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Variation in recombination rates across Vitis species

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Abstract

Recombination rate data are presented for three populations of grape based on framework genetic linkage maps developed with simple-sequence repeat markers. These linkage maps were constructed from different Vitis species and represent three genetic backgrounds. The first population is pure Vitis vinifera, derived from a cross of the European cultivars Riesling and Cabernet Sauvignon. The second is an interspecific cross between two commercially used rootstock cultivars of different North American Vitis species parentage, Ramsey (Vitis champinii) and Riparia Gloire (Vitis riparia). The third population, D8909-15 (Vitis rupestris × (Vitis arizonica/Vitis girdiana form)) × F8909-17 (V. rupestris × (V. arizonica/Vitis candicans form)), is an F1 from two half-sibs. Genome-wide and chromosome-wide recombination rates varied across the three populations and among the six Vitis parents. Global recombination rates in the parents of the third F1 population, with a complex Vitis background, were significantly reduced. In the first and third populations, the recombination rate was significantly greater in the male parent. Specific genome locations with frequent heterogeneity in recombination were identified, suggesting that recombination rates are not equal across the Vitis genome. The identification of regions with suppressed or high recombination will aid grape breeders and geneticists who rely on recombination events to introgress disease resistance genes from the genomes of wild Vitis species, develop fine-scale genetic maps, and clone disease resistance genes.

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Acknowledgements

The authors gratefully acknowledge project funding from the California Grape Rootstock Improvement Commission, the California Department of Food and Agriculture Pierce’s Disease Board, and the Louis P. Martini Endowed Chair funds. We are also thankful for scholarship support to K.M. Lowe from the Tchelistcheff Fund, the American Society of Enology and Viticulture, the American Wine Society, and UC Davis Viticulture and Enology scholarships.

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  1. Department of Viticulture and Enology, University of California, One Shields Ave., Davis, CA, 95616, USA

    Kristin M. Lowe, Summaira Riaz & M. Andrew Walker

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  1. Kristin M. Lowe
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  2. Summaira Riaz
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Correspondence to M. Andrew Walker.

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Communicated by R. Velasco

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Supplemental Fig. 1

Pair-wise comparisons of the number of common marker intervals with significantly different recombination frequencies (RFs) between each Vitis map (Fig. 1a–d). Linkage groups (1–19) are presented on the X-axis, and significant marker intervals are on the Y-axis. (JPG 1.68 MB)

 

(JPG 1.56 MB)

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Lowe, K.M., Riaz, S. & Walker, M.A. Variation in recombination rates across Vitis species. Tree Genetics & Genomes 5, 71–80 (2009). https://doi.org/10.1007/s11295-008-0187-4

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