In silico evaluation of osmoprotectants in eucalyptus transcriptome

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

Volumn 5488 LNBI, Issue , 2009, Pages 66-77

  Dos Santos Barros, Petra ^a   Soares Cavalcanti, Nina M ^a   Vieira Mello, Gabriela S ^a   Wanderley Nogueira, Ana C ^a   Calsa Junior, Tercílio ^a   Benko Iseppon, Ana M ^a  

^a FEDERAL UNIVERSITY OF PERNAMBUCO   (Brazil)

Author keywords

Crop Evolution; Data Mining; Osmolytes; Salinity and Drought Stress

Indexed keywords

ABIOTIC STRESS; CELLULAR HOMEOSTASIS; DENDROGRAMS; EXPRESSION PATTERNS; FLOWERING PLANTS; GENE FAMILIES; HARMFUL EFFECTS; IN-SILICO; ORTHOLOGS; OSMOLYTES; OSMOPROTECTANTS; SALINITY AND DROUGHT STRESS; TRANSCRIPTOMES;

ARTIFICIAL INTELLIGENCE; CROPS; DROUGHT; GENES; SALINITY MEASUREMENT;

BIOINFORMATICS;

EID: 70349335576     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-02504-4_6     Document Type: Conference Paper

References (35)

1. Lemcoff, J.H., Guarnaschelli, A.B., Garau, A.M., Bascialli, M.E., Ghersa, C.M.: Osmotic Adjustment and its Use as a Selection Criterion in Eucalyptus Seedlings. Can. J. For. Res. 24(12), 2404-2408 (1994)
2. Ladiges, P.Y.: Variation in Drought Tolerance in Eucalyptus viminalis Labill. Aust. J. Bot. 22(3), 489-500 (1974)
3. Paston, G.M., Foyer, C.H.: Common components, Networks, and Pathways of Cross-Tolerance to Stress. The Central Role of Redox and Abscisic Acid-mediated Controls. Plant Physiol. 129, 460-468 (1999)
4. Elbein, A.D., Pan, Y.T., Pastuszak, I., Carroll, D.: New Insights on Trehalose: a Multifunctional Molecule. Glycobiology 13, 17-27 (2003)
5. Hegeman, C.E., Good, L.L., Grabau, E.A.: Expression of D-Myo-Inositol-3- Phosphate Synthase in Soybean. Implications for Phytic Acid Biosynthesis. Plant Physiol. 125, 1941-1948 (2001)
6. Hu, C.A., Delauney, A.J., Verma, D.P.: A Bifunctional Enzyme (Delta 1-Pyrroline- 5-Carboxylate Synthetase) Catalyzes the First Two Steps in Proline Biosynthesis in Plants. Proc. Natl. Acad. Sci. USA 89(19), 9354-9358 (1992)
7. Sirko, A., Blaszczyk, A., Liszewska, F.: Overproduction of SAT and/or OASTL in Transgenic Plants: a Survey of Effects. J. Exp. Bot. 55(404), 1881-1888 (2004)
8. Sakamoto, A., Murata, N.: The role of Glycine-Betaine in the Protection of Plants from Stress: Clues from Transgenic Plants. Plant Cell Environ. 25(2), 163-171 (2002)
9. Vicentini, R., Sassaki, F.T., Gimenes, M.A., Maia, I.G., Menossi, M.: In Silico Evaluation of the Eucalyptus Transcriptome. Gen. Mol. Bio. 28(3), 487-495 (2005)
10. 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)
11. Thompson, J.D., Higgins, D.G., Gibson, T.J.: CLUSTALX, Multiple Sequence Alignment Program Version 1.63b. EMBO Rep. (1997)
12. Tamura, K., Dudley, J., Nei, M., Kumar, S.: MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0. Mol. Biol. Evol. 24, 1596-1599 (2007)
13. Eisen, M.B., Spellman, P.T., Brown, P.O., Botstein, D.: Cluster Analysis and Display of Genome-Wide Expression Patterns. Proc. Natl. Acad. Sci. USA 95, 14863-14868 (1998)
14. Page, R.D.: Treeview Program Version 161. Comput. Appl. Biosci. 12, 357-358 (1996)
15. Barbosa-da-Silva, A., Wanderley-Nogueira, A.C., Silva, R.R.M., Berlarmino, L.C., Soares-Cavalcanti, N.M., Benko-Iseppon, A.M.: In Silico Survey of Resistance (R) Genes in Eucalyptus Transcriptome. Gen. Mol. Biol. 28(3), 562-574 (2005)
16. Hell, R., Wirtz, F., Berkowitz, O., Droux, M.: The Cysteine Synthase Complex from Plants. Mitochondrial Serine Acetyltransferase from Arabidopsis thaliana Carries a Bifunctional Domain for Catalysis and Protein-protein Interaction. Eur. J. Biochem. 268, 683-686 (2001)
17. Müller, J., Aeschbacher, R.A., Wingler, A., Boller, T., Wiemken, A.: Trehalose and Trehalase in Arabidopsis. Plant Physiol. 125, 1086-1093 (2001)
18. Verbruggen, N., Villarroel, R., Montagu, M.V.: Osmoregulation of a Pyrroline-5-Carboxylate Reductase Gene in Arabidopsis thaliana. Plant Physiol. 103, 771-781 (1993)
19. Marsh, N.R., Adams, M.A.: Decline of Eucalyptus tereticornis near Bairnsdale, Victoria: Insect Herbivory and Nitrogen Fractions in Sap and Foliage. Aust. J. Bot. 43, 39-50 (1995)
20. Adams, M.A., Richter, A., Hill, A.K., Colmer, T.D.: Salt Tolerance in Eucalyptus spp.: Identity and Response of Putative Osmolytes. Plant Environ. 28, 772-787 (2005)
21. Hazen, S.P., Wu, Y., Kreps, J.A.: Gene Expression Profiling of Plant Responses to Abiotic Stress. Funct. Integr. Genomics 3(3), 105-111 (2003)
22. Weston, D.J., Gunter, L.E., Rogers, A., Wullschleger, S.D.: Connecting Genes, Coexpression Modules and Molecular Signatures to Environmental Stress Phenotypes in Plants. BMC Syst. Biol. 2, 1-17 (2008)
23. Benko-Iseppon, A.M., Soares-Cavalcanti, N.M., Wanderley-Nogueira, A.C., Berlarmino, L.C., Silva, R.R.M., Almeida, P.M.L., Brunelli, K.R., Kido, L.M.H., Kido, E.A.: Genes Associated to Biotic and Abiotic Stresses in Cowpea [Vigna unguiculata (L.) Walp.] and Other Angiosperms. In: Nogueira, R.J.M.C., Araújo, E.L., Willadino, L.C., Cavalcante, U.M.T. (eds.) Environmental Stresses: Damages and Benefits to Plants, pp. 350-359. UFRPE University Press Recife, Brazil (2005)
24. Ishitani, M., Arakawa, K., Mizuno, K., Kishitani, S., Takabe, T.: Betaine Aldehyde in Leaves of both Betain-Accumulating and Non-Accumulating Cereal Plants. Plant Cell Physiol. 34, 493-495 (1993)
25. Kawashima, C.G., Berkowitz, O., Hell, R., Noji, M., Saito, K.: Characterization and Expression Analysis of a Serine Acetyltransferase Gene Family Involved in a Key Step of the Sulfur Assimilation Pathway in Arabidopsis. Plant Physiol. 137, 220-230 (2005)
26. Freeman, J.L., Salt, D.E.: The Metal Tolerance Profile of Thlaspi goesingense is Mimicked in Arabidopsis thaliana Heterologously Expressing Serine Acetyl- Transferase. BMC Plant Biol. 7, 63 (2007)
27. Liu, F., Byung-Chun, Y., Jung-Youn, L., Pan, W., Harmon, A.C.: Calcium-Regulated Phosphorylation of Soybean Serine Acetyltransferase in Response to Oxidative Stress. J. Biol. Chem. 281(37), 27405-27415 (2006)
28. Saito, K.: Isolation and Characterization of a cDNA that Encodes a Putative Mitochondrion-Localized Isoform of Cysteine Synthase (O-Acetylserine(Thiol)- lyase) from Spinacia oleracea. J. Biol. Chem. 269(28), 187-192 (1994)
29. Liszewska, F., Gaganidze, D., Sirko, A.: Isolation of Nicotiana plumbaginifolia cDNAs Encoding Isoforms of Serine Acetyltransferase and O-Acetylserine (Thiol)lyase in a Yeast Two-Hybrid System with Escherichia coli CysE and CysK Genes as Baits. Acta Biochim. Pol. 52(1), 117-128 (2005)
30. González, E.M., Ladrera, R., Larrainzar, E., Arrese-Igor, C.: Response of Medicago truncatula to Drought Stress. In: Mathesius, U., Journet, E.P., Sumner, L.W. (eds.) The Samuel Roberts Noble Foundation, Ardmore, OK, pp. 1-6 (2007)
31. Chandran, D., Sharopova, N., Ivashuta, S., Gantt, J., VandenBosch, K.A., Samac, D.A.: Transcriptome Profiling Identified Novel Genes Associated with Aluminum Toxicity, Resistance and Tolerance in Medicago truncatula. Planta 228, 151-166 (2008)
32. Waldren, R.P., Teare, I.D.: Free Proline Accumulation in Drought-Stressed Plants under Laboratory Conditions. Plant Soil 40(3), 689-692 (1974)
33. Weiss, E.A. (ed.): Oilseed Crops. Longman, London (1983)
34. Yoshida, K.T., Wada, T., Koyama, H., Mizobuchi-Fukuoka, R., Naito, S.: Temporal and Spatial Patterns of Accumulation of the Transcript of Myo-Inositol-1- Phosphate Synthase and Phytin-Containing Particles During Seed Development in Rice. Plant Physiol. 119(1), 65-72 (1999)
35. Kiranmayi, P., Mohan, P.M.: Metal Transportome of Neurospora crassa. Silico Biol. 6(3), 169-180 (2006)