Info • Xylaria arbuscula FL1030 v1.0

Status

[March 2019] The Xylaria arbuscula FL1030 genome was sequenced with Illumina, assembled with SPAdes v3.12.0, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available on the Download page.

Summary statistics for the Xylaria arbuscula FL1030 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 52.12
Sequencing read coverage depth 111.166175577x
# of contigs 1339
# of scaffolds 1321
# of scaffolds >= 2Kbp 1009
Scaffold N50 76
Scaffold L50 (Mbp) 0.20
# of gaps 18
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.21, 0.92, 0.86


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 41926 39495 94.2%
Ests est.fasta 103827485 101952040 98.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 2041 1817
transcript 1844 1626
exon 590 374
intron 95 69
description:
protein length (aa) 489 410
exons per gene 3.12 3
# of gene models 12936


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.