Genome and Gene annotation

Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361(6403). Appels, R., Eversole, K., Feuillet, C., Keller, B., Rogers, J., Stein, N., … Wang, L. (2018).

The transcriptional landscape of polyploid wheat. Science, 361(6403). Ramírez-González, R. H., Borrill, P., Lang, D., Harrington, S. A., Brinton, J., Venturini, L., Davey, M., Jacobs, J., Van Ex, F., Pasha, A., Khedikar, Y., Robinson, S. J., Cory, A. T., Florio, T., Concia, L., Juery, C., Schoonbeek, H., Steuernagel, B., Xiang, D., … Uauy, C. (2018).

BSA mapping

MMAPPR: Mutation Mapping Analysis Pipeline for Pooled RNA-seq. Genome Research, 23(4), 687–697. Gorsi, B., Yost, H. J., Demarest, B. L., Bisgrove, B. W., Hill, J. T., & Su, Y.-C. (2013).

QTLseqr: An R Package for Bulk Segregant Analysis with Next-Generation Sequencing. The Plant Genome, 11(2), 0. Mansfeld, B. N., & Grumet, R. (2018).

Combining a New Exome Capture Panel With an Effective varBScore Algorithm Accelerates BSA-Based Gene Cloning in Wheat. Frontiers in Plant Science, 11. Dong, C., Zhang, L., Chen, Z., Xia, C., Gu, Y., et al. (2020).

BSA Demo

Identification of a Dominant Chlorosis Phenotype Through a Forward Screen of the Triticum turgidum cv. Kronos TILLING Population. Frontiers in Plant Science, 10, 963. Harrington, S. A., Cobo, N., Karafiátová, M., Doležel, J., Borrill, P., & Uauy, C. (2019).

A framework for gene mapping in wheat demonstrated using the Yr7 yellow rust resistance gene. Plos one, 15(4), p.e0231157. Gardiner, L.-J., Bansept-Basler, P., El-Soda, M., Hall, A., & O’Sullivan, D. M. (2020).