Info • Lipomyces smithiae NRRL Y-17922 v1.0

Status

[July 2022] 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) 14.15
Sequencing read coverage depth 415.22x
# of contigs 45
# of scaffolds 42
# of scaffolds >= 2Kbp 32
Scaffold N50 5
Scaffold L50 (Mbp) 0.90
# of gaps 3
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.83, 1.43, 1.21


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 29110 19545 67.1%
Ests est.fasta 270487883 268005746 99.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1865 1632
transcript 1755 1528
exon 652 350
intron 67 57
description:
protein length (aa) 494 421
exons per gene 2.69 2
# of gene models 6067


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.