Status
[April 2017] The Colletotrichum navitas 9038-158a (CBS125086) 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 Colletotrichum navitas v1.0
release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 52.44 |
Sequencing read coverage depth | 201.93x |
# of contigs | 703 |
# of scaffolds | 703 |
# of scaffolds >= 2Kbp | 659 |
Scaffold N50 | 42 |
Scaffold L50 (Mbp) | 0.32 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 2.58, 1.61, 1.09 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
EstClusters | ESTclusters | 53810 | 49603 | 92.2% |
Ests | est.fasta | 159631442 | 158263306 | 99.1% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1608 | 1353 |
transcript | 1443 | 1191 |
exon | 538 | 337 |
intron | 100 | 66 |
description: | ||
protein length (aa) | 415 | 331 |
exons per gene | 2.68 | 2 |
# of gene models | 14682 |
Collaborators
Michael Thon, University of Salamanca, Spain
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Baroncelli R, Cobo-DÃaz JF, Benocci T, Peng M, Battaglia E, Haridas S, Andreopoulos W, LaButti K, Pangilinan J, Lipzen A, Koriabine M, Bauer D, Le Floch G, Mäkelä MR, Drula E, Henrissat B, Grigoriev IV, Crouch JA, de Vries RP, Sukno SA, Thon MR
Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi.
Gigascience. 2024 Jan 2;13():. doi: 10.1093/gigascience/giae036
Baroncelli R, Cobo-DÃaz JF, Benocci T, Peng M, Battaglia E, Haridas S, Andreopoulos W, LaButti K, Pangilinan J, Lipzen A, Koriabine M, Bauer D, Le Floch G, Mäkelä MR, Drula E, Henrissat B, Grigoriev IV, Crouch JA, de Vries RP, Sukno SA, Thon MR
Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi.
Gigascience. 2024 Jan 2;13():. doi: 10.1093/gigascience/giae036
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.