Journal ArticleDOI
Reclassification of Clostridium difficile as Clostridioides difficile (Hall and O'Toole 1935) Prévot 1938.
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TLDR
Based on phenotypic, chemotaxonomic and phylogenetic analyses, novel genus Clostridioides gen. nov. is proposed for Clastridium difficile as Clostidioides difficILE gen. comb.About:
This article is published in Anaerobe.The article was published on 2016-08-01. It has received 440 citations till now. The article focuses on the topics: Clostridium difficile & Clostridium.read more
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The First Microbial Colonizers of the Human Gut: Composition, Activities, and Health Implications of the Infant Gut Microbiota
Christian Milani,Sabrina Duranti,Francesca Bottacini,Eoghan Casey,Francesca Turroni,Jennifer Mahony,Clara Belzer,Susana Delgado Palacio,Silvia Arboleya Montes,Leonardo Mancabelli,Gabriele Andrea Lugli,Juan M. Rodríguez,Lars Bode,Willem M. de Vos,Willem M. de Vos,Miguel Gueimonde,Abelardo Margolles,Douwe van Sinderen,Marco Ventura +18 more
TL;DR: The infant microbiota, the mechanisms that drive its establishment and composition, and how microbial consortia may be molded by natural or artificial interventions are described and the relevance of key microbial players of the infant gut microbiota, in particular bifidobacteria, with respect to their role in health and disease are discussed.
Journal ArticleDOI
COG database update: focus on microbial diversity, model organisms, and widespread pathogens.
Michael Y. Galperin,Yuri I. Wolf,Kira S. Makarova,Roberto Vera Alvarez,David Landsman,Eugene V. Koonin +5 more
TL;DR: The Clusters of Orthologous Genes (COG) database, created in 1997 and went through several rounds of updates, most recently, in 2014, substantially expands the scope of the database to include complete genomes of 1187 bacteria and 122 archaea, typically, with a single genome per genus.
Journal ArticleDOI
Clostridium difficile infection: review.
Jacek Czepiel,Mirosław Dróżdż,Hanna Pituch,Ed J. Kuijper,William Perucki,Aleksandra Mielimonka,Sarah Goldman,Dorota Wultańska,Aleksander Garlicki,Grażyna Biesiada +9 more
TL;DR: The goal of this review is to update physicians on current scientific knowledge of C. difficile infection, focusing also on fecal microbiota transplantation which is a promising therapy.
Journal ArticleDOI
The use of faecal microbiota transplant as treatment for recurrent or refractory Clostridium difficile infection and other potential indications: joint British Society of Gastroenterology (BSG) and Healthcare Infection Society (HIS) guidelines
Benjamin H. Mullish,Mohammed Nabil Quraishi,Jonathan Segal,Victoria L McCune,Melissa Baxter,Gemma L Marsden,David Moore,A. Colville,Neeraj Bhala,Tariq Iqbal,Christopher Settle,Graziella Kontkowski,Ailsa Hart,Peter M Hawkey,Simon D. Goldenberg,Horace R T Williams +15 more
TL;DR: This guideline document is the culmination of a joint dialogue between the British Society of Gastroenterology and Healthcare Infection Society and a joint BSG/HIS FMT working group and reflects an emerging evidence base regarding potential applications in non-CDI settings.
Journal ArticleDOI
Cell Wall Hydrolases in Bacteria: Insight on the Diversity of Cell Wall Amidases, Glycosidases and Peptidases Toward Peptidoglycan.
Aurore Vermassen,Sabine Leroy,Régine Talon,Christian Provot,Magdalena Popowska,Mickaël Desvaux +5 more
TL;DR: It is stressed that the CWHs frequently display a modular architecture combining multiple and/or different catalytic domains, including some lytic transglycosylases as well as CW binding domains, in bacterial cells.
References
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The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Naruya Saitou,Masatoshi Nei +1 more
TL;DR: The neighbor-joining method and Sattath and Tversky's method are shown to be generally better than the other methods for reconstructing phylogenetic trees from evolutionary distance data.
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TL;DR: The recently‐developed statistical method known as the “bootstrap” can be used to place confidence intervals on phylogenies and shows significant evidence for a group if it is defined by three or more characters.
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MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets
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A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences.
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Journal ArticleDOI
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
Pablo Yarza,Pelin Yilmaz,Elmar Pruesse,Frank Oliver Glöckner,Wolfgang Ludwig,Karl-Heinz Schleifer,William B. Whitman,Jean Euzeby,Rudolf Amann,Ramon Rosselló-Móra +9 more
TL;DR: This article proposes rational taxonomic boundaries for high taxa of bacteria and archaea on the basis of 16S rRNA gene sequence identities and suggests a rationale for the circumscription of uncultured taxa that is compatible with the taxonomy of cultured bacteria and Archaea.
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