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Increasing the density of markers around a major QTL controlling resistance to angular leaf spot in common bean

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Abstract

Angular leaf spot (ALS) causes major yield losses in the common bean (Phaseolus vulgaris L.), an important protein source in the human diet. This study describes the saturation around a major quantitative trait locus (QTL) region, ALS10.1, controlling resistance to ALS located on linkage group Pv10 and explores the genomic context of this region using available data from the P. vulgaris genome sequence. DArT-derived markers (STS-DArT) selected by bulk segregant analysis and SCAR and SSR markers were used to increase the resolution of the QTL, reducing the confidence interval of ALS10.1 from 13.4 to 3.0 cM. The position of the SSR ATA220 coincided with the maximum LOD score of the QTL. Moreover, a new QTL (ALS10.2UC) was identified at the end of the same linkage group. Sequence analysis using the P. vulgaris genome located ten SSRs and seven STS-DArT on chromosome 10 (Pv10). Coincident linkage and genome positions of five markers enabled the definition of a core region for ALS10.1 spanning 5.3 Mb. These markers are linked to putative genes related to disease resistance such as glycosyl transferase, ankyrin repeat-containing, phospholipase, and squamosa-promoter binding protein. Synteny analysis between ALS10.1 markers and the genome of soybean suggested a dynamic evolution of this locus in the common bean. The present study resulted in the identification of new candidate genes and markers closely linked to a major ALS disease resistance QTL, which can be used in marker-assisted selection, fine mapping and positional QTL cloning.

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Acknowledgments

The authors thank Dr. Phil McClean for allowing the usage of the bean genome sequence assembly data from Phytozome. PRO received a fellowship from São Paulo Research Foundation-FAPESP (2009/02411-2). This work was supported by São Paulo Research Foundation-FAPESP (2010/51673-7).

Conflict of interest

The authors declare that they have no conflict of interests.

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Authors and Affiliations

  1. Departamento de Genética e Evolução e Bioagentes, Instituto de Biologia, Universidade Estadual de Campinas (UNICAMP), Campinas, São Paulo, 13083-970, Brazil

    Paula Rodrigues Oblessuc, Juliana Morini Kupper Cardoso Perseguini & Renata Moro Baroni

  2. Centro de Recursos Genéticos Vegetais, Instituto Agronômico de Campinas (IAC), Campinas, São Paulo, 13001-970, Brazil

    Paula Rodrigues Oblessuc, Juliana Morini Kupper Cardoso Perseguini, Renata Moro Baroni, Jorge Mauricio Costa Mondego & Luciana Lasry Benchimol-Reis

  3. Centro de Grãos e Fibras, Instituto Agronômico de Campinas (IAC), Campinas, São Paulo, 13001-970, Brazil

    Alisson Fernando Chiorato & Sérgio Augusto Morais Carbonell

  4. CHU Sainte-Justine Research Center, Université de Montréal, Montréal, QC, Canada

    Ramon Oliveira Vidal

  5. Departamento de Fitopatologia e Nematologia, Universidade de São Paulo, Escola Superior de Agricultura Luiz de Queiroz (USP-ESALQ), Piracicaba, São Paulo, 13418-900, Brazil

    Luis Eduardo Aranha Camargo

Authors
  1. Paula Rodrigues Oblessuc
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  2. Juliana Morini Kupper Cardoso Perseguini
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  3. Renata Moro Baroni
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  4. Alisson Fernando Chiorato
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  5. Sérgio Augusto Morais Carbonell
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  6. Jorge Mauricio Costa Mondego
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  7. Ramon Oliveira Vidal
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  8. Luis Eduardo Aranha Camargo
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  9. Luciana Lasry Benchimol-Reis
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Corresponding author

Correspondence to Paula Rodrigues Oblessuc.

Additional information

Communicated by B. Diers.

Electronic supplementary material

Below is the link to the electronic supplementary material.

122_2013_2146_MOESM1_ESM.docx

Scaffold00383 from Phytozome v0.9 database with the physical position of the markers PvM13 and IAC137. An approximated distance of 3.0 kb between the two clusters of each marker can be observed, as well as the E value for each marker alignment with the bean genome. At the bottom are the transcripts predicted for this region. Supplementary material 1 (DOCX 21 kb)

Supplementary material 2 (DOCX 21 kb)

Supplementary material 3 (TIF Image 138 kb)

Supplementary material 4 (DOCX 22 kb)

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Oblessuc, P.R., Cardoso Perseguini, J.M.K., Baroni, R.M. et al. Increasing the density of markers around a major QTL controlling resistance to angular leaf spot in common bean. Theor Appl Genet 126, 2451–2465 (2013). https://doi.org/10.1007/s00122-013-2146-1

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  • DOI: https://doi.org/10.1007/s00122-013-2146-1

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