Description

Arabidopsis (rockcress) is a genus in the family Brassicaceae. They are small flowering plants related to cabbage and mustard. This genus is of great interest since it contains thale cress (Arabidopsis thaliana), one of the model organisms used for studying plant biology and the first plant to have its entire genome sequenced. Changes in thale cress are easily observed, making it a very useful model.

Whole Genomes

Whole Genome Sequences & Annotations for Arabidopsis halleri

• Arabidopsis halleri Ahal2.2

S genes

Arabidopsis halleri Ahal2.2 S genes

Query	Scaffold	Size(bp)	Coordinates	BLASTp Hit	BLASTp %ID
SRK	FJVB01000104	528,355	14156-15449,13038-13172,12704-12939,12469-12679, 12151-12377,11894-11995,11486-11809	sp|P0DH87|PSRK_ARATH	63.3
SCR	FJVB01000082	645,582	551450-551519,551160-551365	XP_006301215.1	73.3

Downloads

The Arabidopsis halleri S gene sequences are available in FASTA format.

CDS and Protein (FASTA file)

S-gene_Arabidopsis_halleri

Publications

Akama S, Shimizu-Inatsugi R, Shimizu KK, Sese J. Genome-wide quantification of homeolog expression ratio revealed nonstochastic gene regulation in synthetic allopolyploid Arabidopsis. Nucleic Acids Res. 2014 Apr;42(6):e46. doi: 10.1093/nar/gkt1376.

Briskine RV, Paape T, Shimizu-Inatsugi R, Nishiyama T, Akama S, Sese J, Shimizu KK. Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology. Mol Ecol Resour. 2017 Sep;17(5):1025-1036. doi: 10.1111/1755-0998.12604.

Rellstab C, Zoller S, Sailer C, Tedder A, Gugerli F, Shimizu KK, Holderegger R, Widmer A, Fischer MC. Genomic signatures of convergent adaptation to Alpine environments in three Brassicaceae species. Mol Ecol. 2020 Nov;29(22):4350-4365. doi: 10.1111/mec.15648.

NCBI BioProject PRJEB12914. Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology.