CATMA: A Complete Arabidopsis transcriptome Microarray

CATMA publications

Citations

• When citing the CATMA GST repository as a whole, please refer to:

  Sclep, G., Allemeersch, J., Liechti, B., De Meyer, B. Beynon, J., Bhalerao, R., Moreau, Y., Nietfeld, W., Renou, J-P, Reymond, P., Hilson, P., Kuiper, M. (2007) CATMA, a comprehensive genome-scale resource for silencing and transcript profiling of Arabidopsis genes. BMC Bioinformatics Submitted

• When citing the use of GSTs in microarray or RNAi experiments, please refer to:

  Hilson, P., Allemeersch, J., Altmann, T., Aubourg, S., Avon, A., Beynon, J., Bhalerao, R., Bitton, F., Caboche, M., Cannoot, B., Chardakov, V., Cognet-Holliger, C. Colot, V., Crowe, M., Darimont, C., Durinck, S., Eickhoff, H., Falcon de Longevialle, A., Farmer, E.E., Grant, M., Kuiper, M.T.R., Lehrach, H., Léon, C., Leyva, A., Lundeberg, J., Lurin, C., Moreau, Y., Nietfeld, W., Paz-Ares, J., Reymond, P., Rouzé, P., Sandberg, G., Segura, M.D., Serizet, C., Tabrett, A., Taconnat, L., Thareau, V., Van Hummelen, P., Vercruysse, S., Vuylsteke, M., Weingartner, M., Weisbeek, P.J., Wirta, V., Wittink, F.R.A., Zabeau, M. and Small, I. (2004) Versatile Gene-Specific Sequence Tags for Arabidopsis Functional Genomics: transcript profiling and reverse genetics applications. Genome Research 14 (10b), 2176-2189. (PubMed)

• When citing the CATMA GST database, please refer to:

  Crowe, M.L., Serizet, C., Thareau, V., Aubourg, S., Rouzé, P., Beynon, J.L., Hilson, P., Weisbeek, P., Van Hummelen, P., Reymond, P., Paz-Ares, J., Nietfeld, W. and Trick, M. (2003) CATMA - A complete Arabidopsis GST database. Nucleic Acids Res 31, 156-158. (PubMed)

• When citing the software used to design the GSTs, refer to:

  Thareau, V., Déhais, P., Serizet, C., Hilson, P., Rouzé, P. and Aubourg, S. (2003) Automatic design of gene-specific sequence tags for genome-wide functional studies. Bioinformatics 19, 2191-2198. (PubMed)

Other papers presenting CATMA microarray data

• Lurin, C., Andres, C., Aubourg, S., Bellaoui, M., Bitton, F., Bruyere, C., Caboche, M., Debast, C., Gualberto, J., Hoffmann, B., Lecharny, A., Le Ret, M., Martin-Magniette, M.L., Mireau, H., Peeters, N., Renou, J.P., Szurek, B., Taconnat, L. and Small, I. (2004) Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis. Plant Cell 16, 2089-2103. (PubMed)


• Dieterle, M., Thomann, A., Renou, J.P., Parmentier, Y., Cognat, V., Lemonnier, G., Müller, R., Shen, W.-H., Kretsch, T. and Genschick, P. Molecular and functional characterization of Arabidopsis Cullin 3A. Plant Journal. 2005 Feb;41(3):386-99. (PubMed)


• Bertand, C., Benhamed, M., Li, Y.F., Ayadi, M., Lemonnier, G., Renou, J.P., Delarue, M. and Zhou, D.X. Arabidopsis HAF2 encoding TATA-binding (TBP)-associated factor TAF1, is required to integrate light signals to regulate gene expression and growth. Journal of Biological Chemistry. 2005 Jan 14;280(2):1465-73. (PubMed)


• Allemeersch, J., Durinck, S., Vanderhaeghen, R., Alard, P., Maes, R., Seeuws, K., Bogaert, T., Coddens, K., Deschouwer, K., Van Hummelen, P., Vuylsteke, M., Moreau, Y., Kwekkeboom, J., Wijfjes, A.H.M., May, S., Beynon, J., Hilson, P.* and Kuiper, M.T.R.* Benchmarking the CATMA microarray: a novel tool for Arabidopsis transcriptome analysis. Plant Physiology 2005 137, 588-601. (PubMed)


• Pineau C, Freydier A, Ranocha P, Jauneau A, Turner S, Lemonnier G, Renou JP, Tarkowski P, Sandberg G, Jouanin L, Sundberg B, Boudet AM, Goffner D and Pichon. Hca: an Arabidopsis mutant exhibiting unusual cambial activity and altered vascular patterning. Plant Journal. 2005 Oct 44(2), 271-289. (PubMed)


• Jammes F, Lecomte P, Almeida-Engler J, Bitton F, Martin-Magniette ML, Renou JP, Abad P and Favery B. Genome-wide expression profiling of the host response to root-knot nematode infection in Arabidopsis. Plant Joural. 2005 Nov 44 (3), 447-58. (PubMed)


• Vergnolle, C., Vaultier, M.N., Taconnat, L., Renou, J.P., Kader, J.C., Zachowski, A. and Ruelland E. (2005) The cold-induced early activation of phospholipase C and D pathways determine the response of two distinct clusters of genes in Arabidopsis cell suspensions. Plant Physiology 2005 Nov;139(3):1217-33. (PubMed)


• Abdulrazzak, N., Pollet, B., Ehlting, J., Larsen, K., Asnaghi, C., Ronseau, S., Proux, C., Erhardt, M., Seltzer, V., Renou, J.P., Ullmann, P., Pauly, M., Lapierre, C. and Werck-Reichhart, D. (2006) A coumaroyl-ester-3-hydroxylase insertion mutant reveals the existence of nonredundant meta-hydroxylation pathways and essential roles for phenolic precursors in cell expansion and plant growth. Plant Physiology 2006 Jan; 140(1):30-48. (PubMed)


• Guyomarc'h, S., Benhamed, M., Lemonnier, G., Renou, J.P., Zhou, D.X. and Delarue, M. (2006) MGOUN3: evidence for chromatin-mediated regulation of FLC expression. J of Exp Botany. 2006;57(9):2111-9. (PubMed)


• Ferrario-Mery, S., Besin, E., Pichon, O., Meyer, C. and Hodges, M. (2006) The regulatory PII protein controls arginine biosynthesis in Arabidopsis. FEBS Lett. 2006 Apr 3;580(8):2015-20. (PubMed)


• Herbette, S., Taconnat, L., Hugouvieux, V., Martin-Magniette, M.L., Cuine, S., Auroy, P., Richaud, P., Forestier, C., Bourguignon, J., Renou, J.P., Vavasseur, A. and Leonhart, N. (2006) Genome-wide transcriptome profiling of the early cadmium response of Arabidopsis roots and shoots. Biochimie. 2006 Jun 6; [Epub ahead of print] (PubMed)


• Manavella, P.A., Arce, A.L., Dezar, C.A., Bitton, F., Renou, J.P., Crespi, M. and Chan R. (2006) Analysis of transcriptional networks regulated by the sunflower Hahb-4 transcription factor in Arabidopsis revealed a conserved role in ethylene signaling. Plant Journal.2006 Oct;48(1):125-37. (PubMed)


• Little, D., Gouhier-Darimont, C., Bruessow, F., and Reymond, P. (2007). Oviposition by Pierid Butterflies Triggers Defense Responses in Arabidopsis. Plant Physiol. 143, 784-800. (PubMed)


• CATdb: a public access to Arabidopsis transcriptome data from the URGV-CATMA platform Gagnot, S., Tamby, J.-P., Martin-Magniette, M.-L., Bitton, F., Taconnat, L., Balzergue, S., Aubourg, S., Renou, J.-P., Lecharny, A., Brunaud, V. Nucleic Acids Res 2007 0: p. gkm757v1-gkm757 (Oxford Jourals)


• Zhu, Y., Dong, A., Meyer, D., Pichon, O., Renou, J.P., Cao, K. and Shen WH. NRP1 and NRP2 encoding NUCLEOSOME ASSEMBLY PROTEIN 1-related proteins in Arabidopsis are required for maintaining postembryonic root growth. Plant Cell. In Press.

Selected posters

This is a selection of presention by members of the CATMA consortium describing various aspects of the CATMA project. All are Microsoft Powerpoint files.

Design and Databasing of Genome-wide Gene Specific Tags	Talk describing the design of the CATMA genes and GSTs given by Pierre Rouzé of University Ghent at the Plant GEMs meeting in Berlin in October 2002.
CATMA, the Complete Arabidopsis Transcriptome Micro Array	Talk describing the aims and progress of CATMA given by Jim Beynon of HRI at the GARNet meeting in York in September 2001
The Complete Arabidopsis Transcriptome MicroArray (CATMA) Project	A poster describing the whole CATMA project, presented at the GARNet meeting in York in September 2001
Design and Databasing for the Complete Arabidopsis Transcriptome MicroArray (CATMA) project	Description of the bioinformatics behind the CATMA project, presented at the JOBIM meeting in St Malo in June 2002

To download the posters to your hard drive for easier viewing, right-click on the link and select 'save link/target as'.