Info • Penicillium citreonigrum cont 1189274 v1.0


[June 2019] The Penicillium citreonigrum cont 1189274 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.

This project was originally conceived around a sample of a Cerinomyces crustulinus OMC1686 isolate but sequencing data suggested that the sample was heavily contaminated with this Penicillium species. This contamination is believed to have originated in the lab spaces at the University of Helsinki, where various fungal strains from around Northern Hemisphere are routinely cultured. Little to no Cerinomyces was assembled with the exception of mitochondria and ribosomal content. Assembled Cerinomyces was removed from the assembly and the contaminant organism was released as a metagenome assembled genome. Similarly, the RNA library was contaminated and only genome-mapping reads were used for transcriptome assembly.

Summary statistics for the Penicillium citreonigrum cont 1189274 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 34.51
Sequencing read coverage depth 250.08x
# of contigs 105
# of scaffolds 105
# of scaffolds >= 2Kbp 102
Scaffold N50 4
Scaffold L50 (Mbp) 3.86
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 5.04, 4.88, 3.91

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 30923 29229 94.5%
Ests est.fasta 153072298 91035569 59.5%

Gene Models FilteredModels1
length (bp) of: average median
gene 1775 1568
transcript 1625 1431
exon 520 309
intron 73 58
protein length (aa) 469 401
exons per gene 3.12 3
# of gene models 12602


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.