Info • Macrophomina phaseolina MPI-SDFR-AT-0080 v1.0

Status

[March 2018] The Macrophomina phaseolina MPI-SDFR-AT-0080 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 Macrophomina phaseolina v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 53.64
Sequencing read coverage depth 66.71x
# of contigs 184
# of scaffolds 184
# of scaffolds >= 2Kbp 181
Scaffold N50 17
Scaffold L50 (Mbp) 0.88
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.64, 2.38, 2.05


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 66789 55139 82.6%
Ests est.fasta 142252325 130119472 91.5%


Gene Models FilteredModels1
length (bp) of: average median
gene 1751 1531
transcript 1590 1374
exon 536 338
intron 84 60
description:
protein length (aa) 453 375
exons per gene 2.97 3
# of gene models 14845


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.