Brian Dilkes WikiCV

Brian Dilkes

UC Davis Genome Center GBSF room 4409 451 E. Health Sciences Drive Davis, CA 95616 Lab Phone: (530) 752 8658Fax: (530) 754-9658 eMail: bdilkes tohellwithspammers ucdavis.edu Webpage

EDUCATION

2003 Ph. D., University of Arizona, Department of Plant Sciences

1993 B. L. A., Oberlin College, Biology

RESEARCH EXPERIENCE

2005- Project manager for the NSF-funded “Functional Genomics of Plant Polyploids”, Department of Biology, University of Washington and Genome Center and Section of Plant Biology, University of California Davis, Prof. Luca Comai

2003-2005 USDA postdoctoral fellow, Biology Department, University of Washington, Prof. Luca Comai

1997-2002 Graduate research assistant, University of Arizona, Department of Plant Sciences, Prof. Brian Larkins

1992-1996 Undergraduate researcher, technician and graduate research assistant, University of Arizona, Department of Plant Sciences Prof. Ken Feldmann

AWARDS

USDA-CREES-NRI 2003-35300-13248 “Functional genomic analysis of plant responses to autopolyploidy” 2003-2005

Role: Project Director/PI

NSF Plant Genome Research Project grant DBI-0077774/DBI-0501712 “Functional genomics of plant polyploids” 2005-2010

Role: Project Manager, PI Comai

NIH R01 GM076103-01A1 “Dosage-dependent regulation in hybridization” 2006-2011

Role: Senior Personnel, PI Comai

REFEREED PUBLICATIONS

1. Henry IM, Dilkes BP, and Comai L. Genetic basis for dosage sensitivity in Arabidopsis thaliana. PLoS Genet. 2007 Apr 27;3(4):e70. DOI:10.1371/journal.pgen.0030070 |
2. Henry IM, Dilkes BP, and Comai L. Molecular karyotyping and aneuploidy detection in Arabidopsis thaliana using quantitative fluorescent polymerase chain reaction. Plant J. 2006 Oct;48(2):307-19. DOI:10.1111/j.1365-313X.2006.02871.x |
3. Josefsson C, Dilkes B, and Comai L. Parent-dependent loss of gene silencing during interspecies hybridization. Curr Biol. 2006 Jul 11;16(13):1322-8. DOI:10.1016/j.cub.2006.05.045 |
4. Coelho CM, Dante RA, Sabelli PA, Sun Y, Dilkes BP, Gordon-Kamm WJ, and Larkins BA. Cyclin-dependent kinase inhibitors in maize endosperm and their potential role in endoreduplication. Plant Physiol. 2005 Aug;138(4):2323-36. DOI:10.1104/pp.105.063917 |
5. Henry IM, Dilkes BP, Young K, Watson B, Wu H, and Comai L. Aneuploidy and genetic variation in the Arabidopsis thaliana triploid response. Genetics. 2005 Aug;170(4):1979-88. DOI:10.1534/genetics.104.037788 |
6. Dilkes BP and Comai L. A differential dosage hypothesis for parental effects in seed development. Plant Cell. 2004 Dec;16(12):3174-80. DOI:10.1105/tpc.104.161230 |
7. Hunter BG, Beatty MK, Singletary GW, Hamaker BR, Dilkes BP, Larkins BA, and Jung R. Maize opaque endosperm mutations create extensive changes in patterns of gene expression. Plant Cell. 2002 Oct;14(10):2591-612. DOI:10.1105/tpc.003905 |
8. Gordon-Kamm W, Dilkes BP, Lowe K, Hoerster G, Sun X, Ross M, Church L, Bunde C, Farrell J, Hill P, Maddock S, Snyder J, Sykes L, Li Z, Woo YM, Bidney D, and Larkins BA. Stimulation of the cell cycle and maize transformation by disruption of the plant retinoblastoma pathway. Proc Natl Acad Sci U S A. 2002 Sep 3;99(18):11975-80. DOI:10.1073/pnas.142409899 |
9. Dilkes BP, Dante RA, Coelho C, and Larkins BA. Genetic analyses of endoreduplication in Zea mays endosperm: evidence of sporophytic and zygotic maternal control. Genetics. 2002 Mar;160(3):1163-77. DOI:10.1093/genetics/160.3.1163 |
10. Larkins BA, Dilkes BP, Dante RA, Coelho CM, Woo YM, and Liu Y. Investigating the hows and whys of DNA endoreduplication. J Exp Bot. 2001 Feb;52(355):183-92.
11. Sun Y, Dilkes BP, Zhang C, Dante RA, Carneiro NP, Lowe KS, Jung R, Gordon-Kamm WJ, and Larkins BA. Characterization of maize (Zea mays L.) Wee1 and its activity in developing endosperm. Proc Natl Acad Sci U S A. 1999 Mar 30;96(7):4180-5. DOI:10.1073/pnas.96.7.4180 |
12. Choe S, Dilkes BP, Gregory BD, Ross AS, Yuan H, Noguchi T, Fujioka S, Takatsuto S, Tanaka A, Yoshida S, Tax FE, and Feldmann KA. The Arabidopsis dwarf1 mutant is defective in the conversion of 24-methylenecholesterol to campesterol in brassinosteroid biosynthesis. Plant Physiol. 1999 Mar;119(3):897-907. DOI:10.1104/pp.119.3.897 |
13. Choe S, Dilkes BP, Fujioka S, Takatsuto S, Sakurai A, and Feldmann KA. The DWF4 gene of Arabidopsis encodes a cytochrome P450 that mediates multiple 22alpha-hydroxylation steps in brassinosteroid biosynthesis. Plant Cell. 1998 Feb;10(2):231-43. DOI:10.1105/tpc.10.2.231 |

In preparation

• Dilkes BP, Josefsson C, Speilman M, Weizbauer R, Watson B, Scott R, and Comai L. Modulation of the ploidy hybridization barrier by Dr. Strangelove. In preparation

• Josefsson C, Dilkes BP, Comai L. Natural variation in the species barrier between Arabidopsis spp. reveals a dense epistatic network. In preparation

• Henry IM, Dilkes BP, Tyagi A, Lin H-S, and Comai L. Chromosome number dynamics in Arabidopsis thaliana. In preparation

RELEVANT TECHNICAL PUBLICATIONS

1. Gordon-Kamm WJ, Lowe KS, Gregory CA, Hoerster GJ, Larkins BA, Dilkes B, Burnett R 2004 Methods of using viral replicase polynucleotides and polypeptides. U.S. Patent 6,770,800
2. Sun Y, Dilkes B, Larkins BA, Lowe KS, Gordon-Kamm WJ, Dante RA 2004 Cell cycle nucleic acids, polypeptides and uses thereof. U.S. Patent 6,777,590
3. Gordon-Kamm WJ, Lowe KS Bailey MA, Gregory CA, Hoerster GJ, Larkins BA, Dilkes B, Burnett R, Woo, Y 2002 Methods of using viral replicase polynucleotides and polypeptides. U.S. Patent 6,452,070
4. Gordon-Kamm WJ, Lowe KS Bailey MA, Gregory CA, Hoerster GJ, Larkins BA, Dilkes B, Burnett R, Woo, Y 2001 Methods of using viral replicase polynucleotides and polypeptides. U.S. Patent 6,284,947
5. Dilkes, BP and Larkins BA 1999 "Transgenic plants: where is this technology leading us" in Biowork II (A. Borem, M.P. Giudice and N.S. Sakiyama, eds.), Federal University of Vicosa, Vicosa, Brasil, 213-240

14. Dilkes BP and Feldmann KA. Cloning genes from T-DNA tagged mutants. Methods Mol Biol. 1998;82:339-51. DOI:10.1385/0-89603-391-0:339 |

1. Schulz B, Bennett MJ, Dilkes BP, and Feldmann KA 1995 “T-DNA tagging in Arabidopsis thaliana: cloning by gene disruption” in Plant Molecular Biology Manual (Gelvin, S, ed.) Kluwer Academic Publishers, The Netherlands pp. K3:1-17

INVITED TALKS AND PRESENTATIONS

“Maternal to paternal ploidy balance – effects on seed size” Translational Seed Biology Meeting, Davis CA Invited, Sept 2007

“Polyploidy-regulated hybridization barriers” Plant Animal Genome Conference, San Diego, CA, 2007

“Genome dosage effects in sexual hybridization barriers” Genome Center, UC Davis, Davis, CA, 2006

“Dr. Strangelove, or how I learned to stop worrying and love hybridization barriers” Washington University, St. Louis, MO, 2006

“Dr. Strangelove, Weapons of Mass Destruction, and the interploidy hybridization barrier” Purdue University, West Lafeyette, IN, 2006

“Dosage effects in interploidy crosses of Arabidopsis” Banbury Conference on Gene Dosage Polyploidy and Heterosis, Cold Spring Harbor NY, 2005

“Ploidy hybridization barriers: genotype x karyotype interaction” Plant and Animal Genome Conference, San Diego, CA, 2005

“Epigenetics of Arabidopsis polyploids: gene x genome interactions” Epigenetics Seminar Series Fred Hutchinson Cancer Research Center, Seattle, WA, 2004

“Cell cycle regulation mediated by maize Rb1 and viral interactors” Maize Genetics Conference, Lake Geneva, WI, 2001

“Cell cycle control in endoreduplicating maize endosperm” Annual meeting of the American Society of Plant Physiology, Baltimore, MD, 2000

“Zea and the art of cell cycle control” Pioneer Hi-Bred Intl., Johnston, IA, 1999

TEACHING EXPERIENCE

Undergraduate level

Laboratory sections of PLS312 (plant genetics; two semesters), BIO181 (introductory biology for majors; two semesters), and PLS100-H (Honors introductory plant sciences; one semester) while a graduate teaching assistant at the University of Arizona.

Guest lecture in Introductory Plant Sciences PLS100 H on “Water Potential, Transpiration, and Water Use Efficiency” 1997

Co-taught a self defense course within the Experimental College at Oberlin College

Research supervision of three undergraduates at University of Arizona, five at the University of Washington, and one at the University of California at Davis

Honors Thesis advisor for Sarah Dobrozsi at the University of Washington

Graduate level

Various lectures in BIO527 a seminar-style plant molecular biology course in the Department of Biology at the University of Washington 2003-2006

Lecture in BIOC533 a seminar-style minicourse on nuclear structure and organization in the Department of Biochemistry at the University of Washington Medical School 2005

Research supervision of the Diplom Thesis project of Renate Weizbauer from the University of Cologne, done in Seattle 2005-2006.

SYNERGYSTIC ACTIVITIES and SERVICE

Academic Editor for PLoS One 2006 –

Social Committee, Section of Plant Biology, University of California, Davis 2006

Ad-hoc reviewer for The Plant Cell, Plant Physiology, The Plant Journal, Plant Molecular Biology, The New Phytologist, Genetics, Trends in Plant Science, and Plant Methods.

Ad-hoc reviewer for the National Science Foundation (2004- ) and the University of Washington Royalty Research Fund (2005-2006)

Founding member and Tri-Chair of the University of Washington Post-Doctoral Association 2005-2006

Frequent panelist in efforts to educate graduate students about selecting high-quality postdoctoral training opportunities. Done for the UW Graduate School, UW Biology Department and HHMI 2004-2006

Co-organizer and participant in the Howard Hughes Medical Institute-sponsored workshop “Future Faculty Fellows” at the University of Washington 2004