Evidence map›Paper›PMID 38230938›Full record

ArticleMicrobiology spectrum2024

Metabolic model predictions enable targeted microbiome manipulation through precision prebiotics.

Georgios Marinos, Inga K Hamerich, Reena Debray, Nancy Obeng, Carola Petersen, Jan Taubenheim, Johannes Zimmermann, Dana Blackburn, Buck S Samuel, Katja Dierking and 5 more

Abstract read
In one paragraph

Article in Microbiology spectrum, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
–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

14 citing papers in PubMed.

  1. Trial
  2. Article
  3. Article
  4. Article
  5. Review
  6. Review
  7. Review
  8. mSystems · 2025
    Article
  9. Article
  10. Metabolic modeling of host-microbe interactions.Computational and structural biotechnology journal · 2025
    Review
  11. Article
  12. Article
  13. Review
  14. Distinct members of thebioRxiv : the preprint server for biology · 2023
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors.

Georgios Marinos *Research Group Medical Systems Biology, University Hospital Schleswig-Holstein Campus Kiel, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-6443-7696
Inga K Hamerich *Research Group Evolutionary Ecology and Genetics, Zoological Institute, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-3451-4574
Reena DebrayDepartment of Integrative Biology, University of California, Berkeley, California, USA.ORCID 0000-0001-8130-4871
Nancy ObengResearch Group Evolutionary Ecology and Genetics, Zoological Institute, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0001-9639-2130
Carola PetersenResearch Group Evolutionary Ecology and Genetics, Zoological Institute, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-2164-6789
Jan TaubenheimResearch Group Medical Systems Biology, University Hospital Schleswig-Holstein Campus Kiel, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0001-7283-1768
Johannes ZimmermannResearch Group Medical Systems Biology, University Hospital Schleswig-Holstein Campus Kiel, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-5041-1954
Dana BlackburnAlkek Center for Metagenomics and Microbiome Research, Baylor College of Medicine, Houston, Texas, USA.ORCID 0000-0001-5153-3366
Buck S SamuelAlkek Center for Metagenomics and Microbiome Research, Baylor College of Medicine, Houston, Texas, USA.ORCID 0000-0002-4347-3997
Katja DierkingResearch Group Evolutionary Ecology and Genetics, Zoological Institute, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-5129-346X
Andre FrankeInstitute of Clinical Molecular Biology, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0003-1530-5811
Matthias LaudesInstitute of Diabetes and Clinical Metabolic Research, University Hospital Schleswig-Holstein Campus Kiel, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-7846-955X
Silvio WaschinaNutriinformatics, Institute for Human Nutrition and Food Science, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-6290-3593
Hinrich SchulenburgResearch Group Evolutionary Ecology and Genetics, Zoological Institute, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-1413-913X
Christoph KaletaResearch Group Medical Systems Biology, University Hospital Schleswig-Holstein Campus Kiel, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0001-8004-9514

Funding

Enhancing and expanding the CGC Strain CollectionP40OD010440 · OD · UNIVERSITY OF MINNESOTA · PI Aric L Daul, Ann E. Rougvie · 2012 to 2026
$7.5M
Microbial programming of host physiologyDP2DK116645 · NIDDK · BAYLOR COLLEGE OF MEDICINE · PI SAMUEL, BUCK SPARROW · 2017 to 2017
$2.4M
High-throughput functional analyses of the genetic drivers of Inflammatory Bowel DiseaseR01DK140907 · NIDDK · BAYLOR COLLEGE OF MEDICINE · PI SARAH E BLUTT, Buck Sparrow Samuel · 2024 to 2026
$701k
NIDDK NIH HHS DP2 DK116645NIDDK NIH HHS R01 DK140907NIH HHS P40 OD010440
6 · The paper itself

Abstract

While numerous health-beneficial interactions between host and microbiota have been identified, there is still a lack of targeted approaches for modulating these interactions. Thus, we here identify precision prebiotics that specifically modulate the abundance of a microbiome member species of interest. In the first step, we show that defining precision prebiotics by compounds that are only taken up by the target species but no other species in a community is usually not possible due to overlapping metabolic niches. Subsequently, we use metabolic modeling to identify precision prebiotics for a two-member

Indexed as

MicrobiotaPrebioticsPseudomonasAnimalsCaenorhabditis elegansHumansSerinePrebioticsSerineCaenorhabditis elegansflux balance analysisgenome-scale metabolic modelsnutritional supplementsOchrobactrum vermis MYb71Pseudomonas lurida MYb11serine

Identifiers

PMID38230938
PMCPMC10846184

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.