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Microsatellite isolation and marker development in carrot - genomic distribution, linkage mapping, genetic diversity analysis and marker transferability across Apiaceae

Pablo F Cavagnaro123, Sang-Min Chung14, Sylvie Manin1, Mehtap Yildiz15, Aamir Ali16, Maria S Alessandro12, Massimo Iorizzo1, Douglas A Senalik17 and Philipp W Simon17*

Author Affiliations

1 Dept. of Horticulture, University of Wisconsin-Madison, 1575 Linden Drive, Madison, WI 53706, USA

2 Estación Experimental Agropecuaria La Consulta, Instituto Nacional de Tecnología Agropecuaria, Ex Ruta 40. km 96, La Consulta CC 8, Mendoza (5567), Argentina

3 Consejo Nacional de Investigaciones Científicas y Tecnológicas (CONICET), Argentina

4 Dept. of Life Science, Dongguk University, 3-26 Pil-dong, Chung-gu, Seoul 100-715, South Korea

5 Dept. of Horticulture, Faculty of Agriculture, Yuzuncu Yil University, 65080, Van, Turkey

6 Department of Biological Sciences, University of Sargodha, Sargodha, Pakistan

7 USDA-ARS, Vegetable Crops Unit, Dept. of Horticulture, University of Wisconsin-Madison,1575 Linden Drive, Madison, WI 53706, USA

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BMC Genomics 2011, 12:386  doi:10.1186/1471-2164-12-386

Published: 1 August 2011

Additional files

Additional File 1:

Table S1 - Characteristics of 300 carrot simple sequence repeat markers. SSR type, motif, size, sequence, and primers of 300 GSSRs and BSSRs. Table S2 - Performance of GSSRs and BSSRs in subsets of 7 carrot F2 mapping populations. SSR alleles, polymorphism index, and PCR success2 for seven carrot populations. Table S3 - Accessions used for evaluating carrot SSR marker transferability to other Apiaceae. A list of the 23 diverse Daucus and other Apiaceae evaluated to assess transferability of carrot SSRs to related species. Table S4 - Potential transferability of SSR markers across Apiaceae accessions. Amplification success, clarity, and size of PCR products for 300 carrot SSRs when evaluated for 23 diverse Apiaceae. Table S5 - Daucus carota accessions used for analysis of SSR genetic diversity. A list of the 71 diverse Daucus carota evaluated to assess SSR diversity.

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Additional File 2:

Program used for finding ORFs in sequences.

Format: TXT Size: 26KB Download file

Open Data