Info • Xylaria palmicola CBS 124036 v1.0

Status

[June 2019] The Xylaria palmicola CBS 124036 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 palmicola CBS 124036 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 43.87
Sequencing read coverage depth 131.143620252x
# of contigs 560
# of scaffolds 548
# of scaffolds >= 2Kbp 478
Scaffold N50 35
Scaffold L50 (Mbp) 0.37
# of gaps 12
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.42, 1.24, 1.01


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 58579 57593 98.3%
Ests est.fasta 186223704 185312063 99.5%


Gene Models FilteredModels1
length (bp) of: average median
gene 2049 1824
transcript 1849 1632
exon 595 372
intron 96 69
description:
protein length (aa) 484 405
exons per gene 3.11 3
# of gene models 11559


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.