Info • Xylaria arbuscula CBS 124340 v1.0

Status

[June 2019] The Xylaria arbuscula CBS 124340 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 arbuscula CBS 124340 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 51.16
Sequencing read coverage depth 86.19x
# of contigs 112
# of scaffolds 89
# of scaffolds >= 2Kbp 86
Scaffold N50 18
Scaffold L50 (Mbp) 1.11
# of gaps 23
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.35, 1.96, 1.88


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 50596 49778 98.4%
Ests est.fasta 151812342 150785529 99.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 2021 1800
transcript 1827 1615
exon 585 368
intron 94 68
description:
protein length (aa) 480 401
exons per gene 3.12 3
# of gene models 12946


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.