Info • Lycoperdon perlatum FP-102459-T v1.0


[October 2016] The Lycoperdon perlatum FP-102459-T genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.


Lycoperdon perlatum FP-102459-T is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. 702 of the 1192 scaffolds are very similar to larger scaffolds and are predicted to constitute an alternate or secondary haplotype. 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 Lycoperdon perlatum v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 64.63
Sequencing read coverage depth 288.96x
# of contigs 1192
# of scaffolds 1192
# of scaffolds >= 2Kbp 1140
Scaffold N50 64
Scaffold L50 (Mbp) 0.21
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.21, 2.17, 1.54

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 71168 66102 92.9%
Ests est.fasta 119254446 117896343 98.9%

Gene Models FilteredModels1
length (bp) of: average median
gene 1676 1437
transcript 1332 1122
exon 221 139
intron 70 58
protein length (aa) 388 316
exons per gene 6.04 5
# of gene models 17855



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.