title: Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789.
abstract: We sequenced the genome of Saccharomyces cerevisiae strain YJM789, which was derived from a yeast isolated from the lung of an AIDS patient with pneumonia. The strain is used for studies of fungal infections and quantitative genetics because of its extensive phenotypic differences to the laboratory reference strain, including growth at high temperature and deadly virulence in mouse models. Here we show that the approximately 12-Mb genome of YJM789 contains approximately 60,000 SNPs and approximately 6,000 indels with respect to the reference S288c genome, leading to protein polymorphisms with a few known cases of phenotypic changes. Several ORFs are found to be unique to YJM789, some of which might have been acquired through horizontal transfer. Localized regions of high polymorphism density are scattered over the genome, in some cases spanning multiple ORFs and in others concentrated within single genes. The sequence of YJM789 contains clues to pathogenicity and spurs the development of more powerful approaches to dissecting the genetic basis of complex hereditary traits.
authors.affiliation: Bioinformatics Center, Key Laboratory of Systems Biology, Shanghai Institutes for Biological Sciences, Graduate School of the Chinese Academy of Sciences, Shanghai 200031, People's Republic of China.
authors.forename: Wu
authors.initials: W
authors.lastname: Wei
authors.forename: John H
authors.initials: JH
authors.lastname: McCusker
authors.forename: Richard W
authors.initials: RW
authors.lastname: Hyman
authors.forename: Ted
authors.initials: T
authors.lastname: Jones
authors.forename: Ye
authors.initials: Y
authors.lastname: Ning
authors.forename: Zhiwei
authors.initials: Z
authors.lastname: Cao
authors.forename: Zhenglong
authors.initials: Z
authors.lastname: Gu
authors.forename: Dan
authors.initials: D
authors.lastname: Bruno
authors.forename: Molly
authors.initials: M
authors.lastname: Miranda
authors.forename: Michelle
authors.initials: M
authors.lastname: Nguyen
authors.forename: Julie
authors.initials: J
authors.lastname: Wilhelmy
authors.forename: Caridad
authors.initials: C
authors.lastname: Komp
authors.forename: Raquel
authors.initials: R
authors.lastname: Tamse
authors.forename: Xiaojing
authors.initials: X
authors.lastname: Wang
authors.forename: Peilin
authors.initials: P
authors.lastname: Jia
authors.forename: Philippe
authors.initials: P
authors.lastname: Luedi
authors.forename: Peter J
authors.initials: PJ
authors.lastname: Oefner
authors.forename: Lior
authors.initials: L
authors.lastname: David
authors.forename: Fred S
authors.initials: FS
authors.lastname: Dietrich
authors.forename: Yixue
authors.initials: Y
authors.lastname: Li
authors.forename: Ronald W
authors.initials: RW
authors.lastname: Davis
authors.forename: Lars M
authors.initials: LM
authors.lastname: Steinmetz
mesh_terms: D001483:Base Sequence; D007446:Chromosome Inversion / Q000235:genetics; D022761:Gene Transfer, Horizontal / Q000235:genetics; D016681:Genome, Fungal / Q000235:genetics*; D008928:Mitochondria / Q000235:genetics; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics; D010641:Phenotype; D010802:Phylogeny; D011110:Polymorphism, Genetic / Q000235:genetics; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D014178:Translocation, Genetic / Q000235:genetics