De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data.
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.
Diguistini
Scott
S
Department of Wood Science, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada. scottdig@interchange.ubc.ca
Liao
Nancy Y
NY
Platt
Darren
D
Robertson
Gordon
G
Seidel
Michael
M
Chan
Simon K
SK
Docking
T Roderick
TR
Birol
Inanc
I
Holt
Robert A
RA
Hirst
Martin
M
Mardis
Elaine
E
Marra
Marco A
MA
Hamelin
Richard C
RC
Bohlmann
Jörg
J
Breuil
Colette
C
Jones
Steven Jm
SJ
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*
D005656:Fungal Proteins