Info • Xylaria cf. castorea CBS 124033 v1.0

Status

[June 2019] The Xylaria cf. castorea CBS 124033 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 cf. castorea CBS 124033 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 45.89
Sequencing read coverage depth 81.5291687024x
# of contigs 468
# of scaffolds 461
# of scaffolds >= 2Kbp 382
Scaffold N50 22
Scaffold L50 (Mbp) 0.56
# of gaps 7
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.31, 1.71, 1.67


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 56734 56014 98.7%
Ests est.fasta 188105552 187236281 99.5%


Gene Models FilteredModels1
length (bp) of: average median
gene 2036 1813
transcript 1839 1623
exon 588 367
intron 95 68
description:
protein length (aa) 480 402
exons per gene 3.13 3
# of gene models 12064


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.