Journal ArticleDOI
Immunoglobulin A Targets a Unique Subset of the Microbiota in Inflammatory Bowel Disease.
Jason Shapiro,Jason Shapiro,Marcel R. de Zoete,Noah W. Palm,Yaro Laenen,Rene Bright,Meaghan Mallette,Kevin Bu,Agata A. Bielecka,Fang Xu,Andrés Hurtado-Lorenzo,Samir A. Shah,Samir A. Shah,Judy H. Cho,Neal S. Leleiko,Neal S. Leleiko,Bruce E. Sands,Richard A. Flavell,Jose C. Clemente +18 more
TLDR
Using bacterial fluorescence-activated cell sorting coupled with 16S rRNA gene sequencing (IgA-SEQ), this paper profiled IgA coating of intestinal microbiota in a large cohort of inflammatory bowel disease (IBD) patients and identified bacteria associated with disease and treatment.About:
This article is published in Cell Host & Microbe.The article was published on 2021-01-13. It has received 37 citations till now. The article focuses on the topics: Dysbiosis & Immunoglobulin A.read more
Citations
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Journal ArticleDOI
Diversity and dynamism of IgA-microbiota interactions.
TL;DR: IgA mediates microbial homeostasis at the intestinal mucosa within the gut, IgA acts in a context-dependent manner to both prevent and promote bacterial colonization and to influence bacterial gene expression, thus providing exquisite control of the microbiota as discussed by the authors.
Journal ArticleDOI
The Gut Microbiota in Inflammatory Bowel Disease
TL;DR: The role of gut microbiota in the pathogenesis of IBD is highlighted and provides a theoretical basis for the personalized approaches that modulate the gut microbiota to treat IBD.
Journal ArticleDOI
Microbiota-antibody interactions that regulate gut homeostasis
Allison M. Weis,June L. Round +1 more
TL;DR: In this article, the interaction between immunoglobulin A (IgA) and the microbiota promotes homeostasis with the host to prevent disease, and the authors focus on how the interaction can promote the host's ability to prevent infection.
Journal ArticleDOI
Metagenomics: a path to understanding the gut microbiome.
Sandi Yen,Jethro S. Johnson +1 more
TL;DR: A review of current bioinformatic strategies for handling metagenomic sequence data and discuss their strengths and limitations can be found in this article, where the authors also discuss key technological developments that have the potential to once again revolutionise the way we are able to view and hence understand the microbiome.
Journal ArticleDOI
Roles of Secretory Immunoglobulin A in Host-Microbiota Interactions in the Gut Ecosystem
Evelyn Leon,M. Pilar Francino +1 more
TL;DR: The different ways in which SIgA behaves in relation to pathogens and beneficial bacteria of the gut microbiota are discussed and how the immune system might protect and facilitate the establishment and maintenance of certain gut symbionts is discussed.
References
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Book
ggplot2: Elegant Graphics for Data Analysis
TL;DR: This book describes ggplot2, a new data visualization package for R that uses the insights from Leland Wilkisons Grammar of Graphics to create a powerful and flexible system for creating data graphics.
Journal ArticleDOI
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
Journal ArticleDOI
A new method for non-parametric multivariate analysis of variance
TL;DR: In this article, a non-parametric method for multivariate analysis of variance, based on sums of squared distances, is proposed. But it is not suitable for most ecological multivariate data sets.
Journal ArticleDOI
Metagenomic biomarker discovery and explanation
Nicola Segata,Jacques Izard,Jacques Izard,Levi Waldron,Dirk Gevers,Larisa Miropolsky,Wendy S. Garrett,Curtis Huttenhower +7 more
TL;DR: A new method for metagenomic biomarker discovery is described and validates by way of class comparison, tests of biological consistency and effect size estimation to address the challenge of finding organisms, genes, or pathways that consistently explain the differences between two or more microbial communities.
Journal ArticleDOI
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
J. Gregory Caporaso,Christian L. Lauber,William A. Walters,Donna Berg-Lyons,James Huntley,Noah Fierer,Noah Fierer,Sarah M. Owens,Jason Betley,Louise Fraser,Markus J. Bauer,Niall Anthony Gormley,Jack A. Gilbert,Jack A. Gilbert,Geoff Smith,Rob Knight +15 more
TL;DR: It is shown that the protocol developed for these instruments successfully recaptures known biological results, and additionally that biological conclusions are consistent across sequencing platforms (the HiSeq2000 versus the MiSeq) and across the sequenced regions of amplicons.