Integrating genes and phenotype: a wheat-Arabidopsis-rice glycosyltransferase database for candidate gene analyses.
Glycosyltransferases (GTs) constitute a very large multi-gene superfamily, containing several thousand members identified in sequenced organisms especially in plants. GTs are key enzymes involved in various biological processes such as cell wall formation, storage polysaccharides biosynthesis, and glycosylation of various metabolites. GTs have been identified in rice (Oryza sativa) and Arabidopsis thaliana, but their precise function has been demonstrated biochemically for only a few. In this work we have established a repertoire of virtually all the wheat (Triticum aestivum) GT sequences, using the large publicly available banks of expressed sequences. Based on sequence similarity with Arabidopsis and rice GTs compiled in the carbohydrate active enzyme database (CAZY), we have identified and classified these wheat sequences. The results were used to feed a searchable database available on the web ( http://wwwappli.nantes.inra.fr:8180/GTIDB ) that can be used for initiating an exhaustive candidate gene survey in wheat applied to a particular biological process. This is illustrated through the identification of GT families which are expressed during cell wall formation in wheat grain maturation.
Sado
Pierre-Etienne
PE
INRA, Institut National de la Recherche Agronomique, Unité de Recherche Biopolymères, Interactions, Assemblages, 44316, Nantes Cedex 3, France. pierre-etienne.sado@nantes.inra.fr
Tessier
Dominique
D
Vasseur
Marc
M
Elmorjani
Khalil
K
Guillon
Fabienne
F
Saulnier
Luc
L
D017360:Arabidopsis / Q000201:enzymology* / Q000235:genetics; D001483:Base Sequence; D002473:Cell Wall / Q000378:metabolism; D020451:Contig Mapping; D030541:Databases, Genetic; D017343:Genes, Plant; D016695:Glycosyltransferases / Q000145:classification / Q000235:genetics*; D008954:Models, Biological; D012275:Oryza / Q000201:enzymology* / Q000235:genetics; D010641:Phenotype; D017422:Sequence Analysis, DNA; D014908:Triticum / Q000201:enzymology* / Q000235:genetics
D016695:Glycosyltransferases