Info • Neocallimastix lanati v1.0

Status

[June 2020] The Neocallimastix lanati v1.0 genome was sequenced with PacBio, assembled with MECAT, and annotated with the JGI Annotation Pipeline.

Summary statistics for the Neocallimastix lanati v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 200.97
Sequencing read coverage depth 62.05x
# of contigs 970
# of scaffolds 970
# of scaffolds >= 2Kbp 967
Scaffold N50 61
Scaffold L50 (Mbp) 1.03
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.01, 3.82, 3.75


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 137627 86444 62.8%
Ests est.fasta 717898839 695554092 96.9%


Gene Models FilteredModels2
length (bp) of: average median
gene 2357 1794
transcript 1605 1193
exon 364 157
intron 223 163
description:
protein length (aa) 480 337
exons per gene 4.41 3
# of gene models 25350


Collaborators

Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Wilken SE, Monk JM, Leggieri PA, Lawson CE, Lankiewicz TS, Seppälä S, Daum CG, Jenkins J, Lipzen AM, Mondo SJ, Barry KW, Grigoriev IV, Henske JK, Theodorou MK, Palsson BO, Petzold LR, O'Malley MA
Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus.
mSystems. 2021 Feb 16;6(1):. doi: 10.1128/mSystems.00002-21

Links

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.