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

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Abstract

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.

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Acknowledgments

The authors would like to thank Dr. Peter Hanson for providing information on tomato accessions, and Ms. Chiou-fen Hsu for technical assistance. This study is supported by funding provided by GTZ 81070160: Deutsche Gesellshaft fuer Technishe Zusammenarbeit GmbH of Germany.

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  1. Subramaniam Geethanjali

    Present address: Coconut Research Station, Tamil Nadu Agricultural University, Aliyarnagar, 642101, India

Authors and Affiliations

  1. AVRDC - The World Vegetable Center, 60 Yi-Min Liao, Shanhua, Tainan, 74151, Taiwan

    Subramaniam Geethanjali, Palchamy Kadirvel, Robert de la Peña, Eguru Sreenivasa Rao & Jaw-Fen Wang

  2. Division of Vegetable Crops, Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bangalore, 560089, India

    Eguru Sreenivasa Rao

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  1. Subramaniam Geethanjali
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Correspondence to Jaw-Fen Wang.

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Geethanjali, S., Kadirvel, P., de la Peña, R. et al. Development of tomato SSR markers from anchored BAC clones of chromosome 12 and their application for genetic diversity analysis and linkage mapping. Euphytica 178, 283–295 (2011). https://doi.org/10.1007/s10681-010-0331-8

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