Info • Lipomyces japonicus CBS 7319 v1.0

Status

[September 2023] This genome was sequenced with Illumina, assembled with SPAdes v3.15.2, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Genome Assembly
Genome Assembly size (Mbp) 13.37
Sequencing read coverage depth 487.73x
# of contigs 180
# of scaffolds 172
# of scaffolds >= 2Kbp 151
Scaffold N50 20
Scaffold L50 (Mbp) 0.25
# of gaps 8
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.62, 0.49, 0.39


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 20687 19702 95.2%
Ests est.fasta 128942812 127730094 99.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1798 1567
transcript 1663 1449
exon 592 327
intron 76 65
description:
protein length (aa) 468 392
exons per gene 2.81 2
# of gene models 5843


Collaborators

Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Czajka JJ, Han Y, Kim J, Mondo SJ, Hofstad BA, Robles A, Haridas S, Riley R, LaButti K, Pangilinan J, Andreopoulos W, Lipzen A, Yan J, Wang M, Ng V, Grigoriev IV, Spatafora JW, Magnuson JK, Baker SE, Pomraning KR
Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces.
Front Bioeng Biotechnol. 2024;12():1356551. doi: 10.3389/fbioe.2024.1356551

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.