Info • Cochliobolus victoriae FI3 v2.0

Status

[April 2023] The Cochliobolus victoriae FI3 v2.0 genome was sequenced with Oxford Nanopore, assembled with Canu, and annotated with the JGI Annotation Pipeline. This genome was not sequenced at the JGI, but was provided by Megan McDonald, Simon Kessler, and Gillian Turgeon.

Genome Assembly
Genome Assembly size (Mbp) 34.03
Sequencing read coverage depth 37.0x
# of contigs 22
# of scaffolds 22
# of scaffolds >= 2Kbp 22
Scaffold N50 6
Scaffold L50 (Mbp) 2.46
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.43, 3.13, 2.91


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 62060 27859 44.9%
Ests est.fasta 420144399 400393132 95.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 1908 1616
transcript 1744 1491
exon 602 372
intron 88 58
description:
protein length (aa) 495 403
exons per gene 2.90 2
# of gene models 11600


Collaborators

  • Megan C McDonald, University of Birmingham, Institute of Microbiology and Infection, School of Biosciences, Birmingham, UK.
  • Simon C. Kessler, School of Molecular Sciences, The University of Western Australia, Perth, Australia.
  • Yit-Heng Chooi, School of Molecular Sciences, The University of Western Australia, Perth, Australia.
  • Cameron L. M. Gilchrist, School of Molecular Sciences, The University of Western Australia, Perth, Australia.
    • current affiliation, School of Biological Sciences, Seoul National University, South Korea.
  • Peter S. Solomon, Research School of Biology, The Australian National University, Canberra, Australia.
  • Gillian Turgeon, Cornell University, Ithaca, New York, USA.

Genome Reference(s)

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

Kessler SC, Zhang X, McDonald MC, Gilchrist CLM, Lin Z, Rightmyer A, Solomon PS, Turgeon BG, Chooi YH
Victorin, the host-selective cyclic peptide toxin from the oat pathogen Cochliobolus victoriae, is ribosomally encoded.
Proc Natl Acad Sci U S A. 2020 Sep 29;117(39):24243-24250. doi: 10.1073/pnas.2010573117

Links

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.