Publications

Strange A., Li p., Lister C., Anderson J., Warthmann N., Shindo C., Irwin J., Nordborg M., Dean C. (2011) Major-effect alleles at relatively few loci underlie distinct vernalization and flowering variation in Arabidopsis accessions. PLoS ONE may20;6(5):e19949 (PDF download)

Angel A., Song J., Dean C., Howard M. (2011) A polycomb-based switch underlying quantitative epigenetic
memory. Nature 476, 105-108 (PDF download)

Box M. S., Coustham V., Dean C., Mylne J.S. (2011) Protocol: A simple phenol-based method for 96-well extraction of high quality RNA from Arabidopsis Plant Methods 7 7 (PDF download)

De Lucia F., Dean C (2010) Long non-coding RNAs and chromatin regulation. Current Opinion in Plant Biology 14. 168-173 (PDF download)

Crevillen P., Dean C. (2010) Regulation of the floral repressor gene FLC: the complexity of transcription in a chromatin context. Current Opinion in Plant Biology 14. 1-7 (PDF download)

Liu F, Marquardt, S., Lister C., Swiezewski, S., Dean, C. (2010) Targeted 3’ processing of antisense transcripts triggers Arabidopsis FLC chromatin silencing Science.  327: 94-97. (PDF download)
 
Atwell S et al (2010) Genome-wide association analysis of 107 phenotypes in Arabidopsis thaliana inbred lines Nature -465: 627-631 (PDF download)
 
Simpson GG, Laurie RE, Dijkwel PP, Quesada V, Stockwell PA, Dean C, Macknight RC. Noncanonical Translation Initiation of the Arabidopsis Flowering Time and Alternative Polyadenylation Regulator FCA. Plant Cell (2010) Nov;22(11):3764-77. (PDF download)

Manzano, D., Marquardt, S., Jones, A.M.E., Bäurle, I., Liu, F.and Dean, C. (2009) Altered interactions within FY/AtCPSF complexes required for Arabidopsis FCA-mediated chromatin silencing. Proc. Natl. Acad. Sci USA 106(21):8772-7. (PDF download)
 
Geraldo, N., Bäurle, I., Kidou S-K., Hu, X. And Dean, C. (2009) FRIGIDA delays flowering in Arabidopsis via a co-transcriptional mechanism involving direct interaction with the nuclear cap binding complex. Plant Physiol. 150(3):1611-8. (PDF download)
 
Swiezewski, S., Liu, F., Magusin, A. and Dean, C. (2009) Cold-induced silencing mediated by long antisense RNA from a Polycomb target. Nature. 462: 799-802. (PDF download)

De Lucia F, Crevillen P, Jones AM, Greb T, Dean C (2008) A PHD-Polycomb Repressive Complex 2 triggers the epigenetic silencing of FLC during vernalization.
Proc Natl Acad Sci U S A. 105(44):16831-6 (PDFdownload)

Bäurle I, Dean C. (2008) Differential interactions of the autonomous pathway RRM proteins and chromatin regulators in the silencing of Arabidopsis targets. PLoS ONE. Jul 16;3(7):e2733 (PDF download)

Pien S, Fleury D, Mylne JS, Crevillen P, Inzé D, Avramova Z, Dean C, Grossniklaus U. (2008) ARABIDOPSIS TRITHORAX1 dynamically regulates FLOWERING LOCUS C activation via histone 3 lysine 4 trimethylation. Plant Cell. 20(3):580-8. (PDF download)

Sheldon CC, Hills MJ, Lister C, Dean C, Dennis ES, Peacock WJ. (2008) Resetting of FLOWERING LOCUS C expression after epigenetic repression by vernalization. Proc Natl Acad Sci U S A. 105(6):2214-9 (PDF download)

Liu, F., Quesada, V., Crevillen, P., Baürle, I., Swiezewski, S., Dean, C. (2007) The Arabidopsis RNA binding protein FCA requires a Lysine Specific Demethylase 1 homologue to down-regulate FLC. Molecular Cell 28:398-407.
(PDF download)

Baürle, I., Smith L, Baulcombe, D.C. Dean, C. (2007) Widespread role for the flowering time regulators FCA and FPA in RNA-mediated chromatin silencing Science 318: 109-112 (PDF download)

Swiezewski, S., Crevillen, P., Liu, F., Ecker, J., Jerzmanowski, A., Dean, C. (2007) Small RNA-mediated chromatin silencing directed to the 3’ region of the developmental regulator, FLC. Proc. Natl. Acad. Sci 27, 3633-8
(PDF download)

Greb T, Mylne JS, Crevillen P, Geraldo N, An H, Gendall AR, Dean C. (2007) The PHD Finger Protein VRN5 Functions in the Epigenetic Silencing of Arabidopsis FLC. Curr Biol. 17, 73-8 (PDF download)

Zhao K, Aranzana MJ, Kim S, Lister C, Shindo C, Tang C, Toomajian C, Zheng H, Dean C, Marjoram P, Nordborg M. (2007) An Arabidopsis Example of Association Mapping in Structured Samples. PLoS Genet Jan 19;3(1):e4 (PDF download)

Marquardt S, Boss PK, Hadfield J, Dean C. (2006) Additional targets of the Arabidopsis autonomous pathway members, FCA and FY. J Exp Bot. 57(13):3379-86 (PDF download)

Shindo C, Lister C, Crevillen P, Nordborg M, Dean C. (2006) Variation in the epigenetic silencing of FLC contributes to natural variation in Arabidopsis vernalization response. Genes Dev 20(22):3079-83 (PDF download)

Baurle, I & Dean, C. (2006) The timing of developmental transitions in plants. Cell. 2006 May 19;125(4):655-64
(PDF download)

Toomajian, C., Hu, T., Aranzana, MJ., Lister, C., Tang, C., Zheng, H., Calíbrese, P., Dean, C., Nordborg, M. (2006) A nonparametric test reveals selection for rapid flowering in the Arabidopsis genome. PLoS Biology 4 e137
(PDF download)

Mylne, J., Barrett L, Tessadori F, Mesnage S, Johnson L, Bernatavichute Y, Jacobsen SE Fransz P and Dean, C (2006) LHP1, the Arabidopsis homologue of HETEROCHROMATIN PROTEIN1 is required for the epigenetic silencing of FLC. PNAS 103, 5012-7 (PDF download)

Mylne J, Greb T, Lister, C & Dean C (2005) Epigenetic regulation in the control of flowering. Cold Spring Harb Symp Quant Biol. 2004;69:457-64.

Aranzana, M, Kim, S., Zhao, K., Bakker E., Horton M., Jakob K., Lister C., Molitor J., Shindo C., Tang C., Toomajian C., Traw B., Zheng H., Bergelson J., Dean C., Marjoram P., Nordborg M. (2005) Genome-wide association mapping in Arabidopsis thaliana identifies previously known genes responsible for variation in flowering time and pathogen resistance. PLoS Genetics 1:e60 (PDF download)

Henderson, I., Liu, F., Drea, S., Simpson, G.G. and Dean, C (2005) An allelic series reveals essential roles for FY in plant development in addition to flowering-time control. Development 132, 3597-607 (PDF download)

Shindo, C., Aranzana, M.J., Lister, C., Baxter, C., Nicholls, C., Nordborg, M., Dean, C. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time in Arabidopsis accessions. Plant Physiol. 138, 1163-73 (PDF download)

Winichayakul, S., Beswick, N.L., Dean, C. and Macknight, R.C. (2005) Components of the Arabidopsis autonomous floral promotion pathway, FCA and FY, are conserved in monocots. Functional Plant Biology 32, 345 - 355

Henderson, I., Dean, C. (2004) Control of Arabidopsis flowering: the chill before the bloom. Development 131, 3829-3838 (PDF download)

Boss, P., Bastow, R. Mylne, J., Dean, C. (2004) Multiple pathways in the decision to flower: enabling, promoting and resetting. Plant Cell 16, S18-S31. (PDF download)

Bastow R, Mylne J. S., Lister C., Lippman Z., Martienssen R.A. & Dean C. (2004) Vernalization requires epigenetic silencing of FLC by histone methylation. Nature 427, 164-167. (PDF download)

Bastow, R. and Dean, C. (2003) Deciding when to flower. Science 302, 1695-1697. (PDF download)

Murtas, G., Reeves, P.H., Fu, Y-F., Bancroft, I., Dean, C., Coupland, G. (2003) A Nuclear Protease Required for Flowering-Time Regulation in Arabidopsis Reduces the Abundance of SUMO Conjugates. Plant Cell 15, 2308-2319.(PDF download)

Henderson, I., Shindo, C., Dean, C. (2003) The need for winter in the switch to flowering. Ann Rev Genet 2003 37: 371-92 (PDF download)

Simpson, G.G. Dijkwel, P.P., Quesada, V, Henderson, I and Dean, C. (2003) FY is an RNA 3’-end-processing factor that interacts with FCA to control the Arabidopsis floral transition. Cell 113, 777-787. (PDF download)

Quesada, V., Macknight, R., Dean, C. and Simpson, G. (2003) Autoregulation of FCA pre-mRNA processing controls flowering time. EMBO J. 22, 3142-3152. (PDF download)

Gazzani, S., Gendall, A.R., Lister, C. and Dean, C. (2003) Analysis of the molecular basis of flowering time variation in Arabidopsis accessions. Plant Physiol. 132, 1107-1114. (PDF download)

Muskett, P.R., Clissold, L., Marocco, A., Springer, P.S., Martienssen, R. and Dean, C. (2003) A resource of mapped Ds launch pads for targeted insertional mutagenesis in the Arabidopsis genome. Plant Physiol 132, 506-516. (PDF download)

Levy, Y.Y., Mesnage, S., Mylne, J.S., Gendall, A. and Dean, C. (2002) Multiple roles of Arabidopsis VRN1 in vernalization and flowering time control. Science 297, 243-246. (PDF download)

Macknight, R., Duroux, M., Laurie, R., Dijkwel, P., Simpson, G. and Dean, C. (2002) Functional significance of the alternative transcript processing of the Arabidopsis floral promoter, FCA. The Plant Cell 14, 877-888. (PDF download)

Simpson, G.G. and Dean, C (2002) Arabidopsis, the Rosetta stone of flowering time? Science 296, 285-289. (PDF download)

Gendall, A.R., Levy, Y.Y., Wilson, A. and Dean, C. (2001) The VERNALIZATION 2 gene mediates the epigenetic regulation of vernalization in Arabidopsis. Cell 107, 525-535 (PDF download)

Yamanaka, T., Ohta, T., Takahashi, M. Meshi, T., Schmidt, R. Dean, C., Naito S. and Ishikawa, M. (2000) TOM1, an Arabidopsis gene required for efficient multiplication of a tobamovirus, encodes a putative transmembrane protein. Proc. Natl. Acad. Sci. USA 97, 10107-10112. (PDF download)

Johanson, U., West, J., Lister, C., Michaels, S., Amasino, R. and Dean, C. (2000) Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering time. Science 290, 344-347. (PDF download)

Chandler, J. Martinez-Zapater, J.M., Dean, C. (2000) Mutations causing defects in the biosynthesis and response to gibberellins, abscisic acid and phytochrome B do not inhibit vernalization in Arabidopsis fca-1. Planta 210, 677-682. (PDF download)

Fransz, P., Armstrong, S., de Jong, H., Parnell, L., van Drunen, C., Dean, C., Zabel, P., Bisseling, T. and Jones, G. (2000) Integrated cytogenetic map of chromosome arm 4S of A. thaliana: Structural organization of heterochromatic knob and centromere region. Cell 100, 367-376. (PDF download)

Cho, R.J., Mindrinos, M., Richards, D., Sapolsky, R., Anderson, M., Drenkard, E., Dewdney, J., Reuber, L., Stammers, M., Federspiel, N., Thoelogis, A., Yang, W-H., Hubbeell, E., Au, M., Chung, E., Laskkari, D., Lemieux, B., Dean, C., Lipshutz, R., Ausubel, F., Davis, R. and Oefner, P. (1999) Genome-wide mapping with biallelic markers in Arabidopsis thaliana. Nature Genetics 23, 203-207. (PDF download)

Bhatt, A.M., Lister, C., Page, T., Fransz, P., Findlay, K., Jones, G.H., Dickinson, H.G. and Dean, C. (1999) The DIF1 gene of Arabidopsis is required for meiotic chromosome segregation and belongs to the REC8/RAD21 cohesin gene family. Plant J. 19, 463-472. (PDF download)

Marrison, J.L., Rutherford, S.M., Robertson, E.J., Lister, C., Dean, C. and Leech, R.M. (1999) The distinctive roles of five different ARC genes in the chloroplast division process in Arabidopsis. Plant J. 18, 651-662. (PDF download)

Simpson, G., Gendall, T. and Dean, C. (1999) When to switch to flowering. Ann. Rev. Cell Dev. Biol. 15, 519-550. (PDF download)

Page, T., Macknight, R. Yang, C-H., Dean, C. (1999) Genetic interactions of the Arabidopsis flowering time gene FCA, with genes regulating floral initiation. Plant J. 17, 231-239. (PDF download)

Levy, Y. and Dean, C. (1998) The transition to flowering. Plant Cell 10, 1973-1989. (PDF download)

Meinke D., Cherry, M., Dean, C., Rounsley, S.D., Koornneef, M. (1998) Arabidopsis thaliana: A model plant for genome analysis. Science 282, 662-667. (PDF download)

Alonso-Blanco, C., Peeters, A.J.M., Koornneef, M., Lister, C., Dean, C., van den Bosch, N., Pot, J. and Kuiper, M.T.R. (1998) Development of an AFLP based linkage map of Ler, Col and Cvi Arabidopsis thaliana ecotypes and construction of a Ler/Cvi recombinant inbred population. The Plant J. 14, 259-271 (PDF download)

Bhatt, A., Lister, C., Crawford, N. and Dean, C. (1998) The transposition of Tag1 elements is increased in transgenic Arabidopsis lines. The Plant Cell 10, 427-434. (PDF download)

Cavell, A., Lydiate, D., Parkin, I., Dean, C. and Trick, M. (1998) A 30cM segment of Arabidopsis thaliana chromosome 4 has six collinear homologues within the Brassica napus genome. Genome 41, 62-69 (PDF download)

Bevan, M., Bancroft, I., Bent, E., Love., Goodman, H. Dean, C., et al (1998) Analysis of 1.9Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana. Nature 391, 485-488. (PDF download)

Levy Y.and Dean, C. (1998) Control of flowering time. Current Opinion in Plant Biology Vol 1, 49-54. (PDF download)

Rinehart, T.A., Dean, C. and Weil, C. (1997) Comparative analysis of non-random DNA double-strand break repair following Ac transposon excision in maize and Arabidopsis. The Plant J. 12, 1419-1427. (PDF download)

Brandes, A., Thompson, H., Dean, C. and Heslop-Harrison, J.S. (1997) Multiple repetitive DNA sequences in the paracentromeric regions of Arabidopsis thaliana L Chromosome Res. 5, 238-246. (PDF download)

Macknight, R., Bancroft, I., Page, T., Lister, C., Schmidt, R., Love, K., Westphal, L., Murphy, G., Sherson, S., Cobbett, C. and Dean, C. (1997) FCA, a gene controlling flowering time in Arabidopsis, encodes a protein containing RNA-binding domains. Cell 89, 737-745. (PDF download)

Parker, J., Coleman, M.J., Szabo, V., Frost, L.N., Schmidt, R., van der Biezen, E.A., Moores, T., Dean, C., Daniels, M.J., Jones, J.D.G. (1997) The Arabidopsis downy mildew resistance gene RPP5 shares similarity to the Toll and interleukin-1 receptors with N and L6. The Plant Cell 9, 879-894. (PDF download)

Schmidt, R., Love, K., West, J., Lenehan, Z, Dean, C. (1997) Description of 31 YAC contigs spanning the majority of Arabidopsis thaliana chromosome 5. The Plant J. 11, 563-572. (PDF download)

Dietrich, R.A., Richberg, M.H., Schmidt, R., Dean, C. and Dangl, J.L. (1997) A novel zinc finger protein is encoded by the Arabidopsis LSD1 gene and functions as a negative regulator of plant cell death. Cell 88, 685-694. (PDF download)

Jarvis, P., Belzile, F. and Dean C (1997) Inefficient and incorrect processing of the Ac transposase transcript in iae1 and wild-type Arabidopsis thaliana. The Plant J. 11, 921-931. (PDF download)

Jarvis, P., Belzile, F., Page T. and Dean C. (1997) Increased Ac excision (iae); Arabidopsis thaliana mutations affecting Ac transposition. The Plant J. 11, 907-919. (PDF download)

Liu Y-G, Mitsukawa N, Lister C, Dean, C Whittier R. (1996) Isolation and mapping of a new set of 129 RFLP markers in Arabidopsis thaliana using recombinant inbred lines. The Plant J. 6, 733-736. (PDF download)

Thompson, H., Schmidt, R. Brandes, A., Heslop-Harrison, J.S. and Dean, C. (1996) A novel repetitive sequence associated with the centromeric regions of Arabidopsis thaliana. Mol Gen. Genet. 253, 247-252.

Thompson, H., Schmidt, R. and Dean, C. (1996) Analysis of the occurrence and nature of repeated DNA in an 850kb region of Arabidopsis thaliana chromosome 4. Plant Mol. Biol. 32, 553-557.

Thompson, H., Schmidt, R. and Dean, C. (1996) Identification and distribution of seven classes of middle-repetitive DNA in the Arabidopsis thaliana genome. Nuc. Acid Res. 24, 3017-3022. (PDF download)

Chandler, J., Wilson, A. and Dean, C (1996) Arabidopsis mutants showing an altered response to vernalization. The Plant J. 10, 637-644. (PDF download)

Bhatt, A., Page, T., Lawson, E., Lister, C. and Dean, C. (1996) Use of Ac as an insertional mutagen in Arabidopsis. The Plant Journal 9, 935-945. (PDF download)

Schmidt, R., West, J., Cnops, G., Love, K., Balestrazzi, A., Dean, C. (1996) Detailed description of 4 YAC contigs representing 17Mb of chromosome 4 of Arabidopsis thaliana ecotype Columbia. The Plant Journal 9, 101-111. (PDF download)

Clarke, J.H., Mithen, R., Brown, J. K.M. and Dean, C. (1995) QTL analysis of flowering time in Arabidopsis thaliana. Mol. Gen. Genet. 248, 278-286

Sundaresan, V., Springer, P., Volpe, T., Haward, S., Jones, J., Dean, C. and Martienssen, R. (1995) Patterns of gene action in plant development revealed by enhancer trap and gene trap transposable elements. Genes and Dev. 9, 1797-1810. (PDF download)

Mithen, R., Clarke, J., Lister, C. and Dean, C. (1995) Genetics of aliphatic glucosinolates. III Side chain structure of aliphatic glucosinolates in Arabidopsis thaliana. Heredity 74, 210-215. (PDF download)

Jansen, R.C., van Ooijen, J W., Stam, P., Lister, C. and Dean, C. (1995) Genotype by environment interaction in genetic mapping of multiple quantitative trait loci. Theor. Appl. Genet. 91, 33-37. (PDF download)

Goodman, H., Ecker, J. and Dean, C. (1995) The genome of Arabidopsis thaliana. Proc. Natl. Acad. Sci. 92, 10831-10835. (PDF download)

Schmidt, R., West, J., Love, K., Lenehan, Z., Lister, C., Thompson, H., Bouchez, D. and Dean C. (1995) Physical map and organization of Arabidopsis thaliana chromosome 4. Science 270, 480-483.

Dean, C. and Schmidt, R. (1995) Plant genomes: a current molecular description. Ann. Rev. Plant Physiol. 46, 395-418.

Lawson, E., Scofield, S., Sjodin, C., Jones, J. and Dean, C. (1994) Modification of the 5' untranslated leader region of the maize Activator element leads to increased activity in Arabidopsis. Mol. Gen. Genet. 245, 608-615.

Scheres, B., Wolkenfelt, H., Willemsen, V., Terlouw, M., Lawson, E., Dean, C. and Weisbeek, P. (1994) Embryonic origin of the Arabidopsis primary root and root meristem initials. Development 120, 2475-2487. (PDF download)

Dolan, L., Duckett, C.M., Grierson, C., Linstead, P., Schneider, K., Lawson, E., Dean, C., Poethig, S. and Roberts, K. (1994) Clonal relationships and cell patterning in the root epidermis of Arabidopsis. Development 120, 2465-2474. (PDF download)

ÕKeefe, D., Tepperman, J., Dean, C., Leto, K., Erbes, D. and Odell, J. (1994) Plant expression of a bacterial P450 that catalyzes activation of a sulfonylurea pro-herbicide. Plant Physiol. 105, 473-482. (PDF download)

Chandler, J. and Dean, C. (1994) Factors influencing the vernalization response and flowering time of late flowering mutants of Arabidopsis thaliana. J.Exp. Bot. 45, 1279-1288. (PDF download)

Jarvis, P., Lister, C., Szabo, V. and Dean, C (1994) Integration of CAPS markers into the RFLP map generated using recombinant inbred lines of Arabidopsis thaliana. Plant Mol. Biol. 24, 685-687.

Magrath, R., Bano, F., Morgner, M., Parkin, I., Sharpe, A., Lister, C., Dean, C., Turner, J., Lydiate, D. and Mithen, R. (1994) Genetics of aliphatic glucosinilates. 1. Side chain elongation in Brassica napus and Arabidopsis thaliana. Heredity 72, 290-299. (PDF download)

Schmidt, R., Putterill, J., Cnops, G., West, J., Coupland, G., Dean, C. (1994) Analysis of clones carrying repeated DNA sequences in two YAC libraries of Arabidopsis thaliana DNA. The Plant Journal 5, 735-744. (PDF download)

Clarke, J. and Dean, C. (1994) Mapping FRI - a locus controlling flowering time and vernalization response in Arabidopsis thaliana. Mol. Gen. Genet. 242, 81-89.

Parker, J. Szabo, V. Staskawicz, B. Lister, C. Dean, C., Daniels, M. Jones J. (1993) Phenotypic characterization and molecular mapping of the Arabidopsis thaliana locus RPP5 determining resistance to Peronospora parasitica. The Plant Journal 4, 821-831 (PDF download)

Lister, C. and Dean C. (1993) Recombinant inbred lines for mapping RFLP and phenotypic markers in Arabidopsis thaliana. The Plant Journal 4, 745-750. (PDF download)

Bancroft, I. Jones, J. and Dean, C. (1993) Heterologous transposon tagging of the DRL1 locus in Arabidopsis. The Plant Cell 5, 631-638. (PDF download)

Bancroft, I. and Dean, C. (1993) Transposition pattern of the maize element Ds in Arabidopsis thaliana. Genetics. 134. 1221-1229. (PDF download)

Bancroft, I. and Dean, C. (1993) Factors affecting the excision frequency of the maize transposable element Ds in Arabidopsis thaliana. Mol Gen Genet. 240, 65-72.

Tsay, Y-F., Frank, M., Page, T., Dean, C., Crawford, N. (1993) Identification of a mobile endogenous transposon in Arabidopsis thaliana. Science 260, 342-344. (PDF download)

Schmidt, R. and Dean, C. (1993) Towards construction of an overlapping YAC library of the Arabidopsis genome. BioEssays. 15, 63-69.

Bhatt A. and Dean, C. (1992) Development of tagging systems in plants using heterologous transposons. Curr, Opin. in Biotech. 3, 152-158.

Bancroft, I., Westphal L., Schmidt R. and Dean C. (1992) PFGE-resolved RFLP analysis of the DNA of Arabidopsis using probes as large as whole YACs. Nuc. Acid Res. 20, 6201-6207. (PDF download)

Schmidt R., Cnops G., Bancroft I. and Dean C. (1992) Construction of an overlapping YAC library of the Arabidopsis thaliana genome. Aust. J. Plant Physiol. 19, 341-351.

Bancroft I., Bhatt A., Sjodin C., Scofield S., Jones J. and Dean C. (1992) Development of an efficient two element transposon tagging system in Arabidopsis thaliana. Mol. Gen. Genet. 233, 449-461.

Dean C., Sjodin C., Page T., Jones J. and Lister C. (1992) Behaviour of the maize transposable element Ac in Arabidopsis thaliana. The Plant Journal 2, 69-81. (PDF download)

Hwang I., Kohchi T., Hauge B., Goodman H., Schmidt R., Cnops G., Dean C., Gibson S., Iba K.,Lemieux B.,Arondel V., Danhoff L. and Somerville C. (1991) Identification and map position of YAC clones comprising one third of the Arabidopsis genome. The Plant Journal, 1, 367-374. (PDF download)