{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,28]],"date-time":"2026-09-28T13:00:05Z","timestamp":1790600405425,"version":"4.1.0"},"reference-count":35,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T00:00:00Z","timestamp":1788480000000},"content-version":"vor","delay-in-days":246,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","award":["SE 2059\/7-2"],"award-info":[{"award-number":["SE 2059\/7-2"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,1,14]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Myo-inositol (MI) is a dietary cyclitol and phytate hydrolysis product whose microbial fate in poultry is poorly understood. We combined 13C-labelled MI, metaproteomic stable-isotope probing (SIP), untargeted metaproteomics, and 13C-nuclear magnetic resonance metabolomics to map MI utilization by anaerobic bacterial enrichment cultures established from ileal and caecal digesta of laying hens. This integrative approach enables activity-resolved tracking of carbon flow from substrate to proteins and fermentation end products within a complex anaerobic community. We reconstructed, for the first time, a community-resolved pathway of MI degradation in the chicken gut, linking labelled metabolites to taxon-specific protein synthesis. MI metabolism was spatially structured, with rapid and sustained utilization in the caeca and delayed, host-variable activity in the ileum. Metaproteomic-SIP identified Megamonas as a dominant MI-assimilating genus in the caeca and implicated Gallibacterium as a previously unrecognized contributor in the ileum. Despite minimal shifts in community composition inferred from metaproteomics, protein expression profiles changed markedly, indicating that functional responses to MI occurred independently of taxonomic restructuring. Pathway reconstruction, supported by labelled and unlabelled proteins and labelled metabolite dynamics, revealed conversion of MI into central metabolic intermediates and short-chain fatty acids (SCFAs), providing a mechanistic framework for microbial MI utilization. Together, these findings establish stable isotope probing multi-omics as a powerful strategy for reconstructing metabolic pathways in complex microbiomes and demonstrate the metabolic potential of chicken gut-derived microbial communities to utilize MI under controlled anaerobic enrichment conditions.<\/jats:p>","DOI":"10.1093\/ismeco\/ycag257","type":"journal-article","created":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T11:33:54Z","timestamp":1788521634000},"source":"Crossref","is-referenced-by-count":0,"title":["Multi-omic stable isotope probing reveals\n                    <i>myo<\/i>\n                    -inositol metabolism by anaerobic gut bacteria in laying hens"],"prefix":"10.1093","volume":"6","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-1651-6485","authenticated-orcid":false,"given":"Harshita","family":"Naithani","sequence":"first","affiliation":[{"name":"Institute of Animal Science, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]},{"name":"HoLMiR - Hohenheim Center for Livestock Microbiome Research, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Johannes","family":"G\u00fcnther","sequence":"additional","affiliation":[{"name":"Core Facility Spectroscopy, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6180-2179","authenticated-orcid":false,"given":"Timur","family":"Yergaliyev","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]},{"name":"HoLMiR - Hohenheim Center for Livestock Microbiome Research, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7814-6569","authenticated-orcid":false,"given":"Am\u00e9lia","family":"Camarinha-Silva","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]},{"name":"HoLMiR - Hohenheim Center for Livestock Microbiome Research, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7690-8539","authenticated-orcid":false,"given":"Jana","family":"Seifert","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]},{"name":"HoLMiR - Hohenheim Center for Livestock Microbiome Research, University of Hohenheim , 70599 Stuttgart ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,9,4]]},"reference":[{"key":"2026092808260249700_ref1","doi-asserted-by":"publisher","first-page":"893","DOI":"10.1016\/j.psj.2019.10.014","article-title":"Myo-inositol: its metabolism and potential implications for poultry nutrition\u2014a review","volume":"99","author":"Gonzalez-Uarquin","year":"2020","journal-title":"Poult Sci"},{"key":"2026092808260249700_ref2","doi-asserted-by":"publisher","first-page":"4641","DOI":"10.1038\/s41598-021-84169-x","article-title":"Interrelationship of myo-inositol pathways with systemic metabolic conditions in two strains of high-performance laying hens during their productive life span","volume":"11","author":"Gonzalez-Uarquin","year":"2021","journal-title":"Sci Rep"},{"key":"2026092808260249700_ref3","doi-asserted-by":"publisher","first-page":"1706565","DOI":"10.3389\/fphys.2025.1706565","article-title":"In ovo myo-inositol administration: impacts on growth performance and metabolic profiles in broiler chickens","volume":"16","author":"Shomina","year":"2025","journal-title":"Front Physiol"},{"key":"2026092808260249700_ref4","doi-asserted-by":"publisher","first-page":"104545","DOI":"10.1016\/j.psj.2024.104545","article-title":"Effects of myo-inositol supplementation in the diet on myo-inositol concentrations in the intestine, blood, eggs, and excreta of laying hens","volume":"104","author":"Sommerfeld","year":"2025","journal-title":"Poult Sci"},{"key":"2026092808260249700_ref5","doi-asserted-by":"publisher","first-page":"44","DOI":"10.1186\/s40168-025-02313-5","article-title":"A culturomics approach reveals cross-feeding capacity of intestinal pig bacteria upon release of inositol from phytate","volume":"14","author":"Paul","year":"2026","journal-title":"Microbiome"},{"key":"2026092808260249700_ref6","doi-asserted-by":"publisher","first-page":"1338","DOI":"10.1136\/gutjnl-2025-336617","article-title":"Novel myo-inositol to butyrate fermentation pathway in the prevalent human gut species Dysosmobacter welbionis, a bacterium associated with improved metabolic and liver health","volume":"75","author":"Lee","year":"2026","journal-title":"Gut"},{"key":"2026092808260249700_ref7","doi-asserted-by":"publisher","first-page":"2564765","DOI":"10.1080\/19490976.2025.2564765","article-title":"Metabolism of inositol derivatives by the gut microbiome","volume":"17","author":"Jessen","year":"2025","journal-title":"Gut Microbes"},{"key":"2026092808260249700_ref8","doi-asserted-by":"publisher","first-page":"1016","DOI":"10.1094\/MPMI.2001.14.8.1016","article-title":"Investigation of myo-inositol catabolism in Rhizobium leguminosarum bv. 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