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Detection and mapping of SSRs in rye ESTs from aluminium-stressed roots

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Abstract

Aluminium toxicity is a major problem for crop production on acid soils. Rye (Secale cereale L.) has one of the most efficient group of genes for aluminium tolerance, at least, four independent and dominant loci, Alt1, Alt2, Alt3 and Alt4, located on chromosome arms 6RS, 3RS, 4RL and 7RS, have been described. The increasing availability of expressed sequence tags in rye and related cereals provides a valuable resource of non-anonymous DNA molecular markers. In order to obtain simple sequence repeat (SSR) markers related with Al tolerance more than 1,199 public accessible rye cDNA sequences from Al-stressed roots were exploited as a resource for SSR markers development. From a total of 21 S. cereale microsatellite (SCM) loci analysed, 12 were located on chromosomes 1R, 2R, 3R, 4R and 5R, using wheat–rye addition lines or mapped using a F2 population segregating for Al tolerance. Seven SCM loci were included in a rye map with other SCIM and RAPD markers. Moreover, 14 SCM loci could be associated to proteins with known or unknown function. The possible implications of these sequences in aluminium tolerance mechanisms are discussed.

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Abbreviations

AFLP:

Amplified fragment length polymorphism

EST:

Expressed sequence tag

rali :

Rye aluminium induced

RAPD:

Random amplified polymorphic DNA

RFLP:

Restriction fragment length polymorphism

SCIM:

Secale cereale inter-microsatellite

SCM:

Secale cereale microsatellite

SSR:

Simple sequence repeat

wali :

Wheat aluminium induced

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Acknowledgements

We wish to thank Dr A.J. Lukaszewski for kindly providing the wheat–rye disomic addition lines. This work was supported by the research grants AGL 200306470 from the Ministry of Education and Science of Spain (DGICYT), PR27/05-13599 from the Santander/Complutense and POCI/AGR/58174/2004 from the Ministry of Science and Technology (FCT) of Portugal.

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  1. Departamento de Genética, Facultad de Biología, Universidad Complutense, 28040, Madrid, Spain

    V. Pérez-Flores, M. V. Camacho, B. Pernaute & C. Benito

  2. Centro de Genética e Biotecnologia (CGB-IBB), Universidade de Trás-os-Montes e Alto Douro, Apartado 1013, 5001-801, Vila Real, Portugal

    M. Matos & O. Pinto-Carnide

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  1. M. Matos
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  2. V. Pérez-Flores
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  3. M. V. Camacho
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  6. C. Benito
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Correspondence to C. Benito.

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Matos, M., Pérez-Flores, V., Camacho, M.V. et al. Detection and mapping of SSRs in rye ESTs from aluminium-stressed roots. Mol Breeding 20, 103–115 (2007). https://doi.org/10.1007/s11032-007-9077-y

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