Info • Xylaria cubensis CBS 116.85 v1.0

Status

[June 2019] The Xylaria cubensis CBS 116.85 v1.0 genome was sequenced with Illumina, assembled with SPAdes, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Xylaria cubensis CBS 116.85 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 44.85
Sequencing read coverage depth 93.8566529198636x
# of contigs 344
# of scaffolds 333
# of scaffolds >= 2Kbp 285
Scaffold N50 29
Scaffold L50 (Mbp) 0.44
# of gaps 11
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.65, 1.35, 1.29


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 52022 51170 98.4%
Ests est.fasta 152708199 151627570 99.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 2052 1812
transcript 1860 1636
exon 591 368
intron 91 66
description:
protein length (aa) 491 410
exons per gene 3.15 3
# of gene models 12717


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.