Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans

[1]  Michael J. Barratt,et al.  Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans , 2022, Cell.

[2]  Michael J. Barratt,et al.  An approach for evaluating the effects of dietary fiber polysaccharides on the human gut microbiome and plasma proteome , 2022, Proceedings of the National Academy of Sciences of the United States of America.

[3]  D. Barreca,et al.  The Second Life of Citrus Fruit Waste: A Valuable Source of Bioactive Compounds , 2021, Molecules.

[4]  Jared L. Johnson,et al.  Dietary fructose improves intestinal cell survival and nutrient absorption , 2021, Nature.

[5]  Xiaochen Bo,et al.  clusterProfiler 4.0: A universal enrichment tool for interpreting omics data , 2021, Innovation.

[6]  Michael J. Barratt,et al.  Evaluating microbiome-directed fibre snacks in gnotobiotic mice and humans , 2021, Nature.

[7]  R. Tundis,et al.  Citrus species: Modern functional food and nutraceutical-based product ingredient , 2021, Italian Journal of Food Science.

[8]  J. Gordon,et al.  Microbiota functional activity biosensors for characterizing nutrient metabolism in vivo , 2021, eLife.

[9]  Z. Wawrzak,et al.  Degradation of complex arabinoxylans by human colonic Bacteroidetes , 2021, Nature Communications.

[10]  B. Henrissat,et al.  Interspecies Competition Impacts Targeted Manipulation of Human Gut Bacteria by Fiber-Derived Glycans , 2019, Cell.

[11]  B. Vervliet,et al.  The role of short-chain fatty acids in microbiota–gut–brain communication , 2019, Nature Reviews Gastroenterology & Hepatology.

[12]  B. Henrissat,et al.  Intrinsic dynamic behavior of enzyme:substrate complexes govern the catalytic action of β-galactosidases across clan GH-A , 2019, Scientific Reports.

[13]  Michael J. Barratt,et al.  Effects of microbiota-directed foods in gnotobiotic animals and undernourished children , 2019, Science.

[14]  J. Crawford,et al.  A Forward Chemical Genetic Screen Reveals Gut Microbiota Metabolites That Modulate Host Physiology , 2019, Cell.

[15]  Yu Lin,et al.  Assembly of long, error-prone reads using repeat graphs , 2018, Nature Biotechnology.

[16]  Yu Zhang,et al.  Comparative Analysis of Hydrophilic Ingredients in Toad Skin and Toad Venom Using the UHPLC-HR-MS/MS and UPLC-QqQ-MS/MS Methods Together with the Anti-Inflammatory Evaluation of Indolealkylamines , 2018, Molecules.

[17]  J. Vadivelu,et al.  A review of natural polysaccharides for drug delivery applications: Special focus on cellulose, starch and glycogen. , 2018, Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie.

[18]  S. M. Zimbone,et al.  Valorisation of citrus processing waste: A review. , 2018, Waste management.

[19]  M. Omary,et al.  The hepatic BMAL1/AKT/lipogenesis axis protects against alcoholic liver disease in mice via promoting PPARα pathway , 2018, Hepatology.

[20]  Behzad Satari,et al.  Citrus processing wastes: environmental impacts, recent advances, and future perspectives in total valorization. , 2018 .

[21]  Xiaoyuan Chen,et al.  Polysaccharide‐Based Controlled Release Systems for Therapeutics Delivery and Tissue Engineering: From Bench to Bedside , 2018, Advanced science.

[22]  Vincent Lombard,et al.  PULDB: the expanded database of Polysaccharide Utilization Loci , 2017, Nucleic Acids Res..

[23]  M. Cho,et al.  Citrus waste derived nutra-/pharmaceuticals for health benefits: Current trends and future perspectives , 2018 .

[24]  A. Aggarwal,et al.  The Circadian Clock Regulates Adipogenesis by a Per3 Crosstalk Pathway to Klf15. , 2017, Cell reports.

[25]  B. Henrissat,et al.  Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides , 2017, Nature Microbiology.

[26]  G. Williamson,et al.  Role of the small intestine, colon and microbiota in determining the metabolic fate of polyphenols , 2017, Biochemical pharmacology.

[27]  M. Kubo,et al.  The intestinal microbiota regulates body composition through NFIL3 and the circadian clock , 2017, Science.

[28]  Louis J. Cohen,et al.  Commensal bacteria produce GPCR ligands that mimic human signaling molecules , 2017, Nature.

[29]  Kate Voss,et al.  Full-stack genomics pipelining with GATK4 + WDL + Cromwell , 2017 .

[30]  Youcai Zhao,et al.  Environmental challenges impeding the composting of biodegradable municipal solid waste: a critical review. , 2017 .

[31]  E. Capuano.  The behavior of dietary fiber in the gastrointestinal tract determines its physiological effect , 2017, Critical reviews in food science and nutrition.

[32]  Michael J. Barratt,et al.  The effects of micronutrient deficiencies on bacterial species from the human gut microbiota , 2017, Science Translational Medicine.

[33]  A. Guadarrama,et al.  Dynamic gastrointestinal digestion of grape pomace extracts: Bioaccessible phenolic metabolites and impact on human gut microbiota , 2017 .

[34]  M. Dall’Asta,et al.  Bioaccessibility of (poly)phenolic compounds of raw and cooked cardoon (Cynara cardunculus L.) after simulated gastrointestinal digestion and fermentation by human colonic microbiota , 2017 .

[35]  B. Henrissat,et al.  Complex pectin metabolism by gut bacteria reveals novel catalytic functions , 2017, Nature.

[36]  Y. R. Lee,et al.  Converting citrus wastes into value-added products: Economic and environmently friendly approaches. , 2017, Nutrition.

[37]  Christopher A. Voigt,et al.  Discovery of Reactive Microbiota-Derived Metabolites that Inhibit Host Proteases , 2017, Cell.

[38]  Fabin Dang,et al.  Insulin post-transcriptionally modulates Bmal1 protein to affect the hepatic circadian clock , 2016, Nature Communications.

[39]  Kristian Fog Nielsen,et al.  Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking , 2016, Nature Biotechnology.

[40]  L. P. da Silva,et al.  Dietary fibre: The scientific search for an ideal definition and methodology of analysis, and its physiological importance as a carrier of bioactive compounds. , 2016, Food research international.

[41]  Rainer Spang,et al.  Adjusting microbiome profiles for differences in microbial load by spike-in bacteria , 2016, Microbiome.

[42]  Paul J. McMurdie,et al.  DADA2: High resolution sample inference from Illumina amplicon data , 2016, Nature Methods.

[43]  A. Margolles,et al.  Intestinal Short Chain Fatty Acids and their Link with Diet and Human Health , 2016, Front. Microbiol..

[44]  F. Pirozzi,et al.  Effect of the concentration of essential oil on orange peel waste biomethanization: Preliminary batch results. , 2016, Waste management.

[45]  L. Eliasson,et al.  Serotonin (5-HT) receptor 2b activation augments glucose-stimulated insulin secretion in human and mouse islets of Langerhans , 2016, Diabetologia.

[46]  R. Haque,et al.  Regulators of Gut Motility Revealed by a Gnotobiotic Model of Diet-Microbiome Interactions Related to Travel , 2015, Cell.

[47]  D. Moore,et al.  Circadian Dysfunction Induces Leptin Resistance in Mice. , 2015, Cell metabolism.

[48]  A. Giovane,et al.  Serotonin 5-O-β-Glucoside and Its N-Methylated Forms in Citrus Genus Plants. , 2015, Journal of agricultural and food chemistry.

[49]  F. Rey,et al.  Intestinal Microbiota Composition Modulates Choline Bioavailability from Diet and Accumulation of the Proatherogenic Metabolite Trimethylamine-N-Oxide , 2015, mBio.

[50]  Vincent Lombard,et al.  Automatic prediction of polysaccharide utilization loci in Bacteroidetes species , 2015, Bioinform..

[51]  Fangfang Xia,et al.  RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes , 2015, Scientific Reports.

[52]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[53]  Torsten Seemann,et al.  Prokka: rapid prokaryotic genome annotation , 2014, Bioinform..

[54]  L. Bello‐Pérez,et al.  Dietary fiber and phenolic compounds as functional ingredients: interaction and possible effect after ingestion. , 2014, Food & function.

[55]  J. Faith,et al.  Identifying Gut Microbe–Host Phenotype Relationships Using Combinatorial Communities in Gnotobiotic Mice , 2014, Science Translational Medicine.

[56]  Fangfang Xia,et al.  The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST) , 2013, Nucleic Acids Res..

[57]  Wei Shi,et al.  featureCounts: an efficient general purpose program for assigning sequence reads to genomic features , 2013, Bioinform..

[58]  Adam Godzik,et al.  Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks , 2013, BMC Genomics.

[59]  Joseph S. Takahashi,et al.  TH17 Cell Differentiation Is Regulated by the Circadian Clock , 2013, Science.

[60]  S. Parkar,et al.  Fecal microbial metabolism of polyphenols and its effects on human gut microbiota. , 2013, Anaerobe.

[61]  J. Clemente,et al.  Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice , 2013, Science.

[62]  Barbara M. Bakker,et al.  The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism , 2013, Journal of Lipid Research.

[63]  J. Montani,et al.  PER2 promotes glucose storage to liver glycogen during feeding and acute fasting by inducing Gys2 PTG and G L expression. , 2013, Molecular metabolism.

[64]  Bernard Henrissat,et al.  Effects of Diet on Resource Utilization by a Model Human Gut Microbiota Containing Bacteroides cellulosilyticus WH2, a Symbiont with an Extensive Glycobiome , 2013, PLoS biology.

[65]  W. Shi,et al.  The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote , 2013, Nucleic acids research.

[66]  Thomas R. Gingeras,et al.  STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..

[67]  B. Henrissat,et al.  Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5) , 2012, BMC Evolutionary Biology.

[68]  Guangchuang Yu,et al.  clusterProfiler: an R package for comparing biological themes among gene clusters. , 2012, Omics : a journal of integrative biology.

[69]  R. T. Patil,et al.  Dietary fibre in foods: a review , 2012, Journal of Food Science and Technology.

[70]  J. Kieswich,et al.  A Novel Mechanism for Regulating Hepatic Glycogen Synthesis Involving Serotonin and Cyclin-Dependent Kinase-5 , 2011, Diabetes.

[71]  Brian J. Bennett,et al.  Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease , 2011, Nature.

[72]  I. Brownlee.  The physiological roles of dietary fibre , 2011 .

[73]  K. Yamamoto,et al.  Circadian Rhythm Gene Period 3 Is an Inhibitor of the Adipocyte Cell Fate* , 2011, The Journal of Biological Chemistry.

[74]  Jesús Fernando Ayala-Zavala,et al.  The Role of Dietary Fiber in the Bioaccessibility and Bioavailability of Fruit and Vegetable Antioxidants , 2011, Journal of food science.

[75]  Andrew C. Adey,et al.  Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition , 2010, Genome Biology.

[76]  Masaki Ohno,et al.  Isolation of N,N-Dimethyl and N-Methylserotonin 5-O-β-Glucosides from Immature Zanthoxylum piperitum Seeds , 2010, Bioscience, biotechnology, and biochemistry.

[77]  William A. Walters,et al.  QIIME allows analysis of high-throughput community sequencing data , 2010, Nature Methods.

[78]  W. Hoogerwerf,et al.  Rhythmic changes in colonic motility are regulated by period genes. , 2010, American journal of physiology. Gastrointestinal and liver physiology.

[79]  David J.A. Jenkins,et al.  The link between dietary fibre and human health , 2010 .

[80]  J. Bolton,et al.  In vitro serotonergic activity of black cohosh and identification of N(omega)-methylserotonin as a potential active constituent. , 2008, Journal of agricultural and food chemistry.

[81]  Rick L. Stevens,et al.  The RAST Server: Rapid Annotations using Subsystems Technology , 2008, BMC Genomics.

[82]  Gunter Schumann,et al.  The clock gene Per2 influences the glutamatergic system and modulates alcohol consumption , 2005, Nature Medicine.

[83]  Satchidananda Panda,et al.  BMAL1 and CLOCK, Two Essential Components of the Circadian Clock, Are Involved in Glucose Homeostasis , 2004, PLoS biology.

[84]  S. Andrews,et al.  Bacterial iron homeostasis. , 2003, FEMS microbiology reviews.

[85]  I. Gérin,et al.  The glucose-6-phosphatase system. , 2002, The Biochemical journal.

[86]  H. Vlamakis,et al.  Evidence for Extensive Resistance Gene Transfer amongBacteroides spp. and among Bacteroides and Other Genera in the Human Colon , 2001, Applied and Environmental Microbiology.

[87]  M. Okada,et al.  Light and Glutamate-Induced Degradation of the Circadian Oscillating Protein BMAL1 during the Mammalian Clock Resetting , 2000, The Journal of Neuroscience.

[88]  K. Bucholz,et al.  Transitions in drinking in adolescent females: evidence from the Missouri adolescent female twin study. , 2000, Alcoholism, clinical and experimental research.

[89]  I. Batty,et al.  Serotonin (5-Hydroxytryptamine), a Novel Regulator of Glucose Transport in Rat Skeletal Muscle* , 1999, The Journal of Biological Chemistry.

[90]  N. Takeda.  Serotonin-degradative pathways in the toad (Bufo bufo japonicus) brain: clues to the pharmacological analysis of human psychiatric disorders. , 1994, Comparative biochemistry and physiology. Pharmacology, toxicology and endocrinology.

[91]  G. Sturniolo,et al.  [Irritable bowel syndrome]. , 1988, Giornale di clinica medica.

[92]  L. R. Hackler,et al.  Dietary fiber. , 1976, The Journal of nutrition.