Info • Xylaria scruposa CBS 123580 v1.0

Status

[June 2019] The Xylaria scruposa CBS 123580 v1.0 genome was sequenced with Illumina, assembled with SPAdes v3.13.0, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Xylaria scruposa CBS 123580 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 46.64
Sequencing read coverage depth 84.20x
# of contigs 597
# of scaffolds 589
# of scaffolds >= 2Kbp 406
Scaffold N50 25
Scaffold L50 (Mbp) 0.63
# of gaps 8
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.09, 1.95, 1.36


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 49398 48916 99.0%
Ests est.fasta 149498663 148844026 99.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 2056 1830
transcript 1871 1650
exon 599 376
intron 89 66
description:
protein length (aa) 493 412
exons per gene 3.12 3
# of gene models 13082


Collaborators

Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Franco MEE, Wisecaver JH, Arnold AE, Ju YM, Slot JC, Ahrendt S, Moore LP, Eastman KE, Scott K, Konkel Z, Mondo SJ, Kuo A, Hayes RD, Haridas S, Andreopoulos B, Riley R, LaButti K, Pangilinan J, Lipzen A, Amirebrahimi M, Yan J, Adam C, Keymanesh K, Ng V, Louie K, Northen T, Drula E, Henrissat B, Hsieh HM, Youens-Clark K, Lutzoni F, Miadlikowska J, Eastwood DC, Hamelin RC, Grigoriev IV, U'Ren JM
Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes.
New Phytol. 2022 Feb;233(3):1317-1330. doi: 10.1111/nph.17873

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.