SolCAP Solanaceae Coordinated Agricultural Project

Publications

Hirsch, C.N., Hirsch, C.D., Felcher, K., Coombs, J., Zarka, D., Van Deynze, A., De Jong, W., Veilleux, R., Jansky, S., Bethke, P., Douches, D., Buell, C.R. 2013. Retrospective view of North American potato (Solanum tuberosum L.) breeding in the 20th and 21st centuries. Genes Genomes and Genetics. doi:10.1534/g3.113.005595. Available here.

Felcher, K.J., Coombs, J.J., Massa, A.N., Hansey, C.N., Hamilton, J.P., Veilleux, R.E., Buell, C.R., Douches, D.S. 2012. Integration of Two Diploid Potato Linkage Maps with the Potato Genome Sequence. PLoS ONE 7(4): e36347. Available here.
Hamilton, J.P., Sim, S.C., Stoffel, K., Van Deynze, A., Buell, C.R., Francis, D.M. 2012. Single Nucleotide Polymorphism Discovery in Cultivated Tomato via Sequencing by Synthesis. The Plant Genome, 5(1), 17-29. Available here.
Merk, H.L., Yarnes, S.C., Van Deynze, A., Tong, N., Menda, N., Mueller, L.A., Mutschler, M.A., Loewen, S.A., Myers, J.R., Francis, D.M. 2012. Trait Diversity and Potential for Selection Indices Based on Variation Among Regionally Adapted Processing Tomato Germplasm. Journal of the American Society for Horticultural Science 137 (6) 427-437. Available here.
Pei, C., Wang, H., Zhang, J., Wang, Y., Francis, D. M., Yang, W. 2012. Fine mapping and analysis of a candidate gene in tomato accession PI128216 conferring hypersensitive resistance to bacterial spot race T3. Theor. Appl. Genet. 124:533-542. Available here.
Sim, S.C., Durstewitz, G., Plieske, J., Wieseke, R., Ganal, M.W., Van Deynze, A., Hamilton, J., Buell, C.R., Causse M., Wijeratne, S., Francis, D.M. 2012. Development of a large SNP genotyping array and generation of high-density genetic maps in tomato. PLoS ONE 7(7): e40563. Available here.
Sim, S.C., Van Deynze, A., Stoffel, K., Douches, D.S., Zarka, D., Ganal, M.W., Chetelat, R.T., Hutton, S.F., Scott, J.W., Gardner, R.G., Panthee, D.R., Mutschler, M., Myers, J., Francis, D.M. 2012. High-density SNP genotyping of tomato (Solanum lycopersicum L.) reveals patterns of genetic variation due to breeding. PLoS ONE 7(9): e45520. Available here.

Baldo, A.M., Francis, D.M., Caramante, M., Robertson, L.D., Labate, J.A. 2011. AlleleCoder: a PERL script for coding co-dominant polymorphism data for PCA. Plant Genetic Resources. 9(4): 528-530. Available here.
Hamilton, J.P., Hansey, C.N., Whitty, B.R., Stoffel, K., Massa, A.N., Van Deynze, A., De Jong, W.S., Douches, D.S., Buell, C.R. 2011. Single nucleotide polymorphism discovery in elite North American potato germplasm. BMC Genomics, 12, 302. Available here.
Robbins, M.D., Sim, S-C., Yang, W., Van Deynze, A., van der Knaap, E., Joobeur, T., and Francis, D.M. 2011. Mapping and linkage disequilibrium analysis with a genome-wide collection of SNPs that detect polymorphism in cultivated tomato. Journal of Experimental Botany 62(6):1831-1845. Available here.
Rodríguez G.R., Muñoz, S. Anderson, C., Sim, S.C., Michel, A. Causse, M., McSpadden Gardener, B., Francis DM, van der Knaap E. 2011. Distribution of SUN, OVATE, LC and FAS in the Tomato Germplasm and the Relationship to Fruit Shape Diversity. Plant Physiology. 156: 275-285. Available here.
Sim S.C., Robbins M.D., Van Deynze A., Michel A.P., Francis D.M. 2011. Population structure and genetic differentiation associated with breeding history and selection in tomato (Solanum lycopersicum L.). Heredity. 106: 927-935. Available here.
Wang, H., Hutton, S.F., Robbins, M.D. Sim, S. C., Scott, J. W., Yang, W., Jones, J. B., Francis., D. M. 2011. Molecular mapping of hypersensitive resistance from tomato ‘Hawaii 7981’ to Xanthomonas perforans race T3. Phytopathology. 101(10):1217-1223. Available here.

Hutton S.F., Scott J.W., Yang W., Sim S.C., Francis D.M., Jones, J.B. 2010. Identification of QTL associated with resistance to bacterial spot race T4 in tomato. Theor Appl Genet. Nov;121(7):1275-87. Available here.
Rodríguez, G.R., Moyseenko, J.B., Robbins, M.D., Huarachi Morejón, N., Francis, D.M., van der Knaap, E. 2010. Tomato Analyzer: A Useful Software Application to Collect Accurate and Detailed Morphological and Colorimetric Data from Two-dimensional Objects. JoVE. doi: 10.3791/1856. Available here.
Rubio-Diaz, D.E., De Nardo, T., Santos, A., de Jesus, S., Francis, D. and Rodriguez-Saonaa, L. E. 2010. Profiling of nutritionally important carotenoids from genetically-diverse tomatoes by infrared spectroscopy. Food Chemistry. 120(1), 282-289. Available here.
Tecle, I.Y., Menda, N., Buels, R.M., van der Knaap, E., Mueller, L.A. 2010. solQTL: a tool for QTL analysis, visualization and linking to genomes at SGN database. BMC Bioinformatics: 11:525. Available here.
Wang, Y., Chen, J., Francis, D.M., Shen, H., Wu, T., Yang, W. 2010. Discovery of intron polymorphisms in cultivated tomato using both tomato and Arabidopsis genomic information. Theor Appl Genet. 121(7):1199-1207. Available here.