دورية أكاديمية
A metagenomics pipeline reveals insertion sequence-driven evolution of the microbiota.
| العنوان: | A metagenomics pipeline reveals insertion sequence-driven evolution of the microbiota. |
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| المؤلفون: | Kirsch JM; Department of Immunology and Microbiology, University of Colorado Anschutz Medical Campus, School of Medicine, Aurora, CO 80045, USA., Hryckowian AJ; Department of Medicine, Division of Gastroenterology and Hepatology, University of Wisconsin School of Medicine and Public Health, Madison, WI 53706, USA; Department of Medical Microbiology & Immunology, University of Wisconsin School of Medicine and Public Health, Madison, WI 53706, USA., Duerkop BA; Department of Immunology and Microbiology, University of Colorado Anschutz Medical Campus, School of Medicine, Aurora, CO 80045, USA. Electronic address: breck.duerkop@cuanschutz.edu. |
| المصدر: | Cell host & microbe [Cell Host Microbe] 2024 May 08; Vol. 32 (5), pp. 739-754.e4. Date of Electronic Publication: 2024 Apr 01. |
| نوع المنشور: | Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: Cell Press Country of Publication: United States NLM ID: 101302316 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1934-6069 (Electronic) Linking ISSN: 19313128 NLM ISO Abbreviation: Cell Host Microbe Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: Cambridge, Mass. : Cell Press |
| مواضيع طبية MeSH: | Metagenomics*/methods , DNA Transposable Elements*/genetics, Humans ; Bacteroides/genetics ; Evolution, Molecular ; Genome, Bacterial ; Microbiota/genetics ; Gastrointestinal Microbiome/genetics ; Bacteria/genetics ; Bacteria/classification |
| مستخلص: | Insertion sequence (IS) elements are mobile genetic elements in bacterial genomes that support adaptation. We developed a database of IS elements coupled to a computational pipeline that identifies IS element insertions in the microbiota. We discovered that diverse IS elements insert into the genomes of intestinal bacteria regardless of human host lifestyle. These insertions target bacterial accessory genes that aid in their adaptation to unique environmental conditions. Using IS expansion in Bacteroides, we show that IS activity leads to the insertion of "hot spots" in accessory genes. We show that IS insertions are stable and can be transferred between humans. Extreme environmental perturbations force IS elements to fall out of the microbiota, and many fail to rebound following homeostasis. Our work shows that IS elements drive bacterial genome diversification within the microbiota and establishes a framework for understanding how strain-level variation within the microbiota impacts human health. Competing Interests: Declaration of interests B.A.D. is a co-founder and shareholder of Ancilia Biosciences. (Copyright © 2024 Elsevier Inc. All rights reserved.) |
| التعليقات: | Update of: bioRxiv. 2024 Mar 09;:. (PMID: 37873088) |
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| معلومات مُعتمدة: | F31 AI169976 United States AI NIAID NIH HHS; R01 AI141479 United States AI NIAID NIH HHS; R35 GM150996 United States GM NIGMS NIH HHS; T32 AI052066 United States AI NIAID NIH HHS |
| فهرسة مساهمة: | Keywords: Bacteroides; IS elements; bacterial genome evolution; bacteriophage; metagenomics; microbiota; transposons |
| المشرفين على المادة: | 0 (DNA Transposable Elements) |
| تواريخ الأحداث: | Date Created: 20240402 Date Completed: 20240509 Latest Revision: 20240511 |
| رمز التحديث: | 20240511 |
| مُعرف محوري في PubMed: | PMC11081829 |
| DOI: | 10.1016/j.chom.2024.03.005 |
| PMID: | 38565143 |
| قاعدة البيانات: | MEDLINE |
| تدمد: | 1934-6069 |
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| DOI: | 10.1016/j.chom.2024.03.005 |