Info • Boletus edulis BED1 v4.0

Status

[July 2017] The Boletus edulis BED1 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in in the Downloads section.

Boletus edulis BED1 is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. 420 of the 594 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 Boletus edulis BED1 v4.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 66.53
Sequencing read coverage depth ??x
# of contigs 594
# of scaffolds 594
# of scaffolds >= 2Kbp 587
Scaffold N50 29
Scaffold L50 (Mbp) 0.42
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.71, 2.64, 2.43


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 108228688 106506115 98.4%
Other JGI_RNA_contigs 59693 56578 94.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 1499 1172
transcript 1220 943
exon 231 146
intron 67 56
description:
protein length (aa) 357 260
exons per gene 5.27 4
# of gene models 18722


Funding

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.