{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,14]],"date-time":"2026-07-14T12:10:43Z","timestamp":1784031043264,"version":"3.55.0"},"reference-count":42,"publisher":"Walter de Gruyter GmbH","issue":"2","license":[{"start":{"date-parts":[[2024,4,1]],"date-time":"2024-04-01T00:00:00Z","timestamp":1711929600000},"content-version":"unspecified","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Narodowym Centrum Nauki","award":["SONATA Bis7 - 2017\/26\/E\/NZ5\/00266"],"award-info":[{"award-number":["SONATA Bis7 - 2017\/26\/E\/NZ5\/00266"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Benef. Microbes"],"published-print":{"date-parts":[[2024,4,23]]},"abstract":"<jats:title>Abstract<\/jats:title>\n<jats:p>The changing of microbiome could precede the development of coeliac disease (CeD). We compared the bacterial profile of microbiota of tissues collected simultaneously from the stomach and duodenum in newly diagnosed patients with CeD. Biopsies were collected from 60 children and adolescents aged 2-18 years: (1) 40 patients with CeD; (2) 20 children as control group. The evaluation of the bacterial microbiota was carried out by sequencing the V3-V4 regions of the 16S rRNA subunit, using next-generation sequencing (NGS). The composition of bacterial microbiota was correlated with clinical and blood parameters. The beta diversity analysis revealed a significant dissimilarity in the gastric samples between the CeD and control group (Bray-Curtis index, <jats:italic>P<\/jats:italic>\u00a0= 0.008, and weighted UniFrac distance, <jats:italic>P<\/jats:italic>\u00a0= 0.024). At L2 (phylum level), <jats:italic>Campylobacterota<\/jats:italic> was only present in the stomach of the CeD group. A comparison of the abundance of bacteria between the stomach and duodenum showed significant differences in 10 OTUs (operational taxonomic units) in the control and 9 OTUs in the CeD group at L6 (genus) and in 8 OTUs and in 6 OTUs, respectively, at L7 (species). A significant correlation was observed between the genus <jats:italic>Novosphingobium<\/jats:italic> in stomach of CeD group and possession of the DQ2.5 and DQ 8 allele, and in the duodenum\u00a0\u2013 between the DQ 8 allele and the species <jats:italic>Blautia wexlerae<\/jats:italic>. Significant differences in selected, little-known genera of bacteria suggest their potential role as new biomarkers in the development of CeD. To fully understand the mechanism of CeD development in genetically predisposed individuals, it is necessary to take into account not only the abundance of a given genus or species of bacteria, but also the anatomical location of its occurrence.<\/jats:p>","DOI":"10.1163\/18762891-bja00009","type":"journal-article","created":{"date-parts":[[2024,4,23]],"date-time":"2024-04-23T09:25:58Z","timestamp":1713864358000},"page":"165-177","source":"Crossref","is-referenced-by-count":4,"title":["Are there new biomarkers of the gastroduodenal microbiota useful in the diagnosis of coeliac disease in children? A pilot study"],"prefix":"10.1163","volume":"15","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5974-5520","authenticated-orcid":true,"given":"D.","family":"Salamon","sequence":"first","affiliation":[{"name":"Department of Molecular Medical Microbiology, Division of Microbiology, Faculty of Medicine, https:\/\/dx.doi.org\/49573Jagiellonian University Medical College, ul. Czysta 18, 31-121 Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4648-0949","authenticated-orcid":true,"given":"K.","family":"Kowalska-Duplaga","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, Gastroenterology and Nutrition, Faculty of Medicine, https:\/\/dx.doi.org\/49573Jagiellonian University Medical College, ul. Wielicka 265, 30-663 Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9719-9663","authenticated-orcid":true,"given":"A.","family":"Krawczyk","sequence":"additional","affiliation":[{"name":"Department of Molecular Medical Microbiology, Division of Microbiology, Faculty of Medicine, https:\/\/dx.doi.org\/49573Jagiellonian University Medical College, ul. Czysta 18, 31-121 Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6963-8414","authenticated-orcid":true,"given":"M.","family":"Duplaga","sequence":"additional","affiliation":[{"name":"Department of Health Promotion and e-Health, Institute of Public Health, Faculty of Health Sciences, https:\/\/dx.doi.org\/49573Jagiellonian University Medical College, ul. Skawin\u0301ska 8, 31-066 Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5979-144X","authenticated-orcid":true,"given":"A.","family":"Gurgul","sequence":"additional","affiliation":[{"name":"Center for Experimental and Innovative Medicine, https:\/\/dx.doi.org\/49563University of Agriculture in Krakow, ul. Re\u0328dzina 1c, 30-248, Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4725-5943","authenticated-orcid":true,"given":"T.","family":"Gosiewski","sequence":"additional","affiliation":[{"name":"Microbiome Research Laboratory, Department of Molecular Medical Microbiology, Division of Microbiology, Faculty of Medicine, https:\/\/dx.doi.org\/49573Jagiellonian University Medical College, ul. Czysta 18, 31-121 Krakow, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"374","reference":[{"key":"R000001","series-title":"Frontiers in Microbiology","article-title":"A comprehensive map of microbial biomarkers along the gastrointestinal tract for celiac disease patients","volume":"13","author":"Arcila-Galvis, J.E.","unstructured":"Arcila-Galvis, J.E., Loria-Kohen, V., Ram\u0131\u0301rez de\u00a0Molina, A., Carrillo de\u00a0Santa Pau, E. and Marcos-Zambrano, L.J., 2022. A comprehensive map of microbial biomarkers along the gastrointestinal tract for celiac disease patients. Frontiers in Microbiology 13: 956119. https:\/\/doi.org\/10.3389\/fmicb.2022.956119"},{"key":"R000002","series-title":"Turkey Gastroenterology Review","first-page":"49","article-title":"Relationship between Helicobacter pylori infection and celiac disease: a cross-sectional study and a brief review of the literature","volume":"12","author":"Basyigit, S.","unstructured":"Basyigit, S., Unsal, O., Uzman, M., Sapmaz, F., Dogan, O.C., Kefeli, A., Asilturk, Z., Yeniova, A.O. and Nazligul, Y., 2017. Relationship between Helicobacter pylori infection and celiac disease: a cross-sectional study and a brief review of the literature. Turkey Gastroenterology Review 12: 49-54. https:\/\/doi.org\/10.5114\/pg.2017.65681"},{"key":"R000003","series-title":"MSystems","article-title":"Depletion of Blautia species in the microbiota of obese children relates to intestinal inflammation and metabolic phenotype worsening","volume":"5","author":"Ben\u0131\u0301tez-Pa\u0301ez, A.","unstructured":"Ben\u0131\u0301tez-Pa\u0301ez, A., Go\u0301mez del\u00a0Pugar, E.M., Lo\u0301pez-Almela, I., Moya-Pe\u0301rez, A\u0301., Codon\u0303er-Franch, P. and Sanz, Y., 2020. Depletion of Blautia species in the microbiota of obese children relates to intestinal inflammation and metabolic phenotype worsening. MSystems 5: e00857-19. https:\/\/doi.org\/10.1128\/msystems.00857-19"},{"key":"R000004","series-title":"Nature Biotechnology","first-page":"852","article-title":"Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2","volume":"37","author":"Bolyen, E.","unstructured":"Bolyen, E., Rideout, J.R., Dillon, M.R., Bokulich, N.A., Abnet, C.C., Al-Ghalith, G.A., Alexander, H., Alm, E.J., Arumugam, M., Asnicar, F., Bai, Y., Bisanz, J.E., Bittinger, K., Brejnrod, A., Brislawn, C.J., Brown, C.T., Callahan, B.J., Caraballo-Rodr\u0131\u0301guez, A.M., Chase, J., Cope, E.K., Da Silva, R., Diener, C., Dorrestein, P.C., Douglas, G.M., Durall, D.M., Duvallet, C., Edwardson, C.F., Ernst, M., Estaki, M., Fouquier, J., Gauglitz, J.M., Gibbons, S.M., Gibson, D.L., Gonzalez, A., Gorlick, K., Guo, J., Hillmann, B., Holmes, S., Holste, H., Huttenhower, C., Huttley, G.A., Janssen, S., Jarmusch, A.K., Jiang, L., Kaehler, B.D., Kang, K.B., Keefe, C.R., Keim, P., Kelley, S.T., Knights, D., Koester, I., Kosciolek, T., Kreps, J., Langille, M.G.I., Lee, J., Ley, R., Liu, Y.X., Loftfield, E., Lozupone, C., Maher, M., Marotz, C., Martin, B.D., McDonald, D., McIver, L.J., Melnik, A.V., Metcalf, J.L., Morgan, S.C., Morton, J.T., Naimey, A.T., Navas-Molina, J.A., Nothias, L.F., Orchanian, S.B., Pearson, T., Peoples, S.L., Petras, D., Preuss, M.L., Pruesse, E., Rasmussen, L.B., Rivers, A., Robeson, M.S., Rosenthal, P., Segata, N., Shaffer, M., Shiffer, A., Sinha, R., Song, S.J., Spear, J.R., Swafford, A.D., Thompson, L.R., Torres, P.J., Trinh, P., Tripathi, A., Turnbaugh, P.J., Ul-Hasan, S., van\u00a0der Hooft, J.J.J., Vargas, F., Va\u0301zquez-Baeza, Y., Vogtmann, E., von Hippel, M., Walters, W., Wan, Y., Wang, M., Warren, J., Weber, K.C., Williamson, C.H.D., Willis, A.D., Xu, Z.Z., Zaneveld, J.R., Zhang, Y., Zhu, Q., Knight, R. and Caporaso, J.G., 2019. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology 37: 852-857. https:\/\/doi.org\/10.1038\/s41587-019-0209-9"},{"key":"R000005","series-title":"Nature Methods","first-page":"581","article-title":"DADA2: high-resolution sample inference from illumina amplicon data","volume":"13","author":"Callahan, B.J.","unstructured":"Callahan, B.J., McMurdie, P.J., Rosen, M.J., Han, A.W., Johnson, A.J.A. and Holmes, S.P., 2016. DADA2: high-resolution sample inference from illumina amplicon data. Nature Methods 13: 581-583. https:\/\/doi.org\/10.1038\/nmeth.3869"},{"key":"R000006","series-title":"Enzyme Research","article-title":"Enzymatic strategies to detoxify gluten: implications for celiac disease","volume":"2010","author":"Caputo, I.","unstructured":"Caputo, I., Lepretti, M., Martucciello, S. and Esposito, C., 2010. Enzymatic strategies to detoxify gluten: implications for celiac disease. Enzyme Research 2010: 174354. https:\/\/doi.org\/10.4061\/2010\/174354"},{"key":"R000007","series-title":"The Lancet","first-page":"2413","article-title":"Coeliac disease","volume":"399","author":"Catassi, C.","unstructured":"Catassi, C., Verdu, E.F., Bai, J.C. and Lionetti, E., 2022. Coeliac disease. The Lancet 399: 2413-2426. https:\/\/doi.org\/10.1016\/S0140-6736(22)00794-2"},{"key":"R000008","series-title":"Gastroenterology","first-page":"1351","article-title":"Biogeographic variation and functional pathways of the gut microbiota in celiac disease","volume":"163","author":"Constante, M.","unstructured":"Constante, M., Libertucci, J., Galipeau, H.J., Szamosi, J.C., Rueda, G., Miranda, P.M., Pinto-Sanchez, M.I., Southward, C.M., Rossi, L., Fontes, M.E., Chirdo, F.G., Surette, M.G., Bercik, P., Caminero, A. and Verdu, E.F., 2022. Biogeographic variation and functional pathways of the gut microbiota in celiac disease. 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International Journal of Food Microbiology 239: 125-132. https:\/\/doi.org\/10.1016\/j.ijfoodmicro.2016.07.025"},{"key":"R000010","series-title":"Nucleic Acids Research","first-page":"W180","article-title":"MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data","volume":"45","author":"Dhariwal, A.","unstructured":"Dhariwal, A., Chong, J., Habib, S., King, I.L., Agellon, L.B. and Xia, J., 2017. MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data. Nucleic Acids Research 45: W180-W188. https:\/\/doi.org\/10.1093\/nar\/gkx295"},{"key":"R000011","series-title":"BMJ Open","article-title":"Antibiotic-induced changes in the human gut microbiota for the most commonly prescribed antibiotics in primary care in the UK: a systematic review","volume":"10","author":"Elvers, K.T.","unstructured":"Elvers, K.T., Wilson, V.J., Hammond, A., Duncan, L., Huntley, A.L., Hay, A.D. and van\u00a0der Werf, E.T., 2020. Antibiotic-induced changes in the human gut microbiota for the most commonly prescribed antibiotics in primary care in the UK: a systematic review. BMJ Open 10: e035677. https:\/\/doi.org\/10.1136\/bmjopen-2019-035677"},{"key":"R000012","series-title":"PLoS ONE","article-title":"Cohort profile: celiac disease genomic, environmental, microbiome and metabolome study; a prospective longitudinal birth cohort study of children at-risk for celiac disease","volume":"18","author":"Fasano, A.","unstructured":"Fasano, A., Leonard, M.M., Kenyon, V., Valitutti, F., Pennacchio-Harrington, R., Piemontese, P., Francavilla, R., Norsa, L., Passaro, T., Crocco, M., Baldassarre, M. and Trovato, C.M., 2023. Cohort profile: celiac disease genomic, environmental, microbiome and metabolome study; a prospective longitudinal birth cohort study of children at-risk for celiac disease. PLoS ONE 18: e282739. https:\/\/doi.org\/10.1371\/journal.pone.0282739"},{"key":"R000013","series-title":"Frontiers in Microbiology","article-title":"Characterization of the \u2018gut microbiota-immunity axis\u2019 and microbial lipid metabolites in atrophic and potential celiac disease","volume":"13","author":"Federica, R.","unstructured":"Federica, R., Edda, R., Daniela, R., Simone, B., Giulia, N., Gabriele, L., Marta, M., Marco, P., Gianluca, B., Elena, N., Matteo, C., Serena, S., Matteo, R., Amedeo, A. and Salvatore, C.A., 2022. Characterization of the \u2018gut microbiota-immunity axis\u2019 and microbial lipid metabolites in atrophic and potential celiac disease. 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A low-gluten diet induces changes in the intestinal microbiome of healthy Danish adults. Nature Communications 9: 4630. https:\/\/doi.org\/10.1038\/s41467-018-07019-x"},{"key":"R000016","series-title":"Nature Communications","article-title":"Oral administration of Blautia wexlerae ameliorates obesity and type 2 diabetes via metabolic remodeling of the gut microbiota","volume":"13","author":"Hosomi, K.","unstructured":"Hosomi, K., Saito, M., Park, J., Murakami, H., Shibata, N., Ando, M., Nagatake, T., Konishi, K., Ohno, H., Tanisawa, K., Mohsen, A., Chen, Y.A., Kawashima, H., Natsume-Kitatani, Y., Oka, Y., Shimizu, H., Furuta, M., Tojima, Y., Sawane, K., Saika, A., Kondo, S., Yonejima, Y., Takeyama, H., Matsutani, A., Mizuguchi, K., Miyachi, M. and Kunisawa, J., 2022. Oral administration of Blautia wexlerae ameliorates obesity and type 2 diabetes via metabolic remodeling of the gut microbiota. 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Expert Review of Gastroenterology and Hepatology 10: 555-556. https:\/\/doi.org\/10.1586\/17474124.2016.1166954"},{"key":"R000021","series-title":"Proceedings of the National Academy of Sciences of the USA","article-title":"Microbiome signatures of progression toward celiac disease onset in at-risk children in a longitudinal prospective cohort study","volume":"118","author":"Leonard, M.M.","unstructured":"Leonard, M.M., Valitutti, F., Karathia, H., Pujolassos, M., Kenyon, V., Fanelli, B., Troisi, J., Subramanian, P., Camhi, S., Colucci, A., Serena, G., Cucchiara, S., Trovato, C.M., Malamisura, B., Francavilla, R., Elli, L., Hasan, N.A., Zomorrodi, A.R., Colwell, R. and Fasano, A., 2021. Microbiome signatures of progression toward celiac disease onset in at-risk children in a longitudinal prospective cohort study. Proceedings of the National Academy of Sciences of the USA 118: e2020322118. https:\/\/doi.org\/10.1073\/pnas.2020322118"},{"key":"R000022","series-title":"Journal of International Medical Research","article-title":"Using intestinal flora to distinguish non-alcoholic steatohepatitis from non-alcoholic fatty liver","volume":"48","author":"Li, C.","unstructured":"Li, C., Cui, L., Wang, X., Yan, Z., Wang, S. and Zheng, Y., 2020. Using intestinal flora to distinguish non-alcoholic steatohepatitis from non-alcoholic fatty liver. Journal of International Medical Research 48. https:\/\/doi.org\/10.1177\/0300060520978122"},{"key":"R000023","series-title":"Gut Microbes","first-page":"1","article-title":"Blautia\u00a0\u2013 a new functional genus with potential probiotic properties?","volume":"13","author":"Liu, X.","unstructured":"Liu, X., Mao, B., Gu, J., Wu, J., Cui, S., Wang, G., Zhao, J., Zhang, H. and Chen, W., 2021. Blautia\u00a0\u2013 a new functional genus with potential probiotic properties? Gut Microbes 13: 1-21, 1875796, https:\/\/doi.org\/10.1080\/19490976.2021.1875796"},{"key":"R000024","series-title":"Systematic and Applied Microbiology","article-title":"Comparative genomic analysis of the genus Novosphingobium and the description of two novel species Novosphingobium aerophilum sp. nov. and Novosphingobium jiangmenense sp. nov","volume":"44","author":"Liu, Y.","unstructured":"Liu, Y., Pei, T., Du, J., Huang, H., Deng, M.R. and Zhu, H., 2021. Comparative genomic analysis of the genus Novosphingobium and the description of two novel species Novosphingobium aerophilum sp. nov. and Novosphingobium jiangmenense sp. nov. Systematic and Applied Microbiology 44: 126202. https:\/\/doi.org\/10.1016\/j.syapm.2021.126202"},{"key":"R000025","series-title":"Nature Communications","article-title":"Gut microbiota Turicibacter strains differentially modify bile acids and host lipids","volume":"14","author":"Lynch, J.B.","unstructured":"Lynch, J.B., Gonzalez, E.L., Choy, K., Faull, K.F., Jewell, T., Arellano, A., Liang, J., Yu, K.B., Paramo, J. and Hsiao, E.Y., 2023. Gut microbiota Turicibacter strains differentially modify bile acids and host lipids. Nature Communications 14: 3669. https:\/\/doi.org\/10.1038\/s41467-023-39403-7"},{"key":"R000026","series-title":"Frontiers in Molecular Biosciences","article-title":"Adhesion of Helicobacter species to the human gastric mucosa: a deep look into glycans role","volume":"8","author":"Matos, R.","unstructured":"Matos, R., Amorim, I., Magalha\u0303es, A., Haesebrouck, F., G\u00e4rtner, F. and Reis, C.A., 2021. Adhesion of Helicobacter species to the human gastric mucosa: a deep look into glycans role. Frontiers in Molecular Biosciences 8: 656439. https:\/\/doi.org\/10.3389\/fmolb.2021.656439"},{"key":"R000027","series-title":"Frontiers in Microbiology","article-title":"Insights on the evolutionary genomics of the Blautia genus: potential new species and genetic content among lineages","volume":"12","author":"Maturana, J.L.","unstructured":"Maturana, J.L. and Ca\u0301rdenas, J.P., 2021. Insights on the evolutionary genomics of the Blautia genus: potential new species and genetic content among lineages. Frontiers in Microbiology 12: 660920. https:\/\/doi.org\/10.3389\/fmicb.2021.660920"},{"key":"R000028","series-title":"Expert Review of Clinical Immunology","article-title":"Autoimmune disease triggered by infection with alphaproteobacteria","author":"Mohammed, J.P.","unstructured":"Mohammed, J.P. and Mattner, J., 2009. Autoimmune disease triggered by infection with alphaproteobacteria. 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