Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data

Stadermann KB, Holtgräwe D, Weisshaar B (2016)
Genome Announcements 4(5): e00975-16.

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Journal Article | Original Article | Published | English
Abstract
A publicly available data-set from Pacific Biosciences was used to create an assembly of the chloroplast genome sequence of the Arabidopsis thaliana Landsberg erecta genotype. The assembly is solely based on SMRT sequencing data and hence provides high resolution of the two inverted repeat regions typically contained in chloroplast genomes.
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Article Processing Charge funded by the Deutsche Forschungsgemeinschaft and the Open Access Publication Fund of Bielefeld University.
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Stadermann KB, Holtgräwe D, Weisshaar B. Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data. Genome Announcements. 2016;4(5): e00975-16.
Stadermann, K. B., Holtgräwe, D., & Weisshaar, B. (2016). Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data. Genome Announcements, 4(5), e00975-16. doi:10.1128/genomeA.00975-16
Stadermann, K. B., Holtgräwe, D., and Weisshaar, B. (2016). Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data. Genome Announcements 4:e00975-16.
Stadermann, K.B., Holtgräwe, D., & Weisshaar, B., 2016. Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data. Genome Announcements, 4(5): e00975-16.
K.B. Stadermann, D. Holtgräwe, and B. Weisshaar, “Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data”, Genome Announcements, vol. 4, 2016, : e00975-16.
Stadermann, K.B., Holtgräwe, D., Weisshaar, B.: Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data. Genome Announcements. 4, : e00975-16 (2016).
Stadermann, Kai Bernd, Holtgräwe, Daniela, and Weisshaar, Bernd. “Chloroplast genome sequence of Arabidopsis thaliana accession Landsberg erecta assembled from Single-Molecule, Real-Time sequencing data”. Genome Announcements 4.5 (2016): e00975-16.
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9 References

Data provided by Europe PubMed Central.

Sequencing of natural strains of Arabidopsis thaliana with short reads.
Ossowski S, Schneeberger K, Clark RM, Lanz C, Warthmann N, Weigel D., Genome Res. 18(12), 2008
PMID: 18818371
Whole-genome sequencing of multiple Arabidopsis thaliana populations.
Cao J, Schneeberger K, Ossowski S, Gunther T, Bender S, Fitz J, Koenig D, Lanz C, Stegle O, Lippert C, Wang X, Ott F, Muller J, Alonso-Blanco C, Borgwardt K, Schmid KJ, Weigel D., Nat. Genet. 43(10), 2011
PMID: 21874002
Chromosome-level assembly of Arabidopsis thaliana Ler reveals the extent of translocation and inversion polymorphisms.
Zapata L, Ding J, Willing EM, Hartwig B, Bezdan D, Jiao WB, Patel V, Velikkakam James G, Koornneef M, Ossowski S, Schneeberger K., Proc. Natl. Acad. Sci. U.S.A. 113(28), 2016
PMID: 27354520
Real-time DNA sequencing from single polymerase molecules.
Eid J, Fehr A, Gray J, Luong K, Lyle J, Otto G, Peluso P, Rank D, Baybayan P, Bettman B, Bibillo A, Bjornson K, Chaudhuri B, Christians F, Cicero R, Clark S, Dalal R, Dewinter A, Dixon J, Foquet M, Gaertner A, Hardenbol P, Heiner C, Hester K, Holden D, Kearns G, Kong X, Kuse R, Lacroix Y, Lin S, Lundquist P, Ma C, Marks P, Maxham M, Murphy D, Park I, Pham T, Phillips M, Roy J, Sebra R, Shen G, Sorenson J, Tomaney A, Travers K, Trulson M, Vieceli J, Wegener J, Wu D, Yang A, Zaccarin D, Zhao P, Zhong F, Korlach J, Turner S., Science 323(5910), 2009
PMID: 19023044
SMRT sequencing only de novo assembly of the sugar beet (Beta vulgaris) chloroplast genome.
Stadermann KB, Weisshaar B, Holtgrawe D., BMC Bioinformatics 16(), 2015
PMID: 26377912
Long-read, whole-genome shotgun sequence data for five model organisms.
Kim KE, Peluso P, Babayan P, Yeadon PJ, Yu C, Fisher WW, Chin CS, Rapicavoli NA, Rank DR, Li J, Catcheside DE, Celniker SE, Phillippy AM, Bergman CM, Landolin JM., Sci Data 1(), 2014
PMID: 25977796
The plastid chromosome of spinach (Spinacia oleracea): complete nucleotide sequence and gene organization.
Schmitz-Linneweber C, Maier RM, Alcaraz JP, Cottet A, Herrmann RG, Mache R., Plant Mol. Biol. 45(3), 2001
PMID: 11292076
Complete structure of the chloroplast genome of Arabidopsis thaliana.
Sato S, Nakamura Y, Kaneko T, Asamizu E, Tabata S., DNA Res. 6(5), 1999
PMID: 10574454

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