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SSR allelic variation in almond (Prunus dulcis Mill.)

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Abstract

Sixteen SSR markers including eight EST-SSR and eight genomic SSRs were used for genetic diversity analysis of 23 Chinese and 15 international almond cultivars. EST- and genomic SSR markers previously reported in species of Prunus, mainly peach, proved to be useful for almond genetic analysis. DNA sequences of 117 alleles of six of the 16 SSR loci were analysed to reveal sequence variation among the 38 almond accessions. For the four SSR loci with AG/CT repeats, no insertions or deletions were observed in the flanking regions of the 98 alleles sequenced. Allelic size variation of these loci resulted exclusively from differences in the structures of repeat motifs, which involved interruptions or occurrences of new motif repeats in addition to varying number of AG/CT repeats. Some alleles had a high number of uninterrupted repeat motifs, indicating that SSR mutational patterns differ among alleles at a given SSR locus within the almond species. Allelic homoplasy was observed in the SSR loci because of base substitutions, interruptions or compound repeat motifs. Substitutions in the repeat regions were found at two SSR loci, suggesting that point mutations operate on SSRs and hinder the further SSR expansion by introducing repeat interruptions to stabilize SSR loci. Furthermore, it was shown that some potential point mutations in the flanking regions are linked with new SSR repeat motif variation in almond and peach.

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Acknowledgements

This work was financially supported by the National Natural Science Foundation of China (grant No. 30170649) and the National Tenth Five-Year Program of Science and Technology (grant No. 2001BA707B02 and 2004BA713B09-05).

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Authors and Affiliations

  1. Beijing Agro-Biotechnology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Ban-Jing Rd., Hai-Dian District, 100089, Beijing, China

    Hua Xie, Yi Sui, Feng-Qi Chang, Yong Xu & Rong-Cai Ma

  2. College of Life Sciences, Capital Normal University, 100037, Beijing, China

    Yi Sui & Rong-Cai Ma

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  1. Hua Xie
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  2. Yi Sui
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  3. Feng-Qi Chang
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  4. Yong Xu
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  5. Rong-Cai Ma
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Correspondence to Rong-Cai Ma.

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Communicated by H. Nybom

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Xie, H., Sui, Y., Chang, FQ. et al. SSR allelic variation in almond (Prunus dulcis Mill.). Theor Appl Genet 112, 366–372 (2006). https://doi.org/10.1007/s00122-005-0138-5

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  • DOI: https://doi.org/10.1007/s00122-005-0138-5

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