Robert Jansen , Sidney F. and Doris Blake Centennial Professor In Systematic Botany and the Blake Collection
 
My primary research interests involve the determination of phylogenetic relationships among plants and the evolution of the chloroplast genome. Research in my lab is concentrated in three areas: (1) organization and evolution of chloroplast genomes; (2) computational methods for comparative chloroplast genomics, (3) examination of extensive genetic integration between the two organelles and the nucleus in plants, and (4) systematics and the evolution of the Asteraceae, Campanulaceae, and Geraniaceae.

Publications:
2012Weng M.-L., Ruhlman T.A., Gibby M., and R. K. Jansen, Phylogeny, rate variation, and genome size evolution of Pelargonium (Geraniaceae), Molecular Phylogenetics and Evolution 64, p.654-670
2011Blazier J.C., Guisinger M.M., Jansen R.K, Recent loss of plastid-encoded ndh genes within Erodium (Geraniaceae), Plant Molecular Biology 76, p.263-272
2011Jansen, RK, C Saski, S-B Lee, A K Hansen, and H Daniell, Complete plastid genome sequences of three rosids (Castanea, Prunus, Theobroma): evidence for at least two independent transfers of rpl22 to the nucleus, Molecular Biology and Evolution 28, p.835-847
2011Guisinger MM, Kuehl JV, Boore JL, and RK Jansen., Extreme Reconfiguration of Plastid Genomes in the Angiosperm Family Geraniaceae: Rearrangements, Repeats, and Codon Usage, Molecular Biology and Evolution 28, p.583-600
2010Guisinger, M.M., T.W. Chumley, J.V. Kuehl, J.L. Boore, and R.K. Jansen, Implications of the plastid genome sequence of Typha latifolia (Typhaceae, Poales) for understanding genome evolution in Poaceae, Journal of Molecular Evolution 70, p.149-166
2009Haberle, R.S., A. Dang, T. Lee, C. Penaflor, H. Cortes-Burns, A. Oestreich, L. Raubeson, E. Edwards, S.-T. Tang, N. Cellinese, W.M.M. Eddie, and R.K. Jansen, Molecular systematics of Campanulaceae sensu stricto using chloroplast DNA sequences of atpB, matK, and rbcL, Taxon 58, p.715734
2008Guisinger MM, Kuehl JV, Boore JL, Jansen RK., Genome-wide analyses of Geraniaceae plastid DNA reveal unprecedented patterns of increased nucleotide substitutions., Proc Natl Acad Sci U S A 105(47), p.18424-9
2008Cai Z, Guisinger M, Kim HG, Ruck E, Blazier JC, McMurtry V, Kuehl JV, Boore J, Jansen RK., Extensive reorganization of the plastid genome of Trifolium subterraneum (Fabaceae) is associated with numerous repeated sequences and novel DNA insertions, J Mol Evol. 67(6), p.696-704
2007Raubeson, L.A., Peery, R., Chumley, T., Dziubek, C,, Fourcade, H.M., Boore, J.L., Jansen, R.K., Comparative chloroplast genomics: analyses including new sequences from the angiosperms Nuphar advena and Ranunculus macranthus, BMC Genomics 8, p.174
2007Hansen, D.R., Dastidar, S.G., Cai, Z., Penaflor, C., Kuehl, J.V., Boore, J.L., Jansen, R.K., Phylogenetic and evolutionary implications of complete chloroplast genome sequences of four early-diverging angiosperms: Buxus (Buxaceae), Chloranthus (Chloranthaceae), Dioscorea (Dioscoreaceae), and Illicium (Schisandraceae), Mol Phylogenet Evol 45, p.547-563
2006Jansen, R.K., C. Kaittanis, C. Saski, S-B. Lee, J. Tompkins, A. J. Alverson, and, H. Daniell, Phylogenetic analyses of Vitis (Vitaceae) based on complete chloroplast genome sequences: Effects of taxon sampling and phylogenetic methods on resolving relationships among Rosids, BMC Evolutionary Biology 6, p.32
2006Cui, L., N. Veeraraghavan, K. Wall, R.K. Jansen, J. Leebens-Mack, I. Makalowska, C. W. dePamphilis, ChloroplastDB: the chloroplast genome database, Nucleic Acids Research 34, p.D692-D696
2006Chumley, T.W., J.D. Palmer, J.P. Mower, J.L. Boore, H.M. Fourcade, P.J. Caile, and R.K. Jansen, The completed chloroplast genome sequence of Pelargonium x hortorum: Organization and evolution of the largest and most highly rearranged chloroplast genome of land plants, Molecular Biology and Evolution 23, p.1-16
2005Leebens-Mack, J., L.A. Raubeson, L. Cui, J. Kuehl, M. Fourcade, T. Chumley, J.L. Boore, R.K. Jansen, and C.W. dePamphilis, Identifying the basal angiosperms in chloroplast genome phylogenies: Sampling one's way out of the Felsenstein zone, Molecular Biology and Evolution 22, p.1948-1963
2004Wyman, S.K., J.L. Boore, and R.K. Jansen, Automatic annotation of organellar genomes with DOGMA, Bioinformatics 20, p.3252-325

 
Bioinformatics and Computational Biology Tracks and Research Focus Areas
 
Aldrich, RichardAnslyn, Eric V.Appling, Dean
Atkinson, NigelBajaj, ChandrajitBarrick, Jeffrey
Brown, Richard M.Bull, James J.Chen, Z. Jeffrey
Contreras, LydiaDalby, KevinElber, Ron
Ellington, AndyGeorgiou, GeorgeGutell, Robin
Harris, AdronHassibi, Arjang Hillis, David
Hofmann, Hans A.Iverson, BrentIyer, Vishwanath
Jansen, RobertJohnson, KennethKerwin, Sean
Kim, JonghwanKrug, RobertLambowitz, Alan M.
Liu, Hung-wen (Ben)Makarov, DmitriiMarcotte, Edward
Markey, MiaMartin, StephenMeyers, Lauren Ancel
Miranker, DanielMolineux, IanPayne, Shelley
Poenie, MartinPress, William Ren, Pengyu
Robertus, JonSchmidt, ChristineStevens, Scott
Warnow, TandyWilke, ClausXhemalce, Blerta

CMB Graduate Program