Info • Chytridium lagenaria Arg66 v1.0

Status

[January 2017] The Chytridium lagenaria Arg66 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.

Summary statistics for the Chytridium lagenaria Arg66 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 42.38
Sequencing read coverage depth 65.4x
# of contigs 446
# of scaffolds 446
# of scaffolds >= 2Kbp 433
Scaffold N50 61
Scaffold L50 (Mbp) 0.22
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.66, 0.63, 0.61


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 41980 39945 95.2%
Ests est.fasta 80432759 75076189 93.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 1636 1355
transcript 1270 1066
exon 233 151
intron 84 60
description:
protein length (aa) 358 282
exons per gene 5.46 4
# of gene models 14275


Collaborators

Tim James, University of Michigan, USA

Joseph Spatafora, Oregon State University, USA

Genome Reference(s)

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

Amses KR, Simmons DR, Longcore JE, Mondo SJ, Seto K, Jerônimo GH, Bonds AE, Quandt CA, Davis WJ, Chang Y, Federici BA, Kuo A, LaButti K, Pangilinan J, Andreopoulos W, Tritt A, Riley R, Hundley H, Johnson J, Lipzen A, Barry K, Lang BF, Cuomo CA, Buchler NE, Grigoriev IV, Spatafora JW, Stajich JE, James TY
Diploid-dominant life cycles characterize the early evolution of Fungi.
Proc Natl Acad Sci U S A. 2022 Sep 6;119(36):e2116841119. doi: 10.1073/pnas.2116841119

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.