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Originally published as Genetics Published Articles Ahead of Print on July 13, 2008.
Genetics, Vol. 179, 1211-1220, July 2008, Copyright © 2008
doi:10.1534/genetics.108.089532
Integration of Cytogenetic and Genetic Linkage Maps Unveils the Physical Architecture of Tomato Chromosome 2
Dal-Hoe Koo*,
,1,
Sung-Hwan Jo*,
,1,
Jae-Wook Bang
,
Hye-Mi Park**,
Sanghyeob Lee*, and
Doil Choi*,**,2
* Plant Genome Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 305-600, Korea, School of Bioscience and Biotechnology, Chungnam National University, Daejeon 305-764, Korea, ** Department of Plant Sciences, College of Agricultural and Life Sciences, Seoul National University, Seoul, 151-742, Korea, Department of Functional Genomics, University of Science and Technology, Daejeon, 305-333, Korea, Department of Horticulture, University of Wisconsin, Madison, Wisconsin 53706 and Dongbu Advanced Research Institute, Dongbu Hitek, Daejeon, 305-708, Korea
2 Corresponding author: Department of Plant Sciences, College of Agriculture and Life Sciences, Seoul National University, Seoul, 151-742, Korea.
E-mail: doil{at}snu.ac.kr
We report the integration of the linkage map of tomato chromosome 2 with a high-density bacterial artificial chromosome fluorescence in situ hybridization (BAC–FISH)-based cytogenetic map. The euchromatic block of chromosome 2 resides between 13 and 142 cM and has a physical length of 48.12 µm, with 1 µm equivalent to 540 kb. BAC–FISH resolved a pair of loci that were 3.7–3.9 Mb apart and were not resolved on the linkage map. Most of the regions had crossover densities close to the mean of 
200 kb/cM. Relatively hot and cold spots of recombination were unevenly distributed along the chromosome. The distribution of centimorgan/micrometer values was similar to the previously reported recombination nodule distribution along the pachytene chromosome. FISH-based physical maps will play an important role in advanced genomics research for tomato, including map-based cloning of agronomically important traits and whole-genome sequencing.
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