Comparative in Silico evaluation of MYB transcription factors in eucalyptus, sugarcane and rice transcriptomes

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 5488 LNBI, Issue , 2009, Pages 44-55

  Soares Cavalcanti, Nina M ^a   Wanderley Nogueira, Ana C ^a   Belarmino, Luis C ^a   Dos Santos Barros, Petra ^a   Benko Iseppon, Ana M ^a  

^a FEDERAL UNIVERSITY OF PERNAMBUCO   (Brazil)

Author keywords

Bioinformatics; Crop Evolution; Drought Stress; Saccharum; Salinity Stress

Indexed keywords

ABIOTIC STRESS; ARABIDOPSIS; CANDIDATE SEQUENCES; COMPARATIVE ANALYSIS; DROUGHT STRESS; ENVIRONMENTAL STIMULI; EXPRESSION PATTERNS; IN-PLANTS; IN-SILICO; MYB TRANSCRIPTION FACTORS; RELATIVE ABUNDANCE; SACCHARUM; SALINITY STRESS; TRANSCRIPTOMES;

ARTIFICIAL INTELLIGENCE; CROPS; DROUGHT; ENVIRONMENTAL REGULATIONS; GENES; PLANT LIFE EXTENSION; SALINITY MEASUREMENT; TRANSCRIPTION; TRANSCRIPTION FACTORS;

BIOINFORMATICS;

EID: 70349314552     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-02504-4_4     Document Type: Conference Paper

References (23)

1. Munns, R.: Comparative Physiology of Salt and Water Stress. Plant Cell Environ. 28, 239-250 (2002)
2. Wang, W., Vinocur, B., Altman, A.: Plant Responses to Drought, Salinity and Extreme Temperatures: Towards Genetic Engineering for Stress Tolerance. Planta 218, 1-14 (2003)
3. Riechmann, J.L., Herad, J., Martin, G., Reuber, L., Jiang, C.-Z., Keddie, J., Adam, L., Pineda, O., Ratcliffe, O.J., Samaha, R.R., Creelman, R., Pilgrim, M., Broun, P., Zhang, J.Z., Ghandehari, D., Sherman, B.K., Yu, G.: Arabidopsis Transcription Factors: Genome-Wide Comparative Analysis among Eukaryotes. Science 290, 2105-2110 (2000)
4. Liu, L., White, M.J., MacRae, T.H.: Transcription Factors and their Genes in Higher Plants: Functional Domains Evolution and Regulation. Eur. J. Biochem. 262, 247-257 (1999)
5. Jin, H., Martin, C.: Multifunctionality and Diversity within the Plant MYB-Gene Family. Plant Mol. Biol. 41, 577-585 (1999)
6. Seki, M., Narusaka, M., Ishida, J., Nanjo, T., Fujita, M., Oono, Y., Kamiya, A., Nakajima, M., Enju, A., Sakurai, T., Satou, M., Akiyama, K., Taji, T., Yamaguchi- Shinozaki, K., Carninci, P., Kawai, J., Hayashizaki, Y., Shinozaki, K.: Monitoring the Expression Profiles of 7,000 Arabidopsis Genes under Drought Cold and High- Salinity Stresses Using a Full-Length cDNA Microarray. Plant J. 31, 279-292 (2002)
7. Altschul, S.F., Gish,W., Miller, W., Myers, E.W., Lipman, D.J.: Basic Local Alignment Search Tool. J. Mol. Biol. 251, 403-410 (1990)
8. Sneath, P.H.A., Sokal, R.R.: Numerical Taxonomy. Freeman, San Francisco (1973)
9. Page, R.D.: Treeview Program Version 161. Comput. Appl. Biosci. 12, 357-358 (1996)
10. Eisen, M.B., Spellman, P.T., Brown, P.O., Botstein, D.: Cluster Analysis and Display of Genomic-Wide Expression Pattern. Proc. Natl. Acad. Sci. USA 95, 14863-14868 (1998)
11. Hiller, K., Schobert, M., Hundertmark, C., Jahn, D., Munch, R.: JVirGel: Calculation of Virtual Two-Dimensional Protein Gels. Nucleic Acids Res. 31, 3862-3865 (2003)
12. Papini-Terzi, F.S., Rocha, F.R., Vencio, R.Z.N., Oliveira, K.C., Felix, J.M., Vicentini, R., Rocha, C.S., Simoes, A.C.Q., Ulian, E.C., Mauro, S.M.Z., Silva, A.M., Pereira, C.A.B., Menossi, M., Souza, G.M.: Transcription Profiling of Signal Transduction-Related Genes in Sugarcane Tissues. DNA Res. 12, 27-38 (2005)
13. Yanhui, C., Xiaoyuan, Y., Kun, H., Meihua, L., Jigang, L., Zhaofeng, G., Zhiqiang, L.: The MYB Transcription Factor Superfamily of Arabidopsis: Expression Analysis and Phylogenetic Comparison with the Rice MYB Family. Plant Mol. Biol. 60, 107-124 (2006)
14. Rabbani, M.A., Maruyama, K., Abe, H., Khan, M.A., Katsura, K., Ito, Y., Yoshiwara, K., Seki, M., Shinozaki, K., Yamaguchi-Shinozaki, K.: Monitoring Expression Profiles of Rice Genes under Cold, Drought, and High-Salinity Stresses and Abscisic Acid Application Using cDNA Microarray and RNA Gel-Blot Analyses. Plant Physiol. 133, 1755-1767 (2003)
15. Thompson, M.A., Ramsay, R.G.: Myb: an Old Oncoprotein with New Roles. Bioessays 17, 341-350 (1995)
16. Lipsick, J.S.: One Billion Years of MYB. Oncogene 13, 223-235 (1996)
17. Kamiya, T., Kawabe, A., Miyashita, N.T.: Nucleotide Polymorphism at Atmyb2 Locus of Wild Plant Arabidopsis thaliana. Genet. Res. 80, 89-98 (2002)
18. Shikata, M., Matsuda, Y., Ando, K., Nishii, A., Takemura, M., Yokota, A., Kohchi, T.: Characterization of Arabidopsis ZIM a Member of Novel Plant-Specific GATA Factor Gene Family. J. Exp. Bot. 55, 631-639 (2004)
19. Park, J.M., Park, C.J., Lee, S.B., Ham, B.K., Shin, R., Paek, K.H.: Overexpression of the Tobacco Tsi1 Gene Encoding an EREBP/AP2-Type Transcription Factor Enhances Resistance Against Pathogen Attack and Osmotic Stress in Tobaccoy. Plant Cell 13, 1035-1046 (2001)
20. Wu, K.-L., Guo, Z.-J., Wang, H.-H., Li, J.: The WRKY Family of Transcription Factors in Rice and Arabidopsis and their Origins. DNA Res. 12, 9-26 (2005)
21. Reyes, J.C., Muro-Pastor, M.I., Florêncio, F.J.: The GATA Family of Transcription Factors in Arabidopsis and Rice. Plant Physiol. 134, 1718-1732 (2004)
22. Roy, S.W., Penny, D.: Patterns of Introns Loss and Gain in Plants: Intron Loss- Dominated Evolution and Genome-Wide Comparison of O. sativa and A. thaliana. Mol. Biol. Evol. 24, 171-181 (2007)
23. Jiang, C., Gu, X., Peterson, T.: Identification of Conserved Gene Structure and Carboxy-Terminal Motifs in the MYB Gene Family of Arabidopsis and Oryza sativa L. ssp. indica. Genome Biol. 5, 1-11 (2004)