Info • Fusarium oxysporum Fo47 v2.0

Status

[December 2020] The genome sequence of Fusarium oxysporum Fo47 were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on Oct 14, 2020. This  genome was sequenced with PacBio RSII, assembled with NextDenovo v2.0, and annotated with the JGI Annotation Pipeline.

Summary statistics for the Fusarium oxysporum Fo47 v2.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 50.36
Sequencing read coverage depth 341.0x
# of contigs 12
# of scaffolds 12
# of scaffolds >= 2Kbp 12
Scaffold N50 5
Scaffold L50 (Mbp) 4.52
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 6.49, 5.61, 5.15


RNA was obtained from an infection time course experiment. The presence of host cell RNA accounts for the poor mapping statistics below.

ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 278523 31369 11.3%
Ests est.fasta 261065551 43568068 16.7%


Gene Models FilteredModels1
length (bp) of: average median
gene 1795 1546
transcript 1622 1404
exon 531 322
intron 86 56
description:
protein length (aa) 483 406
exons per gene 3.06 3
# of gene models 16207


Collaborators

  • Li-Jun Ma, University of Massachusetts Amherst, USA

Genome Reference(s)

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

Wang B, Yu H, Jia Y, Dong Q, Steinberg C, Alabouvette C, Edel-Hermann V, Kistler HC, Ye K, Ma LJ, Guo L
Chromosome-Scale Genome Assembly of Fusarium oxysporum Strain Fo47, a Fungal Endophyte and Biocontrol Agent.
Mol Plant Microbe Interact. 2020 Sep;33(9):1108-1111. doi: 10.1094/MPMI-05-20-0116-A

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.