Romeuf et al. BMC Genomics 2010, 11:185 http://www.biomedcentral.com/1471-2164/11/185 27. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402. 28. Sado PE, Tessier D, Vasseur M, Elmorjani K, Guillon F, Saulnier L: Integrating genes and phenotype: a wheat-Arabidopsis-rice glycosyltransferase database for candidate gene analyses. Funct Integr Genomics 2009, 9:43-58. 29. Khaled AS, Vernoud V, Ingram GC, Perez P, Sarda X, Rogowsky PM: Engrailed ZmOCL1 fusions cause a transient reduction of kernel size in maize. Plant Mol Biol 2005, 58:123-139. 30. Pfaffl MW, Tichopad A, Prgomet C, Neuvians TP: Determination of stable housekeeping genes, differentially regulated target genes and sample integrity: BestKeeper -Excel-based tool using pair-wise correlations. Biotechnol Lett 2004, 26:509-515. 31. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG: The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997, 25:4876-82. 32. Page RD: Treeview: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 1996, 12:537-538. 33. Guo AY, Chen X, Gao G, Zhang H, Zhu QH, Liu XC, Zhong YF, Gu X, He K, Luo J: PlantTFDB: a comprehensive plant transcription factor database. Nucleic Acids Res 2008, , 36 Database: D966-9. 34. Shaw LM, McIntyre CL, Gresshoff PM, Xue GP: Members of the Dof transcription factor family in Triticum aestivum are associated with light- mediated gene regulation. Funct Integr Genomics 2009, 9:485-98. 35. Riechmann JL, Ratcliffe OJ: A genomic perspective on plant transcription factors. Curr Opin Plant Biol 2000, 3:423-434. 36. Yilmaz A, Nishiyama MY Jr, Fuentes BG, Souza GM, Janies D, Gray J, Grotewold E: GRASSIUS: a platform for comparative regulatory genomics across the grasses. Plant Physiol 2009, 149:171-80. 37. Paux E, Roger D, Badaeva E, Gay G, Bernard M, Sourdille P, Feuillet C: Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. Plant J 2006, 48:463-74. 38. Devos KM, Costa de Oliveira A, Xu X, Estill JC, Estep M, Jogi A, Morales M, Pinheiro J, San Miguel P, Bennetzen FL: Structure and organization of the wheat genome- the number of genes in the hexaploid wheat genome. [http://hdl.handle.net/2123/3389]. 39. Itzkovitz S, Tlusty T, Alon U: Coding limits on the number of transcription factors. BMC Genomics 2006, 7:239. 40. Wan Y, Poole RL, Huttly AK, Toscano-Underwood C, Feeney K, Welham S, Gooding MJ, Mills C, Edwards KJ, Shewry PR, Mitchell RA: Transcriptome analysis of grain development in hexaploid wheat. BMC Genomics 2008, 9:121. 41. Poole R, Barker G, Wilson ID, Coghill JA, Edwards KJ: Measuring global gene expression in polyploidy; a cautionary note from allohexaploid wheat. Funct Integr Genomics 2007, 7:207-219, doi: 10.1007/s10142-007- 0046-7. 42. Schreiber AW, Sutton T, Caldo RA, Kalashyan E, Lovell B, Mayo G, Muehlbauer GJ, Druka A, Waugh R, Wise RP, Langridge P, Baumann U: Comparative transcriptomics in the Triticeae. BMC Genomics 2009, 10:285. 43. Utsugi S, Nakamura S, Noda K, Maekawa M: Structural and functional properties of Viviparous1 genes in dormant wheat. Genes Genet Syst 2008, 83:153-66. 44. Egawa C, Kobayashi F, Ishibashi M, Nakamura T, Nakamura C, Takumi S: Differential regulation of transcript accumulation and alternative splicing of a DREB2 homolog under abiotic stress conditions in common wheat. Genes Genet Syst 2006, 81:77-91. 45. Mochida K, Yamazaki Y, Ogihara Y: Discrimination of homoeologous gene expression in hexaploid wheat by SNP analysis of contigs grouped from a large number of expressed sequence tags. Mol Genet Genomics 2003, 270:371-7. 46. Chantret N, Salse J, Sabot F, Rahman S, Bellec A, Laubin B, Dubois I, Dossat C, Sourdille P, Joudrier P, Gautier MF, Cattolico L, Beckert M, Aubourg S, Weissenbach J, Caboche M, Bernard M, Leroy P, Chalhoub B: Molecular basis of evolutionary events that shaped the hardness locus in diploid and polyploid wheat species (Triticum and Aegilops). Plant Cell 2005, 17:1033-45. 47. Ravel C, Martre P, Romeuf I, Dardevet M, El-Malki R, Bordes J, Duchateau N, Brunel D, Balfourier F, Charmet G: Nucleotide Polymorphism in the Wheat Page 15 of 15 Transcriptional Activator Spa Influences Its Pattern of Expression and Has Pleiotropic Effects on Grain Protein Composition, Dough Viscoelasticity and Grain Hardness. Plant Physiol 2009. doi:10.1186/1471-2164-11-185 Cite this article as: Romeuf et al.: wDBTF: an integrated database resource for studying wheat transcription factor families. BMC Genomics 2010 11:185. Submit your next manuscript to BioMed Central and take full advantage of: • Convenient online submission • Thorough peer review • No space constraints or color ﬁgure charges • Immediate publication on acceptance • Inclusion in PubMed, CAS, Scopus and Google Scholar • Research which is freely available for redistribution Submit your manuscript at www.biomedcentral.com/submit