SNP Validation And Genetic Diversity In Cultivated Tomatoes And Grapes

Abstract

Cultivated grapes and tomatoes have very different reproductive and propagation systems. While grapes are typically outcrossed and are grafted once a variety is defined, tomatoes are generally selfed and are propogated by seed. Large-scale public EST datasets were used in both crops to predict SNPs and PCR primers flanking these SNPs. Genomic DNA was amplified and the gene fragments were resequenced. These results were analyzed in each crop for the distribution of genetic diversity among cultivars and within genes. Frequency of intron discovery, SNP validation rates, and proportions of rare alleles may reflect the different propogation histories of these crops. SNP Validation And Genetic Diversity In Cultivated Tomatoes And Grapes Angela M Baldo1,2 , Yizhen Wan2,3 , Warren F Lamboy1 , Charles J Simon1,2 , Joanne A Labate1,2 , Susan M Sheffer1 1.USDA-ARS Plant Genetic Resources Unit 630 W. North St. Geneva, NY 14456 USA 2.Cornell University Department of Horticultural Sciences 630 W. North St. Geneva, NY 14456 USA 3.Northwest Sci-Tech University of Agriculture and Forestry Shaanxi Province,Yangling, China http://www.ars.usda.gov/NAA/Geneva PAG-XV San Diego, CA January 2007 Poster 171 Abstract Cultivated grapes and tomatoes have very different reproductive and propagation systems. While grapes are typically outcrossed and are grafted once a variety is defined, tomatoes are generally selfed and are propogated by seed. Large-scale public EST datasets were used in both crops to predict SNPs and PCR primers flanking these SNPs. Genomic DNA was amplified and the gene fragments were resequenced. These results were analyzed in each crop for the distribution of genetic diversity among cultivars and within genes. Frequency of intron discovery, SNP validation rates, and proportions of rare alleles may reflect the different propogation histories of these crops.Cultivated grapes and tomatoes have very different reproductive and propagation systems. While grapes are typically outcrossed and are grafted once a variety is defined, tomatoes are generally selfed and are propogated by seed. Large-scale public EST datasets were used in both crops to predict SNPs and PCR primers flanking these SNPs. Genomic DNA was amplified and the gene fragments were resequenced. These results were analyzed in each crop for the distribution of genetic diversity among cultivars and within genes. Frequency of intron discovery, SNP validation rates, and proportions of rare alleles may reflect the different propogation histories of these crops. Acknowledgements We would like to thank the USDA-ARS germplasm repository in Davis, CA for grape material, Larry Robertson at the USDA-ARS germplasm repository in Geneva, NY for tomato material, and Peter Cousins for helpful discussions. 30 Tomato Accessions PI 124037 Chile 1937 1938

Cite this paper

@inproceedings{Baldo2007SNPVA, title={SNP Validation And Genetic Diversity In Cultivated Tomatoes And Grapes}, author={A. M. Baldo and Yizhen Wan and Charles J. Simon and Joanne Aaron Labate and Susan M Sheffer}, year={2007} }