Status
The genome sequence and gene prediction of Botrytis cinerea B05.10 have not been determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on Nov 11, 2024. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced and annotated by the JGI, we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total of 2316 ExternalModels were excluded based on one of the following classifications: 1) association with repetitive elements, 2) pseudogenes with internal stop codons, 3) alternative isoforms or overlapping transcript models, 4) alleles on secondary scaffolds, and 5) short models lacking functional annotation. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated. In order to allow comparative analyses with other fungal genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. The JGI Annotation Pipeline was used to add functional annotation to the genes.
Genome Assembly | |
Genome Assembly size (Mbp) | 42.63 |
Sequencing read coverage depth | 35x |
# of contigs | 18 |
# of scaffolds | 18 |
# of scaffolds >= 2Kbp | 18 |
Scaffold N50 | 7 |
Scaffold L50 (Mbp) | 2.62 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 4.11, 3.34, 3.23 |
Gene Models | FilteredModels2 | |
length (bp) of: | average | median |
gene | 2288 | 1991 |
transcript | 2116 | 1819 |
exon | 684 | 439 |
intron | 84 | 61 |
description: | ||
protein length (aa) | 505 | 420 |
exons per gene | 3.09 | 3 |
# of gene models | 11409 |
Genome Reference(s)
Van Kan JA, Stassen JH, Mosbach A, Van Der Lee TA, Faino L, Farmer AD, Papasotiriou DG, Zhou S, Seidl MF, Cottam E, Edel D, Hahn M, Schwartz DC, Dietrich RA, Widdison S, Scalliet G
A gapless genome sequence of the fungus Botrytis cinerea.
Mol Plant Pathol. 2017 Jan;18(1):75-89. doi: 10.1111/mpp.12384
Staats M, van Kan JA
Genome update of Botrytis cinerea strains B05.10 and T4.
Eukaryot Cell. 2012 Nov;11(11):1413-4. doi: 10.1128/EC.00164-12
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Leotiomycetes Helotiales
- JGI EcoGroup Portals: Plant Pathogens