Status
Oct 2013. The Lentinus tigrinus genome was sequenced using the Illumina platform, assembled with AllPathsLG version R46652 (Gnerre et al., 2010), and annotated with the JGI annotation pipeline and custom analyses.
Summary statistics for the Lentinus tigrinus ALCF2SS1-6
v1.0 release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 39.88 |
Sequencing read coverage depth | 97.8 |
# of contigs | 571 |
# of scaffolds | 286 |
# of scaffolds >= 2Kbp | 219 |
Scaffold N50 | 20 |
Scaffold L50 (Mbp) | 0.57 |
# of gaps | 285 |
% of scaffold length in gaps | 0.9% |
Three largest Scaffolds (Mbp) | 2.30, 2.20, 1.56 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
Other | EST_contigs | 30004 | 29782 | 99.3% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1772 | 1524 |
transcript | 1427 | 1216 |
exon | 255 | 156 |
intron | 77 | 60 |
description: | ||
protein length (aa) | 411 | 343 |
exons per gene | 5.59 | 4 |
# of gene models | 15581 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Wu B, Xu Z, Knudson A, Carlson A, Chen N, Kovaka S, LaButti K, Lipzen A, Pennachio C, Riley R, Schakwitz W, Umezawa K, Ohm RA, Grigoriev IV, Nagy LG, Gibbons J, Hibbett D
Genomics and Development of Lentinus tigrinus: A White-Rot Wood-Decaying Mushroom with Dimorphic Fruiting Bodies.
Genome Biol Evol. 2018 Dec 1;10(12):3250-3261. doi: 10.1093/gbe/evy246
Wu B, Xu Z, Knudson A, Carlson A, Chen N, Kovaka S, LaButti K, Lipzen A, Pennachio C, Riley R, Schakwitz W, Umezawa K, Ohm RA, Grigoriev IV, Nagy LG, Gibbons J, Hibbett D
Genomics and Development of Lentinus tigrinus: A White-Rot Wood-Decaying Mushroom with Dimorphic Fruiting Bodies.
Genome Biol Evol. 2018 Dec 1;10(12):3250-3261. doi: 10.1093/gbe/evy246
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.