Login | Register

Analysis of the NAC gene family in Triticum aestivum employing novel bioinformatics tools

Title:

Analysis of the NAC gene family in Triticum aestivum employing novel bioinformatics tools

Oren, Daniel (2008) Analysis of the NAC gene family in Triticum aestivum employing novel bioinformatics tools. Masters thesis, Concordia University.

[img]
Preview
Text (application/pdf)
MR40856.pdf - Accepted Version
1MB

Abstract

A novel pipeline was created to sift through large Expressed Sequence Tag (EST) data sets of Triticum aestivum, and assemble only sequences identified as being of the NAC gene family. This approach bypassed the bottleneck of assembly of large EST data sets, enabling the full cycle of sequence quality trimming and assembly to take place on a Personal Computer (PC) in a matter of a few hours. An iterative sequencing conjoined with assembly approach was employed to fully sequence full length cDNA clones. Sequences were then reduced to a unigene set using both CAP3 assembly and MegaBLAST. A software prototype designed to find protein coding regions, particularly in EST assemblies, was built and used to automatically identify full length NAC cDNA clones for sequencing, and create NAC nucleic and amino acid sequences trimmed to the protein coding regions and conserved domains. A total of 130 NAC gene sequences were identified, 41 of which contained the entire protein coding region. Sequences containing the entire NAC conserved domain were used for conserved domain analysis, and a phylogenetic tree was built with previously identified NAC gene families in Orzya sativa, and Arabidopsis thaliana. At least one wheat NAC gene could be found in every phylogenetic group in which a rice NAC was present. Interestingly, a number of wheat NAC clusters without any definitive rice orthologs were found.

Divisions:Concordia University > Faculty of Arts and Science > Biology
Item Type:Thesis (Masters)
Authors:Oren, Daniel
Pagination:ix, 111 leaves : ill. ; 29 cm.
Institution:Concordia University
Degree Name:M. Sc.
Program:Biology
Date:2008
Thesis Supervisor(s):Gulick, Patrick
ID Code:975616
Deposited By: Concordia University Library
Deposited On:22 Jan 2013 16:11
Last Modified:18 Jan 2018 17:40
Related URLs:
All items in Spectrum are protected by copyright, with all rights reserved. The use of items is governed by Spectrum's terms of access.

Repository Staff Only: item control page

Downloads per month over past year

Research related to the current document (at the CORE website)
- Research related to the current document (at the CORE website)
Back to top Back to top