Whole-genome modeling accurately predicts quantitative traits, as revealed in plants.

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Tatarinova, Tatiana; Shin, Min-Gyoung; Marjoram, Paul; Nuzhdin, Sergey; Triska, Martin; Rickauer, Martina; Nikolsky, Yuri; Mazurier, Melanie; Gentzbittel, Laurent; Ben, Cecile;
  • Related identifiers: doi: 10.1101/030395
  • Subject: bepress|Life Sciences|Biology | bepress|Life Sciences|Genetics and Genomics|Genetics

Many adaptive events in natural populations, as well as response to artificial selection, are caused by polygenic action. Under selective pressure, the adaptive traits can quickly respond via small allele frequency shifts spread across numerous loci. We hypothesize that... View more
  • References (72)
    72 references, page 1 of 8

    Agren, J. and Schemske, D. W. 2012. Reciprocal transplants demonstrate strong adaptive differentiation of the model organism Arabidopsis thaliana in its native range. New Phytol., 194(4): 1112-1122.

    Alexander, D. H., Novembre, J., and Lange, K. 2009. Fast model-based estimation of ancestry in unrelated individuals. Genome Res., 19(9): 1655-1664.

    Atwell, S., Huang, Y. S., Vilhjalmsson, B. J., Willems, G., Horton, M., Li, Y., Meng, D., Platt, A., Tarone, A. M., Hu, T. T., Jiang, R., Muliyati, N. W., Zhang, X., Amer, M. A., Baxter, I., Brachi, B., Chory, J., Dean, C., Debieu, M., de Meaux, J., Ecker, J. R., Faure, N., Kniskern, J. M., Jones, J. D. G., Michael, T., Nemri, A., Roux, F., Salt, D. E., Tang, C., Todesco, M., Traw, M. B., Weigel, D., Marjoram, P., Borevitz, J. O., Bergelson, J., and Nordborg, M. 2010. Genome-wide association study of 107 phenotypes in a common set of Arabidopsis thaliana inbred lines. Nature, 465(7298): 627-631.

    Ben, C., Toueni, M., Montanari, S., Tardin, M.-C., Fervel, M., Negahi, A., Saint-Pierre, L., Mathieu, G., Gras, M.-C., No¨el, D., Prosp´eri, J.-M., Pilet-Nayel, M.-L., Baranger, A., Huguet, T., Julier, B., Rickauer, M., and Gentzbittel, L. 2013. Natural diversity in the model legume Medicago truncatula allows identifying distinct genetic mechanisms conferring partial resistance to verticillium wilt. J. Exp. Bot., 64(1): 317-332.

    Berg, J. J. and Coop, G. 2014. A population genetic signal of polygenic adaptation. PLoS Genet., 10(8): e1004412.

    Bian, Y., Yang, Q., Balint-Kurti, P. J., Wisser, R. J., and Holland, J. B. 2014. Limits on the reproducibility of marker associations with southern leaf blight resistance in the maize nested association mapping population. BMC Genomics , 15(1): 1068.

    Bonhomme, M., Andr´e, O., Badis, Y., Ronfort, J., Burgarella, C., Chantret, N., Prosperi, J.-M., Briskine, R., Mudge, J., Deb´ell´e, F., Navier, H., Miteul, H., Hajri, A., Baranger, A., Tiffin, P., Dumas, B., Pilet-Nayel, M.-L., Young, N. D., and Jacquet, C. 2013. High-density genome-wide association mapping implicates an F-box encoding gene in Medicago truncatula resistance to Aphanomyces euteiches. New Phytol., 201(4): 1328-1342.

    Branca, A., Paape, T. D., Zhou, P., Briskine, R., Farmer, A. D., Mudge, J., Bharti, A. K., Woodward, J. E., May, G. D., Gentzbittel, L., Ben, C., Denny, R., Sadowsky, M. J., Ronfort, J., Bataillon, T., Young, N. D., and Tiffin, P. 2011. Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula. Proc. Natl. Acad. Sci. U. S. A., 108(42): E864-E870.

    Campo, D., Lehmann, K., Fjeldsted, C., Souaiaia, T., Kao, J., and Nuzhdin, S. V. 2013. Wholegenome sequencing of two North American Drosophila melanogaster populations reveals genetic differentiation and positive selection. Mol. Ecol., 22(20): 5084-5097.

    Coop, G., Pickrell, J. K., Novembre, J., Kudaravalli, S., Li, J., Absher, D., Myers, R. M., CavalliSforza, L. L., Feldman, M. W., and Pritchard, J. K. 2009. The role of geography in human adaptation. PLoS Genet., 5(6): e1000500.

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