis, bacterial community assembly, Proteobacteria, Faecalibacterium, Lachnospira, Roseburia, MDR genes
- MeSH terms
- Bacteria, Biliary Tract, Cholesterol, Female, Humans, Male, Middle Aged, Phylogeny, Gastrointestinal Tract, Gallstones, Metagenomics, Microbiota, Dysbiosis
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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