Development of tomato SSR markers from anchored BAC clones of chromosome 12 and their application for genetic diversity analysis and linkage mapping

• Published in: Euphytica Vol. 178; no. 2; pp. 283 - 295
• Main Authors: Geethanjali, Subramaniam, Kadirvel, Palchamy, de la Peña, Robert, Rao, Eguru Sreenivasa, Wang, Jaw-Fen
• Format: Journal Article
• Language: English
• Published: Dordrecht Dordrecht : Springer Netherlands 01.03.2011; Springer Netherlands; Springer; Springer Nature B.V
• Subjects: Agronomy. Soil science and plant productions; Biological and medical sciences; Biological diversity; Biomedical and Life Sciences; Biotechnology; Chromosomes; Classical and quantitative genetics. Population genetics. Molecular genetics; Cloning; Fundamental and applied biological sciences. Psychology; Gene mapping; Generalities. Genetics. Plant material; Genetic aspects; Genetic diversity; Genetic linkage; Genetic resources, diversity; Genetics and breeding of economic plants; Genomics; Genotypes; Life Sciences; Lycopersicon esculentum; Molecular genetics; Plant Genetics and Genomics; Plant material; Plant Pathology; Plant Physiology; Plant Sciences; Selective breeding; Solanaceae; Solanum; Tomatoes; Bacterial artificial chromosome; Linkage map; Genetic diversity; Simple sequence repeats; Genetic mapping; Genetic marker; Solanum lycopersicum; Tomato; Artificial chromosome; Vegetable crop; Dicotyledones; Microsatellite DNA; Linkage group; Angiospermae; Genetic improvement; Lycopersicon esculentum; Chromosome 12; Spermatophyta; Solanaceae; Anchoring; Clone
• ISSN: 0014-2336; 1573-5060
• DOI: 10.1007/s10681-010-0331-8

In this study, we developed a total of 37 simple sequence repeat (SSR) markers from 11 bacterial artificial chromosome (BAC) clone sequences anchored on chromosome 12 of tomato available at Solanaceae Genomics Network. These SSR markers could group a set of 16 tomato genotypes comprising of Solanum lycopersicum, S. pimpinellifolium, S. habrochaites, and S. pennellii unambiguously according to their known species status. Clear subgroups of genotypes within S. lycopersicum were also observed. A subset of 16 SSR markers representing the 11 BAC clones was used for developing genetic linkage maps of three interspecific F₂ populations produced from the crosses involving a common S. lycopersicum parent (CLN2498E) with S. pennellii (LA1940), S. habrochaites (LA407) and S. pimpinellifolium (LA1579). The length of the genetic linkage maps were 112.5 cM, 109.3 cM and 114.1 cM, respectively. Finally, an integrated genetic linkage map spanning a total length of 118.7 cM was developed. The reported SSR markers are uniformly distributed on chromosome 12 and would be useful for genetic diversity and mapping studies in tomato.