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Author Details

Jonathan H Badger
Center for Cancer Research, National Cancer Institute, National Institutes of Health
1997
64
44
PMIDPaper TitleJournal TitlePublished Year
38009923Comparative genomics of the niche-specific plant pathogen <i>Streptomyces ipomoeae</i> reveal novel genome content and organization.Appl Environ Microbiol2023
35228752Intestinal microbiota signatures of clinical response and immune-related adverse events in melanoma patients treated with anti-PD-1.Nat Med2022
34417593Neonatal exposure to a wild-derived microbiome protects mice against diet-induced obesity.Nat Metab2021
33542131Fecal microbiota transplant overcomes resistance to anti-PD-1 therapy in melanoma patients.Science2021
34941392Dietary fiber and probiotics influence the gut microbiome and melanoma immunotherapy response.Science2021
31502171Microbiome as an Immunological Modifier.Methods Mol Biol2020
32109587Soybean aphid biotype 1 genome: Insights into the invasive biology and adaptive evolution of a major agricultural pest.Insect Biochem Mol Biol2020
31422150Description of soybean aphid (Aphis glycines Matsumura) mitochondrial genome and comparative mitogenomics of Aphididae (Hemiptera: Sternorrhyncha).Insect Biochem Mol Biol2019
31371577Laboratory mice born to wild mice have natural microbiota and model human immune responses.Science2019
29440355The Antimicrobial Peptide CRAMP Is Essential for Colon Homeostasis by Maintaining Microbiota Balance.J Immunol2018
30389414An Interleukin-23-Interleukin-22 Axis Regulates Intestinal Microbial Homeostasis to Protect from Diet-Induced Atherosclerosis.Immunity2018
29056339Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance.Cell2017
28142322Microbes and Cancer.Annu Rev Immunol2017
28355217Correction: Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation.PLoS Genet2017
28217745The Baltic Sea Virome: Diversity and Transcriptional Activity of DNA and RNA Viruses.mSystems2017
26826232Genome Content and Phylogenomics Reveal both Ancestral and Lateral Evolutionary Pathways in Plant-Pathogenic Streptomyces Species.Appl Environ Microbiol2016
27973599Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation.PLoS Genet2016
27892853Structure of the germline genome of <i>Tetrahymena thermophila</i> and relationship to the massively rearranged somatic genome.Elife2016
25635016Genome Sequence of the Sulfate-Reducing Thermophilic Bacterium Thermodesulfovibrio yellowstonii Strain DSM 11347T (Phylum Nitrospirae).Genome Announc2015
26203326Draft genome sequences for the obligate bacterial predators Bacteriovorax spp. of four phylogenetic clusters.Stand Genomic Sci2015
25635017Genome Sequence of a Sulfate-Reducing Thermophilic Bacterium, Thermodesulfobacterium commune DSM 2178T (Phylum Thermodesulfobacteria).Genome Announc2015
24558247Complete Genome Sequence of the Extreme Thermophile Dictyoglomus thermophilum H-6-12.Genome Announc2014
25146141Draft Genome Sequence of the Pyridinediol-Fermenting Bacterium Synergistes jonesii 78-1.Genome Announc2014
24831154Complete Genome Sequence of Coprothermobacter proteolyticus DSM 5265.Genome Announc2014
24586863Functional tradeoffs underpin salinity-driven divergence in microbial community composition.PLoS One2014
23564253Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform.Genome Res2013
24248345RNA-sequencing from single nuclei.Proc Natl Acad Sci U S A2013
23754396Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum.Proc Natl Acad Sci U S A2013
23488966Transcriptomic analysis of metabolic function in the giant kelp, Macrocystis pyrifera, across depth and season.New Phytol2013
22278668Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic.ISME J2012
22848458The "most wanted" taxa from the human microbiome for whole genome sequencing.PLoS One2012
22479523The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity.PLoS One2012
21087627Streptomyces turgidiscabies Car8 contains a modular pathogenicity island that shares virulence genes with other actinobacterial plant pathogens.Plasmid2011
22004680Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control.Genome Biol2011
21926975Efficient de novo assembly of single-cell bacterial genomes from short-read data sets.Nat Biotechnol2011
21645368Comparative genomic analysis of Vibrio parahaemolyticus: serotype conversion and virulence.BMC Genomics2011
20333227Continuing evolution of Burkholderia mallei through genome reduction and large-scale rearrangements.Genome Biol Evol2010
20520714The Ectocarpus genome and the independent evolution of multicellularity in brown algae.Nature2010
20489017A catalog of reference genomes from the human microbiome.Science2010
20333304Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function.PLoS One2010
20333302The complete genome sequence of Haloferax volcanii DS2, a model archaeon.PLoS One2010
19201974Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils.Appl Environ Microbiol2009
19359590Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas.Science2009
19568419The complete genome of Teredinibacter turnerae T7901: an intracellular endosymbiont of marine wood-boring bivalves (shipworms).PLoS One2009
19148287Complete genome sequence of the aerobic CO-oxidizing thermophile Thermomicrobium roseum.PLoS One2009
18404212Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus.PLoS Genet2008
18923393The Phaeodactylum genome reveals the evolutionary history of diatom genomes.Nature2008
18820685Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum.Nat Biotechnol2008
19061522IDEA: Interactive Display for Evolutionary Analyses.BMC Bioinformatics2008
18654632Complete genome sequence of the N2-fixing broad host range endophyte Klebsiella pneumoniae 342 and virulence predictions verified in mice.PLoS Genet2008
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Collaborators

Jonathan A Eisen
McLean Hospital
Co-authored papers 10
Giorgio Trinchieri
Center for Cancer Research, National Cancer Institute, National Institutes of Health
Co-authored papers 10
John A McCulloch
Center for Cancer Research, National Cancer Institute
Co-authored papers 8
Jennifer R Wortman
Broad Institute of MIT and Harvard
Co-authored papers 7
J C Venter
The J. Craig Venter Institute
Co-authored papers 7
Ian T Paulsen
Macquarie University
Co-authored papers 6
Robert J Dodson
Northwestern University Biomedical Informatics Center and Center for Genetic Medicine
Co-authored papers 6
Amiran Dzutsev
Center for Cancer Research, National Cancer Institute, National Institutes of Health
Co-authored papers 5
Karen E Nelson
J. Craig Venter Institute, 9605 Medical Center Drive
Co-authored papers 5
Douglas B Rusch
Center for Genomics and Bioinformatics, Indiana University
Co-authored papers 5
Jonathan Crabtree
Institute for Genome Sciences, University of Maryland School of Medicine
Co-authored papers 5
Michelle Giglio
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 4
Roger S Lasken
J. Craig Venter Institute
Co-authored papers 4
Owen White
Institute for Genome Sciences, University of Maryland School of Medicine
Co-authored papers 4
Brian J Haas
Broad Institute of MIT and Harvard
Co-authored papers 4
Mathangi Thiagarajan
Co-authored papers 3
William C Nelson
Pacific Northwest National Laboratory
Co-authored papers 3
Barbara Rehermann
National Institute of Diabetes and Digestive and Kidney Diseases
Co-authored papers 3
Bruce W Birren
Broad Institute of MIT and Harvard
Co-authored papers 3
Stephan P Rosshart
University Hospital Erlangen, Friedrich-Alexander-Universitat Erlangen-Nurnberg (FAU)
Co-authored papers 3
Robert Friedman
University of South Carolina
Co-authored papers 3
Gary J Olsen
University of Illinois
Co-authored papers 3
Claire M Fraser
Institute for Genome Sciences, University of Maryland School of Medicine
Co-authored papers 3
Jane M Carlton
Center for Genomics and Systems Biology
Co-authored papers 3
Heather Huot Creasy
Institute for Genome Sciences, University of Maryland School of Medicine
Co-authored papers 3
Jeremy D Selengut
Craig Venter Institute, 9704 Medical Center Drive
Co-authored papers 3
Pavel A Pevzner
University of California
Co-authored papers 3
Asaf Salamov
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Eric E Allen
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Release 1.2