Info • Trichoderma sp. AM6 v1.0

Status

[January 2025] The genome sequence of Trichoderma sp. AM6 was provided by Avishek Banik and annotated using the JGI Annotation pipeline. The mitochondrial genome was also assembled and is available in the download section. The transcriptome data used to support the genome annotation was retrieved from Trichoderma sp. aff zeloharzianum SZMC 28011 (TriTUC5505_1).

Genome Assembly
Genome Assembly size (Mbp) 39.91
Sequencing read coverage depth 100x
# of contigs 446
# of scaffolds 406
# of scaffolds >= 2Kbp 279
Scaffold N50 20
Scaffold L50 (Mbp) 0.60
# of gaps 40
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.67, 1.39, 1.33


The transcriptome was retrieved from a different strain, resulting in a low mapping rate.
ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 38169 25740 67.4%
Ests est.fasta 33017331 30173111 91.4%


Gene Models FilteredModels1
length (bp) of: average median
gene 1820 1542
transcript 1638 1382
exon 545 311
intron 93 67
description:
protein length (aa) 483 392
exons per gene 3.01 3
# of gene models 13060


Genome Reference(s)

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

Parvez SS, Mondal A, Sharma K, Steindorff AS, Grigoriev IV, Bakshi U, Banik A
Trichoderma sp. strain AM6 whole-genome guided untargeted metabolomics: Terpenoid backbone synthesis and modulation of VOCs in tea (Camellia sinensis L.).
Microbiol Res. 2025 May 14;298():128215. doi: 10.1016/j.micres.2025.128215

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.