Asunto(s)
Hongos/genética , Hongos/patogenicidad , Phytophthora/genética , Phytophthora/patogenicidad , Enfermedades de las Plantas/microbiología , Proteínas Algáceas/genética , Secuencia de Aminoácidos , Análisis por Conglomerados , Codón/genética , ADN de Algas/genética , ADN Complementario/genética , ADN de Hongos/genética , Evolución Molecular , Etiquetas de Secuencia Expresada , Hongos/metabolismo , Biblioteca de Genes , Lisina/biosíntesis , Datos de Secuencia Molecular , Filogenia , Phytophthora/metabolismo , Polisacárido Liasas/genética , Homología de Secuencia de Aminoácido , Especificidad de la Especie , Virulencia/genéticaRESUMEN
We have sequenced and annotated the genome of the filamentous ascomycete Ashbya gossypii. With a size of only 9.2 megabases, encoding 4718 protein-coding genes, it is the smallest genome of a free-living eukaryote yet characterized. More than 90% of A. gossypii genes show both homology and a particular pattern of synteny with Saccharomyces cerevisiae. Analysis of this pattern revealed 300 inversions and translocations that have occurred since divergence of these two species. It also provided compelling evidence that the evolution of S. cerevisiae included a whole genome duplication or fusion of two related species and showed, through inferred ancient gene orders, which of the duplicated genes lost one copy and which retained both copies.
Asunto(s)
Mapeo Cromosómico , Genoma Fúngico , Saccharomyces cerevisiae/genética , Saccharomycetales/genética , Análisis de Secuencia de ADN , Composición de Base , Evolución Biológica , Centrómero/genética , Inversión Cromosómica , Biología Computacional , Proteínas Fúngicas/genética , Duplicación de Gen , Orden Génico , Genes Fúngicos , Datos de Secuencia Molecular , Sistemas de Lectura Abierta , Alineación de Secuencia , Homología de Secuencia de Ácido Nucleico , Sintenía , Translocación GenéticaRESUMEN
BACKGROUND: The recently sequenced genome of the filamentous fungus Ashbya gossypii revealed remarkable similarities to that of the budding yeast Saccharomyces cerevisiae both at the level of homology and synteny (conservation of gene order). Thus, it became possible to reinvestigate the S. cerevisiae genome in the syntenic regions leading to an improved annotation. RESULTS: We have identified 23 novel S. cerevisiae open reading frames (ORFs) as syntenic homologs of A. gossypii genes; for all but one, homologs are present in other eukaryotes including humans. Other comparisons identified 13 overlooked introns and suggested 69 potential sequence corrections resulting in ORF extensions or ORF fusions with improved homology to the syntenic A. gossypii homologs. Of the proposed corrections, 25 were tested and confirmed by resequencing. In addition, homologs of nearly 1,000 S. cerevisiae ORFs, presently annotated as hypothetical, were found in A. gossypii at syntenic positions and can therefore be considered as authentic genes. Finally, we suggest that over 400 S. cerevisiae ORFs that overlap other ORFs in S. cerevisiae and for which no homolog can be detected in A. gossypii should be regarded as spurious. CONCLUSIONS: Although, the S. cerevisiae genome is rightly considered as one of the most accurately sequenced and annotated eukaryotic genomes, we have shown that it still benefits substantially from comparison to the completed sequence and syntenic gene map of A. gossypii, an evolutionarily related fungus. This type of approach will strongly support the annotation of more complex genomes such as the human and murine genomes.
