Info • Coniochaeta sp. 2T2.1 v1.0

Status

[April 2018] The Coniochaeta sp. 2T2.1 genome was sequenced with Sequel, assembled with Falcon version 1.8.8, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Note: we detected a large duplication event in this lineage, resulting in duplication of 97.91% of all gene models. Average % identity between duplicated regions is ≈91% and in the absence of any evidence of ploidy, these models were kept in the filtered gene set.

Summary statistics for the Coniochaeta sp. 2T2.1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 74.35
Sequencing read coverage depth 122.9x
# of contigs 95
# of scaffolds 95
# of scaffolds >= 2Kbp 95
Scaffold N50 11
Scaffold L50 (Mbp) 2.67
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 4.64, 4.45, 4.36


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 70996 69419 97.8%
Ests est.fasta 327456711 327176412 99.9%


Gene Models FilteredModels1
length (bp) of: average median
gene 1822 1576
transcript 1652 1424
exon 606 371
intron 100 65
description:
protein length (aa) 470 390
exons per gene 2.73 2
# of gene models 24735


Collaborators

Nancy Nichols, USDA-ARS, Peoria, IL

Genome Reference(s)

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

Mondo SJ, Jiménez DJ, Hector RE, Lipzen A, Yan M, LaButti K, Barry K, van Elsas JD, Grigoriev IV, Nichols NN
Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery.
Biotechnol Biofuels. 2019;12():229. doi: 10.1186/s13068-019-1569-6

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.