title: Length and GC content variability of introns among teleostean genomes in the light of the metabolic rate hypothesis.
abstract: A comparative analysis of five teleostean genomes, namely zebrafish, medaka, three-spine stickleback, fugu and pufferfish was performed with the aim to highlight the nature of the forces driving both length and base composition of introns (i.e., bpi and GCi). An inter-genome approach using orthologous intronic sequences was carried out, analyzing independently both variables in pairwise comparisons. An average length shortening of introns was observed at increasing average GCi values. The result was not affected by masking transposable and repetitive elements harbored in the intronic sequences. The routine metabolic rate (mass specific temperature-corrected using the Boltzmann's factor) was measured for each species. A significant correlation held between average differences of metabolic rate, length and GC content, while environmental temperature of fish habitat was not correlated with bpi and GCi. Analyzing the concomitant effect of both variables, i.e., bpi and GCi, at increasing genomic GC content, a decrease of bpi and an increase of GCi was observed for the significant majority of the intronic sequences (from ∼ 40% to ∼ 90%, in each pairwise comparison). The opposite event, concomitant increase of bpi and decrease of GCi, was counter selected (from <1% to ∼ 10%, in each pairwise comparison). The results further support the hypothesis that the metabolic rate plays a key role in shaping genome architecture and evolution of vertebrate genomes.
authors.affiliation: Genome Evolution and Organization - Dept. Animal Physiology and Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy; Campus UAB - CRAG Bellaterra - Cerdanyola del Vallès, Barcelona, Spain.
authors.forename: Ankita
authors.initials: A
authors.lastname: Chaurasia
authors.affiliation: Genome Evolution and Organization - Dept. Animal Physiology and Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy.
authors.forename: Andrea
authors.initials: A
authors.lastname: Tarallo
authors.affiliation: Genome Evolution and Organization - Dept. Animal Physiology and Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy; Molecular Biology Unit, Institut Pasteur de Montevideo, Montevideo, Uruguay.
authors.forename: Luisa
authors.initials: L
authors.lastname: Bernà
authors.affiliation: Faculty of Fisheries, Nagasaki University, Bunkyo, Nagasaki, Japan.
authors.forename: Mitsuharu
authors.initials: M
authors.lastname: Yagi
authors.affiliation: Department of Biological Sciences, University of Naples Federico II, Napoli, Italy.
authors.forename: Claudio
authors.initials: C
authors.lastname: Agnisola
authors.affiliation: Genome Evolution and Organization - Dept. Animal Physiology and Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy.
authors.forename: Giuseppe
authors.initials: G
authors.lastname: D'Onofrio
mesh_terms: D000818:Animals; D001482:Base Composition; D001483:Base Sequence; D004734:Energy Metabolism / Q000235:genetics*; D005399:Fishes / Q000235:genetics* / Q000378:metabolism*; D014644:Genetic Variation; D016678:Genome; D047668:Inteins / Q000235:genetics*; D009990:Oryzias / Q000235:genetics / Q000378:metabolism; D010101:Oxygen Consumption / Q000235:genetics; D023701:Smegmamorpha / Q000235:genetics / Q000378:metabolism; D023741:Takifugu / Q000235:genetics / Q000378:metabolism; D023721:Tetraodontiformes / Q000235:genetics / Q000378:metabolism; D015027:Zebrafish / Q000235:genetics / Q000378:metabolism
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