Info • Verticillium dahliae MPI-CAGE-AT-0001 v1.0

Status

[December 2018] The Verticillium dahliae MPI-CAGE-AT-0001 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 Verticillium dahliae v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 40.17
Sequencing read coverage depth 201.77x
# of contigs 186
# of scaffolds 186
# of scaffolds >= 2Kbp 181
Scaffold N50 10
Scaffold L50 (Mbp) 1.58
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.72, 2.58, 2.45


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 33608 32874 97.8%
Ests est.fasta 115476250 114496694 99.2%


Gene Models FilteredModels2
length (bp) of: average median
gene 1798 1574
transcript 1642 1419
exon 607 385
intron 94 65
description:
protein length (aa) 460 383
exons per gene 2.70 2
# of gene models 12343


Collaborators

Francis M. Martin, INRA, France.

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:

Mesny F, Miyauchi S, Thiergart T, Pickel B, Atanasova L, Karlsson M, Hüttel B, Barry KW, Haridas S, Chen C, Bauer D, Andreopoulos W, Pangilinan J, LaButti K, Riley R, Lipzen A, Clum A, Drula E, Henrissat B, Kohler A, Grigoriev IV, Martin FM, Hacquard S
Genetic determinants of endophytism in the Arabidopsis root mycobiome.
Nat Commun. 2021 Dec 10;12(1):7227. doi: 10.1038/s41467-021-27479-y

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.