title: Base composition and nucleosome density in exonic and intronic regions in genes of the filamentous ascomycetes Aspergillus nidulans and Aspergillus oryzae.
abstract: We sequenced nucleosomal DNA fragments of the filamentous ascomycetes Aspergillus nidulans and Aspergillus oryzae and then mapped those sequences on their genomes. We compared the GC content and nucleosome density in the exonic and intronic regions in the genes of A. nidulans and A. oryzae. Although the GC content and nucleosome density in the exonic regions tended to be higher than those in the intronic regions, the difference in the distribution of the GC content was more notable than that of the nucleosome density. Next, we compared the GC content and nucleosome density in the exonic regions of 9616 orthologous gene pairs. In both Aspergillus species, the GC content did not correlate with the nucleosome density. In addition, the Spearman's rank correlation coefficient (ρ=0.51) between the GC content of the exonic regions of the 9616 orthologous gene pairs was higher than that (ρ=0.31) of the nucleosome densities of A. nidulans and A. oryzae. These results strongly suggest that the GC content in the exons of the orthologous gene pairs has been conserved during evolution but the nucleosome density has varied throughout.
authors.affiliation: Agricultural Bioinformatics Research Unit, Graduate School of Agricultural and Life Sciences, University of Tokyo, Tokyo 113-8657, Japan. hnishida@pu-toyama.ac.jp
authors.forename: Hiromi
authors.initials: H
authors.lastname: Nishida
authors.forename: Takuya
authors.initials: T
authors.lastname: Katayama
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Suzuki
authors.forename: Shinji
authors.initials: S
authors.lastname: Kondo
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Horiuchi
mesh_terms: D001233:Aspergillus nidulans / Q000235:genetics*; D001236:Aspergillus oryzae / Q000235:genetics*; D001482:Base Composition; D001483:Base Sequence; D005091:Exons; D005800:Genes, Fungal / Q000235:genetics; D007438:Introns; D009707:Nucleosomes / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods
chemical_list: D009707:Nucleosomes