Info • Pisolithus sp. B1 v1.0


[May 2019] The genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assemblied separately and is available on the Download page.

This  is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. To represent these primary and secondary haplotypes in the Portal, we have created 'primary alleles' and 'secondary alleles' gene model tracks, comprising the models found on each haplotype. The goal of the GeneCatalog (GC) is to produce a non-redundant set of models which captures the full functional repertiore of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Summary statistics for the Pisolithus sp. B1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 64.71
Sequencing read coverage depth 209.2x
# of contigs 333
# of scaffolds 333
# of scaffolds >= 2Kbp 333
Scaffold N50 14
Scaffold L50 (Mbp) 1.24
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 5.05, 3.71, 3.24

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 87524 81995 93.7%
Ests est.fasta 113260375 112556126 99.4%

Gene Models FilteredModels2
length (bp) of: average median
gene 1749 1469
transcript 1393 1156
exon 224 143
intron 70 56
protein length (aa) 408 323
exons per gene 6.22 5
# of gene models 12451


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.