Info • Alternaria alternata MPI-PUGE-AT-0064 v1.0

Status

[August 2017] The Alternaria alternata MPI-PUGE-AT-0040 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 Alternaria alternata v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 33.44
Sequencing read coverage depth 206.13x
# of contigs 26
# of scaffolds 26
# of scaffolds >= 2Kbp 23
Scaffold N50 5
Scaffold L50 (Mbp) 3.09
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.60, 4.18, 3.52


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 31711 30645 96.6%
Ests est.fasta 93079692 92164317 99.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1682 1457
transcript 1561 1348
exon 597 378
intron 77 56
description:
protein length (aa) 467 393
exons per gene 2.61 2
# of gene models 13086


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.