Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease
We present an overview of recent experimental and computational advances in technology used to characterize the microbiome, with a focus on how these developments improve our understanding of inflammatory bowel disease (IBD). Specifically, we present studies that make use of flow cytometry and metab...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2022-12-01
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| Series: | Gut Microbes |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/19490976.2022.2107866 |
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| author | Alba Boix-Amorós Hilary Monaco Elisa Sambataro Jose C. Clemente |
| author_facet | Alba Boix-Amorós Hilary Monaco Elisa Sambataro Jose C. Clemente |
| author_sort | Alba Boix-Amorós |
| collection | DOAJ |
| description | We present an overview of recent experimental and computational advances in technology used to characterize the microbiome, with a focus on how these developments improve our understanding of inflammatory bowel disease (IBD). Specifically, we present studies that make use of flow cytometry and metabolomics assays to provide a functional characterization of microbial communities. We also describe computational methods for strain-level resolution, temporal series, mycobiome and virome data, co-occurrence networks, and compositional data analysis. In addition, we review novel techniques to therapeutically manipulate the microbiome in IBD. We discuss the benefits and drawbacks of these technologies to increase awareness of specific biases, and to facilitate a more rigorous interpretation of results and their potential clinical application. Finally, we present future lines of research to better characterize the relation between microbial communities and IBD pathogenesis and progression. |
| format | Article |
| id | doaj-art-21afbe4334b64401a30f214dc7e53e3a |
| institution | OA Journals |
| issn | 1949-0976 1949-0984 |
| language | English |
| publishDate | 2022-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Gut Microbes |
| spelling | doaj-art-21afbe4334b64401a30f214dc7e53e3a2025-08-20T02:29:56ZengTaylor & Francis GroupGut Microbes1949-09761949-09842022-12-0114110.1080/19490976.2022.2107866Novel technologies to characterize and engineer the microbiome in inflammatory bowel diseaseAlba Boix-Amorós0Hilary Monaco1Elisa Sambataro2Jose C. Clemente3Department of Genetics and Genomic Sciences, Precision Immunology Institute, Icahn School of Medicine at Mount Sinai. New York, NY, USADepartment of Genetics and Genomic Sciences, Precision Immunology Institute, Icahn School of Medicine at Mount Sinai. New York, NY, USADepartment of Biological Sciences, CUNY Hunter College, New York, NY, USADepartment of Genetics and Genomic Sciences, Precision Immunology Institute, Icahn School of Medicine at Mount Sinai. New York, NY, USAWe present an overview of recent experimental and computational advances in technology used to characterize the microbiome, with a focus on how these developments improve our understanding of inflammatory bowel disease (IBD). Specifically, we present studies that make use of flow cytometry and metabolomics assays to provide a functional characterization of microbial communities. We also describe computational methods for strain-level resolution, temporal series, mycobiome and virome data, co-occurrence networks, and compositional data analysis. In addition, we review novel techniques to therapeutically manipulate the microbiome in IBD. We discuss the benefits and drawbacks of these technologies to increase awareness of specific biases, and to facilitate a more rigorous interpretation of results and their potential clinical application. Finally, we present future lines of research to better characterize the relation between microbial communities and IBD pathogenesis and progression.https://www.tandfonline.com/doi/10.1080/19490976.2022.2107866microbiomeIBDtechnologyflow cytometrymetabolomicsnetworks |
| spellingShingle | Alba Boix-Amorós Hilary Monaco Elisa Sambataro Jose C. Clemente Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease Gut Microbes microbiome IBD technology flow cytometry metabolomics networks |
| title | Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| title_full | Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| title_fullStr | Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| title_full_unstemmed | Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| title_short | Novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| title_sort | novel technologies to characterize and engineer the microbiome in inflammatory bowel disease |
| topic | microbiome IBD technology flow cytometry metabolomics networks |
| url | https://www.tandfonline.com/doi/10.1080/19490976.2022.2107866 |
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