Evidence map›Paper›PMID 41427586›Full record

ArticleGut microbes2026

Miniature bioreactor arrays for modeling functional and structural dysbiosis in inflammatory bowel disease.

Kira L Newman, Alexandra K Standke, Gabrielle James, Kimberly C Vendrov, Naohiro Inohara, Ingrid L Bergin, Peter D R Higgins, Krishna Rao, Vincent B Young, Nobuhiko Kamada

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Gut microbes, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Gut microbes · 2026
    Article
  3. Article
  4. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Kira L NewmanDivision of Gastroenterology and Hepatology, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.ORCID 0000-0002-8279-1111
Alexandra K StandkeDivision of Infectious Disease, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Gabrielle JamesDivision of Gastroenterology and Hepatology, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Kimberly C VendrovDivision of Infectious Disease, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Naohiro InoharaDepartment of Pathology, University of Michigan, Ann Arbor, USA.
Ingrid L BerginThe Unit for Laboratory Animal Medicine, University of Michigan Medical, Ann Arbor, Michigan, USA.
Peter D R HigginsDivision of Gastroenterology and Hepatology, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Krishna RaoDivision of Infectious Disease, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Vincent B YoungDivision of Infectious Disease, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.
Nobuhiko KamadaDivision of Gastroenterology and Hepatology, Department of Internal Medicine, University of Michigan, Ann Arbor, USA.ORCID 0000-0002-1980-4178

Funding

Systems biology of Clostridium difficile infectionU01AI124255 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SCHLOSS, PATRICK DAVID, YOUNG, VINCENT B · 2016 to 2020
$9.8M
The role of IL-1ß-inducing pathobionts in the pathogenesis of Crohn’s diseaseR01DK108901 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Nobuhiko Kamada · 2017 to 2026
$3.8M
The microbiome and aging in Clostridioides difficile infectionR01AI162787 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI YOUNG, VINCENT B, YUNG, RAYMOND L · 2022 to 2025
$3.0M
The link between oral bacteria and gut diseaseR01DK119219 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI KAMADA, NOBUHIKO · 2019 to 2022
$1.6M
Bacterial, Viral, and Host Interactions in the Pathogenesis of Inflammatory Bowel DiseaseF32DK134043 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI NEWMAN, KIRA · 2022 to 2022
$81k
NIAID NIH HHS R01 AI162787NIAID NIH HHS U01 AI124255NIDDK NIH HHS F32 DK134043NIDDK NIH HHS R01 DK108901NIDDK NIH HHS R01 DK119219
6 · The paper itself

Abstract

Alterations in the gut microbiota, known as gut dysbiosis, are associated with inflammatory bowel disease (IBD). There is a need for model systems that can recapitulate the IBD gut microbiome to better understand the mechanistic impact of differences in microbiota composition and its functional consequences in a controlled laboratory setting. To this end, we introduced fecal samples from patients with Crohn's disease (CD) and ulcerative colitis (UC), as well as from healthy control subjects, to miniature bioreactor arrays (MBRAs) and analyzed the microbial communities over time. We then performed two functional assessments. First, we evaluated the colitogenic potential of the CD microbiotas in genetically susceptible germ-free IL-10-deficient mice and found that colitogenic capacity was preserved in a bioreactor-cultivated CD microbiota. Second, we tested impaired colonization resistance against

Indexed as

BioreactorsDysbiosisGastrointestinal MicrobiomeInflammatory Bowel DiseasesAnimalsBacteriaClostridioides difficileColitis, UlcerativeCrohn DiseaseDisease Models, AnimalFecesFemaleHumansInterleukin-10MaleMiceInterleukin-10dysbiosisGut microbiotainflammatory bowel diseaseminiature bioreactor array

Identifiers

PMID41427586
PMCPMC12810045

What Socratic holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.