Evidence map›Paper›PMID 40674481›Full record

Trial reportScience (New York, N.Y.)2025

Controlled colonization of the human gut with a genetically engineered microbial therapeutic.

Weston R Whitaker, Zachary N Russ, Elizabeth Stanley Shepherd, Lauren M Popov, Alexander Louie, Kathy Lam, David M Zong, Clare C C Gill, Jeanette L Gehrig, Harneet S Rishi and 14 more

Abstract readClinical Trial, Phase IClinical Trial, Phase II
In one paragraph

Trial report in Science (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
29citing 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

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

  1. Pooled it
  2. Genome-integrated engineering ofSynthetic and systems biotechnology · 2027
    Article
  3. Review
  4. Article
  5. Review
  6. Article
  7. Review
  8. Review
  9. Article
  10. Article
  11. Metabolic engineering ofbioRxiv : the preprint server for biology · 2026
    Article
  12. Review
  13. Harnessing gut microbiome enzymes:Microbiology spectrum · 2026
    Article
  14. Orally available designed miniproteins inhibit enterotoxigenicbioRxiv : the preprint server for biology · 2026
    Article
  15. Review
  16. Article
  17. Review
  18. Article
  19. Review
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

24 authors.

Weston R WhitakerNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0007-0093-7396
Zachary N RussNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0002-0571-8252
Elizabeth Stanley ShepherdNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0002-3386-5137
Lauren M PopovNovome Biotechnologies, South San Francisco, CA, USA.
Alexander LouieNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0003-5979-2006
Kathy LamNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0003-1543-0161
David M ZongNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0002-8157-4780
Clare C C GillNovome Biotechnologies, South San Francisco, CA, USA.
Jeanette L GehrigNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0001-8882-8897
Harneet S RishiNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0003-0636-764X
Jessica A TanNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0006-2872-6411
Areta BunessNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0005-3549-5132
Janeth GodoyNovome Biotechnologies, South San Francisco, CA, USA.
Domenique BantaNovome Biotechnologies, South San Francisco, CA, USA.
Sonia JaidkaNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0004-0747-1064
Katheryne WilsonNovome Biotechnologies, South San Francisco, CA, USA.
Jake FloodNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0003-0041-5794
Polina BukshpunNovome Biotechnologies, South San Francisco, CA, USA.
Richard YocumNovome Biotechnologies, South San Francisco, CA, USA.
David N CookNovome Biotechnologies, South San Francisco, CA, USA.
Tariq WarsiNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0002-9836-3135
Lachy McLeanNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0000-0001-9809-7063
Justin L SonnenburgDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0003-2299-6817
William C DeLoacheNovome Biotechnologies, South San Francisco, CA, USA.ORCID 0009-0000-3535-4421

Funding

Impact of Diet on Intestinal Microbiota-Host DynamicsR01DK085025 · NIDDK · STANFORD UNIVERSITY · PI JUSTIN L SONNENBURG · 2010 to 2026
$6.4M
NIDDK NIH HHS R01 DK085025
6 · The paper itself

Abstract

Precision microbiome programming for therapeutic applications is limited by challenges in achieving reproducible colonic colonization. Previously, we created an exclusive niche that we used to engraft engineered bacteria into diverse microbiota in mice by using a porphyran prebiotic. Building on this approach, we have now engineered conditional attenuation into a porphyran-utilizing strain of

Indexed as

BacteroidaceaeColonGastrointestinal MicrobiomeHyperoxaluriaKidney CalculiPolysaccharides, BacterialSepharoseAnimalsGenetic EngineeringHumansMiceOxalatesPrebioticsPromoter Regions, GeneticOxalatesPolysaccharides, BacterialporphyranPrebioticsSepharose

Identifiers

PMID40674481
PMCPMC13308544

What OpenQuestion holds

Textmetadata
LicenceTDM
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 OpenQuestion graph.