Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana

Xiaoying Lin, Samir Kaul, Steve Rounsley, Terrance P. Shea, Maria Ines Benito, Christopher D. Town, Claire Y. Fujii, Tanya Mason, Cheryl L. Bowman, Mary Barnstead, Tamara V. Feldblyum, C. Robin Buell, Karen A. Ketchum, John Lee, Catherine M. Ronning, Hean L. Koo, Kelly S. Moffat, Lisa A. Cronin, Mian Shen, Grace PalSusan Van Aken, Lowell Umayam, Luke J. Tallon, John E. Gill, Mark D. Adams, Ana J. Carrera, Todd H. Creasy, Howard M. Goodman, Chris R. Somerville, Greg P. Copenhaver, Daphne Preuss, William C. Nierman, Owen White, Jonathan A Eisen, Steven L. Salzberg, Claire M. Fraser, J. Craig Venter

Research output: Contribution to journalArticle

545 Citations (Scopus)

Abstract

Arabidopsis thaliana (Arabidopsis) is unique among plant model organisms in having a small genome (130-140 Mb), excellent physical and genetic maps, and little repetitive DNA. Here we report the sequence of chromosome 2 from the Columbia ecotype in two gap-free assemblies (contigs) of 3.6 and 16 megabases (Mb). The latter represents the longest published stretch of uninterrupted DNA sequence assembled from any organism to date. Chromosome 2 represents 15% of the genome and encodes 4,037 genes, 49% of which have nopredicted function. Roughly 250 tandem gene duplications were found in addition to large-scale duplications of about 0.5 and 4.5 Mb between chromosomes 2 and 1 and between chromosomes 2 and 4, respectively. Sequencing of nearly 2 Mb within the genetically defined centromere revealed a low density of recognizable genes, and a high density and diverse range of vestigial and presumably inactive mobile elements. More unexpected is what appears to be a recent insertion of a continuous stretch of 75% of the mitochondrial genome into chromosome 2.

Original languageEnglish (US)
Pages (from-to)761-765
Number of pages5
JournalNature
Volume402
Issue number6763
DOIs
StatePublished - Dec 16 1999
Externally publishedYes

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Chromosomes, Human, Pair 2
Arabidopsis
Sequence Analysis
Genome
Ecotype
Chromosomes, Human, Pair 4
Gene Duplication
Mitochondrial Genome
Centromere
Chromosomes, Human, Pair 1
Genes
DNA

ASJC Scopus subject areas

  • General

Cite this

Lin, X., Kaul, S., Rounsley, S., Shea, T. P., Benito, M. I., Town, C. D., ... Venter, J. C. (1999). Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Nature, 402(6763), 761-765. https://doi.org/10.1038/45471

Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. / Lin, Xiaoying; Kaul, Samir; Rounsley, Steve; Shea, Terrance P.; Benito, Maria Ines; Town, Christopher D.; Fujii, Claire Y.; Mason, Tanya; Bowman, Cheryl L.; Barnstead, Mary; Feldblyum, Tamara V.; Buell, C. Robin; Ketchum, Karen A.; Lee, John; Ronning, Catherine M.; Koo, Hean L.; Moffat, Kelly S.; Cronin, Lisa A.; Shen, Mian; Pal, Grace; Van Aken, Susan; Umayam, Lowell; Tallon, Luke J.; Gill, John E.; Adams, Mark D.; Carrera, Ana J.; Creasy, Todd H.; Goodman, Howard M.; Somerville, Chris R.; Copenhaver, Greg P.; Preuss, Daphne; Nierman, William C.; White, Owen; Eisen, Jonathan A; Salzberg, Steven L.; Fraser, Claire M.; Venter, J. Craig.

In: Nature, Vol. 402, No. 6763, 16.12.1999, p. 761-765.

Research output: Contribution to journalArticle

Lin, X, Kaul, S, Rounsley, S, Shea, TP, Benito, MI, Town, CD, Fujii, CY, Mason, T, Bowman, CL, Barnstead, M, Feldblyum, TV, Buell, CR, Ketchum, KA, Lee, J, Ronning, CM, Koo, HL, Moffat, KS, Cronin, LA, Shen, M, Pal, G, Van Aken, S, Umayam, L, Tallon, LJ, Gill, JE, Adams, MD, Carrera, AJ, Creasy, TH, Goodman, HM, Somerville, CR, Copenhaver, GP, Preuss, D, Nierman, WC, White, O, Eisen, JA, Salzberg, SL, Fraser, CM & Venter, JC 1999, 'Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana', Nature, vol. 402, no. 6763, pp. 761-765. https://doi.org/10.1038/45471
Lin X, Kaul S, Rounsley S, Shea TP, Benito MI, Town CD et al. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Nature. 1999 Dec 16;402(6763):761-765. https://doi.org/10.1038/45471
Lin, Xiaoying ; Kaul, Samir ; Rounsley, Steve ; Shea, Terrance P. ; Benito, Maria Ines ; Town, Christopher D. ; Fujii, Claire Y. ; Mason, Tanya ; Bowman, Cheryl L. ; Barnstead, Mary ; Feldblyum, Tamara V. ; Buell, C. Robin ; Ketchum, Karen A. ; Lee, John ; Ronning, Catherine M. ; Koo, Hean L. ; Moffat, Kelly S. ; Cronin, Lisa A. ; Shen, Mian ; Pal, Grace ; Van Aken, Susan ; Umayam, Lowell ; Tallon, Luke J. ; Gill, John E. ; Adams, Mark D. ; Carrera, Ana J. ; Creasy, Todd H. ; Goodman, Howard M. ; Somerville, Chris R. ; Copenhaver, Greg P. ; Preuss, Daphne ; Nierman, William C. ; White, Owen ; Eisen, Jonathan A ; Salzberg, Steven L. ; Fraser, Claire M. ; Venter, J. Craig. / Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. In: Nature. 1999 ; Vol. 402, No. 6763. pp. 761-765.
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AU - Feldblyum, Tamara V.

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AU - White, Owen

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