title: Long-read, whole-genome shotgun sequence data for five model organisms.
abstract: Single molecule, real-time (SMRT) sequencing from Pacific Biosciences is increasingly used in many areas of biological research including de novo genome assembly, structural-variant identification, haplotype phasing, mRNA isoform discovery, and base-modification analyses. High-quality, public datasets of SMRT sequences can spur development of analytic tools that can accommodate unique characteristics of SMRT data (long read lengths, lack of GC or amplification bias, and a random error profile leading to high consensus accuracy). In this paper, we describe eight high-coverage SMRT sequence datasets from five organisms (Escherichia coli, Saccharomyces cerevisiae, Neurospora crassa, Arabidopsis thaliana, and Drosophila melanogaster) that have been publicly released to the general scientific community (NCBI Sequence Read Archive ID SRP040522). Data were generated using two sequencing chemistries (P4C2 and P5C3) on the PacBio RS II instrument. The datasets reported here can be used without restriction by the research community to generate whole-genome assemblies, test new algorithms, investigate genome structure and evolution, and identify base modifications in some of the most widely-studied model systems in biological research.
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Kristi E
authors.initials: KE
authors.lastname: Kim
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Paul
authors.initials: P
authors.lastname: Peluso
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Primo
authors.initials: P
authors.lastname: Babayan
authors.affiliation: Flinders University, School of Biological Sciences , PO Box 2100, Adelaide, South Australia 5001, Australia.
authors.forename: P Jane
authors.initials: PJ
authors.lastname: Yeadon
authors.affiliation: Department of Genome Dynamics, Lawrence Berkeley National Laboratory, 1 Cyclotron Road , Berkeley, California 94720, USA.
authors.forename: Charles
authors.initials: C
authors.lastname: Yu
authors.affiliation: Department of Genome Dynamics, Lawrence Berkeley National Laboratory, 1 Cyclotron Road , Berkeley, California 94720, USA.
authors.forename: William W
authors.initials: WW
authors.lastname: Fisher
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Chen-Shan
authors.initials: CS
authors.lastname: Chin
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Nicole A
authors.initials: NA
authors.lastname: Rapicavoli
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: David R
authors.initials: DR
authors.lastname: Rank
authors.affiliation: Department of Microbiology and Immunology, UCSF , San Francisco, California 94158, USA.
authors.forename: Joachim
authors.initials: J
authors.lastname: Li
authors.affiliation: Flinders University, School of Biological Sciences , PO Box 2100, Adelaide, South Australia 5001, Australia.
authors.forename: David E A
authors.initials: DE
authors.lastname: Catcheside
authors.affiliation: Department of Genome Dynamics, Lawrence Berkeley National Laboratory, 1 Cyclotron Road , Berkeley, California 94720, USA.
authors.forename: Susan E
authors.initials: SE
authors.lastname: Celniker
authors.affiliation: National Biodefense Analysis and Countermeasures Center , 110 Thomas Johnson Drive, Frederick, Maryland 21702, USA.
authors.forename: Adam M
authors.initials: AM
authors.lastname: Phillippy
authors.affiliation: Faculty of Life Sciences, University of Manchester , Oxford Road, Manchester M13 9PT, UK.
authors.forename: Casey M
authors.initials: CM
authors.lastname: Bergman
authors.affiliation: Pacific Biosciences of California Inc. , 1380 Willow Road, Menlo Park, California 94025, USA.
authors.forename: Jane M
authors.initials: JM
authors.lastname: Landolin
mesh_terms: D000818:Animals; D017360:Arabidopsis / Q000235:genetics*; D004331:Drosophila melanogaster / Q000235:genetics*; D004926:Escherichia coli / Q000235:genetics*; D016680:Genome, Bacterial; D016681:Genome, Fungal; D049750:Genome, Insect; D018745:Genome, Plant; D023421:Models, Animal; D009492:Neurospora crassa / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D017422:Sequence Analysis, DNA