The DOI matches its Crossref record; 64 of the 64 references it cites were found in a registry or an index.
Longitudinal multi-omics analyses link gut microbiome dysbiosis with recurrent urinary tract infections in women
Open accessAbstract
Recurrent urinary tract infections (rUTIs) are a major health burden worldwide, with history of infection being a significant risk factor. While the gut is a known reservoir for uropathogenic bacteria, the role of the microbiota in rUTI remains unclear. We conducted a year-long study of women with (n = 15) and without (n = 16) history of rUTI, from whom we collected urine, blood and monthly faecal samples for metagenomic and transcriptomic interrogation. During the study 24 UTIs were reported, with additional samples collected during and after infection. The gut microbiome of individuals with a history of rUTI was significantly depleted in microbial richness and butyrate-producing bacteria compared with controls, reminiscent of other inflammatory conditions. However, Escherichia coli gut and bladder populations were comparable between cohorts in both relative abundance and phylogroup. Transcriptional analysis of peripheral blood mononuclear cells revealed expression profiles indicative of differential systemic immunity between cohorts. Altogether, these results suggest that rUTI susceptibility is in part mediated through the gut-bladder axis, comprising gut dysbiosis and differential immune response to bacterial bladder colonization, manifesting in symptoms.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The cited source says what the claim attributes to it.
In the citing paper
“a strain of E. coli may be relatively harmless in the colon, but cause a urinary tract infection if it invades the urethra 20 .”
From Human microbiome myths and misconceptions (2023) · cites this paper as [20]
The check wasn’t confident either way, so it gives no verdict — never disputed.
In the citing paper
“It is, therefore, a leap that is not yet evidence-based to conclude that a characteristic 'pathobiome' has a role in most diseases.”
From Human microbiome myths and misconceptions (2023) · cites this paper as [20]
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709
Robinson, M. D., McCarthy, D. J., & Smyth, G. K. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btp616 · Cited by 41,364
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
Liao, Y., Smyth, G. K., & Shi, W. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btt656 · Cited by 27,219
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Bankevich, A., Nurk, S., Antipov, D., Gurevich, A. A., Dvorkin, M. V., Kulikov, A. S., Lesin, V. M., Nikolenko, S., Pham, S., Prjibelski, A. D., et al. (2012) · Journal of Computational Biology · doi:10.1089/cmb.2012.0021 · Cited by 26,312
Robust enumeration of cell subsets from tissue expression profiles
Newman, A. M., Liu, C. L., Green, M. R., Gentles, A. J., Feng, W., Xu, Y., Hoang, C. D., Diehn, M., & Alizadeh, A. A. (2015) · Nature Methods · doi:10.1038/nmeth.3337 · Cited by 13,224
An obesity-associated gut microbiome with increased capacity for energy harvest
Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006) · Nature · doi:10.1038/nature05414 · Cited by 12,444
KEGG as a reference resource for gene and protein annotation
Kanehisa, M., Sato, Y., Kawashima, M., Furumichi, M., & Tanabe, M. (2016) · Nucleic Acids Research · doi:10.1093/nar/gkv1070 · Cited by 7,387
Role of the microbiota in immunity and inflammation.
Belkaid, Y., & Hand, T. W. (2014) · Cell · doi:10.1016/j.cell.2014.03.011 · Cited by 5,385
Cryan, J. F., O'Riordan, K. J., Cowan, C. S. M., Sandhu, K. V., Bastiaanssen, T. F. S., Boehme, M., Codagnone, M. G., Cussotto, S., Fulling, C., Golubeva, A. V., et al. (2019) · Physiological Reviews · doi:10.1152/physrev.00018.2018 · Cited by 5,286
Research works printed but not linked: 1
- Cheung, W., Bluth, M., Khan, S., Johns, C. & Bluth, M. Peripheral blood mononuclear cell gene array profiles in female patients with involuntary bladder contractions. Adv. Genomics Genet. 1, 3–7 (2011).
Cited by
Sorted by citations
Microbiota–gut–brain axis and its therapeutic applications in neurodegenerative diseases
Loh, J. S., Mak, W. Q., Tan, L. K. S., Ng, C. X., Chan, H. H., Yeow, S. H., Foo, J. B., Ong, Y. S., How, C. W., & Khaw, K. Y. (2024) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-024-01743-1 · Cited by 1,193
Fecal microbiota transplantation: current challenges and future landscapes
Yadegar, A., Bar‐Yoseph, H., Monaghan, T. M., Pakpour, S., Severino, A., Kuijper, E. J., Smits, W. K., Terveer, E. M., Neupane, S., Nabavi-Rad, A., et al. (2024) · Clinical Microbiology Reviews · doi:10.1128/cmr.00060-22 · Cited by 397
Colonic drug delivery: Formulating the next generation of colon-targeted therapeutics
McCoubrey, L. E., Favaron, A., Awad, A., Orlu, M., Gaisford, S., & Basit, A. W. (2022) · Journal of Controlled Release · doi:10.1016/j.jconrel.2022.12.029 · Cited by 252
Urinary tract infections: pathogenesis, host susceptibility and emerging therapeutics
Timm, M. R., Russell, S. K., & Hultgren, S. J. (2025) · Nature Reviews Microbiology · doi:10.1038/s41579-024-01092-4 · Cited by 190
Self-citationHuman microbiome myths and misconceptions
Walker, A. W., & Hoyles, L. (2023) · Nature Microbiology · doi:10.1038/s41564-023-01426-7 · Cited by 163
Metadata
- Authors
- Worby, C. J., Schreiber, H. L., Straub, T. J., van Dijk, L. R., Bronson, R. A., Olson, B. S., Pinkner, J. S., Obernuefemann, C. L. P., Muñoz, V. L., Paharik, A. E., Azimzadeh, P. N., Walker, B. J., Desjardins, C. A., Chou, W.-C., Bergeron, K., Chapman, S. B., Klim, A., Manson, A. L., Hannan, T. J., Hooton, T. M., Kau, A. L., Lai, H. H., Dodson, K. W., Hultgren, S. J., & Earl, A. M.
- Affiliations
- Broad Institute (US)
- California Institute of Technology (US)
- Washington University in St. Louis (US)
- University of Miami (US)
- Corresponding author
- Hultgren, Scott J.
- Earl, Ashlee M.
- ORCID
- Worby, Colin J.
- Schreiber, Henry L.
- Straub, Timothy J.
- van Dijk, Lucas R.
- Olson, Benjamin S.
- Pinkner, Jerome S.
- Paharik, Alexandra E.
- Azimzadeh, Philippe N.
- Desjardins, Christopher A.
- Chapman, Sinéad B.
- Manson, Abigail L.
- Hannan, Thomas J.
- Hooton, Thomas M.
- Kau, Andrew L.
- Lai, H. Henry
- Dodson, Karen W.
- Hultgren, Scott J.
- Earl, Ashlee M.
- Venue
- Nature Microbiology
- Published
- 2022-05-02
- Volume
- 7
- Issue
- 5
- Pages
- 630-639
- ISSN
- 2058-5276 (ISSN-L)
- PMC
- PMC9136705
- OpenAlex
- W4225388682
- Cited by
- 188
- References
- 64
- Citations by year
- 2026: 48 · 2025: 46 · 2024: 48 · 2023: 34 · 2022: 11
- FWCI
- 11.35
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Nature Microbiology (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- CaltechAUTHORS (California Institute of Technology) (submittedVersion)
- Funders
- U.S. Department of Health & Human Services | National Institutes of Health (U01AI095542)
- U.S. Department of Health & Human Services | NIH | National Institute of Allergy and Infectious Diseases (U19AI110818)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Medicine › Urology › Urinary Tract Infections Management
- Life Sciences › Immunology and Microbiology › Microbiology › Reproductive tract infections research
- Keywords
- recurrent urinary tract infection, gut dysbiosis, women, butyrate-producing bacteria, Escherichia coli, uropathogenic bacteria, peripheral blood mononuclear cells, systemic immunity, microbial richness, bladder colonization, multi-omics
- MeSH terms
- Gastrointestinal Microbiome, Escherichia coli, Escherichia coli Infections, Female, Humans, Leukocytes, Mononuclear, Male, Urinary Tract Infections, 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 ›
Are you an author, or do you see a problem with this page? Request a review