Info • Scleroderma citrinum Foug A v1.0

Status

Assembly v1 (March 2012) is a draft assembly of Solexa gDNA reads. A total of 938 scaffolds and 56.1 Mbp were assembled using AllPathsLG.

Summary statistics for the Scleroderma citrinum Foug A v1.0 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 56.14
Sequencing read coverage depth 80.7x
# of contigs 3919
# of scaffolds 938
# of scaffolds >= 2Kbp 681
Scaffold N50 63
Scaffold L50 (Mbp) 0.24
# of gaps 2981
% of scaffold length in gaps 6.1%
Three largest Scaffolds (Mbp) 1.20, 1.13, 1.12


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other JGI_Combest_RNA_contigs 202542 170144 84.0%
Other JGI_Rnnotator_RNA_contigs 47400 42085 88.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 1312 946
transcript 1055 777
exon 244 160
intron 79 56
description:
protein length (aa) 299 199
exons per gene 4.33 3
# of gene models 21012


Genome Reference(s)

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

Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canbäck B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Doré J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Högberg N, Johansson T, Khouja HR, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Peter M, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Veneault-Fourrey C, Zuccaro A, Tunlid A, Grigoriev IV, Hibbett DS, Martin F
Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists.
Nat Genet. 2015 Apr;47(4):410-5. doi: 10.1038/ng.3223

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.