Info • Xylaria digitata CBS 161.22 v1.0

Status

[August 2019] The Xylaria digitata CBS 161.22 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 digitata v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 58.42
Sequencing read coverage depth 85.84x
# of contigs 895
# of scaffolds 888
# of scaffolds >= 2Kbp 807
Scaffold N50 85
Scaffold L50 (Mbp) 0.18
# of gaps 7
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.46, 0.90, 0.78


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 54314 53498 98.5%
Ests est.fasta 137599963 136686478 99.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 2029 1805
transcript 1821 1614
exon 567 354
intron 96 67
description:
protein length (aa) 479 399
exons per gene 3.21 3
# of gene models 12640


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.