Skip to Main Content

Author Details

Dmitry A Rodionov
Sanford Burnham Prebys Medical Discovery Institute
2000
162
55
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37110291Alteration of Community Metabolism by Prebiotics and Medicinal Herbs.Microorganisms2023
37630539Personalized Response of Parkinson's Disease Gut Microbiota to Nootropic Medicinal Herbs In Vitro: A Proof of Concept.Microorganisms2023
37645824Bioactive glycans in a microbiome-directed food for malnourished children.medRxiv2023
37292663CyuR is a Dual Regulator for L-Cysteine Dependent Antimicrobial Resistance in <i>Escherichia coli</i>.bioRxiv2023
37289085Optimizing Strategies for Bio-Based Ethanol Production Using Genome-Scale Metabolic Modeling of the Hyperthermophilic Archaeon, Pyrococcus furiosus.Appl Environ Microbiol2023
35287182Short-Chain Fatty Acids Modulate Healthy Gut Microbiota Composition and Functional Potential.Curr Microbiol2022
35508583A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli.Sci Rep2022
35476981Products of gut microbial Toll/interleukin-1 receptor domain NADase activities in gnotobiotic mice and Bangladeshi children with malnutrition.Cell Rep2022
35768643Priority effects shape the structure of infant-type Bifidobacterium communities on human milk oligosaccharides.ISME J2022
35764090Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans.Cell2022
35456791Genomics-Based Reconstruction and Predictive Profiling of Amino Acid Biosynthesis in the Human Gut Microbiome.Microorganisms2022
35417188<i>Bifidobacterium infantis</i> treatment promotes weight gain in Bangladeshi infants with severe acute malnutrition.Sci Transl Med2022
36332744Bacterial NadQ (COG4111) is a Nudix-like, ATP-responsive regulator of NAD biosynthesis.J Struct Biol2022
35931022Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans.Cell2022
36169197Genetic Divergence of Vibrio vulnificus Clinical Isolates with Mild to Severe Outcomes.mBio2022
36032669Genomic reconstruction of short-chain fatty acid production by the human gut microbiota.Front Mol Biosci2022
36094076Human Milk Oligosaccharide Utilization in Intestinal Bifidobacteria Is Governed by Global Transcriptional Regulator NagR.mSystems2022
36008760Evolution of transcriptional regulation of histidine metabolism in Gram-positive bacteria.BMC Genomics2022
36218355Biochemical and Regulatory Analyses of Xylanolytic Regulons in Caldicellulosiruptor bescii Reveal Genus-Wide Features of Hemicellulose Utilization.Appl Environ Microbiol2022
34163075Evaluating microbiome-directed fibre snacks in gnotobiotic mice and humans.Nature2021
33537340Metabolic Phenotypes as Potential Biomarkers for Linking Gut Microbiome With Inflammatory Bowel Diseases.Front Mol Biosci2021
33615984Carbohydrates great and small, from dietary fiber to sialic acids: How glycans influence the gut microbiome and affect human health.Gut Microbes2021
33613632Community Metabolic Interactions, Vitamin Production and Prebiotic Potential of Medicinal Herbs Used for Immunomodulation.Front Genet2021
34413462Identification of a transcription factor, PunR, that regulates the purine and purine nucleoside transporter punC in E. coli.Commun Biol2021
34060910Transcriptional Regulation of Plant Biomass Degradation and Carbohydrate Utilization Genes in the Extreme Thermophile <i>Caldicellulosiruptor bescii</i>.mSystems2021
34060912Genome-Scale Metabolic Model of <i>Caldicellulosiruptor bescii</i> Reveals Optimal Metabolic Engineering Strategies for Bio-based Chemical Production.mSystems2021
34113324Binary Metabolic Phenotypes and Phenotype Diversity Metrics for the Functional Characterization of Microbial Communities.Front Microbiol2021
32348782Combined Prebiotic and Microbial Intervention Improves Oral Cholera Vaccination Responses in a Mouse Model of Childhood Undernutrition.Cell Host Microbe2020
31969452Identifying determinants of bacterial fitness in a model of human gut microbial succession.Proc Natl Acad Sci U S A2020
32100995Revisiting the Catalytic Cycle and Kinetic Mechanism of Aminoglycoside <i>O</i>-Nucleotidyltransferase(2⿳): A Structural and Kinetic Study.ACS Chem Biol2020
33158037B Vitamins and Their Role in Immune Regulation and Cancer.Nutrients2020
32887539Lactose-reduced infant formula with added corn syrup solids is associated with a distinct gut microbiota in Hispanic infants.Gut Microbes2020
32706533Duodenal Microbiota in Stunted Undernourished Children with Enteropathy.N Engl J Med2020
32499766Dietary Emulsifier Sodium Stearoyl Lactylate Alters Gut Microbiota <i>in vitro</i> and Inhibits Bacterial Butyrate Producers.Front Microbiol2020
3088921016S rRNA gene profiling and genome reconstruction reveal community metabolic interactions and prebiotic potential of medicinal herbs used in neurodegenerative disease and as nootropics.PLoS One2019
31780796Transcriptional control of central carbon metabolic flux in Bifidobacteria by two functionally similar, yet distinct LacI-type regulators.Sci Rep2019
31585844Bioremediation of a Common Product of Food Processing by a Human Gut Bacterium.Cell Host Microbe2019
31296738Effects of microbiota-directed foods in gnotobiotic animals and undernourished children.Science2019
31296739A sparse covarying unit that describes healthy and impaired human gut microbiota development.Science2019
31281405Prebiotic Potential of Culinary Spices Used to Support Digestion and Bioabsorption.Evid Based Complement Alternat Med2019
31509826A Riboflavin Transporter in Bdellovibrio exovorous JSS.J Mol Microbiol Biotechnol2019
31333610B-Vitamin Sharing Promotes Stability of Gut Microbial Communities.Front Microbiol2019
31275260Micronutrient Requirements and Sharing Capabilities of the Human Gut Microbiome.Front Microbiol2019
29740413Comparative Genomics Reveals the Regulatory Complexity of Bifidobacterial Arabinose and Arabino-Oligosaccharide Utilization.Front Microbiol2018
30249705Novel Metabolic Pathways and Regulons for Hexuronate Utilization in Proteobacteria.J Bacteriol2018
29377793Prediction of enzymatic pathways by integrative pathway mapping.Elife2018
27020244Cpe1786/IscR of Clostridium perfringens represses expression of genes involved in Fe-S cluster biogenesis.Res Microbiol2017
28137868Elucidation of roles for vitamin B<sub>12</sub> in regulation of folate, ubiquinone, and methionine metabolism.Proc Natl Acad Sci U S A2017
28186498Underlying mechanisms for syntrophic metabolism of essential enzyme cofactors in microbial communities.ISME J2017
29036218Crystallographic and thermodynamic characterization of phenylaminopyridine bisphosphonates binding to human farnesyl pyrophosphate synthase.PLoS One2017
  • 1 - 50 of 162

Recommended Authors

Jos?? P Faria
Argonne National Laboratory
Career Start Year 2014
Number of shared co-authors 19
Neha Varghese
Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory
Career Start Year 2011
Number of shared co-authors 5
Amrita Pati
Department of Energy (DOE) Joint Genome Institute
Career Start Year 2006
Number of shared co-authors 5
Ian K Blaby
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Career Start Year 2006
Number of shared co-authors 11
Katherine Huang
Broad Institute of MIT and Harvard
Career Start Year 2004
Number of shared co-authors 9
Intikhab Alam
College of Life Sciences
Career Start Year 2004
Number of shared co-authors 0
David Vallenet
Institut Francois Jacob, CNRS, Universite d'Evry, Universite Paris-Saclay
Career Start Year 2003
Number of shared co-authors 11
Ivan Erill
University of Maryland
Career Start Year 2002
Number of shared co-authors 3
Ying Xu
The China-Japan Union Hospital, Jilin University
Career Start Year 2002
Number of shared co-authors 4
Jo??o C Setubal
Chemistry Institute, Universidade de Sao Paulo - USP
Career Start Year 2000
Number of shared co-authors 6
Alexander Sczyrba
Center for Biotechnology (CeBiTec), Bielefeld University, Universitatsstrasse 27
Career Start Year 2000
Number of shared co-authors 4
Nitin S Baliga
Institute for Systems Biology
Career Start Year 1999
Number of shared co-authors 7
Patrik D'haeseleer
Lawrence Livermore National Laboratory
Career Start Year 1999
Number of shared co-authors 5
Christopher L Hemme
University of Rhode Island
Career Start Year 1998
Number of shared co-authors 10
Marcin P Joachimiak
E O Lawrence Berkeley National Laboratory, UCSF Medical Center, University of California, Berkeley, University of Chicago
Career Start Year 1997
Number of shared co-authors 28
Jonathan H Badger
Center for Cancer Research, National Cancer Institute, National Institutes of Health
Career Start Year 1997
Number of shared co-authors 8
Konstantinos Mavromatis
Celgene Corporation
Career Start Year 1997
Number of shared co-authors 9
Alexei Savchenko
University of Toronto
Career Start Year 1997
Number of shared co-authors 8
Robert J Dodson
Northwestern University Biomedical Informatics Center and Center for Genetic Medicine
Career Start Year 1997
Number of shared co-authors 8
Fiona S L Brinkman
Simon Fraser University
Career Start Year 1995
Number of shared co-authors 1
Nigel J Mouncey
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory
Career Start Year 1995
Number of shared co-authors 2
Jeremy D Selengut
Craig Venter Institute, 9704 Medical Center Drive
Career Start Year 1994
Number of shared co-authors 6
Heidi J Sofia
National Human Genome Research Institute
Career Start Year 1993
Number of shared co-authors 1
Manesh Shah
University of Tennessee Knoxville
Career Start Year 1993
Number of shared co-authors 3
Ian T Paulsen
Macquarie University
Career Start Year 1992
Number of shared co-authors 12
Lee Ann McCue
Pacific Northwest National Laboratory
Career Start Year 1991
Number of shared co-authors 3
Miriam Land
Oak Ridge National Laboratory
Career Start Year 1990
Number of shared co-authors 27
Hirotada Mori
Nara Institute of Science and Technology
Career Start Year 1984
Number of shared co-authors 4
Timothy J Donohue
University of Wisconsin
Career Start Year 1976
Number of shared co-authors 2
Antoine Danchin
University of Hong Kong
Career Start Year 1969
Number of shared co-authors 16

Collaborators

Andrei L Osterman
Sanford Burnham Prebys Medical Discovery Institute
Co-authored papers 52
Irina A Rodionova
University of California at San Diego
Co-authored papers 23
Pavel S Novichkov
Lawrence Berkeley National Laboratory
Co-authored papers 22
Adam P Arkin
Lawrence Berkeley National Laboratory
Co-authored papers 13
Andrey A Mironov
Lomonosov Moscow State University
Co-authored papers 13
Inna Dubchak
Lawrence Berkeley National Laboratory
Co-authored papers 12
Val??rie de Cr??cy-Lagard
University of Florida
Co-authored papers 5
Eric J Alm
Massachusetts Institute of Technology 21 Ames St. Cambridge
Co-authored papers 4
Steven C Almo
Albert Einstein College of Medicine
Co-authored papers 4
Aaron A Best
Hope College
Co-authored papers 4
Nicolas Terrapon
CNRS, Aix-Marseille University
Co-authored papers 4
Bernhard O Palsson
University of California San Diego
Co-authored papers 4
Michael W W Adams
University of Georgia
Co-authored papers 4
Matthew W Vetting
Albert Einstein College of Medicine
Co-authored papers 4
Milton H Saier
University of California at San Diego
Co-authored papers 4
Nawar Al-Obaidi
Cardiovascular Research Unit, Newark Beth Israel Medical Center
Co-authored papers 3
Adam Godzik
University of California Riverside
Co-authored papers 3
John A Gerlt
University of Illinois at Urbana-Champaign
Co-authored papers 3
David A Scott
Sanford Burnham Prebys Medical Discovery Institute
Co-authored papers 3
Robert Olson
University of Chicago
Co-authored papers 2
Zhongge Zhang
University of California at San Diego
Co-authored papers 2
Brian San Francisco
Carl R. Woese Institute for Genomic Biology , University of Illinois
Co-authored papers 2
Matthew P Jacobson
Department of Pharmaceutical Chemistry, University of California san francisco
Co-authored papers 2
Rick Stevens
Argonne National Laboratory
Co-authored papers 2
Gary J Olsen
University of Illinois
Co-authored papers 2
Folker Meyer
Institute for Artificial Intelligence, University of Duisburg-Essen
Co-authored papers 2
Judy D Wall
University of Missouri
Co-authored papers 2
Grant M Zane
University of Missouri
Co-authored papers 2
Daniel J Wichelecki
Institute for Genomic Biology, University of Illinois
Co-authored papers 2
Christopher B Newgard
Duke Molecular Physiology Institute
Co-authored papers 2
Release 1.2