Background: Sugarcane is an increasingly economically and environmentally important C4 grass, used for the production of sugar and bioethanol, a low-carbon emission fuel. Sugarcane originated from crosses of Saccharum species and is noted for its unique capacity to accumulate high amounts of sucrose in its stems. Environmental stresses limit enormously sugarcane productivity worldwide. To investigate transcriptome changes in response to environmental inputs that alter yield we used cDNA microarrays to profile expression of 1,545 genes in plants submitted to drought, phosphate starvation, herbivory and N2-fixing endophytic bacteria. We also investigated the response to phytohormones (abscisic acid and methyl jasmonate). The arrayed elements correspond mostly to genes involved in signal transduction, hormone biosynthesis, transcription factors, novel genes and genes corresponding to unknown proteins. Results: Adopting an outliers searching method 179 genes with strikingly different expression levels were identified as differentially expressed in at least one of the treatments analysed. Self Organizing Maps were used to cluster the expression profiles of 695 genes that showed a highly correlated expression pattern among replicates. The expression data for 22 genes was evaluated for 36 experimental data points by quantitative RT-PCR indicating a validation rate of 80.5% using three biological experimental replicates. The SUCAST Database was created that provides public access to the data described in this work, linked to tissue expression profiling and the SUCAST gene category and sequence analysis. The SUCAST database also includes a categorization of the sugarcane kinome based on a phylogenetic grouping that included 182 undefined kinases. Conclusion: An extensive study on the sugarcane tran scriptome was performed. Sugarcane genes responsive to phytohormones and to challenges sugarcane commonly deals with in the field were identified. Additionally, the protein kinases were annotated based on a phylogenetic approach. The experimental design and statistical analysis applied proved robust to unravel genes associated with a diverse array of conditions attributing novel functions to previously unknown or undefined genes. The data consolidated in the SUCAST database resource can guide further studies and be useful for the development of improved sugarcane varieties. © 2007 Rocha et al; licensee BioMed Central Ltd.8 Bray, E.A., Bailey-Serres, J., Weretilnyk, E., Responses to abiotic stresses (2000) Biochemistry & Molecular Biology of Plants, pp. 1158-1203. , Rockyville, Maryland: American Society of Plant Physiologists Buchanan B, Gruissem W, Jones RSchenk, P.M., Kazan, K., Wilson, I., Anderson, J.P., Richmond, T., Somerville, S.C., Manners, J.M., Coordinated plant defense responses in Arabidopsis revealed by microarray analysis (2000) Proc Natl Acad Sci USA, 97, pp. 11655-11660. , 17256 11027363 10.1073/pnas.97.21.11655Kawasaki, S., Borchert, C., Deyholos, M., Wang, H., Brazille, S., Kawai, K., Galbraith, D., Bohnert, H.J., Gene expression profiles during the initial phase of salt stress in rice (2001) Plant Cell, 13, pp. 889-905. , 135538 11283343 10.1105/tpc.13.4.889Oono, Y., Seki, M., Nanjo, T., Narusaka, M., Fujita, M., Satoh, R., Satou, M., Shinozaki, K., Monitoring expression profiles of Arabidopsis gene expression during rehydration process after dehydration using ca 7,000 full-length cDNA microarray (2003) Plant J, 34, pp. 868-887. , 10.1046/j.1365-313X.2003.01774.x 12795706Oono, Y., Seki, M., Satou, M., Iida, K., Akiyama, K., Sakurai, T., Fujita, M., Shinozaki, K., Monitoring expression profiles of Arabidopsis genes during cold acclimation and deacclimation using DNA microarrays (2006) Funct Integr Genomics, 4, pp. 1-23Nogueira, F.T., De Rosa Jr., V.E., Menossi, M., Ulian, E.C., Arruda, P., RNA expression profiles and data mining of sugarcane response to low temperature (2003) Plant Physiol, 132, pp. 1811-1824. , 181268 12913139 10.1104/pp.102.017483De Rosa Jr., V.E., Nogueira, F.T.S., Menossi, M., Ulian, E.C., Arruda, P., Identification of methyl jasmonate-responsive genes in sugarcane using cDNA arrays (2005) Braz J Plant Physiol, 17, pp. 173-180Kates, R.W., Parris, T.M., Long-term trends and a sustainability transition (2003) Proc Natl Acad Sci USA, 100, pp. 8062-8067. , 166182 12829798 10.1073/pnas.1231331100Riera, M., Valon, C., Fenzi, F., Giraudat, J., Leung, J., The genetics of adaptive responses to drought stress: Abscisic acid-dependent and abscisic acid-independent signalling components (2005) Physiologia Plantarum, 123, pp. 111-119. , 10.1111/j.1399-3054.2005.00469.xKochian, L.V., Molecular physiology of mineral nutrient acquisition, transport and utilization (2000) Biochemistry and Molecular Biology of Plants, pp. 1204-1249. , Rockyville, Maryland: American Society of Plant Physiologists Buchanan B, Gruissem W, Jones RRaghothama, K.G., Phosphate acquisition (1999) Annu Rev Plant Physiol Plant Mol Biol, 50, pp. 665-693. , 10.1146/annurev.arplant.50.1.665 15012223Raghothama, K.G., Phosphate transport and signaling (2000) Curr Opin Plant Biol, 3, pp. 182-187. , 10837272Schachtman, D.P., Reid, R.J., Ayling, S.M., Phosphorus Uptake by Plants: From soil to Cell (1998) Plant Physiol, 116, pp. 447-453. , 1539172 9490752 10.1104/pp.116.2.447Braga, D.P.V., Arrigoni, E.D.B., Silva-Filho, M.C., Ulian, E.C., Expression of the Cry1Ab protein in genetically modified sugarcane for the control of Diatraea saccharalis (Lepidoptera: Crambidae) (2003) Journal of New Seeds, 5, pp. 209-222. , 10.1300/J153v05n02_07James, E.K., Olivares, F.L., Infection and Colonization of Sugar Cane and Other Graminaceous Plants by Endophytic Diazotrophs (1998) Critical Reviews in Plant Sciences, 17, pp. 77-119. , 10.1016/S0735-2689(98)00357-8Reinhold-Hurek, B., Hurek, T., Life in grasses: Diazotrophic endophytes (1998) Trends Microbiol, 6, pp. 139-144. , 10.1016/S0966-842X(98)01229-3 9587190Sevilla, M., Burris, R.H., Gunapala, N., Kennedy, C., Comparison of benefit to Sugar Cane plant growth an 15N2 incorporation following inoculation of sterile plants with Acetobacter diazotrophicus wild-type and Nif- mutant strains (2001) Mol Plant-Microbe Interact, 14, pp. 358-366. , 11277433Olivares, F.L., James, E.K., Baldani, J.I., Döbereiner, J., Infection of mottled stripe disease-susceptible and resistant sugarcane varieties by the endophytic diazotrophs Herbaspirillum (1997) New Phytol, 135, pp. 723-727. , 10.1046/j.1469-8137.1997.00684.xHimmelbach, A., Yang, Y., Grill, E., Relay and control of abscisic acid signaling (2003) Curr Opin Plant Biol, 6, pp. 470-479. , 10.1016/S1369-5266(03)00090-6 12972048Seki, M., Ishida, J., Narusaka, M., Fujita, M., Nanjo, T., Umezawa, T., Kamiya, A., Shinozaki, K., Monitoring the expression pattern of around 7,000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray (2002) Funct Integr Genomics, 2, pp. 282-291. , 10.1007/s10142-002-0070-6 12444421Petersen, M., Brodersen, P., Naested, H., Andreasson, E., Lindhart, U., Johansen, B., Nielsen, H.B., Mundy, J., Arabidopsis map kinase 4 negatively regulates systemic acquired resistance (2000) Cell, 103, pp. 1111-1120. , 10.1016/S0092-8674(00)00213-0 11163186van der Fits, L., Memelink, J., ORCA3, a jasmonate-responsive transcriptional regulator of plant primary and secondary metabolism (2000) Science, 289, pp. 295-297. , 10.1126/science.289.5477.295 10894776Devoto, A., Nieto-Rostro, M., Xie, D., Ellis, C., Harmston, R., Patrick, E., Davis, J., Turner, J.G., COI1 links jasmonate signalling and fertility to the SCF ubiquitin-ligase complex in Arabidopsis (2002) Plant J, 32, pp. 457-466. , 10.1046/j.1365-313X.2002.01432.x 12445118Sugar Cane EST Genome Project http://sucest.lad.ic.unicamp.brVettore, A.L., da Silva, F.R., Kemper, E.L., Souza, G.M., da Silva, A.M., Ferro, M.I., Henrique-Silva, F., Arruda, P., Analysis and functional annotation of an expressed sequence tag collection for tropical crop sugarcane (2003) Genome Res, 13, pp. 2725-2735. , 403815 14613979 10.1101/gr.1532103Souza, G.M., Simoes, A.C.Q., Oliveira, K.C., Garay, H.M., Fiorini, L.C., Gomes, F.S., Nishiyama-Junior, M.Y., da Silva, A.M., SUCAST: Prospecting signal transduction in sugarcane (2001) Genet Mol Biol, 24, pp. 25-34. , 10.1590/S1415-47572001000100005Papini-Terzi, F.S., Rocha, F.R., Vencio, R.Z., Oliveira, K.C., Felix, J., de, M., Vicentini, R., Souza, G.M., Transcription profiling of signal transduction-related genes in sugarcane tissues (2005) DNA Res, 12, pp. 27-38. , 10.1093/dnares/12.1.27 16106750Shiu, S.H., Bleecker, A.B., Plant receptor-like kinase gene family: Diversity, function, and signaling (2001) Sci STKE 2001, 2001, pp. RE22. , 11752632Berger, S., Jasmonate-related mutants of Arabidopsis as tools for studying stress signaling (2002) Planta, 214, pp. 497-504. , 10.1007/s00425-001-0688-y 11925032Howe, G.A., Schilmiller, A.L., Oxylipin metabolism in response to stress (2002) Curr Opin Plant Biol, 5, pp. 230-236. , 10.1016/S1369-5266(02)00250-9 11960741Devoto, A., Turner, J.G., Regulation of jasmonate-mediated plant responses in Arabidopsis (2003) Ann Bot, 92, pp. 329-337. , 10.1093/aob/mcg151 12871847Verslues, P.E., Zhu, J.K., Before and beyond ABA: Upstream sensing and internal signals that determine ABA accumulation and response under abiotic stress (2005) Biochem Soc Trans, 33, pp. 375-379. , 10.1042/BST0330375 15787610http://sucest-fun.orgKoide, T., Salem-Izaac, S.M., Gomes, S.L., Vencio, R.Z.N., SpotWhatR: A user-friendly microarray data analysis system (2006) Genet Mol Res, 5, pp. 93-107. , 16755501Additional Data Files https://sucestfun.cbmeg.unicamp.br/pub/signalTamayo, P., Slonim, D., Mesirov, J., Zhu, Q., Kitareewan, S., Dmitrovsky, E., Lander, E.S., Golub, T.R., Interpreting patterns of gene expression with self-organizing maps (1999) Proc Natl Acad Sci USA, 96, pp. 2907-2912. , 15868 10077610 10.1073/pnas.96.6.2907Shiu, S.H., Bleecker, A.B., Receptor-like kinases from Arabidopsis form a monophyletic gene family related to animal receptor kinases (2001) Proc Natl Acad Sci USA, 98, pp. 10763-10768. , 58549 11526204 10.1073/pnas.181141598Iskandar, H.M., Simpson, R.S., Casu, R.E., Bonnett, G.D., MacLean, D.J., Manners, J.M., Comparison of Reference Genes for Quantitative Real-Time Polymerase Chain Reaction Analysis of Gene Expression in Sugarcane (2004) Plant Molecular Biology Reporter, 22, pp. 325-337http://www.mysql.comhttp://www.perl.comhttp://www.r-project.orgThe Gene Ontology (GO) project in 2006 (2006) Nucleic Acids Res, 34, pp. D322-D326. , Gene Ontology Consortium 1347384 16381878 10.1093/nar/gkj021Sonnhammer, E.L.L., Eddy, S.R., Birney, E., Bateman, A., Durbin, R., Pfam: Multiple sequence alignments and HMM-profiles of protein domains (1998) Nucleic Acids Res, 26, pp. 320-322. , 147209 9399864 10.1093/nar/26.1.320Abe, H., Yamaguchi-Shinozaki, K., Urao, T., Iwasaki, T., Hosokawa, D., Shinozaki, K., Role of Arabidopsis MYC and MYB homologs in drought- and abscisic acid-regulated gene expression (1997) Plant Cell, 9, pp. 1859-1868. , 157027 9368419 10.1105/tpc.9.10.1859Narusaka, Y., Narusaka, M., Seki, M., Umezawa, T., Ishida, J., Nakajima, M., Enju, A., Shinozaki, K., Crosstalk in the responses to abiotic and biotic stresses in Arabidopsis: Analysis of gene expression in cytochrome P450 gene superfamily by cDNA microarray (2004) Plant Mol Biol, 55, pp. 327-342. , 10.1007/s11103-004-0685-1 15604685Chinnusamy, V., Schumaker, K., Zhu, J.K., Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants (2004) J Exp Bot, 55, pp. 225-236. , 10.1093/jxb/erh005 14673035Seki, M., Narusaka, M., Abe, H., Kasuga, M., Yamaguchi-Shinozaki, K., Carninci, P., Hayashizaki, Y., Shinozaki, K., Monitoring the expression pattern of 1,300 Arabidopsis genes under drought and cold stresses by using a full-length cDNA microarray (2001) Plant Cell, 13, pp. 61-72. , 102214 11158529 10.1105/tpc.13.1.61Sakuma, Y., Maruyama, K., Osakabe, Y., Qin, F., Seki, M., Shinozaki, K., Yamaguchi-Shinozaki, K., Functional analysis of an Arabidopsis transcription factor, DREB2A, involved in drought-responsive gene expression (2006) Plant Cell, 18, pp. 1292-1309. , 1456870 16617101 10.1105/tpc.105.035881Merlot, S., Gosti, F., Guerrier, D., Vavasseur, A., Giraudat, J., The ABI1 and ABI2 protein phosphatases 2C act in a negative feedback regulatory loop of the abscisic acid signalling pathway (2001) Plant J, 25, pp. 295-303. , 10.1046/j.1365-313x.2001.00965.x 11208021Tahtiharju, S., Palva, T., Antisense inhibition of protein phosphatase 2C accelerates cold acclimation in Arabidopsis thaliana (2001) Plant J, 26, pp. 461-470. , 10.1046/j.1365-313X.2001.01048.x 11439132Galston, A.W., Sawhney, R.K., Polyamines in plant physiology (1990) Plant Physiol, 94, pp. 406-410. , 1077246 11537482Li, Z.Y., Chen, S.Y., Differential accumulation of the S-adenosylmethionine decarboxylase transcript in rice seedlings in response to salt and drought stresses (2000) Theor Appl Genet, 100, pp. 782-788. , 10.1007/s001220051352Zhang, M., Barg, R., Yin, M., Gueta-Dahan, Y., Leikin-Frenkel, A., Salts, Y., Shabtai, S., Ben-Hayyim, G., Modulated fatty acid desaturation via overexpression of two distinct omega-3 desaturases differentially alters tolerance to various abiotic stresses in transgenic tobacco cells and plants (2005) Plant J, 44, pp. 361-371. , 10.1111/j.1365-313X.2005.02536.x 16236147Im, Y.J., Han, O., Chung, G.C., Cho, B.H., Antisense expression of an Arabidopsis omega-3 fatty acid desaturase gene reduces salt/drought tolerance in transgenic tobacco plants (2002) Mol Cells, 13, pp. 264-271. , 12018849Sachetto-Martins, G., Franco, L.O., de Oliveira, D.E., Plant glycine-rich proteins: A family or just proteins with a common motif? (2000) Biochim Biophys Acta, 1492, pp. 1-14. , 10858526Mousavi, A., Hotta, Y., Glycine-rich proteins: A class of novel proteins (2005) Appl Biochem Biotechnol, 120, pp. 169-174. , 10.1385/ABAB:120:3:169 15767691van Nocker, S., Vierstra, R.D., Two cDNAs from Arabidopsis thaliana encode putative RNA binding proteins containing glycine-rich domains (1993) Plant Mol Biol, 21, pp. 695-699. , 10.1007/BF00014552 8448367Aneeta Sanan-Mishra, N., Tuteja, N., Kumar Sopory, S., Salinity- and ABA-induced up regulation and light-mediated modulation of mRNA encoding glycine-rich RNA-binding protein from Sorghum bicolor (2002) Biochem Biophys Res Commun, 296, pp. 1063-1068. , 10.1016/S0006-291X(02)02050-8 12207880Freire, M.A., Pages, M., Functional characteristics of the maize RNA-binding protein MA16 (1995) Plant Mol Biol, 29, pp. 797-807. , 10.1007/BF00041169 8541505Zheng, Z.L., Nafisi, M., Tam, A., Li, H., Crowell, D.N., Chary, S.N., Schroeder, J.I., Yang, Z., Plasma membrane-associated ROP10 small GTPase is a specific negative regulator of abscisic acid responses in Arabidopsis (2002) Plant Cell, 14, pp. 2787-2797. , 152727 12417701 10.1105/tpc.005611Nahm, M.Y., Kim, S.W., Yun, D., Lee, S.Y., Cho, M.J., Bahk, J.D., Molecular and biochemical analyses of OsRab7, a rice Rab7 homolog (2003) Plant Cell Physiol, 44, pp. 1341-1349. , 10.1093/pcp/pcg163 14701929O'Mahony, P.J., Oliver, M.J., Characterization of a desiccation-responsive small GTP-binding protein (Rab2) from the desiccation-tolerant grass Sporobolus stapfianus (1999) Plant Mol Biol, 39, pp. 809-821. , 10.1023/A:1006183431854 10350094Kim, S.A., Kwak, H.J., Park, M.C., Kim, S.R., Induction of reproductive organ-preferential histone genes by wounding or methyl jasmonate (1998) Mol Cells, 8, pp. 669-677. , 9895118Lin, F., Xu, S.L., Ni, W.M., Chu, Z.Q., Xu, Z.H., Xue, H.W., Identification of ABA-responsive genes in rice shoots via cDNA macroarray (2003) Cell Res, 13, pp. 59-68. , 10.1038/sj.cr.7290151 12643350Yamada, S., Komori, T., Hashimoto, A., Kuwata, S., Imaseki, H., Kubo, T., Differential expression of plastidic aldolase genes in Nicotiana plants under salt stress (2000) Plant Sci, 154, pp. 61-69. , 10.1016/S0168-9452(00)00188-6 10725559Minhas, D., Grover, A., Transcript level of genes encoding various glycolytic and fermentation enzymes change in response to abiotic stresses (1999) Plant Science, 146, pp. 41-51. , 10.1016/S0168-9452(99)00092-8Gibson, S.I., Sugar and phytohormone response pathways: Navigating a signalling network (2004) J Exp Bot, 55, pp. 253-264. , 10.1093/jxb/erh048 14673024Zhang, B., Pan, X., Cobb, G.P., Anderson, T.A., Plant microRNA: A small regulatory molecule with big impact (2006) Dev Biol, 289, pp. 3-16. , 10.1016/j.ydbio.2005.10.036 16325172Gelhaye, E., Rouhier, N., Jacquot, J.P., The thioredoxin H system of higher plants (2004) Plant Physiol Biochem, 42, pp. 265-271. , 10.1016/j.plaphy.2004.03.002 15120110Wu, P., Ma, L., Hou, X., Wang, M., Wu, Y., Liu, F., Deng, X.W., Phosphate Starvation Triggers Distinct Alterations of Genome Expression in Arabidopsis Roots and Leaves (2003) Plant Physiol, 132, pp. 1260-1271. , 167066 12857808 10.1104/pp.103.021022Wissenbach, M., Uberlacker, B., Vogt, F., Becker, D., Salamini, F., Rohde, W., Myb genes from Hordeum vulgare: Tissue-specific expression of chimeric Myb promoter/Gus genes in transgenic tobacco (1993) Plant J, 4, pp. 411-422. , 10.1046/j.1365-313X.1993.04030411.x 8220488Vinagre, F., Vargas, C., Schwarcz, K., Cavalcante, J., Nogueira, E.M., Baldani, J.I., Ferreira, P.C., Hemerly, A.S., SHR5: A novel plant receptor kinase involved in plant-N2-fixing endophytic bacteria association (2006) J Exp Bot, 57, pp. 559-569. , 10.1093/jxb/erj041 16397001Ellis, J., Dodds, P., Pryor, T., Structure, function and evolution of plant disease resistance genes (2000) Curr Opin Plant Biol, 3, pp. 278-284. , 10.1016/S1369-5266(00)00080-7 10873844Gaffney, T., Friedrich, L., Vernooij, B., Negrotto, D., Nye, G., Uknes, S., Ward, E., Ryals, J., Requirement of salicylic acid for the induction of systemic acquired resistance (1993) Science, 261, pp. 754-756. , 10.1126/science.261.5122.754Delaney, T.P., Uknes, S., Vernooij, B., Friedrich, L., Weymann, K., Negrotto, D., Gaffney, T., Ryals, J., A central role of salicylic acid in plant disease resistance (1994) Science, 266, pp. 1247-1250. , 10.1126/science.266.5188.1247Mur, L.A.J., Bi, Y.-M., Darby, R.M., Firek, S., Draper, J., Compromising early salicylic acid accumulation delays the hypersensitive response and increases viral dispersion during lesion establishment in TMV-infected tobacco (1997) Plant J, 12, pp. 1113-1126. , 10.1046/j.1365-313X.1997.12051113.x 9418052Vargas, C., de Pádua, V., Nogueira, E.M., Vinagre, F., Masuda, H.P., da Silva, F.R., Baldani, J.I., Hemerly, A.S., Signaling pathways mediating the association between sugarcane and endophytic diazotrophic bacteria: A genomic approach (2003) Symbiosis, 35, pp. 159-180Grenier, J., Potvin, C., Trudel, J., Asselin, A., Some thaumatin-like proteins hydrolyse polymeric beta-1,3-glucans (1999) Plant J, 19, pp. 473-480. , 10.1046/j.1365-313X.1999.00551.x 10504569Franco, O.L., Rigden, D.J., Melo, F.R., Grossi-De-Sa, M.F., Plant alpha-amylase inhibitors and their interaction with insect alpha-amylases (2002) Eur J Biochem, 269, pp. 397-412. , 10.1046/j.0014-2956.2001.02656.x 11856298Moller, S.G., Chua, N.H., Interactions and intersections of plant signaling pathways (1999) J Mol Biol, 293, pp. 219-234. , 10.1006/jmbi.1999.2992 10550205Gazzarrini, S., McCourt, P., Cross-talk in plant hormone signalling: What Arabidopsis mutants are telling us (2003) Ann Bot, 91, pp. 605-612. , 10.1093/aob/mcg064 12714359Hagen, G., Kleinschmidt, A., Guilfoyle, T., Auxin-regulated gene expression in intact soybean hypocotyl and excised hypocotyl sections (1984) Planta, 162, pp. 147-153. , 10.1007/BF00410211Stafstrom, J.P., Ripley, B.D., Devitt, M.L., Drake, B., Dormancy-associated gene expression in pea axillary buds. Cloning and expression of PsDRM1 and PsDRM2 (1998) Planta, 205, pp. 547-552. , 10.1007/s004250050354 9684359Eckert, M., Kaldenhoff, R., Light-induced stomatal movement of selected Arabidopsis thaliana mutants (2000) J Exp Bot, 51, pp. 1435-1442. , 10.1093/jexbot/51.349.1435 10944157Nag, R., Maity, M.K., Dasgupta, M., Dual DNA binding property of ABA insensitive 3 like factors targeted to promoters responsive to ABA and auxin (2005) Plant Mol Biol, 59, pp. 821-838. , 10.1007/s11103-005-1387-z 16270233Sadiqov, S.T., Akbulut, M., Ehmedov, V., Role of Ca2+ in drought stress signaling in wheat seedlings (2002) Biochemistry (Mosc), 67, pp. 491-497. , 10.1023/A:1015298309888 11996664Vartanian, N., Marcotte, L., Giraudat, J., Drought Rhizogenesis in Arabidopsis thaliana (Differential Responses of Hormonal Mutants) (1994) Plant Physiol, 104, pp. 761-767. , 159256 12232124Ludwig-Müller, J., Schubert, B., Pieper, K., Regulation of IBA synthetase from maize (Zea mays L.) by drought stress and ABA (1995) J Exp Bot, 46, pp. 423-432. , 10.1093/jxb/46.4.423Abel, S., Theologis, A., Early genes and auxin action (1996) Plant Physiol, 111, pp. 9-17. , 157808 8685277 10.1104/pp.111.1.9Woodward, A.W., Bartel, B., Auxin: Regulation, action, and interaction (2005) Ann Bot, 95, pp. 707-735. , 10.1093/aob/mci083 15749753Hammond, J.P., Broadley, M.R., White, P.J., Genetic responses to phosphorus deficiency (2004) Ann Bot, 94, pp. 323-332. , 10.1093/aob/mch156 15292042Lopez-Bucio, J., Hernandez-Abreu, E., Sanchez-Calderon, L., Nieto-Jacobo, M.F., Simpson, J., Herrera-Estrella, L., Phosphate availability alters architecture and causes changes in hormone sensitivity in the Arabidopsis root system (2002) Plant Physiol, 129, pp. 244-256. , 155888 12011355 10.1104/pp.010934Swarup, R., Parry, G., Graham, N., Allen, T., Bennett, M., Auxin cross-talk: Integration of signalling pathways to control plant development (2002) Plant Mol Biol, 49, pp. 411-426. , 10.1023/A:1015250929138 12036264Yang, G., Komatsu, S., Molecular cloning and characterization of a novel brassinolide enhanced gene OsBLE1 in Oryza sativa seedlings (2004) Plant Physiol Biochem, 42, pp. 1-6. , 10.1016/j.plaphy.2003.10.001 15061077Mao, C., Wang, S., Jia, Q., Wu, P., OsEIL1, a rice homolog of the Arabidopsis EIN3 regulates the ethylene response as a positive component (2006) Plant Mol Biol, 61, pp. 141-152. , 10.1007/s11103-005-6184-1 16786297Manning, G., Plowman, G.D., Hunter, T., Sudarsanam, S., Evolution of protein kinase signaling from yeast to man (2002) Trends Biochem Sci, 27, pp. 514-520. , 10.1016/S0968-0004(02)02179-5 12368087Manning, G., Whyte, D.B., Martinez, R., Hunter, T., Sudarsanam, S., The protein kinase complement of the human genome (2002) Science, 298, pp. 1912-1934. , 10.1126/science.1075762 12471243Shiu, S.H., Karlowski, W.M., Pan, R., Tzeng, Y.H., Mayer, K.F., Li, W.H., Comparative analysis of the receptor-like kinase family in Arabidopsis and rice (2004) Plant Cell, 16, pp. 1220-1234. , 423211 15105442 10.1105/tpc.020834Shi, J., Kim, K.N., Ritz, O., Albrecht, V., Gupta, R., Harter, K., Luan, S., Kudla, J., Novel protein kinases associated with calcineurin B-like calcium sensors in Arabidopsis (1999) Plant Cell, 11, pp. 2393-2405. , 144142 10590166 10.1105/tpc.11.12.2393Hrabak, E.M., Chan, C.W., Gribskov, M., Harper, J.F., Choi, J.H., Halford, N., Kudla, J., Harmon, A.C., The Arabidopsis CDPK-SnRK superfamily of protein kinases (2000) Plant Physiol, 132, pp. 666-680. , 10.1104/pp.102.011999Weaver, C.D., Roberts, D.M., Determination of the site of phosphorylation of nodulin 26 by the calcium-dependent protein kinase from soybean nodules (1992) Biochemistry, 31, pp. 8954-8959. , 10.1021/bi00152a035 1390682Webb, K.J., Skot, L., Nicholson, M.N., Jorgensen, B., Mizen, S., Mesorhizobium loti increases root-specific expression of a calcium-binding protein homologue identified by promoter tagging in Lotus japonicus (2000) Mol Plant Microbe Interact, 13, pp. 606-616. , 10830260White, P.J., A Nod and a wave: Calcium signals during nodulation (2001) Trends Plant Sci, 6, p. 141. , 10.1016/S1360-1385(01)01935-5 11286903Levy, J., Bres, C., Geurts, R., Chalhoub, B., Kulikova, O., Duc, G., Journet, E.P., Debelle, F., A putative Ca2+ and calmodulin-dependent protein kinase required for bacterial and fungal symbioses (2004) Science, 303, pp. 1361-1364. , 10.1126/science.1093038 14963335Romeis, T., Piedras, P., Jones, J.D., Resistance gene-dependent activation of a calcium-dependent protein kinase in the plant defense response (2000) Plant Cell, 12, pp. 803-816. , 139928 10810151 10.1105/tpc.12.5.803Jonak, C., Hirt, H., Glycogen synthase kinase 3/SHAGGY-like kinases in plants: An emerging family with novel functions (2002) Trends Plant Sci, 7, pp. 457-461. , 10.1016/S1360-1385(02)02331-2 12399181Swiderski, M.R., Innes, R.W., The Arabidopsis PBS1 resistance gene encodes a member of a novel protein kinase subfamily (2001) Plant J, 26, pp. 101-112. , 10.1046/j.1365-313x.2001.01014.x 11359614Endre, G., Kereszt, A., Kevei, Z., Mihacea, S., Kalo, P., Kiss, G.B., A receptor kinase gene regulating symbiotic nodule development (2002) Nature, 417, pp. 962-966. , 10.1038/nature00842 12087406Madsen, E.B., Madsen, L.H., Radutoiu, S., Olbryt, M., Rakwalska, M., Szczyglowski, K., Sato, S., Stougaard, J., A receptor kinase gene of the LysM type is involved in legume perception of rhizobial signals (2003) Nature, 425, pp. 637-640. , 10.1038/nature02045 14534591Capoen, W., Goormachtig, S., De Rycke, R., Schroeyers, K., Holsters, M., SrSymRK, a plant receptor essential for symbiosome formation (2005) Proc Natl Acad Sci USA, 102, pp. 10369-10374. , 1177396 16006516 10.1073/pnas.0504250102Umezawa, T., Yoshida, R., Maruyama, K., Yamaguchi-Shinozaki, K., Shinozaki, K., SRK2C, a SNF1-related protein kinase 2, improves drought tolerance by controlling stress-responsive gene expression in Arabidopsis thaliana (2004) Proc Natl Acad Sci USA, 101, pp. 17306-17311. , 535404 15561775 10.1073/pnas.0407758101Mustilli, A.C., Merlot, S., Vavasseur, A., Fenzi, F., Giraudat, J., Arabidopsis OST1 protein kinase mediates the regulation of stomatal aperture by abscisic acid and acts upstream of reactive oxygen species production (2002) Plant Cell, 14, pp. 3089-3099. , 151204 12468729 10.1105/tpc.007906Li, J.X., Assmann, S.M., An abscisic acid activated and calcium-independent protein kinase from guard cells of fava bean (1996) Plant Cell, 8, pp. 2359-2368. , 161358 12239380 10.1105/tpc.8.12.2359Li, J., Wang, X.Q., Watson, M.B., Assmann, S.M., Regulation of abscisic acid-induced stomatal closure and anion channels by guard cell AAPK kinase (2000) Science, 287, pp. 300-303. , 10.1126/science.287.5451.300 10634783Yoshida, R., Hobo, T., Ichimura, K., Mizoguchi, T., Takahashi, F., Aronso, J., Ecker, J.R., Shinozaki, K., ABA-activated SnRK2 protein kinase is required for dehydration stress signaling in Arabidopsis (2002) Plant Cell Physiol, 43, pp. 1473-1483. , 10.1093/pcp/pcf188 12514244Xiong, L., Schumaker, K.S., Zhu, J.K., Cell signaling during cold, drought, and salt stress (2002) Plant Cell, (SUPPL. 14), pp. s165-s183Liu, J., Ishitani, M., Halfter, U., Kim, C.S., Zhu, J.K., The Arabidopsis thaliana SOS2 gene encodes a protein kinase that is required for salt tolerance (2000) Proc Natl Acad Sci USA, 97, pp. 3730-3734. , 16308 10725382 10.1073/pnas.060034197Hanks, S.K., Hunter, T., Protein kinases 6. The eukaryotic protein kinase superfamily: Kinase (catalytic) domain strucuture and classification (1995) FASEB J, 9, pp. 576-596. , 7768349Hanks, S.K., Quinn, A.M., Protein kinase catalytic domain sequence database: Identification of conserved features of primary structure and classification of family members (1991) Methods Enzymol, 200, pp. 38-62. , 1956325Hanks, S.K., Quinn, A.M., Hunter, T., The protein kinase family: Conserved features and deduced phylogeny of the catalytic domain (1988) Science, 241, pp. 42-52. , 10.1126/science.3291115 3291115Lawton, M.A., Yamamoto, R.T., Hanks, S.K., Lamb, C.J., Molecular cloning of plant transcripts encoding protein kinase homologs (1989) Proc Natl Acad Sci USA, 86, pp. 3140-3144. , 287081 2541432 10.1073/pnas.86.9.3140Gribskov, M., Fana, F., Harper, J., Hope, D.A., Harmon, A.C., Smith, D.S., Tax, F.E., Zhang, G., PlantsP: A functional genomics database for plant phosphorylation (2001) Nucleic Acids Res, 29, pp. 111-113. , 29854 11125063 10.1093/nar/29.1.111Barsalobres, C.F., Análise da expressão gênica induzida por Diatraea saccharalis em cana-de-açúcar via macroarranjos de colônias bacterianas (2004), MD dissertation Escola Superior de Agricultura "Luiz de Queiroz", Universidade de São PauloUrquiaga, S., Cruz, K.H.S., Boddey, R.M., Contribution of nitrogen fixation to sugar cane: Nitrogen-15 and nitrogen-balance estimates (1992) Soil Science Society of America Journal, 56, pp. 105-114Hendre, K.R., Iyer, R.S., Kotwain, M., Kluspe, S.S., Mascarenhas, A.F., Rapid multiplication of sugarcane by tissue culture (1983) Sugarcane, 1, pp. 5-8Hoagland, D.R., Arnon, D.I., (1950) The Water Culture Method for Growing Plants Without Soil, p. 347. , Berkely: California Agr. Expt. Sta. CirMuchhal, U.S., Pardo, J.M., Raghothama, K.G., Phosphate transporters from the higher plant Arabidopsis thaliana (1996) Proc Natl Acad Sci, 93, pp. 10519-10523. , 38418 8927627 10.1073/pnas.93.19.10519James, E.K., Reis, V.M., Olivares, F.L., Baldani, J.I., Dobereiner, J., Infection of sugar cane by the nitrogen-fixing bacterium Acetobacter diazotrophicus (1994) Journal of Experimental Botany, 45, pp. 757-766. , 10.1093/jxb/45.6.757Reis, V.M., Olivares, F.L., Döbereiner, J., Improved methodology for isolation of Acetobacter diazotrophicus and confirmation of its endophythic habitat (1994) World Journal of Microbiology and Biotechnology, 10, pp. 101-104. , 10.1007/BF00144460King, E.G., Hartley, G.G., Diatraea saccharalis (1985) Handbook of Insect Rearing, 2, pp. 265-270. , Amsterdam: Elsevier Science Singh P, Moore RFBroner, I., Law, R.A.P., Evaluation of a modified atmometer for estimating reference ET (1991) Irrigation Science, 12, pp. 21-26. , 10.1007/BF00190705Yang, Y.H., Dudoit, S., Luu, P., Lin, D.M., Peng, V., Ngai, J., Speed, T.P., Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation (2002) Nucleic Acids Res, 30, pp. e15. , 100354 11842121 10.1093/nar/30.4.e15Vencio, R.Z., Koide, T., HTself: Self-Self Based Statistical Test for Low Replication Microarray Studies (2005) DNA Res, 12, pp. 211-214. , 10.1093/dnares/dsi007 16303752Quackenbush, J., Computational analysis of microarray data (2001) Nat Rev Genet, 2, pp. 418-427. , 10.1038/35076576 11389458Livak, K.J., Schmittgen, T.D., Analysis of relative gene expression data using real-time quantitative PCR and the 2 -ΔΔCt method (2001) Methods, 25, pp. 402-408. , 10.1006/meth.2001.1262 11846609Thompson, J.D., Higgins, D.G., Gibson, T.G., CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice (1994) Nuclei Acids Research, 22, pp. 4673-4680. , 10.1093/nar/22.22.4673http://evolve.zoo.ox.ac.uk/software/SeAl/main.htmlSwofford, D.L., (1999), Swofford DL PAUP*. Phylogenetic Analysis using Parsimony (* and other methods, version 4.0 Sinauer Associates, Inc, Sunderland, MassSchultz, J., Milpetz, F., Bork, P., Ponting, C.P., SMART, a simple modular architecture research tool: Identification of signaling domains (1998) Proc Natl Acad Sci USA, 95, pp. 5857-5864. , 34487 9600884 10.1073/pnas.95.11.5857