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Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000.

Lewis LA, Polanski K, de Torres-Zabala M, Jayaraman S, Bowden L, Moore J, Penfold CA, Jenkins DJ, Hill C, Baxter L, Kulasekaran S, Truman W, Littlejohn G, Prusinska J, Mead A, Steinbrenner J, Hickman R, Rand D, Wild DL, Ott S, Buchanan-Wollaston V, Smirnoff N, Beynon J, Denby K, Grant M.

Plant Cell. 2015 Nov 13. pii: tpc.15.00471. [Epub ahead of print]


Modelling transcriptional networks in leaf senescence.

Penfold CA, Buchanan-Wollaston V.

J Exp Bot. 2014 Jul;65(14):3859-73. doi: 10.1093/jxb/eru054. Epub 2014 Mar 5. Review.


Wigwams: identifying gene modules co-regulated across multiple biological conditions.

Polanski K, Rhodes J, Hill C, Zhang P, Jenkins DJ, Kiddle SJ, Jironkin A, Beynon J, Buchanan-Wollaston V, Ott S, Denby KJ.

Bioinformatics. 2014 Apr 1;30(7):962-70. doi: 10.1093/bioinformatics/btt728. Epub 2013 Dec 18.


Arabidopsis HEAT SHOCK TRANSCRIPTION FACTORA1b overexpression enhances water productivity, resistance to drought, and infection.

Bechtold U, Albihlal WS, Lawson T, Fryer MJ, Sparrow PA, Richard F, Persad R, Bowden L, Hickman R, Martin C, Beynon JL, Buchanan-Wollaston V, Baker NR, Morison JI, Schöffl F, Ott S, Mullineaux PM.

J Exp Bot. 2013 Aug;64(11):3467-81. doi: 10.1093/jxb/ert185. Epub 2013 Jul 4.


A local regulatory network around three NAC transcription factors in stress responses and senescence in Arabidopsis leaves.

Hickman R, Hill C, Penfold CA, Breeze E, Bowden L, Moore JD, Zhang P, Jackson A, Cooke E, Bewicke-Copley F, Mead A, Beynon J, Wild DL, Denby KJ, Ott S, Buchanan-Wollaston V.

Plant J. 2013 Jul;75(1):26-39. doi: 10.1111/tpj.12194. Epub 2013 May 11.


Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants.

Baxter L, Jironkin A, Hickman R, Moore J, Barrington C, Krusche P, Dyer NP, Buchanan-Wollaston V, Tiskin A, Beynon J, Denby K, Ott S.

Plant Cell. 2012 Oct;24(10):3949-65. doi: 10.1105/tpc.112.103010. Epub 2012 Oct 30.


Cell specific analysis of Arabidopsis leaves using fluorescence activated cell sorting.

Grønlund JT, Eyres A, Kumar S, Buchanan-Wollaston V, Gifford ML.

J Vis Exp. 2012 Oct 4;(68). pii: 4214. doi: 10.3791/4214.


Arabidopsis defense against Botrytis cinerea: chronology and regulation deciphered by high-resolution temporal transcriptomic analysis.

Windram O, Madhou P, McHattie S, Hill C, Hickman R, Cooke E, Jenkins DJ, Penfold CA, Baxter L, Breeze E, Kiddle SJ, Rhodes J, Atwell S, Kliebenstein DJ, Kim YS, Stegle O, Borgwardt K, Zhang C, Tabrett A, Legaie R, Moore J, Finkenstadt B, Wild DL, Mead A, Rand D, Beynon J, Ott S, Buchanan-Wollaston V, Denby KJ.

Plant Cell. 2012 Sep;24(9):3530-57. doi: 10.1105/tpc.112.102046. Epub 2012 Sep 28.


Nonparametric Bayesian inference for perturbed and orthologous gene regulatory networks.

Penfold CA, Buchanan-Wollaston V, Denby KJ, Wild DL.

Bioinformatics. 2012 Jun 15;28(12):i233-41. doi: 10.1093/bioinformatics/bts222.


Perturbation of cytokinin and ethylene-signalling pathways explain the strong rooting phenotype exhibited by Arabidopsis expressing the Schizosaccharomyces pombe mitotic inducer, cdc25.

Spadafora ND, Parfitt D, Marchbank A, Li S, Bruno L, Vaughan R, Nieuwland J, Buchanan-Wollaston V, Herbert RJ, Bitonti MB, Doonan J, Albani D, Prinsen E, Francis D, Rogers HJ.

BMC Plant Biol. 2012 Mar 27;12:45. doi: 10.1186/1471-2229-12-45.


A new broccoli × broccoli immortal mapping population and framework genetic map: tools for breeders and complex trait analysis.

Walley PG, Carder J, Skipper E, Mathas E, Lynn J, Pink D, Buchanan-Wollaston V.

Theor Appl Genet. 2012 Feb;124(3):467-84. doi: 10.1007/s00122-011-1721-6. Epub 2011 Oct 30.


High-resolution temporal profiling of transcripts during Arabidopsis leaf senescence reveals a distinct chronology of processes and regulation.

Breeze E, Harrison E, McHattie S, Hughes L, Hickman R, Hill C, Kiddle S, Kim YS, Penfold CA, Jenkins D, Zhang C, Morris K, Jenner C, Jackson S, Thomas B, Tabrett A, Legaie R, Moore JD, Wild DL, Ott S, Rand D, Beynon J, Denby K, Mead A, Buchanan-Wollaston V.

Plant Cell. 2011 Mar;23(3):873-94. doi: 10.1105/tpc.111.083345. Epub 2011 Mar 29.


A specific group of genes respond to cold dehydration stress in cut Alstroemeria flowers whereas ambient dehydration stress accelerates developmental senescence expression patterns.

Wagstaff C, Bramke I, Breeze E, Thornber S, Harrison E, Thomas B, Buchanan-Wollaston V, Stead T, Rogers H.

J Exp Bot. 2010 Jun;61(11):2905-21. doi: 10.1093/jxb/erq113. Epub 2010 May 9.


Probing the reproducibility of leaf growth and molecular phenotypes: a comparison of three Arabidopsis accessions cultivated in ten laboratories.

Massonnet C, Vile D, Fabre J, Hannah MA, Caldana C, Lisec J, Beemster GT, Meyer RC, Messerli G, Gronlund JT, Perkovic J, Wigmore E, May S, Bevan MW, Meyer C, Rubio-Díaz S, Weigel D, Micol JL, Buchanan-Wollaston V, Fiorani F, Walsh S, Rinn B, Gruissem W, Hilson P, Hennig L, Willmitzer L, Granier C.

Plant Physiol. 2010 Apr;152(4):2142-57. doi: 10.1104/pp.109.148338. Epub 2010 Mar 3.


A temporal precedence based clustering method for gene expression microarray data.

Krishna R, Li CT, Buchanan-Wollaston V.

BMC Bioinformatics. 2010 Jan 30;11:68. doi: 10.1186/1471-2105-11-68.


Temporal clustering by affinity propagation reveals transcriptional modules in Arabidopsis thaliana.

Kiddle SJ, Windram OP, McHattie S, Mead A, Beynon J, Buchanan-Wollaston V, Denby KJ, Mukherjee S.

Bioinformatics. 2010 Feb 1;26(3):355-62. doi: 10.1093/bioinformatics/btp673. Epub 2009 Dec 8.


Impact of environmental inputs on reverse-engineering approach to network structures.

Wu J, Sinfield JL, Buchanan-Wollaston V, Feng J.

BMC Syst Biol. 2009 Dec 4;3:113. doi: 10.1186/1752-0509-3-113.


Listen to genes: dealing with microarray data in the frequency domain.

Feng J, Yi D, Krishna R, Guo S, Buchanan-Wollaston V.

PLoS One. 2009;4(4):e5098. doi: 10.1371/journal.pone.0005098. Epub 2009 Apr 6.


A molecular and structural characterization of senescing Arabidopsis siliques and comparison of transcriptional profiles with senescing petals and leaves.

Wagstaff C, Yang TJ, Stead AD, Buchanan-Wollaston V, Roberts JA.

Plant J. 2009 Feb;57(4):690-705. doi: 10.1111/j.1365-313X.2008.03722.x. Epub 2008 Oct 16.


Transcriptional regulation of plant senescence: from functional genomics to systems biology.

Breeze E, Harrison E, Page T, Warner N, Shen C, Zhang C, Buchanan-Wollaston V.

Plant Biol (Stuttg). 2008 Sep;10 Suppl 1:99-109. doi: 10.1111/j.1438-8677.2008.00076.x.

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