Title: Genome-wide analysis and identification of genes related to expansin gene family in indica rice
Authors: N. Hemalatha, M.K. Rajesh, N.K. Narayanan
Addresses: Department of Information Technology, School of Information Science and Technology, Kannur University Campus, Kannur 670002, Kerala, India. ' Biotechnology Section, Central Plantation Crops Research Institute, Kasaragod 671124, Kerala, India. ' Department of Information Technology, School of Information Science and Technology, Kannur University Campus, Kannur, Kerala, 670002, India
Abstract: In this study, we carried out genome-wide analyses to explore expansin gene family in the genome of indica rice. Reference nucleotides were chosen as query sequences for searches in the indica rice genome database. Clones having genomic sequences similar to expansin were taken and converted to amino acid sequences. Putative sequences were subjected to PROSITE and Pfam databases, and 21 signature-sequences-related expansin gene family was obtained. The presence of transmembrane domains was also predicted for all 21 expansin proteins. A phylogenetic tree was generated from the alignments of the proteins sequences to examine the phylogenetic relationship of indica rice expansin proteins.
Keywords: Oryza sativa; genome analysis; expansin gene family; indica rice; phylogenetic tree; protein sequences; bioinformatics.
International Journal of Bioinformatics Research and Applications, 2011 Vol.7 No.2, pp.162 - 167
Published online: 13 May 2011 *Full-text access for editors Access for subscribers Purchase this article Comment on this article