Info • Cylindrocarpon olidum MPI-CAGE-CH-0241 v1.0

Status

[August 2018] The Cylindrocarpon olidum MPI-CAGE-CH-0241 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 Cylindrocarpon olidum v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 52.86
Sequencing read coverage depth 97.43x
# of contigs 227
# of scaffolds 227
# of scaffolds >= 2Kbp 220
Scaffold N50 12
Scaffold L50 (Mbp) 1.15
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.98, 3.37, 3.07


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 59219 37537 63.4%
Ests est.fasta 142956228 141690243 99.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1761 1537
transcript 1610 1396
exon 557 350
intron 82 60
description:
protein length (aa) 466 388
exons per gene 2.89 2
# of gene models 16645


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.