Microbial degradation of complex carbohydrates in the gut
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TLDR
The impact of dietary carbohydrates, including prebiotics, on human health requires understanding of the complex relationship between diet composition, the gut microbiota and metabolic outputs.Abstract:
Bacteria that colonize the mammalian intestine collectively possess a far larger repertoire of degradative enzymes and metabolic capabilities than their hosts. Microbial fermentation of complex non...read more
Citations
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Journal ArticleDOI
The gut microbiota, bacterial metabolites and colorectal cancer
TL;DR: The relationship between diet, microbial metabolism and CRC is discussed and it is argued that the cumulative effects of microbial metabolites should be considered in order to better predict and prevent cancer progression.
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The role of the gut microbiota in nutrition and health
TL;DR: The complex interplay between the gut microbiota, diet and health is considered and better definition of those dominant commensal bacteria, community profiles and system characteristics that produce stable gut communities beneficial to health is important.
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dbCAN2: a meta server for automated carbohydrate-active enzyme annotation
Han Zhang,Tanner Yohe,Le Huang,Sarah Entwistle,Peizhi Wu,Zhenglu Yang,Peter Kamp Busk,Ying Xu,Yanbin Yin +8 more
TL;DR: The dbCAN2 (http://cys.bios.niu.edu/dbCAN2) as mentioned in this paper is an updated meta server, which integrates three state-of-the-art tools for CAZome annotation: (i) HMMER search against the dbCAN HMM (hidden Markov model) database; (ii) DIAMOND search against CAZy pre-annotated CAZY sequence database and (iii) Hotpep search against conserved CAZys short peptide database.
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The Impact of Dietary Fiber on Gut Microbiota in Host Health and Disease.
TL;DR: This review will focus on dietary fibers, which interact directly with gut microbes and lead to the production of key metabolites such as short-chain fatty acids, and discuss how dietary fiber impacts gut microbial ecology, host physiology, and health.
Journal ArticleDOI
High-level adherence to a Mediterranean diet beneficially impacts the gut microbiota and associated metabolome.
Francesca De Filippis,Nicoletta Pellegrini,Lucia Vannini,Ian B. Jeffery,Antonietta La Storia,Luca Laghi,Diana Isabella Serrazanetti,Raffaella Di Cagno,Ilario Ferrocino,Camilla Lazzi,Silvia Turroni,Luca Simone Cocolin,Patrizia Brigidi,Erasmo Neviani,Marco Gobbetti,Paul W. O'Toole,Danilo Ercolini +16 more
TL;DR: High-level consumption of plant foodstuffs consistent with an MD is associated with beneficial microbiome-related metabolomic profiles in subjects ostensibly consuming a Western diet, as well as higher urinary trimethylamine oxide levels in individuals with lower adherence to the MD.
References
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An obesity-associated gut microbiome with increased capacity for energy harvest
Peter J. Turnbaugh,Ruth E. Ley,Michael A. Mahowald,Vincent Magrini,Elaine R. Mardis,Jeffrey I. Gordon +5 more
TL;DR: It is demonstrated through metagenomic and biochemical analyses that changes in the relative abundance of the Bacteroidetes and Firmicutes affect the metabolic potential of the mouse gut microbiota and indicates that the obese microbiome has an increased capacity to harvest energy from the diet.
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A human gut microbial gene catalogue established by metagenomic sequencing
Junjie Qin,Ruiqiang Li,Jeroen Raes,Manimozhiyan Arumugam,Kristoffer Sølvsten Burgdorf,Chaysavanh Manichanh,Trine Nielsen,Nicolas Pons,Florence Levenez,Takuji Yamada,Daniel R. Mende,Junhua Li,Junming Xu,Shaochuan Li,Dongfang Li,Jianjun Cao,Bo Wang,Huiqing Liang,Huisong Zheng,Yinlong Xie,Julien Tap,Patricia Lepage,Marcelo Bertalan,Jean-Michel Batto,Torben Hansen,Denis Le Paslier,Allan Linneberg,H. Bjørn Nielsen,Eric Pelletier,Pierre Renault,Thomas Sicheritz-Pontén,Keith Turner,Hongmei Zhu,Chang Yu,Shengting Li,Min Jian,Yan Zhou,Yingrui Li,Xiuqing Zhang,Songgang Li,Nan Qin,Huanming Yang,Jian Wang,Søren Brunak,Joël Doré,Francisco Guarner,Karsten Kristiansen,Oluf Pedersen,Julian Parkhill,Jean Weissenbach,Peer Bork,S. Dusko Ehrlich,Jun Wang +52 more
TL;DR: The Illumina-based metagenomic sequencing, assembly and characterization of 3.3 million non-redundant microbial genes, derived from 576.7 gigabases of sequence, from faecal samples of 124 European individuals are described, indicating that the entire cohort harbours between 1,000 and 1,150 prevalent bacterial species and each individual at least 160 such species.
Journal ArticleDOI
Dietary Modulation of the Human Colonic Microbiota: Introducing the Concept of Prebiotics
TL;DR: By combining the rationale of pro- and prebiotics, the concept of synbiotics is proposed to characterize some colonic foods with interesting nutritional properties that make these compounds candidates for classification as health-enhancing functional food ingredients.
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The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics
Brandi L. Cantarel,Pedro M. Coutinho,Corinne Rancurel,Thomas Bernard,Vincent Lombard,Bernard Henrissat +5 more
TL;DR: The Carbohydrate-Active Enzyme (CAZy) database is a knowledge-based resource specialized in the enzymes that build and breakdown complex carbohydrates and glycoconjugates and has been used to improve the quality of functional predictions of a number genome projects by providing expert annotation.
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