review of quantitative disease resistance: multi-scale complexity
Nelson, R. J., T. Wiesner-Hanks, R. J. Wisser, and Peter Balint-Kurti (2017) Navigating complexity to breed disease-resistant crops. Nature Reviews Genetics [Accepted]
Gage, J., D. Jarquin, C. Romay, A. Lorenz, E. Buckler, S. Kaeppler, N. Alkhalifah, M. Bohn, D. Campbell, J. Edwards, D. Ertl, S. Flint-Garcia, J. Gardiner, B. Good, M. Gore, C. Hirsch, J. Holland, D. Hooker, J. Knoll, J. Kolkman, G. Kruger, N. Lauter, C. Lawrence-Dill, E. Lee, J. Lynch, S. Murray, R. Nelson, J. Petzoldt, T. Rocheford, J. Schnable, P. Schnable, B. Scully, M. Smith, N. Springer, S. Srinivasan, R. Walton, T. Weldekidan, R. Wisser, W. Xu, and J. Yu, and N. de Leon (2017) The effect of artificial selection on phenotypic plasticity in maize. Nature Communications [Accepted]
U-net CNN for macroscopic microcopy data (#1)
Saponaro, P., W. Treible, A. Kolagunda, S. Rhein, J. Caplan, C. Kambhamettu, and R. J. Wisser (2017) Three-dimensional segmentation of vesicular networks of fungal hyphae in macroscopic microscopy image stacks. IEEE International Conference on Image Processing Beijing, China., September, 2017. (arXiv:1704.02356)
Saponaro, P., W. Treible, A, Kolagunda, T. Chaya, J. Caplan, C. Kambhamettu, and R. Wisser (2017) DeepXScope: segmenting microscopy images with a deep neural network. The IEEE Conference on Computer Vision and Pattern Recognition (CVPR) Workshops; Computer Vision for Microscopy Image Analysis (CVMI) Honolulu, Hawaii, July, 2017.
Yang, Q., Y. He, M. Kabahuma, A. Kelly, E. Borrego, Y. Bian, F. E. Kasmi, L. Yang, J. Dunne, J. Kolkman, M. Kolomiets, R. Nelson, J. Holland, X. Li, N. Lauter, T. Chaya, J. Caplan, R. J. Wisser, and Peter Balint-Kurti (2017) A maize caffeoyl-CoA O-methyltransferase gene confers quantitative resistance to multiple pathogens. Nature Genetics DOI: http://dx.doi.org/10.1038/ng.3919.
Manching. H., S. Segupta, K. Hopper, S. Polson, Y. Ji, and R. J. Wisser (2017) Phased genotyping-by-sequencing enhances analysis of genetic diversity and reveals divergent copy number variants in maize. Genes, Genomes, Genetics 7:2161-2170. DOI: https://doi.org/10.1534/g3.117.042036.
Francis, F., M. Dumas, and R. J. Wisser (2017) ThermoAlign: a genome-aware primer design tool for tiled amplicon resequencing. Scientific Reports 16(7):44437; DOI: http://dx.doi.org/10.1038/srep44437
Jamann, T., S. Sood, R. J. Wisser, J. Holland (2017) High-throughput resequencing of maize landraces at genomic regions associated with flowering time. PLoS One DOI: http://dx.doi.org/10.1371/journal.pone.0168910.
Kolagunda, A., R. Wisser, T. Chaya, J. Caplan, and C. Kambhamettu (2016) Detection of fungal spores in 3D microscopy images of macroscopic areas of host tissue. IEEE International Conference on Bioinformatics and Biomedicine Shenzhen, China, December, 2016. DOI: http://dx.doi.org/10.1109/BIBM.2016.7822564.
Minker, K*. R., M. L. Biedrzycki*, A. Kolagunda, S. Rhein, F. J. Perina, S. S. Jacobs, M. Moore, T. M. Jamann, R. Nelson, Q. Yang, P. Balint-Kurti, C. Kambhamettu, R. J. Wisser, J. L. Caplan (2016) Semi-automated confocal imaging of fungal pathogenesis on plants: microscopic analysis of macroscopic specimens. Microscopy Research and Technique, Special Issue: High Resolution Multimodal Optical 4D Imaging DOI: 10.1002/jemt.22709.
*equal contributions: KRM and MLB; co-corresponding authors: RJW and JLC
Mhora, T., E. Ernest, R. J. Wisser, T. Evans, M. Patzoldt, N. Gregory, S. Polson, N. Donofrio (2016) Genotyping-by-sequencing to predict resistance to lima bean downy mildew in a diversity panel. Phytopathology; (Focus issue) Disease Management in the Genomics Era 106:1152-1158; DOI: http://dx.doi.org/10.1094/PHYTO-02-16-0087-FI.
Olukolu, B. A., Y. Bian, B. De Vries, W. F. Tracy, R. J. Wisser, J. B. Holland, P. J. Balint-Kurti (2016) The genetics of leaf flecking in maize and its relationship to the defense response and broad-spectrum disease resistance. Plant Physiology 172(3):1787-1803; DOI: http://dx.doi.org/10.1104/pp.15.01870.
Olukolu, B. A., W. F. Tracy, R. J. Wisser, B. De Vries, P. J. Balint-Kurti (2016) A genome-wide association study for partial resistance to maize common rust. Phytopathology 106(7):745-51; DOI: http://dx.doi.org/10.1094/PHYTO-11-15-0305-R.
Teixeira, J., T. Weldekidan, N. De Leon, S. Flint-Garcia, N. Lauter, J. Holland, S. Murray, W. Xu, D. Hessel, A. Kleintop, J. Hawk, A. Hallauer, R. J. Wisser (2015) Hallauer’s Tusón: a decade of selection for tropical-to-temperate phenological adaptation in maize. Heredity 114:229-240.
Warner, C. A., M. Biedrzycki, B, S. Jacobs, R. J. Wisser, J. L. Caplan, and J. Sherrier (2014) An optical clearing technique for plant tissues allowing deep imaging and compatible with fluorescence microscopy. Plant Physiology 166(4):1684-1687.
*Illuminated Cell Paper of the Month (May 2015)
Bian, Y., Q. Yang, P. Balint-Kurit, R. J. Wisser, and J. Holland (2014) Limits on the reproducibility of marker associations with southern leaf blight resistance in the maize nested association mapping population. BMC Genomics 15:1068.
Murray, S. C. and R. J. Wisser (2014) Genetic Inference on Quantitative Traits through Linkage and Association Studies. In R. Wusirika, M. Bohn, J. Lai, C. Kole (Eds.), Genetics, Genomics and Breeding of Maize (Chapter 3) Science Publishers, Inc, NH and CRC Press of Taylor and Francis Group, FL.
Olukolu, B. A., A. Negeri, R. Dhawan, B. P. Venkata, P. Sharma, A. Garg, E. Gachomo, S. Marla, K. Chu, A. Hasan, J. Ji, S. Chintamanani, J. Green, C. Shyu, R. Wisser, J. Holland, G. Johal, and P. Balint-Kurti (2013) A connected set of genes associated with programmed cell death implicated in controlling the hypersensitive response in maize. Genetics 193(2):609–620.
Veturi, Y., K. Kump, E. Walsh, O. Ott, J. Poland, J. M. Kolkman, P. J. Balint-Kurti, J. B. Holland, and R. J. Wisser (2012) Multivariate mixed linear model analysis of longitudinal data: an information-rich statistical technique for analyzing plant disease resistance. Phytopathology 102(11):1016–25
Wisser, R. J., P. J. Balint-Kurti, and J. B. Holland (2011) A novel genetic framework for studying response to artificial selection. Plant Genetic Resources: Characterization and Utilization 9(2):281–283.
Wisser, R. J., J. M. Kolkman, M. E. Patzoldt, J. B. Holland, J. Yu, M. Krakowsky, R. J. Nelson, and P. J. Balint-Kurti (2011) Multivariate analysis of maize disease resistances suggests a pleiotropic genetic basis and implicates a glutathione S-transferase gene. Proc. Natl. Acad. Sci. U. S. A. 108(18):7339–7344.
Kump, K. L., P. J. Bradbury, R. J. Wisser, E. S. Buckler, A. R. Belcher, M. A. Oropeza-Rosas, J. C. Zwonitzer, S. Kresovich, M. D. McMullen, D. Ware, P. J. Balint-Kurti, and J. B. Holland (2011) Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population. Nature Genetics 43:163–168.
*commentary: Haley, C. (2011) A cornucopia of maize genes. Nature Genetics 43:87–88.
basic intro to quantitative resistance
Wisser, R. J. (2010) Maize: Durable Resistance Breeding. In D. R. Heldman, D. G. Hoover, and M. B. Wheeler (Eds.), Encyclopedia of Biotechnology in Agriculture and Food (pp. 375–380) Taylor and Francis Group LLC, New York, NY.
Poland, J. A., P. J. Balint-Kurti, R. J. Wisser, R. C. Pratt, and R. J. Nelson (2009) Shades of gray: the world of quantitative disease resistance. Trends in Plant Science 14:21–29.
Wisser, R. J., S. C. Murray, J. M. Kolkman, H. Ceballos, and R. J. Nelson (2008) Selection mapping of loci for quantitative disease resistance in a diverse maize population. Genetics 180:583–599.
Balint-Kurti, P. J., R. Wisser, and J. C. Zwonitzer (2008) Use of an advanced intercross line population for precise mapping of quantitative trait loci for gray leaf spot resistance in maize. Crop Science 48:1696–1704.
Balint-Kurti, P. J., C. Zwonitzer, R. J. Wisser, M. Carson, M. A. Oropeza-Rosas, J. B. Holland, and S. J. Szalma (2007) Precise mapping of quantitative trait loci for resistance to southern leaf blight, caused by Cochliobolus heterostrophus race O, using an advanced intercross maize population. Genetics 176:645–657.
Wisser, R. J., P. J. Balint-Kurti, and R. J. Nelson (2006) The genetic architecture of disease resistance in maize: a synthesis of published studies. Phytopathology 96:120–129.
Wisser, R. J., Q. Sun, S. H. Hulbert, S. Kresovich, and R. J. Nelson (2005) Identification and characterization of regions of the rice genome associated with broad-spectrum, quantitative disease resistance. Genetics 169:2277–2293.
Monosi, B., R. J. Wisser, L. Pennill, and S. H. Hulbert (2004) Full-genome analysis of resistance gene homologues in rice. Theoretical and Applied Genetics 109:1434–1447.
Brown, J. S., D. Kuhn, R. Wisser, E. Power, and R. Schnell (2004) Quantification of sources of variation and accuracy of sequence discrimination in a replicated microarray experiment. BioTechniques 36:324–332.
Kuhn, D.N., Heath, M., R. J. Wisser, A. Meerow, J. S. Brown, U. Lopes, and R. J. Schnell (2003) Resistance gene homologues in Theobroma cacao as useful genetic markers. Theoretical and Applied Genetics 107:191–202.
Meerow, A. W., R. J. Wisser, S. J. Brown, D. N. Kuhn, R. J. Schnell, and T. K. Broschat (2003) Analysis of genetic diversity and population structure within Florida coconut (Cocos nucifera L.) germplasm using microsatellite DNA, with special emphasis on the Fiji Dwarf cultivar. Theoretical and Applied Genetics 106:715–726.
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