Denby, Katherine - York University - Department of Biology

个人简介

2016 Professor Academic Director of the N8 Agrifood Resilience programme Department of Biology, University of York 2006 - 2016 Associate Professor (from 2016 Professor) School of Life Sciences and Warwick Systems Biology Centre, University of Warwick 2005 - 2006 Senior Lecturer Department of Molecular and Cell Biology, University of Cape Town 1999 - 2004 Lecturer Department of Molecular and Cell Biology, University of Cape Town 1995 - 1998 Postdoctoral research Boyce Thompson Institute for Plant Research, Cornell University 1991 - 1994 D.Phil. Department of Plant Sciences, University of Oxford 1988 - 1991 B.Sc Hons 1st Class in Microbiology University of Bristol

研究领域

I am interested in plant disease resistance and plant-pathogen interaction, and in novel approaches for enabling and enhancing breeding of crop varieties tolerant to environmental stress and disease. We use experimental and computational/mathematical tools to elucidate the gene regulatory networks underlying plant defence, and highlight key genes for conferring disease resistance. We also take a synthetic biology approach, using modelling to predict how to re-engineer plant defence networks to enhance disease resistance. A complementary project is investigating how pathogen effectors are targeting the host defence response to facilitate infection and ways to manipulate these pathogen-host interactions.

近期论文

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Bechtold, Penfold, Jenkins, Legaie, Moore, Lawson, Matthews, Vialet-Chabrand, Baxter, Subramaniam, Hickman, Florance, Sambles, Salmon, Feil, Bowden, Hill, Baker, Lunn, Finkenstädt, Mead, Buchanan-Wollaston, Beynon, Rand, Wild, Denby, Ott, Smirnoff, Mullineaux (2016) Time-series transcriptomics reveals that AGAMOUS-LIKE22 affects primary metabolism and developmental processes in drought-stressed Arabidopsis. Plant Cell In press. Lewis, Polanski, Torres-Zabala, Jayaraman, Bowden, Moore, Penfold, Jenkins, Hill, Baxter, Kulasekaran, Truman, Littlejohn,Prusinska, Mead, Steinbrenner, Hickman, Rand, Wild, Ott, Buchanan-Wollaston, Smirnoff, Denby, Beynon and Grant. (2015) Transcriptional dynamics driving MAMP-triggered immunity and pathogen effector-mediated immunosuppression in Arabidopsis leaves following infection with Pseudomonas syringae pv. tomato DC3000. Plant Cell 27: 3038-3064 Ingle, Stoker, Stone, Adams, Smith, Grant, Carré, Roden and Denby (2015) Jasmonate signalling drives time-of-day differences in susceptibility of Arabidopsis to the fungal pathogen Botrytis cinerea. Plant Journal 84: 937-948 Atwell, Corwin, Soltis, Subedy, Denby and Kliebenstein (2015) Whole genome resequencing of Botrytis cinerea isolates identifies high levels of standing diversity. Frontiers in Microbiology, http://dx.doi.org/10.3389/fmicb.2015.00996 Windram and Denby (2015) Modeling signaling networks underlying plant defence. Current Opinion in Plant Biology 27:165-171 Brady, Burow, Busch, Carlborg, Denby, Glazebrook, Hamilton, Harmer, Haswell, Maloof, Springer and Kliebenstein(2015) Re-assess the t-test: interact with all your data via ANOVA. Plant Cell 27:2088-2094 Patron et al. (2015) Standards for Plant Synthetic Biology: A Common Syntax for Exchange of DNA. New Phytologist 208(1):13-19 Carstens, McCrindle, Adams, Diener, Guzha, Murray, Parker, Denby and Ingle. (2014) Increased resistance to biotrophic pathogens in the Arabidopsis constitutive induced resistance 1 mutant is EDS1 and PAD4-dependent and modulated by environmental temperature. Plos One 9(10):e109853 Windram, Penfold and Denby (2014) Network Modelling to Understand Plant Immunity. Annual Reviews of Phytopathology 52:93-111 Polanski, Rhodes, Hill, Zhang, Jenkins, Kiddle, Jironkin, Beynon, Buchanan-Wollaston, Ott and Denby. (2014) Wigwams: identifying gene modules co-regulated across multiple biological conditions. Bioinformatics 30(7):962-70 Hickman, Hill, Penfold, Breeze, Bowden, Moore, Zhang, Jackson, Cooke, Bewicke-Copley, Mead, Beynon, Wild, Denby, Ott and Buchanan-Wollaston. (2013) A Local Regulatory Network Around Three NAC Transcription Factors in Arabidopsis Stress Responses and Senescence. Plant Journal 75(1):26-39 Van der Linden,Bredenkamp,Naidoo,Fouché-Weich,Denby,Genin,Marco and Berger. (2013) Gene-for-Gene Tolerance to Bacterial Wilt in Arabidopsis. Molecular Plant Microbe Interactions 26(4): 398-406 Baxter, Jironkin, Hickman, Moore, Barrington, Krusche, Dyer, Buchanan-Wollaston, Tiskin, Beynon, Denby and Ott. (2012) Conserved Noncoding Sequences Highlight Shared Components of Regulatory Networks in Dicotyledonous Plants. Plant Cell 24: 3949-3965 Windram, Madhou, McHattie, Hill, Hickman, Cooke, Jenkins, Penfold, Baxter, Breeze, Kiddle, Rhodes, Atwell, Kliebenstein, Kim, Stegle, Borgwardt, Zhang, Tabrett, Legaie, Moore, Finkenstadt, Wild, Mead, Rand, Beynon, Ott, Buchanan-Wollaston, Denby. (2012) Arabidopsis defense against Botrytis cinerea: chronology and regulation deciphered by high-resolution temporal transcriptomic analysis. Plant Cell 24(9): 3530-3557 Cevik, Kidd, Zhang, Hill, Kiddle, Denby, Holub, Cahill, Manners, Schenk, Beynon and Kazan. (2012) MED25 Acts as an Integrative Hub for the Regulation of Jasmonate-Responsive Gene Expression in Arabidopsis. Plant Physiology 160(1): 541-555 Penfold, Buchanan-Wollaston, Denby and Wild. (2012) Nonparametric Bayesian inference for perturbed and orthologous gene regulatory networks. Bioinformatics 28: i233-i241 Lloyd, Allwood, Winder, Dunn, Heald, Cristescu, Sivakumaran, Harren, Mulema, Denby, Goodacre, Smith and Mur (2011) “Metabolomic approaches reveal that cell wall modifications play a major role in ethylene-mediated resistance against Botrytis cinerea” Plant Journal67(5):852-68 Erik Alexandersson, John VW Becker, Dan Jacobson, Eric Nguema-Ona, Cobus Steyn, Katherine J Denby, Melane A Vivier (2011) Constitutive expression of a grapevine polygalacturonase-inhibiting protein affects gene expression and cell wall properties in uninfected tobacco. BMC Research Notes2011, 4:493 J.M.K. Mulema, P. Okori, K.J. Denby, Proteomic analysis of the Arabidopsis thaliana-Botrytis cinerea interaction using two-dimensional liquid chromatography, African Journal of Biotechnology. 10 (2011) 17551-17563. Joseph M. K. Mulema and Katherine J. Denby (2011) “Spatial and temporal transcriptomic analysis of the Arabidopsis thaliana – Botrytis cinerea interaction” Molecular Biology Reports DOI: 10.1007/s11033-011-1185-4 Breeze, Harrison, McHattie, Hughes, Hickman, Hill, Kiddle, Kim, Penfold, Jenkins, Zhang, Morris, Jenner, Jackson, Thomas, Tabrett, Legaie, Moore, Wild, Ott, Rand, Beynon, Denby, Mead, Buchanan-Wollaston. (2011) “High-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and Regulation.” Plant Cell 23(3):873-94. Edward R. Morrissey, Miguel A. Juarez, Katherine J. Denby and Nigel J. Burroughs. (2011) “Inferring the time-invariant topology of a nonlinear sparse gene regulatory network using fully Bayesian spline autoregression”  Biostatistics; doi: 10.1093/biostatistics/kxr009 S. Naidoo, J. Fouche-Weich, P. Law, K. J. Denby, Y. Marco, and D. K. Berger. (2011) “An Eucalyptus bacterial wilt isolate from South Africa is pathogenic on Arabidopsis and manipulates host defences” Forest Pathology 41(2):101-113 E. R.Morrissey, M. A. Juárez, K. J. Denby and N. J. Burroughs (2010) “On reverse engineering of gene interaction networks using time course data with repeated measurements” Bioinformatics. 26(18):2305-2312 O. Stegle, E. Cooke, K. Denby, D. L. Wild, Z. Ghahramani and K. M. Borgwardt. (2010) “A Robust Bayesian Two-Sample Test for Detecting Intervals of Differential Gene Expression in Microarray Time Series” Journal of Computational Biology 17(3), 355-367