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1.
Fungal Genet Biol ; 46 Suppl 1: S2-13, 2009 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-19146970

RESUMO

The identification and annotation of protein-coding genes is one of the primary goals of whole-genome sequencing projects, and the accuracy of predicting the primary protein products of gene expression is vital to the interpretation of the available data and the design of downstream functional applications. Nevertheless, the comprehensive annotation of eukaryotic genomes remains a considerable challenge. Many genomes submitted to public databases, including those of major model organisms, contain significant numbers of wrong and incomplete gene predictions. We present a community-based reannotation of the Aspergillus nidulans genome with the primary goal of increasing the number and quality of protein functional assignments through the careful review of experts in the field of fungal biology.


Assuntos
Aspergillus nidulans/genética , Proteínas Fúngicas/genética , Genes Fúngicos , Genoma Fúngico , Genômica , Aspergillus nidulans/fisiologia
2.
Nature ; 438(7071): 1105-15, 2005 Dec 22.
Artigo em Inglês | MEDLINE | ID: mdl-16372000

RESUMO

The aspergilli comprise a diverse group of filamentous fungi spanning over 200 million years of evolution. Here we report the genome sequence of the model organism Aspergillus nidulans, and a comparative study with Aspergillus fumigatus, a serious human pathogen, and Aspergillus oryzae, used in the production of sake, miso and soy sauce. Our analysis of genome structure provided a quantitative evaluation of forces driving long-term eukaryotic genome evolution. It also led to an experimentally validated model of mating-type locus evolution, suggesting the potential for sexual reproduction in A. fumigatus and A. oryzae. Our analysis of sequence conservation revealed over 5,000 non-coding regions actively conserved across all three species. Within these regions, we identified potential functional elements including a previously uncharacterized TPP riboswitch and motifs suggesting regulation in filamentous fungi by Puf family genes. We further obtained comparative and experimental evidence indicating widespread translational regulation by upstream open reading frames. These results enhance our understanding of these widely studied fungi as well as provide new insight into eukaryotic genome evolution and gene regulation.


Assuntos
Aspergillus fumigatus/genética , Aspergillus nidulans/genética , Aspergillus oryzae/genética , Genoma Fúngico/genética , Genômica , Aspergillus fumigatus/fisiologia , Aspergillus nidulans/fisiologia , Aspergillus oryzae/fisiologia , Sequência de Bases , Sequência Consenso/genética , Sequência Conservada/genética , Evolução Molecular , Genes Fúngicos Tipo Acasalamento/genética , Humanos , Dados de Sequência Molecular , Fases de Leitura Aberta/genética , Filogenia , Proteoma/genética , Sequências Reguladoras de Ácido Nucleico/genética , Análise de Sequência de DNA , Sintenia/genética
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