Info • Dendryphion nanum MPI-CAGE-CH-0243 v1.0

Status

[March 2018] The Dendryphion nanum MPI-CAGE-CH-0243 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 Dendryphion nanum v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 41.13
Sequencing read coverage depth 158.31x
# of contigs 59
# of scaffolds 59
# of scaffolds >= 2Kbp 58
Scaffold N50 8
Scaffold L50 (Mbp) 1.91
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.81, 3.79, 2.67


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 38283 36772 96.1%
Ests est.fasta 148977259 148146026 99.4%


Gene Models FilteredModels1
length (bp) of: average median
gene 1799 1583
transcript 1651 1443
exon 578 369
intron 82 58
description:
protein length (aa) 469 388
exons per gene 2.86 2
# of gene models 13889


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.