Michigan State University
CONTRACT AND GRANT ADMINISTRATIO
EAST LANSING, MI 48824 517/355-5040
NSF Program(s):
PLANT GENOME RESEARCH RESOURCE, PLANT GENOME RESEARCH PROJECT
Field Application(s):
Program Reference Code(s):
BIOT, 9251, 9109, 7577, 1329, 1228
Program Element Code(s):
7577, 1329
ABSTRACT
There are two species in the plant genus Raphanus: R. sativus is the edible radish and R. raphanistrum is the wild species. The wild species is important because it is the likely ancestor of the crop, it is an increasingly serious crop weed worldwide, and because hybrids between the wild and crop radish have become an invasive species of natural land in California. Radish is also a model system in ecology and evolution, especially for studies of plant-animal interactions and natural selection. Despite its importance as a crop, weed, and study species, almost no gene sequence data is available for radish, severely limiting future progress in understanding the biology of radish. This project will produce sequences of thousands of genes from both the crop and wild radish species and generate hundreds of genetic markers. These sequences and markers will enable the next generation of discoveries, including the genetic basis of: crop domestication, weed and invasive species evolution, adaptation to pollinators, herbivores, and global change. Comparisons of the gene sequences generated to existing sequences from other species in the same family (the crop genus Brassica and the model plant Arabidopsis) will advance our understanding of how gene sequences evolve.
Access to project outcomes
The sequences, markers, and clones produced will be made freely available to the broader research community via GenBank, the Arabidopsis Biological Resource Center (ABRC: http://www.biosci.ohio-state.edu/pcmb/Facilities/abrc/abrchome.htm), Plant Genome Database (PlantGDB: http://www.biosci.ohio-state.edu/pcmb/Facilities/abrc/abrchome.htm), the Arabidopsis Information Resource (TAIR: http://www.arabidopsis.org/) and websites at the Institute for Genomic Research (TIGR: http://www.tigr.org/) and Michigan State University (MSU: http://www.kbs.msu.edu/Faculty/Conner/Index.htm). The MSU website will feature collaborative content creation (wiki) to facilitate the exchange of ideas and data among the worldwide radish research community.
PUBLICATIONS PRODUCED AS A RESULT OF THIS RESEARCH
Conner, JK. "A tale of two methods: putting biology before statistics in the study of phenotypic evolution," JOURNAL OF EVOLUTIONARY BIOLOGY, v.20, 2007, p. 17-19.
Franks, SJ; Avise, JC; Bradshaw, WE; Conner, JK; Etterson, JR; Mazer, SJ; Shaw, RG; Weis, AE. "The Resurrection Initiative: Storing Ancestral Genotypes to Capture Evolution in Action," BIOSCIENCE, v.58, 2008, p. 870-873.
Hanada, K; Zhang, X; Borevitz, JO; Li, WH; Shiu, SH. "A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection," GENOME RESEARCH, v.17, 2007, p. 632-640.
Hanada, K; Zou, C; Lehti-Shiu, MD; Shinozaki, K; Shiu, SH. "Importance of lineage-specific expansion of plant tandem duplicates in the adaptive response to environmental stimuli," PLANT PHYSIOLOGY, v.148, 2008, p. 993-1003.
Knapczyk, F.N. and J.K. Conner. "Estimates of the average strength of natural selection are not inflated by sampling error or publication bias.," American Naturalist, v.170, 2007, p. 501.
Rensing, SA; Lang, D; Zimmer, AD; Terry, A; Salamov, A; Shapiro, H; Nishiyama, T; Perroud, PF; Lindquist, EA; Kamisugi, Y; Tanahashi, T; Sakakibara, K; Fujita, T; Oishi, K; Shin-I, T; Kuroki, Y; Toyoda, A; Suzuki, Y; Hashimoto, S; Yamaguchi, K; Sugano, S; . "The Physcomitrella genome reveals evolutionary insights into the conquest of land by plants," SCIENCE, v.319, 2008, p. 64-69.
Roles, AJ; Conner, JK. "Fitness effects of mutation accumulation in a natural outbred population of wild radish (raphanus raphanistrum): Comparison of field and greenhouse environments," EVOLUTION, v.62, 2008, p. 1066-1075.
Sahli, HF; Conner, JK. "Visitation, effectiveness, and efficiency of 15 genera of visitors to wild radish, Raphanus raphanismum (Brassicaceae)," AMERICAN JOURNAL OF BOTANY, v.94, 2007, p. 203-209.
Sahli, HF; Conner, JK; Shaw, FH; Howe, S; Lale, A. "Adaptive Differentiation of Quantitative Traits in the Globally Distributed Weed, Wild Radish (Raphanus raphanistrum)," GENETICS, v.180, 2008, p. 945-955.
Shiu, SH; Borevitz, JO. "The next generation of microarray research: Applications in evolutionary and ecological genomics," HEREDITY, v.100, 2008, p. 141-149.
