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Repetitive Indel Markers within the ALMT1 Gene Conditioning Aluminium Tolerance in Wheat (Triticum aestivum L.)

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Abstract

ALMT1 gene encoding a membrane protein that facilitates an aluminium stimulated malate efflux has been characterised and mapped in wheat (Triticum aestivum L.). Here, we have identified molecular markers targeting insertion/deletion (indel) and SSR repeats within intron 3 region of the ALMT1 gene. Both the markers: ALMT1-SSR3a and ALMT1-SSR3b based on repetitive indels, exhibited complete cosegregation with Al tolerance, malate efflux, and a CAPS marker discriminating ALMT1-1 and ALMT1-2 alleles, in a doubled haploid population derived from Diamondbird (Al-tolerant)/Janz (Al-sensitive). A parental screen of 20 diverse wheat genotypes with repetitive indel markers indicated that six allele variants exist at the ALMT1SSR3 locus. Sequence analysis confirmed that these variations were due to indels, copy number of SSR repeats, and base substitution within SSR repeats. The higher level of variation in intron 3 suggests that this genomic region has been constrained by indels, SSR and single nucleotide polymorphisms. Results have proven that repetitive indel markers cosegregating with the Al tolerance locus will be useful for marker assisted selection and population and evolution studies.

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Acknowledgments

We greatly acknowledge the NSW Agricultural Genomics Centre of BioFirst Initiative of NSW Government and NSWDPI for supporting this project. We thank Fiona Wray for technical assistance and Greg Grimes (Australian Winter Cereal Collection, Tamworth) for providing seeds of some wheat accessions.

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Authors and Affiliations

  1. NSW Department of Primary Industries and NSW Agricultural Genomics Centre, Wagga Wagga Agricultural Institute, Pine Gully Road, Wagga Wagga, NSW, 2650, Australia

    Harsh Raman, Rosy Raman, Rachel Wood & Peter Martin

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  1. Harsh Raman
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  2. Rosy Raman
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  3. Rachel Wood
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  4. Peter Martin
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Correspondence to Harsh Raman.

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Raman, H., Raman, R., Wood, R. et al. Repetitive Indel Markers within the ALMT1 Gene Conditioning Aluminium Tolerance in Wheat (Triticum aestivum L.). Mol Breeding 18, 171–183 (2006). https://doi.org/10.1007/s11032-006-9025-2

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  • DOI: https://doi.org/10.1007/s11032-006-9025-2

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