title: De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data.
abstract: Sequencing-by-synthesis technologies can reduce the cost of generating de novo genome assemblies. We report a method for assembling draft genome sequences of eukaryotic organisms that integrates sequence information from different sources, and demonstrate its effectiveness by assembling an approximately 32.5 Mb draft genome sequence for the forest pathogen Grosmannia clavigera, an ascomycete fungus. We also developed a method for assessing draft assemblies using Illumina paired end read data and demonstrate how we are using it to guide future sequence finishing. Our results demonstrate that eukaryotic genome sequences can be accurately assembled by combining Illumina, 454 and Sanger sequence data.
authors.affiliation: Department of Wood Science, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada. scottdig@interchange.ubc.ca
authors.forename: Scott
authors.initials: S
authors.lastname: Diguistini
authors.forename: Nancy Y
authors.initials: NY
authors.lastname: Liao
authors.forename: Darren
authors.initials: D
authors.lastname: Platt
authors.forename: Gordon
authors.initials: G
authors.lastname: Robertson
authors.forename: Michael
authors.initials: M
authors.lastname: Seidel
authors.forename: Simon K
authors.initials: SK
authors.lastname: Chan
authors.forename: T Roderick
authors.initials: TR
authors.lastname: Docking
authors.forename: Inanc
authors.initials: I
authors.lastname: Birol
authors.forename: Robert A
authors.initials: RA
authors.lastname: Holt
authors.forename: Martin
authors.initials: M
authors.lastname: Hirst
authors.forename: Elaine
authors.initials: E
authors.lastname: Mardis
authors.forename: Marco A
authors.initials: MA
authors.lastname: Marra
authors.forename: Richard C
authors.initials: RC
authors.lastname: Hamelin
authors.forename: Jörg
authors.initials: J
authors.lastname: Bohlmann
authors.forename: Colette
authors.initials: C
authors.lastname: Breuil
authors.forename: Steven Jm
authors.initials: SJ
authors.lastname: Jones
mesh_terms: D000465:Algorithms; D001203:Ascomycota / Q000235:genetics*; D005656:Fungal Proteins / Q000235:genetics; D016681:Genome, Fungal / Q000235:genetics*; D023281:Genomics / Q000379:methods; D016366:Open Reading Frames / Q000235:genetics; D015203:Reproducibility of Results; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D005656:Fungal Proteins