Info • Nemania diffusa NC0034 v1.0

Status

[June 2019] The Nemania diffusa NC0034 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 Nemania diffusa NC0034 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 51.52
Sequencing read coverage depth 84.788x
# of contigs 1953
# of scaffolds 1923
# of scaffolds >= 2Kbp 1371
Scaffold N50 107
Scaffold L50 (Mbp) 0.13
# of gaps 30
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.75, 0.69, 0.69


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 53265 52374 98.3%
Ests est.fasta 158358640 157665357 99.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 2041 1817
transcript 1838 1623
exon 584 362
intron 96 68
description:
protein length (aa) 487 409
exons per gene 3.15 3
# of gene models 12570


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.