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Comparison of genetic and cytogenetic maps of hexaploid wheat (Triticum aestivum L.) using SSR and DArT markers

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Abstract

A number of technologies are available to increase the abundance of DNA markers and contribute to developing high resolution genetic maps suitable for genetic analysis. The aim of this study was to expand the number of Diversity Array Technology (DArT) markers on the wheat array that can be mapped in the wheat genome, and to determine their chromosomal location with respect to simple sequence repeat (SSR) markers and their position on the cytogenetic map. A total of 749 and 512 individual DArT and SSR markers, respectively, were identified on at least one of four genetic maps derived from recombinant inbred line (RIL) or doubled haploid (DH) populations. A number of clustered DArT markers were observed in each genetic map, in which 20–34% of markers were redundant. Segregation distortion of DArT and SSR markers was also observed in each mapping population. Only 14% of markers on the Version 2.0 wheat array were assigned to chromosomal bins by deletion mapping using aneuploid lines. In this regard, methylation effects need to be considered when applying DArT marker in genetic mapping. However, deletion mapping of DArT markers provides a reference to align genetic and cytogenetic maps and estimate the coverage of DNA markers across the wheat genome.

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Acknowledgements

The authors wish to thank Natalie Parry, Tash Teakle and Danielle Cash for technical assistance. This work was supported by Grains Research Development Corporation through projects DAW089 and DAW126 of the Australian Winter Cereals Molecular Marker Program and Value Added Wheat Cooperative Centre through projects 4.3.9 and 4.5.11.

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Authors and Affiliations

  1. Department of Agriculture and Food Western Australia, 3 Baron Hay Ct, South Perth, WA, 6151, Australia

    Michael G. Francki, Esther Walker, Allison C. Crawford, Sue Broughton, Iain Barclay, Robin E. Wilson & Robyn McLean

  2. State Agricultural Biotechnology Centre, Murdoch University, Perth, WA, 6150, Australia

    Michael G. Francki, Esther Walker & Allison C. Crawford

  3. Value Added Wheat Cooperative Research Centre, North Ryde, NSW, 2113, Australia

    Michael G. Francki & Allison C. Crawford

  4. Department of Agronomy, Lilly Hall, Purdue University, 915 State St, West Lafayette, IN, 47907, USA

    Herbert W. Ohm

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  1. Michael G. Francki
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Correspondence to Michael G. Francki.

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Communicated by M. Yano.

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Supplementary Figure 1.

Distribution of DArT and SSR markers in geneticmaps for P92201D5-2/P91193D1-10, Ajana/WAWHT2074, Cadoux/Reevesand EGA Blanco/Millewa for 21 wheat chromosomes. The deletion bin map isto the right of the genetic maps, where chromosomal breakpoints are shownas horizontal lines and colour coded regions represent individual bins. Thecoloured markers in the genetic maps align to specific regions of wheatdeletion bins as described by Sourdille et al (2004) for SSRs and DArTmarkers in this study. Markers showing no recombination in the genetic mapsare shaded grey, whereas markers identified as having significant (P<0.05)segregation distortion or multiple loci are indicated by * and †, respectively.The doubled hatched lines represent markers >50 cM apart and with LODscore <2.4. Markers in similar positions for at least 2 genetic maps areunderlined. (PPT 763 kb)

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Francki, M.G., Walker, E., Crawford, A.C. et al. Comparison of genetic and cytogenetic maps of hexaploid wheat (Triticum aestivum L.) using SSR and DArT markers. Mol Genet Genomics 281, 181–191 (2009). https://doi.org/10.1007/s00438-008-0403-9

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