Info • Paraphoma chrysanthemicola MPI-SDFR-AT-0120 v1.0

Status

[February 2019] The Paraphoma chrysanthemicola MPI-SDFR-AT-0120 v1.0 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 Paraphoma chrysanthemicola v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 40.16
Sequencing read coverage depth 211.27x
# of contigs 48
# of scaffolds 48
# of scaffolds >= 2Kbp 48
Scaffold N50 10
Scaffold L50 (Mbp) 1.41
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.75, 2.43, 1.97


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 40805 36743 90.0%
Ests est.fasta 213406923 209519367 98.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 1800 1590
transcript 1671 1470
exon 613 395
intron 77 55
description:
protein length (aa) 474 401
exons per gene 2.72 2
# of gene models 15009


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.