Genome

Arabidopsis thaliana (thale cress) Small flowering plant of mustard family and the first to be completely sequenced Lineage: Eukaryota[15557]; Viridiplantae[1758]; Streptophyta[1641]; Embryophyta[1630]; Tracheophyta[1603]; Spermatophyta[1585]; Magnoliopsida[1558]; eudicotyledons[1256]; Gunneridae[1256]; Pentapetalae[1256]; rosids[782]; malvids[313]; Brassicales[101]; Brassicaceae[95]; Camelineae[12]; Arabidopsis[6]; Arabidopsis thaliana[1]

Arabidopsis thaliana is a small flowering plant of mustard family, brassicaceae (Cruciferae). It is distributed throughout the world and was first reported in the sixteenth century by Johannes Thal. It has been used for over fifty years to study plant mutations and for classical genetic analysis. It is now being used as a model organism to study More...different aspects of plant biology.
A. thaliana is a diploid plant with 2n = 10 chromosomes. It became the first plant genome to be fully sequenced based on the fact that it has a (1) small genome of ~120 Mb with a simple structure having few repeated sequences (2) short generation time of six weeks from seed germination to seed set, and (3) produces large number of seeds. The sequencing was done by an international collaboration collectively termed the Arabidopsis Genome Initiative (AGI). Though of no economic importance, it is an invaluable resource to agriculturally important crops, particularly to members of the same family, which includes canola, an important source of vegetable oil. Less...

Summary Sequence data:  genome assemblies: 242; sequence reads: 158  (See  Genome Assembly and Annotation report) Statistics:  median total length (Mb): 134.511  median protein count: 27334  median GC%: 36.3253 Publications (limited to 20 most recent records) Cycles of satellite and transposon evolution in Arabidopsis centromeres. Wlodzimierz P, et al. Nature 2023 Jun Oxford Nanopore and Bionano Genomics technologies evaluation for plant structural variation detection. Canaguier A, et al. BMC Genomics 2022 Apr 21 A near-complete assembly of an Arabidopsis thaliana genome. Hou X, et al. Mol Plant 2022 Aug 1 Pushing the limits of HiFi assemblies reveals centromere diversity between two Arabidopsis thaliana genomes. Rabanal FA, et al. Nucleic Acids Res 2022 Nov 28 The genetic and epigenetic landscape of the Arabidopsis centromeres. Naish M, et al. Science 2021 Nov 12 Correction of Persistent Errors in Arabidopsis Reference Mitochondrial Genomes. Sloan DB, et al. Plant Cell 2018 Mar Chromosome-level assembly of Arabidopsis thaliana Ler reveals the extent of translocation and inversion polymorphisms. Zapata L, et al. Proc Natl Acad Sci U S A 2016 Jul 12 A De Novo Genome Sequence Assembly of the Arabidopsis thaliana Accession Niederzenz-1 Displays Presence/Absence Variation and Strong Synteny. Pucker B, et al. PLoS One 2016 Phased diploid genome assembly with single-molecule real-time sequencing. Chin CS, et al. Nat Methods 2016 Dec Assembling large genomes with single-molecule sequencing and locality-sensitive hashing. Berlin K, et al. Nat Biotechnol 2015 Jun Reference-guided assembly of four diverse Arabidopsis thaliana genomes. Schneeberger K, et al. Proc Natl Acad Sci U S A 2011 Jun 21 The Arabidopsis Information Resource (TAIR): gene structure and function annotation. Swarbreck D, et al. Nucleic Acids Res 2008 Jan Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature 2000 Dec 14 Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature 2000 Dec 14 Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature 2000 Dec 14 Complete structure of the chloroplast genome of Arabidopsis thaliana. Sato S, et al. DNA Res 1999 Oct 29 RNA editing in Arabidopsis mitochondria effects 441 C to U changes in ORFs. Giegé P, et al. Proc Natl Acad Sci U S A 1999 Dec 21 Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature 1999 Dec 16 Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature 1999 Dec 16 The mitochondrial genome of Arabidopsis thaliana contains 57 genes in 366,924 nucleotides. Unseld M, et al. Nat Genet 1997 Jan More...  Representative (genome information for reference and representative genomes) Reference genome:   Arabidopsis thaliana TAIR10.1 Submitter: The Arabidopsis Information Resource (TAIR) Loc Type Name RefSeq INSDC Size (Mb) GC% Protein rRNA tRNA Other RNA Gene Pseudogene Chr 1 NC_003070.9 CP002684.1 30.43 35.9 12,653 - 238 1,969 9,701 930 Chr 2 NC_003071.7 CP002685.1 19.7 35.9 7,599 2 95 1,341 6,312 1,047 Chr 3 NC_003074.8 CP002686.1 23.46 36.3 9,474 2 92 1,411 7,624 1,080 Chr 4 NC_003075.7 CP002687.1 18.59 36.2 7,426 - 77 1,072 5,842 835 Chr 5 NC_003076.8 CP002688.1 26.98 35.9 10,995 - 123 1,410 8,419 951 MT NC_037304.1 BK010421.1 0.37 44.8 33 3 22 254 284 8 Pltd NC_000932.1 AP000423.1 0.15 36.3 85 7 37 - 129 - Chromosomes Click on chromosome name to open Genome Data Viewer External Resources Arabidopsis Info Arabinet AtGDB CSH Genoscope INRA International Arabidopsis Informatics Consortium Kazusa MIPS NSF-Arabidopsis Genome Initiative SPP Consortium TAIR WashU FTP