Functional genetics of human gut commensal Bacteroides thetaiotaomicron reveals metabolic requirements for growth across environments
Hualan Liu,Anthony L. Shiver,Morgan N. Price,Hans K. Carlson,Valentine V. Trotter,Yan Chen,Veronica Escalante,Jayashree Ray,Kelsey E. Hern,Christopher J. Petzold,Peter J. Turnbaugh,Kerwyn Casey Huang,Adam P. Arkin,Adam P. Arkin,Adam M. Deutschbauer,Adam M. Deutschbauer +15 more
TLDR
In this article, the authors measured the growth of a barcoded transposon mutant library of the gut commensal Bacteroides thetaiotaomicron on 48 carbon sources, in the presence of 56 stress-inducing compounds, and during mono-colonization of gnotobiotic mice.About:
This article is published in Cell Reports.The article was published on 2021-03-02 and is currently open access. It has received 50 citations till now. The article focuses on the topics: Bacteroides thetaiotaomicron.read more
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Rapid ordering of barcoded transposon insertion libraries of anaerobic bacteria
Anthony L. Shiver,Rebecca N. Culver,Adam M. Deutschbauer,Adam M. Deutschbauer,Kerwyn Casey Huang +4 more
TL;DR: In this article, a protocol was developed to assemble ordered libraries of transposon insertion mutants that is fast, cheap and effective for even strict anaerobes by making use of cell sorting to order the library and barcoded transposons to facilitate the localization of ordered mutations.
Journal ArticleDOI
Quantifying rapid bacterial evolution and transmission within the mouse intestine.
Kimberly S. Vasquez,Lisa Willis,Nate Cira,Katharine M. Ng,Miguel F. Pedro,Andrés Aranda-Díaz,Manohary Rajendram,Feiqiao Brian Yu,Steven K. Higginbottom,Norma Neff,Gavin Sherlock,Karina B. Xavier,Stephen R. Quake,Justin L. Sonnenburg,Benjamin H. Good,Benjamin H. Good,Kerwyn Casey Huang +16 more
TL;DR: In this article, the authors introduced hundreds of barcoded Escherichia coli strains into germ-free mice and quantified strain-level dynamics and metagenomic changes, highlighting the interplay between environmental transmission and rapid, deterministic selection during evolution of the intestinal microbiota.
Journal ArticleDOI
Oregano Essential Oils Promote Rumen Digestive Ability by Modulating Epithelial Development and Microbiota Composition in Beef Cattle.
Rui Zhang,Jianping Wu,Yu Lei,Yunpeng Bai,Li Jia,Zemin Li,Ting Liu,Yangbin Xu,Jianxiang Sun,Ying Wang,Ke Zhang,Zhaomin Lei +11 more
TL;DR: In this article, the effects of oregano essential oils (OEO) on the rumen digestive ability using multi-omics sequencing techniques were explored, and it was found that OEO supplementation increased the ruminant digestive ability by modulating epithelial development and microbiota composition.
Journal ArticleDOI
The Intestinal Microbiota May Be a Potential Theranostic Tool for Personalized Medicine
Marina Di Domenico,Andrea Ballini,Mariarosaria Boccellino,Salvatore Scacco,Roberto Lovero,Ioannis Alexandros Charitos,Luigi Santacroce +6 more
TL;DR: The relationship between intestinal dysbiosis and pathologies is understood, through the research of resident microbiota, that would allow the personalization of the therapeutic antibiotic strategy.
Journal ArticleDOI
Genomics-Based Reconstruction and Predictive Profiling of Amino Acid Biosynthesis in the Human Gut Microbiome
TL;DR: The obtained reference collection of binary metabolic phenotypes was used for predictive metabolic profiling of HGM samples from several large metagenomic datasets and will be useful for prediction of overall metabolic properties, interactions, and responses of H GM microbiomes as a function of dietary variations, dysbiosis and other perturbations.
References
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Nutritional features of Bacteroides fragilis subsp. fragilis.
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Posted ContentDOI
Index switching causes “spreading-of-signal” among multiplexed samples in Illumina HiSeq 4000 DNA sequencing
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Jun Lin,Cédric Cagliero,Baoqing Guo,Yi-Wen Barton,Marie-Christine Maurel,Sophie Payot,Qijing Zhang +6 more
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Genetic determinants of in vivo fitness and diet responsiveness in multiple human gut Bacteroides
Meng Wu,Nathan P. McNulty,Dmitry A. Rodionov,Dmitry A. Rodionov,Matvei S. Khoroshkin,Nicholas W. Griffin,Jiye Cheng,Phil Latreille,Randall A. Kerstetter,Nicolas Terrapon,Bernard Henrissat,Bernard Henrissat,Andrei L. Osterman,Jeffrey I. Gordon +13 more
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Biochemistry of complex glycan depolymerisation by the human gut microbiota.
Didier Ndeh,Harry J. Gilbert +1 more
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