An assessment of the resistance gene analogues of Oryza sativa ssp. japonica: their presence and structure.
Rice is the first cereal genome of known draft sequence, and the finished sequence for it is now nearly complete. In this paper, we describe a preliminary analysis of known rice genes aimed to detect resistance gene analogues of known structural classes. Putative resistance genes were identified in a dual approach--by using BLASTP searches to identify candidate sequences and by using Hidden Markov Models to predict domain presence in the candidates. The set of proteins examined was obtained from the publicly available data of TIGR (The Institute for Genomic Research). 1744 distinct RGAs were identified, 597 of which belonged to the NBS-LRR class. Supplementary data (sequences and annotations) is available on the web site http:/gkoczyk.bioinfo.pl/CMBL.
Koczyk
Grzegorz
G
Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland. gkoczyk@echostar.pl
Chełkowski
Jerzy
J
D019295:Computational Biology; D030541:Databases, Genetic; D018745:Genome, Plant; D008962:Models, Theoretical; D012275:Oryza / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics
D010940:Plant Proteins