Info • Xylaria grammica CBS 120713 v1.0

Status

[March 2019] This 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 grammica CBS 120713 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 50.76
Sequencing read coverage depth 111.935195482x
# of contigs 855
# of scaffolds 838
# of scaffolds >= 2Kbp 631
Scaffold N50 38
Scaffold L50 (Mbp) 0.38
# of gaps 17
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.50, 1.24, 1.12


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 47689 43562 91.3%
Ests est.fasta 110257795 107166122 97.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 2017 1783
transcript 1823 1599
exon 585 366
intron 94 68
description:
protein length (aa) 484 404
exons per gene 3.12 3
# of gene models 13181


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.