Systematic analysis of gut microbiome reveals the role of bacterial folate and homocysteine metabolism in Parkinson’s disease

A gut bacterial amyloid promotes α-synuclein aggregation and motor impairment in mice

(2020) Timothy R Sampson et al.   eLife

Systems Biology Approaches to Understand the Host–Microbiome Interactions in Neurodegenerative Diseases

(2020) Dorines Rosario et al.   Frontiers in Neuroscience

Discovery of Volatile Biomarkers of Parkinson’s Disease from Sebum

(2019) Drupad K. Trivedi et al.   ACS Central Science

Simplified Intestinal Microbiota to Study Microbe-Diet-Host Interactions in a Mouse Model

(2019) Petia Kovatcheva-Datchary et al.   Cell Reports

Transneuronal Propagation of Pathologic α-Synuclein from the Gut to the Brain Models Parkinson’s Disease

(2019) Sangjune Kim et al.   NEURON

KBase: The United States Department of Energy Systems Biology Knowledgebase

(2018) Adam P Arkin et al.   NATURE BIOTECHNOLOGY

Systems biology in hepatology: approaches and applications

(2018) Adil Mardinoglu et al.   Nature Reviews Gastroenterology & Hepatology

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation

(2018) Han Zhang et al.   NUCLEIC ACIDS RESEARCH

Changes of Colonic Bacterial Composition in Parkinson’s Disease and Other Neurodegenerative Diseases

(2018) Sara Gerhardt et al.   Nutrients

Associations of serum indolepropionic acid, a gut microbiota metabolite, with type 2 diabetes and low-grade inflammation in high-risk individuals

(2018) Marjo Tuomainen et al.   Nutrition & Diabetes

Understanding the Representative Gut Microbiota Dysbiosis in Metformin-Treated Type 2 Diabetes Patients Using Genome-Scale Metabolic Modeling

(2018) Dorines Rosario et al.   Frontiers in Physiology

Nutritional preferences of human gut bacteria reveal their metabolic idiosyncrasies

(2018) Melanie Tramontano et al.   Nature Microbiology

Bacteroides thetaiotaomicron Ameliorates Colon Inflammation in Preclinical Models of Crohn’s Disease

(2018) Margaret Delday et al.   INFLAMMATORY BOWEL DISEASES

The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities

(2018) Federico Baldini et al.   BIOINFORMATICS

Metformin alters the gut microbiome of individuals with treatment-naive type 2 diabetes, contributing to the therapeutic effects of the drug

(2017) Hao Wu et al.   NATURE MEDICINE

Cognitive decline in Parkinson disease

(2017) Dag Aarsland et al.   Nature Reviews Neurology

Association of brain amyloidosis with pro-inflammatory gut bacterial taxa and peripheral inflammation markers in cognitively impaired elderly

(2017) Annamaria Cattaneo et al.   NEUROBIOLOGY OF AGING

Association of plasma homocysteine, vitamin B12 and folate levels with cognitive function in Parkinson’s disease: A meta-analysis

(2017) Yi Xie et al.   NEUROSCIENCE LETTERS

Functional implications of microbial and viral gut metagenome changes in early stage L-DOPA-naïve Parkinson’s disease patients

(2017) J. R. Bedarf et al.   Genome Medicine

mixOmics: An R package for ‘omics feature selection and multiple data integration

(2017) Florian Rohart et al.   PLoS Computational Biology

Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum

(2016) Riccardo Baroncelli et al.   BMC GENOMICS

Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson’s Disease

(2016) Timothy R. Sampson et al.   CELL

KEGG: new perspectives on genomes, pathways, diseases and drugs

(2016) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Microbial metabolism of dietary components to bioactive metabolites: opportunities for new therapeutic interventions

(2016) Linda S. Zhang et al.   Genome Medicine

Archaea and the human gut: New beginning of an old story

(2016) Nadia Gaci et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Exposure to the Functional Bacterial Amyloid Protein Curli Enhances Alpha-Synuclein Aggregation in Aged Fischer 344 Rats and Caenorhabditis elegans

(2016) Shu G. Chen et al.   Scientific Reports

Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome

(2015) Saeed Shoaie et al.   Cell Metabolism

Gastrointestinal dysfunction in Parkinson's disease

(2015) Alfonso Fasano et al.   LANCET NEUROLOGY

The gut microbiota modulates host amino acid and glutathione metabolism in mice

(2015) A. Mardinoglu et al.   Molecular Systems Biology

Colonic bacterial composition in Parkinson's disease

(2015) Ali Keshavarzian et al.   MOVEMENT DISORDERS

Comparative Secretome Analysis of Trichoderma reesei and Aspergillus niger during Growth on Sugarcane Biomass

(2015) Gustavo Pagotto Borin et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Gut microbiota are related to Parkinson's disease and clinical phenotype

(2014) Filip Scheperjans et al.   MOVEMENT DISORDERS

Neurodegenerative disease: Brain windfall

(2014) Katharine Gammon   NATURE

The global burden of neurologic diseases

(2014) J. H. Chin et al.   NEUROLOGY

Targeted Metabolomics Identifies Reliable and Stable Metabolites in Human Serum and Plasma Samples

(2014) Michaela Breier et al.   PLoS One

Microbiota and neurodevelopmental windows: implications for brain disorders

(2014) Yuliya E. Borre et al.   TRENDS IN MOLECULAR MEDICINE

Methanogens, Methane and Gastrointestinal Motility

(2014) Konstantinos Triantafyllou et al.   Journal of Neurogastroenterology and Motility

Complete genome of a new Firmicutes species belonging to the dominant human colonic microbiota (‘Ruminococcus bicirculans’) reveals two chromosomes and a selective capacity to utilize plant glucans

(2013) Udo Wegmann et al.   ENVIRONMENTAL MICROBIOLOGY

The hallmarks of Parkinson's disease

(2013) Paul M. A. Antony et al.   FEBS Journal

Richness of human gut microbiome correlates with metabolic markers

(2013) Emmanuelle Le Chatelier et al.   NATURE

Understanding the interactions between bacteria in the human gut through metabolic modeling

(2013) Saeed Shoaie et al.   Scientific Reports

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Dirichlet Multinomial Mixtures: Generative Models for Microbial Metagenomics

(2012) Ian Holmes et al.   PLoS One

Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

(2011) Jan Schellenberger et al.   Nature Protocols

Increased Intestinal Permeability Correlates with Sigmoid Mucosa alpha-Synuclein Staining and Endotoxin Exposure Markers in Early Parkinson's Disease

(2011) Christopher B. Forsyth et al.   PLoS One

Discovering the false discovery rate

(2010) Yoav Benjamini   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Gastrointestinal dysfunction in Parkinson’s disease

(2010) Ronald F. Pfeiffer   PARKINSONISM & RELATED DISORDERS

The Discussion Goes on: What Is the Role ofEuryarchaeotain Humans?

(2010) H.-P. Horz et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Evidence that folic acid deficiency is a major determinant of hyperhomocysteinemia in Parkinson´s disease

(2009) Eliseu Felippe dos Santos et al.   METABOLIC BRAIN DISEASE

Homocysteine levels after acute levodopa intake in patients with Parkinson's disease

(2009) Thomas Müller et al.   MOVEMENT DISORDERS

Medical records documentation of constipation preceding Parkinson disease: A case-control study

(2009) R. Savica et al.   NEUROLOGY

Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites

(2009) W. R. Wikoff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of homocysteine in the treatment of Parkinson's disease

(2008) Thomas Müller   Expert Review of Neurotherapeutics