Info • Caulochytrium protostelioides ATCC 52028 v1.0

Status

[August 2015] The Caulochytrium protostelioides ATCC52028 genome was sequenced using Illumina ( 2x151 bp .27 kb, 2x151 bp .5 kb).  Please note these libraries were made from cultured DNA, not single cells.  Each fastq file was QC filtered for artifact/process contamination and subsequently assembled together with AllPathsLG version R49403, (Gnerre et al., 2010). The assembly was annotated using the JGI Annotation pipeline.

Summary statistics for the Caulochytrium protosteloides ATCC 52028 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 21.80
Sequencing read coverage depth 128.4x
# of contigs 592
# of scaffolds 564
# of scaffolds >= 2Kbp 482
Scaffold N50 68
Scaffold L50 (Mbp) 0.09
# of gaps 28
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.31, 0.29, 0.28


Gene Models FilteredModels1
length (bp) of: average median
gene 1808 1338
transcript 1672 1209
exon 1058 626
intron 235 159
description:
protein length (aa) 557 403
exons per gene 1.58 1
# of gene models 6168


Collaborators

Genome Reference(s)

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

Ahrendt SR, Quandt CA, Ciobanu D, Clum A, Salamov A, Andreopoulos B, Cheng JF, Woyke T, Pelin A, Henrissat B, Reynolds NK, Benny GL, Smith ME, James TY, Grigoriev IV
Leveraging single-cell genomics to expand the fungal tree of life.
Nat Microbiol. 2018 Dec;3(12):1417-1428. doi: 10.1038/s41564-018-0261-0

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.