@article {203,
	title = {Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea.},
	journal = {PLoS genetics},
	volume = {7},
	year = {2011},
	month = {2011 Aug},
	pages = {e1002230},
	abstract = {Sclerotinia sclerotiorum and Botrytis cinerea are closely related necrotrophic plant pathogenic fungi notable for their wide host ranges and environmental persistence. These attributes have made these species models for understanding the complexity of necrotrophic, broad host-range pathogenicity. Despite their similarities, the two species differ in mating behaviour and the ability to produce asexual spores. We have sequenced the genomes of one strain of S. sclerotiorum and two strains of B. cinerea. The comparative analysis of these genomes relative to one another and to other sequenced fungal genomes is provided here. Their 38-39 Mb genomes include 11,860-14,270 predicted genes, which share 83\% amino acid identity on average between the two species. We have mapped the S. sclerotiorum assembly to 16 chromosomes and found large-scale co-linearity with the B. cinerea genomes. Seven percent of the S. sclerotiorum genome comprises transposable elements compared to <1\% of B. cinerea. The arsenal of genes associated with necrotrophic processes is similar between the species, including genes involved in plant cell wall degradation and oxalic acid production. Analysis of secondary metabolism gene clusters revealed an expansion in number and diversity of B. cinerea-specific secondary metabolites relative to S. sclerotiorum. The potential diversity in secondary metabolism might be involved in adaptation to specific ecological niches. Comparative genome analysis revealed the basis of differing sexual mating compatibility systems between S. sclerotiorum and B. cinerea. The organization of the mating-type loci differs, and their structures provide evidence for the evolution of heterothallism from homothallism. These data shed light on the evolutionary and mechanistic bases of the genetically complex traits of necrotrophic pathogenicity and sexual mating. This resource should facilitate the functional studies designed to better understand what makes these fungi such successful and persistent pathogens of agronomic crops.},
	keywords = {Ascomycota, Botrytis, DNA Transposable Elements, Genes, Fungal, Genome, Fungal, Genomics, Phylogeny, Plant Diseases, Synteny},
	issn = {1553-7404},
	doi = {10.1371/journal.pgen.1002230},
	author = {Joelle Amselem and Cuomo, Christina A and van Kan, Jan A L and Viaud, Muriel and Benito, Ernesto P and Couloux, Arnaud and Coutinho, Pedro M and de Vries, Ronald P and Dyer, Paul S and Fillinger, Sabine and Fournier, Elisabeth and Gout, Lilian and Hahn, Matthias and Kohn, Linda and Lapalu, Nicolas and Plummer, Kim M and Pradier, Jean-Marc and Qu{\'e}villon, Emmanuel and Sharon, Amir and Adeline Simon and ten Have, Arjen and Tudzynski, Bettina and Tudzynski, Paul and Wincker, Patrick and Andrew, Marion and Anthouard, V{\'e}ronique and Beever, Ross E and Beffa, Rolland and Benoit, Isabelle and Bouzid, Ourdia and Brault, Baptiste and Chen, Zehua and Choquer, Mathias and Coll{\'e}mare, J{\'e}rome and Cotton, Pascale and Danchin, Etienne G and Da Silva, Corinne and Gautier, Ang{\'e}lique and Giraud, Corinne and Giraud, Tatiana and Gonzalez, Celedonio and Grossetete, Sandrine and G{\"u}ldener, Ulrich and Henrissat, Bernard and Howlett, Barbara J and Kodira, Chinnappa and Kretschmer, Matthias and Lappartient, Anne and Leroch, Michaela and Levis, Caroline and Mauceli, Evan and Neuv{\'e}glise, C{\'e}cile and Oeser, Birgitt and Pearson, Matthew and Poulain, Julie and Poussereau, Nathalie and Hadi Quesneville and Rascle, Christine and Schumacher, Julia and S{\'e}gurens, B{\'e}atrice and Sexton, Adrienne and Silva, Evelyn and Sirven, Catherine and Soanes, Darren M and Talbot, Nicholas J and Templeton, Matt and Yandava, Chandri and Yarden, Oded and Zeng, Qiandong and Rollins, Jeffrey A and Marc-Henri Lebrun and Dickman, Marty}
}
