Comparative sequence analysis of the SALT OVERLY SENSITIVE1 orthologous region in Thellungiella halophila and Arabidopsis thaliana

To provide a framework for studies to understand the contribution of SALT OVERLY SENSITIVE1 (SOS1) to salt tolerance in Thellungiella halophila, we sequenced and annotated a 193-kb T. halophila BAC containing a putative SOS1 locus ( ThSOS1) and compared the sequence to the orthologous 146-kb region...

Full description

Saved in:
Bibliographic Details
Published in:Genomics (San Diego, Calif.) Calif.), 2009-09, Vol.94 (3), p.196-203
Main Authors: Nah, Gyoungju, Pagliarulo, Christopher L., Mohr, Peter G., Luo, Meizhong, Sisneros, Nick, Yu, Yeisoo, Collura, Kristi, Currie, Jennifer, Goicoechea, Jose Luis, Wing, Rod A., Schumaker, Karen S.
Format: Article
Language:English
Subjects:
Arabidopsis - genetics
Arabidopsis Proteins
Arabidopsis thaliana
Brassicaceae - genetics
Chromosomes, Artificial, Bacterial
Cloning, Molecular
Comparative sequence analysis
DNA Transposable Elements
Evolution, Molecular
Genome, Plant
Halophila
Microcolinearity
Minisatellite Repeats
Molecular Sequence Data
Plant Proteins - genetics
SALT OVERLY SENSITIVE1
Salt tolerance
Simple sequence repeats
Sodium-Hydrogen Exchangers - genetics
Thellungiella
Thellungiella halophila
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:To provide a framework for studies to understand the contribution of SALT OVERLY SENSITIVE1 (SOS1) to salt tolerance in Thellungiella halophila, we sequenced and annotated a 193-kb T. halophila BAC containing a putative SOS1 locus ( ThSOS1) and compared the sequence to the orthologous 146-kb region of the genome of its salt-sensitive relative, Arabidopsis thaliana. Overall, the two sequences were colinear, but three major expansion/contraction regions in T. halophila were found to contain five Long Terminal Repeat retrotransposons, MuDR DNA transposons and intergenic sequences that contribute to the 47.8-kb size variation in this region of the genome. Twenty-seven genes were annotated in the T. halophila BAC including the putative ThSOS1 locus. ThSOS1 shares gene structure and sequence with A. thaliana SOS1 including 11 predicted transmembrane domains and a cyclic nucleotide-binding domain; however, different patterns of Simple Sequence Repeats were found within a 540-bp region upstream of SOS1 in the two species.
ISSN:0888-7543
1089-8646
DOI:10.1016/j.ygeno.2009.05.007