Info • Choanephora cucurbitarum NRRL2744 (50) v1.0

Status

[June 2018] The Choanephora cucurbitarum NRRL2744 (50) genome was sequenced with Sequel, assembled with Falcon version 1.8.8, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Choanephora cucurbitarum NRRL2744 (50) v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 35.11
Sequencing read coverage depth 199.65x
# of contigs 600
# of scaffolds 600
# of scaffolds >= 2Kbp 588
Scaffold N50 47
Scaffold L50 (Mbp) 0.23
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.67, 0.63, 0.62


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 52984 45061 85.0%
Ests est.fasta 219228220 100944298 46.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1582 1339
transcript 1344 1121
exon 330 194
intron 79 61
description:
protein length (aa) 393 311
exons per gene 4.07 3
# of gene models 11534


Collaborators

Jason Stajich, UC Riverside, CA, USA

Joseph Spatafora, Oregon State University, OR, USA

Genome Reference(s)

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

Chang Y, Wang Y, Mondo S, Ahrendt S, Andreopoulos W, Barry K, Beard J, Benny GL, Blankenship S, Bonito G, Cuomo C, Desiro A, Gervers KA, Hundley H, Kuo A, LaButti K, Lang BF, Lipzen A, O'Donnell K, Pangilinan J, Reynolds N, Sandor L, Smith ME, Tsang A, Grigoriev IV, Stajich JE, Spatafora JW
Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies.
iScience. 2022 Aug 19;25(8):104840. doi: 10.1016/j.isci.2022.104840

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.