Info • Pachysolen tannophilus NRRL Y-2460 v1.2


v1.2 (June 2011). The Pachysolen tannophilus NRRL Y-2460 v1.0 hybrid draft release genome sequence assembly was built using the Newbler assembler (Release 2.4pre), and 392 gaps were subsequently closed by automated gap resolution. The draft assembly and gap resolution input reads consist of Roche (454), Illumina (Solexa), and fosmid (Sanger) data. The nuclear genome sequence from this draft assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses. For this v1.2 annotation, the alternate yeast nuclear code (translation table 12) was used. This v1.2 portal consists of the assembly data from the v1.0 portal plus ESTs (see table below) used for gene modeling to produce the Pacta1_2 updated annotation release.

Summary statistics for the Pachysolen tannophilus NRRL Y-2460 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 12.60
Sequencing read coverage depth 90.65x
# of contigs 583
# of scaffolds 198
# of scaffolds >= 2Kbp 28
Scaffold N50 3
Scaffold L50 (Mbp) 1.75
# of gaps 385
% of scaffold length in gaps 1.9%
Three largest Scaffolds (Mbp) 2.51, 2.19, 1.75

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters EstClusters 13973 13103 93.8%

Gene Models Filteredmodels2
length (bp) of: average median
gene 1638 1383
transcript 1586 1354
exon 1193 978
intron 162 98
protein length (aa) 480 396
exons per gene 1.33 1
# of gene models 5675


  • PI: Igor Grigoriev (JGI)
  • Thomas Jeffries, USDA Forest Products Lab, Madison, WI.
  • Meredith Blackwell, Louisiana State University, Baton Rouge, Louisiana
  • Cletus P. Kurtzman, USDA National Center for Agricultural Utilization Research, Peoria, IL

Genome Reference(s)


The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.