title: Ciliates use both variant and universal genetic codes: evidence of omnipotent eRF1s in the class Litostomatea.
abstract: Stop codon reassignments have occurred very frequently in ciliates. In some ciliate species, the universal stop codons UAA and UAG are translated into glutamine, while in some other species, the universal stop codon UGA appears to be translated into cysteine or tryptophan. The class Litostomatea has been hypothesized to be the only group of ciliates using the universal genetic code. However, the hypothesis was based on a statistical analysis of quite small sequence dataset which was insufficient to elucidate the codon usage of the class among such highly deviated phylum. In this study, together with the updated database sequence analysis for the class, we approached the problem of stop codon usage by examining the capacity of the translation termination factor eRF1 for recognizing stop codons. Using in vivo assay systems in budding yeast, we estimated the activity of eRF1 from two litostome species Didinium nasutum and Dileptus margaritifer. The results clearly showed that Didinium and Dileptus eRF1s efficiently recognize all three stop codons. This is the first experimental evidence that strongly supports the hypothesis that litostome ciliates use universal genetic code.
authors.affiliation: Department of Chemistry, Faculty of Science, Nara Women's University, Kitauoyanishi-machi, Nara 630-8506, Japan.
authors.forename: Oanh Thi Phuong
authors.initials: OT
authors.lastname: Kim
authors.forename: Aki
authors.initials: A
authors.lastname: Sakurai
authors.forename: Kazuki
authors.initials: K
authors.lastname: Saito
authors.forename: Koichi
authors.initials: K
authors.lastname: Ito
authors.forename: Kenji
authors.initials: K
authors.lastname: Ikehara
authors.forename: Terue
authors.initials: T
authors.lastname: Harumoto
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D016798:Ciliophora / Q000235:genetics*; D018388:Codon, Terminator; D019992:Databases as Topic; D005815:Genetic Code; D005816:Genetic Complementation Test; D008958:Models, Molecular; D008969:Molecular Sequence Data; D010454:Peptide Termination Factors / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000235:genetics; D017386:Sequence Homology, Amino Acid
chemical_list: D018388:Codon, Terminator; D010454:Peptide Termination Factors