Info • Xylaria longipes CBS 148.73 v1.0

Status

[June 2019] The Xylaria longipes CBS 148.73 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 longipes CBS 148.73 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 50.75
Sequencing read coverage depth 87.05x
# of contigs 988
# of scaffolds 974
# of scaffolds >= 2Kbp 792
Scaffold N50 57
Scaffold L50 (Mbp) 0.24
# of gaps 14
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.32, 1.03, 0.83


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 55311 54518 98.6%
Ests est.fasta 179452122 177327317 98.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 2026 1792
transcript 1821 1600
exon 576 358
intron 97 68
description:
protein length (aa) 478 398
exons per gene 3.16 3
# of gene models 12544


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.