Further progress towards a catalogue of all Arabidopsis genes: Analysis of a set of 5000 non-redundant ESTs

Plant Journal

Volumn 9, Issue 1, 1996, Pages 101-124

  Cooke, Richard ^a   Raynal, Monique ^a   Laudié, Michele ^a   Grellet, Françoise ^a   Delseny, Michel ^a   Morris, Peter Christian ^b   Guerrier, Danièle ^b   Giraudat, Jérôme ^b   Quigley, Françoise ^b   Clabault, Gérard ^b   Li, You Fang ^b   Mache, Régis ^b   Krivitzky, Micheline ^c   Gy, Isabelle Jean Jacques ^c   Kreis, Martin ^c   Lecharny, Alain ^c   Parmentier, Yves ^d   Marbach, Jacqueline ^d   Fleck, Jacqueline ^d   Clément, Bernadette ^d   Philipps, Gabriel ^d   Hervé, Christine ^b   Bardet, Claude ^b   Tremousaygue, Dominique ^b   Lescure, Bernard ^b   Lacomme, Christophe ^e   Roby, Dominique ^e   Jourjon, Marie Françoise ^e   Chabrier, Patrick ^e   Charpenteau, Jean Louis ^e   Desprez, Thierry ^e   Amselem, Joelle ^e   Chiapello, Helen ^e   Höfte, Herman ^e   more..

^a UNIVERSITÉ DE PERPIGNAN   (France)

^b CNRS   (France)

^c UNIVERSITÉ PARIS SACLAY   (France)

^d INST DE BIOL MOLEC DES PLANTES   (France)

^e CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARABIDOPSIS THALIANA;

COMPLEMENTARY DNA;

AMINO ACID SEQUENCE; ARABIDOPSIS; ARTICLE; COMPARATIVE STUDY; DNA SEQUENCE; FACTUAL DATABASE; GENE; GENE EXPRESSION; GENE LIBRARY; GENETIC MARKER; GENETICS; MOLECULAR BIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; REPRODUCIBILITY; RICE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY;

AMINO ACID SEQUENCE; ARABIDOPSIS; BASE SEQUENCE; CONSERVED SEQUENCE; DATABASES, FACTUAL; DNA, COMPLEMENTARY; GENE EXPRESSION; GENE LIBRARY; GENES, PLANT; GENETIC MARKERS; MOLECULAR BIOLOGY; MOLECULAR SEQUENCE DATA; ORYZA SATIVA; REPRODUCIBILITY OF RESULTS; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY;

EID: 0030038486     PISSN: 09607412     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-313X.1996.09010101.x     Document Type: Article

References (32)

1. Adams, M.D., Kelley, J.M., Gocayne, J.D. et al. (1991) Complementary DNA sequencing: Expressed sequence tags and human genome project. Science, 252, 1651-1656.
2. Adams, M.D., Dubnick, M., Kerlavage, A.R., Moreno, R.F., Kelley, J.M., Utterback, T.R., Nagle, J.W., Fields, C. and Venter, J.C. (1992) Sequence identification of 2,375 human brain genes. Nature, 355, 632-634.
3. Adams, M.D., Kerlavage, Fields, C. and Venter, J.C. (1993) 3,400 new expressed gene sequence tags identify diversity of transcripts in human brain. Nature Genet. 4, 256-267.
4. Alexander, R., Alamillo, J.M., Salamini, F. and Bartels, D. (1994) A novel embryo-specific barley cDNA clone encodes a protein with homologiesto bacterial glucose and ribitol dehydrogenase. Planta, 192, 519-525.
5. Altschul, S.F., Gish, W., Miller, W., Myers, E.W. and Lipman, D. (1990) Basic local alignment search tool. J. Mol. Biol. 215, 403-410.
6. Boguski, M.S., Lowe, T.M.J. and Tolstoshev, S.H. (1993) dbEST - data base for 'expressed sequence tags'. Nature Genet. 4, 332-333.
7. Claverie, J.-M. (1993) Database of ancient sequences. Nature, 364, 19-20.
8. Doermann, P., Voelker, T.A. and Ohlrogge, J.B. (1995) Cloning and expression in E. coli of a novel thioesterase from Arabidopsis thaliana specific for long chain acyl carrier proteins. Arch. Biochem. Biophys. 316, 612-618.
9. Genschik, P., Durr, A. and Fleck, J. (1994) Differential expression of several E2-type ubiquitin carrier protein gones at different developmental stages in Arabidopsis thaliana and Nicotiana sylvestris. Mol. Gen. Genet. 244, 548-556.
10. Gibson, S. and Somerville, C. (1993) Isolating plant genes. Trends Biotechnol. 11, 306-313.
11. Giraudat, J., Hauge, B.M., Valon, C., Smalle, Parcy, J.F. and Goodman, H.M. (1992) Isolation of the Arabidopsis thaliana ABI3 gene by positional cloning. Plant Cell, 4, 1251-1261.
12. Green, P., Lipman, D., Hillier, L., Waterston R., States, D. and Claverie, J.M. (1993) Ancient conserved regions in new gene sequences and the protein data bases. Science, 259, 1711-1716.
13. Grellet, F., Cooke, R., Raynal, M., Laudié, M. and Delseny, M. (1993) Arabidopsis thaliana systematic cDNA sequencing reveals a gene with homology with Umbellularia californica C12:0 ACP thioesterase. Plant Physiol. Biochem. 31, 599-602.
14. Hauge, B.M., Hanley, S.M., Cartinhour, S., et al. (1993) An integrated genetic/RFLP map of the Arabidopsis thaliana genome. Plant J. 3, 745-754.
15. Herzog, M., Dorne, A.-M. and Grellet, F. (1995) GASA, a giberellin-regulated gene family from Arabidopsis thaliana related to the tomato GAST1 gene. Plant Mol. Biol. 27, 743-752.
16. Höfte, H., Desprez, T., Amselem, J., et al. (1993) An inventory of 1152 expressed sequence tags obtained by partial sequencing of cDNA from Arabidopsis thaliana. Plant J. 4, 1051-1061.
17. Jacquot, J.-P., Rivera-Madrid, R., Marinho, P., Kollarova, M., Le Maréchal, P., Miginiac-Maslow, M. and Meyer, Y. (1994) Arabidopsis thaliana NADPH thioredoxin reductase cDNA characterisation and expression of the recombinant protein in E. coli. J. Mol. Biol. 235, 1357-1363.
18. James, D.W., Lim, E., Keller, J., Plooy, I., Ralston, E. and Dooner, H.K. (1995) Directed tagging of the Arabidopsis FATTY ACID ELONGATION (FAE1) gene with the maize transposon activator. Plant Cell, 7, 309-319.
19. Lister, C. and Dean, C. (1993) Recombinant inbred lines for mapping RFLP and phenotypic markers in Arabidopsis thaliana. Plant J. 4, 745-750.
20. Newman, T. et al. (1994) Genes galore: a summary of the methods for accessing the results of large scale partial sequencing of anonymous Arabidopsis thaliana cDNA clones. Plant Physiol. 106, 1241-1255.
21. Parcy, F., Valon, C., Raynal, M., Gaubier-Comella, P., Delseny, M. and Giraudat, J. (1994) Regulation of gene expression programs during Arabidopsis seed development: roles of the ABI3 locus and of exogenous abscisic acid. Plant Cell, 6, 1567-1582.
22. Pearson, W.R. and Lipman, D.J. (1988) Improved tools for biological sequence comparison. Proc. Natl Acad. Sci. USA, 85, 2444-2448.
23. Phillips, A.L., Ward, D.A., Uknes, S., Appleford, N.E.J., Lange, T., Huttly, A.K., Gaskin, P., Graebe, J.E. and Hedden, P. (1995) Isolation and expression of three gibberellin 20-oxidase cDNA clones from Arabidopsis. Plant Physiol. 108, 1049-1057.
24. Redei, G.P. and Koncz, C. (1992) Classical mutagenesis. In Methods in Arabidopsis thaliana Research (Koncz, C., Chua, N.-H. and Schell, J., eds). London: World Scientific, pp. 16-82.
25. Rivera-Madrid, R., Mestres, D., Marinho, P., Jacquot, J.-P., Decottignies, P., Miginiac-Maslow, M. and Meyer, Y. (1995) Evidence for five divergent thioredoxin h sequences in Arabidopsis thaliana. Proc. Natl Acad. Sci. USA, 92, 5620-5624.
26. Sasaki, T., Song, J., Koga-Ban, Y., et al. (1994) Toward cataloguing all rice genes: large-scale sequencing of randomly chosen rice cDNAs from a callus cDNA library. Plant J. 6, 615-624.
27. Shi, L., Gast, R.T., Gopalraj, M. and Olszewski, N.E. (1992) Characterisation of a shoot-specific, GA3- and ABA-regulated gene from tomato. Plant J. 2, 153-159.
28. Uchimiya, H., Kido, S., Shimazaki, T. et al. (1992) Random sequencing of cDNA libraries reveals a variety of expressed genes in cultured cells of rice (Oryza sativa L.). Plant J. 2, 1005-1009.
29. Umeda, M., Hara, C., Matsubayashi, Y., Li, H., Liu, Q., Tadokoro, F., Aotsuka, S. and Uchimiya, H. (1994) Expressed sequence tags from cultured cells of rice (Oryza sativa L.) under stressed conditions: Analysis of transcripts of genes engaged in ATP-generating pathways. Plant Mol. Biol. 25, 469-478.
30. Voelker, T.A., Worrell, A.C., Anderqson, L, Bleibaum, J., Fan, C., Hawkins, D.J., Radke, S.E. and Davies, H.M. (1992) Fatty acid biosynthesis redirected to medium chains in transgenic oilseed plants. Science, 257, 72-74.
31. Waterston, R., Martin, C., Craxton, M., et al. (1992) A survey of expressed genes in Caenorhabditis elegans. Nature Genet. 1, 114-123.
32. White, O., Dunning, T., Sutton, G., Adams, M., Venter, J.C. and Fields, C. (1993) A quality control algorithm for DNA sequencing projects. Nucl. Acids Res. 16, 3829-3838.