Evidence map›Paper›PMID 36824941›Full record

ArticlebioRxiv : the preprint server for biology2023

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 readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors.

Georgios MarinosResearch Group Medical Systems Biology, University Hospital Schleswig-Holstein Campus Kiel, Kiel University, Kiel, Schleswig-Holstein, Germany.ORCID 0000-0002-6443-7696
Inga K HamerichResearch 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 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
NIDDK NIH HHS DP2 DK116645NIH HHS P40 OD010440
6 · The paper itself

Abstract

The microbiome is increasingly receiving attention as an important modulator of host health and disease. However, while numerous mechanisms through which the microbiome influences its host have been identified, there is still a lack of approaches that allow to specifically modulate the abundance of individual microbes or microbial functions of interest. Moreover, current approaches for microbiome manipulation such as fecal transfers often entail a non-specific transfer of entire microbial communities with potentially unwanted side effects. To overcome this limitation, we here propose the concept of precision prebiotics that specifically modulate the abundance of a microbiome member species of interest. In a 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 present a metabolic modeling network framework that allows us to define precision prebiotics for a two-member

Indexed as

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

Identifiers

PMID36824941
PMCPMC9949166

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.