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 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.
Nah
Gyoungju
G
Department of Plant Sciences, University of Arizona, Tucson, 85721-0036, USA.
Pagliarulo
Christopher L
CL
Mohr
Peter G
PG
Luo
Meizhong
M
Sisneros
Nick
N
Yu
Yeisoo
Y
Collura
Kristi
K
Currie
Jennifer
J
Goicoechea
Jose Luis
JL
Wing
Rod A
RA
Schumaker
Karen S
KS
D017360:Arabidopsis / Q000235:genetics*; D029681:Arabidopsis Proteins; D019607:Brassicaceae / Q000235:genetics*; D022202:Chromosomes, Artificial, Bacterial; D003001:Cloning, Molecular; D004251:DNA Transposable Elements; D019143:Evolution, Molecular; D018745:Genome, Plant; D018598:Minisatellite Repeats; D008969:Molecular Sequence Data; D010940:Plant Proteins / Q000235:genetics*; D055049:Salt Tolerance; D017923:Sodium-Hydrogen Exchangers / Q000235:genetics*
D029681:Arabidopsis Proteins; D004251:DNA Transposable Elements; D010940:Plant Proteins; C477653:SOS1 protein, Arabidopsis; D017923:Sodium-Hydrogen Exchangers