Current Lab Members
- Ying Bao
- Dharminder Pathak
- Armel Salmon
- Corrinne Grover
- Kara Grupp
- Ryan Rapp
- Lex Flagel
- Lei Gong
- Guanjing Hu
Recent Lab Members
Copyright © 2008Ryan Rapp
Position: Ph.D. student
Areas of interest: Phylogenetics; macroevolution; evolutionary genomics; evolution of expression; polyploidy; subfunctionalization, epigenetics
My initial background is in classical botany, but my interests have lead me toward the quantitative aspects of genomic evolution. Specifically, how are various molecular mechanisms integrated in plant genomes to regulate gene expression after gene duplication? What are the determinants of expression status of duplicated genes and how are they selected on in natural and artificial systems? Understanding these questions requires a variety of approaches in the laboratory and in silico. Addressing gene duplication in polyploids requires generating profiles of expression for each gene in the genome, and integrating the patterns we see with what we know from genomics and the models of evolutionary biology.
Previous Degrees:
B.S. in Plant Science, Cornell University, May 2002
Current research projects:
- Echinacea systematics and phylogeography
- Histone variation in polyploids
- Evolutionary development of cotton fibers
- Effects of polyploidization on global expression patterns
- Ancient genome duplication
Office phone: 515-294-5732
Email address: rrapp@iastate.edu
List of Publications:
Hovav, R., J.A. Udall, B. Chaudhary, L. Flagel, R. Rapp, J.F. Wendel (2008) Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant .PNAS (in press).
Hovav, R., J.A. Udall, E. Hovav, R. Rapp, L. Flagel, J.F. Wendel. 2008. A majority of cotton genes are expressed in single-celled fiber. Planta227: 319-329.
Jennifer S. Hawkins, Ryan A. Rapp, GuanjingHu, Jessie Grafenberg, and Jonathan F. Wendel. 2008. Phylogenetic determination of the pace of transposable element proliferation in plants: copia and LINE-like elements in Gossypium. Genome. 51: 11-18.
Udall, J.A., L.E. Flagel, F. Cheung, A.W. Woodward, R. Havov, R.A. Rapp, J.M. Swanson, J.J. Lee, A. R. Gingle, D. Nettleton, C.D. Town, Z.J. Chen, and J.F. Wendel. 2007. Spotted cotton oligonucleotide microarrays for gene expression analysis. BMC Genomics 8: 81.
Rapp, R.A. , Alvarez, I., and J.F. Wendel. 2005. Molecular confirmation of the position of Gossypium trifurcatumVollesen. Genetic Resources and Crop Evolution. 52: 749–753.
Udall, Joshua A., Swanson, Jordan M., Haller, Karl, Rapp, Ryan A., Sparks, Michael E., Hatfield, Jamie, Yu, Yeisoo, Wu, Yingru, Dowd, Caitriona, Arpat, Aladdin B., Sickler, Brad A., Wilkins, Thea A., Guo, Jin Ying, Chen, Xiao Ya, Scheffler, Jodi, Taliercio, Earl, Turley, Ricky, McFadden, Helen, Payton, Paxton, Klueva, Natalya, Allen, Randell, Zhang, Deshui, Haigler, Candace, Wilkerson, Curtis, Suo, Jinfeng, Schulze, Stefan R., Pierce, Margaret L., Essenberg, Margaret, Kim, HyeRan, Llewellyn, Danny J., Dennis, Elizabeth S., Kudrna, David, Wing, Rod, Paterson, Andrew H., Soderlund, Cari, and , Jonathan F. Wendel. 2006. A global assembly of cotton ESTs. Genome Research 16:441-450.
Rapp, R.A . and J.F.Wendel. 2005. Epigenetics and plant evolution. New Phytologist. 168: 81-91.
Fouts, D. E., J. L. Badel, A. R. Ramos, R. A. Rapp, and A. Collmer. 2003. A Pseudomonas syringaepv. tomato DC3000 Hrp (type III secretion) deletion mutant expressing the Hrp system of bean pathogen P. syringaepv. syringae 61 retains normal host specificity for tomato. Mol. Plant-Microbe Interact. 16:43-52.