Jonathan H. Badger, Ph.D.
Dr. Badger's research focuses on computationally integrating genomic, transcriptomic, and phylogenetic information from microbes and their hosts in order to obtain insights into the role the microbiome plays in disease, particularly in relation to cancer. Dr, Badger is also interested in the role predatory bacteria (Bdellovibrio and relatives) play in the environment and as members of the microbiota.
1. Bioinformatics 2. Microbial Ecology 3. Microbiome 4. Genomics 5. Phylogeny
I have just recently joined Giorgio Trinchieri's group at the NCI. Our immediate goal is to establish a microbiome center for efficient production of 16S data for Trinchieri's and other's groups. I am on the computational side of things and plan to work on new methods of interpreting the resulting data when the center is up and running.
The Human Genome, Microbiomes, and Disease.In: Metagenomics of the Human Body (Karen E, Nelson, editor) . New York: Springer 1-14, 2011. [ Book Chapter ]
- Nature. 486: 207-214, 2012. [ Journal Article ]
Draft genome sequences for the obligate bacterial predators Bacteriovorax spp. of four phylogenetic clusters.Standards in Genomic Sciences. 10: e11, 2015. [ Journal Article ]
Transcriptomic analysis of metabolic function in the giant kelp, Macrocystis pyrifera, across depth and season.New Phytologist. 198: 398-407, 2013. [ Journal Article ]
Genomic analysis of Hyphomonas neptunium contradicts 16S rRNA gene-based phylogenetic analysis: implications for the taxonomy of the orders 'Rhodobacterales' and Caulobacterales.International Journal of Systematic and Evolutionary Microbiology. 55: 1021-1026, 2005. [ Journal Article ]
Dr. Badger received his doctoral training in Gary Olsen's lab in the Department of Microbiology of the University of Illinois at Urbana-Champaign, There he focused on creating computational tools for analyzing the then new data from microbial genomes. He then was a postdoctoral fellow in the Computer Science department of the University of Waterloo in Canada where he worked on methods of computational phylogeny with Ming Li and Paul Kearney. In 2001, he (along with Paul Kearney and other members of the group) started the bioinformatics group at Caprion, a proteomics startup in Montreal. In 2003 Dr. Badger joined the J. Craig Venter Institute (or TIGR as it was then known) where he worked on numerous genomics, metagenomics and transcriptomics projects, including the initial Human Microbiome Project. In 2015 Dr. Badger joined the NCI.