Combined metabolomic and metagenomic analysis reveals inflammatory bowel disease diversity in pediatric and adult patients - ORIGINAL ARTICLE - Basic Study

Sep 28, 2026

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BACKGROUND: The gut microbiota shows clear compositional differences between pediatric and adult populations, in both health and during inflammatory bowel disease (IBD) development. These structural shifts are linked to substantial changes in microbial metabolic activity. AIM: Identify novel early diagnostic biomarkers for IBD using integrated multi-omics, assessing community structure and microbial metabolic profiles in pediatric and adult cohorts with ulcerative colitis (UC) and Crohn’s disease (CD). METHODS: Two age groups with confirmed diagnoses underwent MinION™ 16S rRNA sequencing and stool metabolomic profiling by GC/MS.

LanguageEnglish

CategoryHealthcare

FormatPDF

Pages26

Reading Time1 h 6 min

AccessFree to download

Abstract

Background

Aim

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| W | J | G | World Journal of
Gastroenterology | | --- | --- | --- | --- | Submit a Manuscript: [https://www.f6publishing.com](https://www.f6publishing.com) World J Gastroenterol 2025 December 28; 31(48): 112653 DOI: 10.3748/wjg.v31.i48.112653 ISSN 1007-9327 (print) ISSN 2219-2840 (online) ORIGINAL ARTICLE Basic Study Combined metabolomic and metagenomic analysis reveals inflammatory bowel disease diversity in pediatric and adult patients Natalya B Zakharzhevskaya, Svetlana I Erdes, Elena A Belousova, Ivan S Samolygo, Marina A Manina, Polina V Kondrashova, Ekaterina Y Lomakina, Dmitry A Kardonsky, Elizaveta A Vorobyeva, Olga Y Shagaleeva, Artemiy A Silantyev, Victoriia D Kazakova, Daria A Kashatnikova, Tatiana N Kalachnuk, Irina V Kolesnikova, Andrey V Chaplin, Maria I Markelova, Tatiana V Grigoryeva, Evgenii I Olekhnovich, Vladimir A Veselovsky, Maxim D Morozov, Polina Y Zoruk, Daria I Boldyreva, Anna A Vanyushkina, Boris A Efimov Specialty type: Gastroenterology and hepatology Provenance and peer review: Unsolicited article; Externally peer reviewed. Peer-review model: Single blind Peer-review report’s classification Scientific Quality: Grade A, Grade C Novelty: Grade B, Grade B Creativity or Innovation: Grade B, Grade B Scientific Significance: Grade A, Grade B P-Reviewer: Alshimerry AF, PhD, Assistant Professor, Iraq; Li P, MD, PhD, Chief Physician, Director, Professor, Senior Researcher, China Received: August 4, 2025 Revised: September 9, 2025 Accepted: November 11, 2025 Published online: December 28, 2025 Processing time: 147 Days and 16.1 Hours Natalya B Zakharzhevskaya, Dmitry A Kardonsky, Elizaveta A Vorobyeva, Olga Y Shagaleeva, Artemiy A Silantyev, Victoriia D Kazakova, Daria A Kashatnikova, Irina V Kolesnikova, Vladimir AVeselovsky, Boris A Efimov, Department of Postgenomics, Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow 119435, Russia Svetlana I Erdes, Ivan S Samolygo, Marina A Manina, Department of Propaedeutics of Children’s Diseases, N.F. Filatov Clinical Institute of Children’s Health, I.M. Sechenov First Moscow State Medical University, Moscow 119435, Russia Elena A Belousova, Ekaterina Y Lomakina, Department of Gastroenterology, M.F. Vladimirskiy Moscow Regional Research and Clinical Institute, Moscow 129110, Russia Polina V Kondrashova, Department of Gastroenterology, Children’s City polyclinic No. 81 of the Moscow Department of Health, Moscow 117342, Russia Daria A Kashatnikova, The Laboratory of Ecological Genetics, Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow 119991, Russia Tatiana N Kalachnuk, Department of Gastroenterology, Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow 119435, Russia Andrey V Chaplin, Boris A Efimov, Department of Microbiology and Virology, Pirogov Russian National Research Medical University, Moscow 117997, Russia Maria I Markelova, Tatiana V Grigoryeva, Department of Proteomics, Institute of Fundamental Medicine and Biology, Kazan (Volga Region) Federal University, Kazan 420008, Russia Evgenii I Olekhnovich, Maxim D Morozov, Polina Y Zoruk, Daria I Boldyreva, Department of System Biology, Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow 119435, Russia Anna A Vanyushkina, Vladimir Zelman Center for Neurobiology and Brain Rehabilitation, Skolkovo Institute of Science and Technology, Moscow 121205, Russia WJG [https://www.wjgnet.com](https://www.wjgnet.com) 1 December 28, 2025 Volume 31 Issue 48 Zakharzhevskaya NB et al. Functional metabolomics of IBD in pediatric patients Corresponding author: Natalya B Zakharzhevskaya, PhD, Postdoc, Department of Postgenomics, Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biologic

FAQs

What is the main goal of the integrated multi-omics study?

To identify novel early diagnostic biomarkers for IBD by combining microbial community structure profiling with microbial metabolic activity profiling across pediatric and adult cohorts.

How were microbial community structure and metabolic activity measured?

16S rRNA gene sequencing was performed using the MinION™ Mk1B platform (MinKNOW software), and stool samples were analyzed using Shimadzu QP2010 Ultra GC/MS with a headspace extractor.

What biomarkers or microbial signatures were reported as potentially diagnostic?

Streptococcus salivarius and Escherichia coli were highlighted for assessing IBD risk in children, and five microbial signatures were identified with diagnostic potential for CD: Ralstonia insidiosa, Stenotrophomonas maltophilia, Erysipelatoclostridium ramosum, Blautia spp., and Coprococcus comes.

Sep 28, 2026

Uploaded by Stanley