Status
The genome of Botrytis cinerea was not sequenced by the JGI, but by the BROAD Institute. A copy of the genome was downloaded from http://www.broadinstitute.org/annotation/genome/botrytis_cinerea/Home.html and is incorporated into MycoCosm, so it can be used in comparative studies. JGI eukaryotic tools were used to annotate the predicted genes.
Summary statistics for the Botrytis cinerea v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 42.66 |
| Sequencing read coverage depth | unknown |
| # of contigs | 4534 |
| # of scaffolds | 588 |
| # of scaffolds >= 2Kbp | 318 |
| Scaffold N50 | 50 |
| Scaffold L50 (Mbp) | 0.26 |
| # of gaps | 3946 |
| % of scaffold length in gaps | 9.1% |
| Three largest Scaffolds (Mbp) | 1.31, 1.01, 0.93 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1229 | 968 |
| transcript | 1005 | 744 |
| exon | 381 | 190 |
| intron | 139 | 76 |
| description: | ||
| protein length (aa) | 334 | 247 |
| exons per gene | 2.64 | 2 |
| # of gene models | 16447 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
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
Amselem J, Cuomo CA, van Kan JA, Viaud M, Benito EP, Couloux A, Coutinho PM, de Vries RP, Dyer PS, Fillinger S, Fournier E, Gout L, Hahn M, Kohn L, Lapalu N, Plummer KM, Pradier JM, Quévillon E, Sharon A, Simon A, ten Have A, Tudzynski B, Tudzynski P, Wincker P, Andrew M, Anthouard V, Beever RE, Beffa R, Benoit I, Bouzid O, Brault B, Chen Z, Choquer M, Collémare J, Cotton P, Danchin EG, Da Silva C, Gautier A, Giraud C, Giraud T, Gonzalez C, Grossetete S, Güldener U, Henrissat B, Howlett BJ, Kodira C, Kretschmer M, Lappartient A, Leroch M, Levis C, Mauceli E, Neuvéglise C, Oeser B, Pearson M, Poulain J, Poussereau N, Quesneville H, Rascle C, Schumacher J, Ségurens B, Sexton A, Silva E, Sirven C, Soanes DM, Talbot NJ, Templeton M, Yandava C, Yarden O, Zeng Q, Rollins JA, Lebrun MH, Dickman M
Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea.
PLoS Genet. 2011 Aug;7(8):e1002230. doi: 10.1371/journal.pgen.1002230
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
Amselem J, Cuomo CA, van Kan JA, Viaud M, Benito EP, Couloux A, Coutinho PM, de Vries RP, Dyer PS, Fillinger S, Fournier E, Gout L, Hahn M, Kohn L, Lapalu N, Plummer KM, Pradier JM, Quévillon E, Sharon A, Simon A, ten Have A, Tudzynski B, Tudzynski P, Wincker P, Andrew M, Anthouard V, Beever RE, Beffa R, Benoit I, Bouzid O, Brault B, Chen Z, Choquer M, Collémare J, Cotton P, Danchin EG, Da Silva C, Gautier A, Giraud C, Giraud T, Gonzalez C, Grossetete S, Güldener U, Henrissat B, Howlett BJ, Kodira C, Kretschmer M, Lappartient A, Leroch M, Levis C, Mauceli E, Neuvéglise C, Oeser B, Pearson M, Poulain J, Poussereau N, Quesneville H, Rascle C, Schumacher J, Ségurens B, Sexton A, Silva E, Sirven C, Soanes DM, Talbot NJ, Templeton M, Yandava C, Yarden O, Zeng Q, Rollins JA, Lebrun MH, Dickman M
Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea.
PLoS Genet. 2011 Aug;7(8):e1002230. doi: 10.1371/journal.pgen.1002230
Funding
This project was not sequenced at the JGI.
