Evidence map›Paper›PMID 38185226›Full record

ReviewMethods (San Diego, Calif.)2024

Microbiome metabolite quantification methods enabling insights into human health and disease.

Jarrod Roach, Rohit Mital, Jacob J Haffner, Nathan Colwell, Randy Coats, Horvey M Palacios, Zongyuan Liu, Joseane L P Godinho, Monica Ness, Thilini Peramuna and 1 more

Open access · hybridAbstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Methods (San Diego, Calif.), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed, 1 pooled it
5.6field-weighted citation impact, top 3% of its field
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

16 citing papers in PubMed, 1 synthesis or guideline pooled it, 24 citations in OpenAlex.

  1. Impacts of Lifestyle and Microbiota-Targeted Interventions for Overweight and Obesity on the Human Gut Microbiome: A Systematic Review.Obesity reviews : an official journal of the International Association for the Study of Obesity · 2026
    Pooled it
  2. Review
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  7. Article
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  9. Fermentative valorisation of agri-food residues: optimisation ofFrontiers in bioengineering and biotechnology · 2026
    Article
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  13. Host-Microbiome Interaction in the Intensive Care Unit.Diseases (Basel, Switzerland) · 2025
    Review
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  15. Review
  16. AI in microbiome-related healthcare.Microbial biotechnology · 2024
    Review
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

11 authors at 2 institutions in 1 country.

Jarrod RoachDepartment of Chemistry and Biochemistry, University of Oklahoma.
Rohit MitalDepartment of Biology, University of Oklahoma.
Jacob J HaffnerDepartment of Anthropology, University of Oklahoma; Laboratories of Molecular Anthropology and Microbiome Research, University of Oklahoma.
Nathan ColwellDepartment of Chemistry and Biochemistry, University of Oklahoma.
Randy CoatsDepartment of Chemistry and Biochemistry, University of Oklahoma.
Horvey M PalaciosDepartment of Anthropology, University of Oklahoma; Laboratories of Molecular Anthropology and Microbiome Research, University of Oklahoma.
Zongyuan LiuDepartment of Chemistry and Biochemistry, University of Oklahoma.
Joseane L P GodinhoDepartment of Chemistry and Biochemistry, University of Oklahoma.
Monica NessDepartment of Chemistry and Biochemistry, University of Oklahoma.
Thilini PeramunaDepartment of Chemistry and Biochemistry, University of Oklahoma.
Laura-Isobel McCallDepartment of Chemistry and Biochemistry, University of Oklahoma; Laboratories of Molecular Anthropology and Microbiome Research, University of Oklahoma; Department of Chemistry and Biochemistry, San Diego State University. Electronic address: LMCCALL@SDSU.EDU.
University of Oklahoma · USSan Diego State University · US

Funding

An LCMS-guided bioanalytical approach for rational natural product library design and optimizationR01GM145649 · NIGMS · UNIVERSITY OF OKLAHOMA · PI CICHEWICZ, ROBERT HENRY, MCCALL, LAURA-ISOBEL · 2022 to 2025
$1.2M
NIGMS NIH HHS R01 GM145649
6 · The paper itself

Abstract

Many of the health-associated impacts of the microbiome are mediated by its chemical activity, producing and modifying small molecules (metabolites). Thus, microbiome metabolite quantification has a central role in efforts to elucidate and measure microbiome function. In this review, we cover general considerations when designing experiments to quantify microbiome metabolites, including sample preparation, data acquisition and data processing, since these are critical to downstream data quality. We then discuss data analysis and experimental steps to demonstrate that a given metabolite feature is of microbial origin. We further discuss techniques used to quantify common microbial metabolites, including short-chain fatty acids (SCFA), secondary bile acids (BAs), tryptophan derivatives, N-acyl amides and trimethylamine N-oxide (TMAO). Lastly, we conclude with challenges and future directions for the field.

Indexed as

Gastrointestinal MicrobiomeMicrobiotaFatty Acids, VolatileHumansMethylaminesFatty Acids, VolatileMethylaminesBile acidsData processingInstrumental methodsMass spectrometryMicrobiome metabolite quantificationShort-chain fatty acids

Identifiers

PMID38185226
PMCPMC11932151
OpenAlexW4390618256

What Socratic 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 Socratic graph.