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©The Author(s) 2025. Published by Baishideng Publishing Group Inc. All rights reserved.
World J Gastroenterol. Dec 28, 2025; 31(48): 112653
Published online Dec 28, 2025. doi: 10.3748/wjg.v31.i48.112653
Published online Dec 28, 2025. doi: 10.3748/wjg.v31.i48.112653
Combined metabolomic and metagenomic analysis reveals inflammatory bowel disease diversity in pediatric and adult patients
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 A Veselovsky, 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 Sys
Anna A Vanyushkina, Vladimir Zelman Center for Neurobiology and Brain Rehabilitation, Skolkovo Institute of Science and Technology, Moscow 121205, Russia
Author contributions: Zakharzhevskaya NB, Erdes SI, Belousova ES, Lomakina EY, Kardonsky DA, Kalachnuk TN, and Efimov BA contributed to designing experiments; Samolygo IS, Manina MM, Kondrashova PV, Shagaleeva OY, Silantiev AS, Kazakova VD, Kashatnikova DA, Chaplin AV, Veselovsky VA, Morozov DM, Zoruk PY, Boldyreva DI, Vorobyeva EA, Markelova MI, Grigoryeva TV, Kolesnikova IV, Olekhnovich EI, and Vanyushkina AA contributed to performed the experiments; Vorobyeva EA, Markelova MI, Grigoryeva TV, Kolesnikova IV, Olekhnovich EI, and Vanyushkina AA contributed to analyzed the data; Zakharzhevskaya NB, Erdes SI, Belousova ES., Samolygo IS, and Kardonsky DA contributed to wrote the paper; Zakharzhevskaya NB, Belousova ES, and Efimov BA contributed to supervised the project.
Supported by the IBD-ONCO 25-27 Project, No. R&D 125030703327-1.
Institutional review board statement: All experimental procedures were approved by the local ethical committee of Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine, Moscow, Russian Federation, Russia. Informed consent was obtained from all subjects, No. 1-IBD/ONCO-2.09.2024.
Institutional animal care and use committee statement: The local ethical committee of Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine, Moscow, Russian Federation, hereby confirms that no animal experiments were conducted as part of the scientific and clinical study titled “Development of a Comprehensive Panel of Diagnostic Markers for Verification of Inflammatory and Oncological Bowel Diseases”, No. 2-IBD/ONCO-2.09.2024.
Conflict-of-interest statement: All the authors report no relevant conflicts of interest for this article.
Data sharing statement: The genome data supporting the findings of this study are openly available in the NCBI BioProject under accession ID: PRJNA1315228. The metabolome data supporting the findings of this study are openly available in the Mendeley database (Mendeley Data, V1, Available from: https://data.mendeley.com/datasets/f6vtf4gpcc/1) [DOI: 10.17632/f6vtf4gpcc.1].
Open Access: This article is an open-access article that was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution NonCommercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: https://creativecommons.org/Licenses/by-nc/4.0/
Corresponding author: Natalya B Zakharzhevskaya, PhD, Postdoc, Department of Postgenomics, Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Malaya Pirogovskaya, 1A, Moscow 119435, Russia.
Received: August 4, 2025
Revised: September 9, 2025
Accepted: November 11, 2025
Published online: December 28, 2025
Processing time: 147 Days and 17.8 Hours
Revised: September 9, 2025
Accepted: November 11, 2025
Published online: December 28, 2025
Processing time: 147 Days and 17.8 Hours
Core Tip
Core Tip: Functional metabolomics combines the ability to simultaneously assess the diversity of the microbiome and evaluate its secretory activity in the development of pathologies. In this study, a diagnostic rule was developed for children with inflammatory bowel disease that enables calculation of the risk of disease development. This rule, based on a set of me