Info • Cantharellus anzutake C23 v1.0

Status

Assembly v1 (September 2015) is a standard draft assembly, using PacBio gDNAs assembled with Falcon, improved with finisherSC, and polished with quiver.

Cantharellus anzutake C23 is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. 412 of the 614 scaffolds are very similar to larger scaffolds and are predicted to constitute an alternate or secondary haplotype. To represent these primary and secondary haplotypes in the Portal, we have created 'primary alleles' and 'secondary alleles' gene model tracks, comprising the models found on each haplotype. The goal of the GeneCatalog (GC) is to produce a non-redundant set of models which captures the full functional repertiore of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Summary statistics for the Cantharellus anzutake C23 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 120.17
Sequencing read coverage depth 84.3X
# of contigs 614
# of scaffolds 614
# of scaffolds >= 2Kbp 613
Scaffold N50 53
Scaffold L50 (Mbp) 0.58
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.33, 2.27, 2.27


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 74599 72525 97.2%
Ests est.fasta 188345974 187220856 99.4%


Gene Models FilteredModels4
length (bp) of: average median
gene 1606 1313
transcript 1304 1047
exon 248 151
intron 73 59
description:
protein length (aa) 369 276
exons per gene 5.25 4
# of gene models 16968


Genome Reference(s)

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

Miyauchi S, Kiss E, Kuo A, Drula E, Kohler A, Sánchez-García M, Morin E, Andreopoulos B, Barry KW, Bonito G, Buée M, Carver A, Chen C, Cichocki N, Clum A, Culley D, Crous PW, Fauchery L, Girlanda M, Hayes RD, Kéri Z, LaButti K, Lipzen A, Lombard V, Magnuson J, Maillard F, Murat C, Nolan M, Ohm RA, Pangilinan J, Pereira MF, Perotto S, Peter M, Pfister S, Riley R, Sitrit Y, Stielow JB, Szöllősi G, Žifčáková L, Štursová M, Spatafora JW, Tedersoo L, Vaario LM, Yamada A, Yan M, Wang P, Xu J, Bruns T, Baldrian P, Vilgalys R, Dunand C, Henrissat B, Grigoriev IV, Hibbett D, Nagy LG, Martin FM
Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits.
Nat Commun. 2020 Oct 12;11(1):5125. doi: 10.1038/s41467-020-18795-w

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.