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Volumn 6, Issue , 2016, Pages

High frequency of +1 programmed ribosomal frameshifting in Euplotes octocarinatus

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN KINASE; STOP CODON; TRANSCRIPTOME; TRANSFER RNA;

EID: 84959036890     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep21139     Document Type: Article
Times cited : (47)

References (81)
  • 1
    • 0344436041 scopus 로고    scopus 로고
    • Isolation of micronuclei from Euplotes octocarinatus and identification of an internal eliminated sequence in the micronuclear gene encoding ?-tubulin 2
    • Tan, M., Brünen-Nieweler, C., Heckmann, K. Isolation of micronuclei from Euplotes octocarinatus and identification of an internal eliminated sequence in the micronuclear gene encoding ?-tubulin 2. European Journal of Protistology 35, 208-216 (1999).
    • (1999) European Journal of Protistology , vol.35 , pp. 208-216
    • Tan, M.1
  • 3
    • 0028300548 scopus 로고
    • Characterization of transcription initiation, translation initiation, and poly(A) addition sites in the gene-sized macronuclear DNA molecules of Euplotes
    • Ghosh, S., Jaraczewski, J. W., Klobutcher, L. A., Jahn, C. L. Characterization of transcription initiation, translation initiation, and poly(A) addition sites in the gene-sized macronuclear DNA molecules of Euplotes. Nucleic Acids Research 22, 214-221 (1994).
    • (1994) Nucleic Acids Research , vol.22 , pp. 214-221
    • Ghosh, S.1    Jaraczewski, J.W.2    Klobutcher, L.A.3    Jahn, C.L.4
  • 4
    • 0025760725 scopus 로고
    • UGA is translated as Cysteine in pheromone-3 of Euplotes octocarinatus
    • Meyer, F. et al. UGA is translated as Cysteine in pheromone-3 of Euplotes octocarinatus. Proc Natl Acad Sci. USA 88, 3758-3761 (1991).
    • (1991) Proc Natl Acad Sci. USA , vol.88 , pp. 3758-3761
    • Meyer, F.1
  • 5
    • 58149389394 scopus 로고    scopus 로고
    • Genetic code supports targeted insertion of two amino acids by one codon
    • Turanov, A. A. et al. Genetic code supports targeted insertion of two amino acids by one codon. Science 323, 259-261 (2009).
    • (2009) Science , vol.323 , pp. 259-261
    • Turanov, A.A.1
  • 6
    • 29144440929 scopus 로고    scopus 로고
    • Sequencing of random Euplotes crassus macronuclear genes supports a high frequency of + 1 translational frameshifting
    • Klobutcher, L. A. Sequencing of random Euplotes crassus macronuclear genes supports a high frequency of + 1 translational frameshifting. Eukaryotic Cell 4, 2098-2105 (2005).
    • (2005) Eukaryotic Cell , vol.4 , pp. 2098-2105
    • Klobutcher, L.A.1
  • 7
    • 84927912034 scopus 로고    scopus 로고
    • Changed in translation: mRNA recoding by ? 1 programmed ribosomal frameshifting
    • Caliskan, N., Peske, F., Rodnina, M. V. Changed in translation: mRNA recoding by ? 1 programmed ribosomal frameshifting. Trends in Biochemical Sciences 40, 265-274 (2015).
    • (2015) Trends in Biochemical Sciences , vol.40 , pp. 265-274
    • Caliskan, N.1    Peske, F.2    Rodnina, M.V.3
  • 8
    • 0842267214 scopus 로고    scopus 로고
    • Reprogrammed genetic decoding in cellular gene expression
    • Namy, O., Rousset, J.-P., Napthine, S., Brierley, I. Reprogrammed genetic decoding in cellular gene expression. Mol Cell 13, 157-168 (2004).
    • (2004) Mol Cell , vol.13 , pp. 157-168
    • Namy, O.1    Rousset, J.-P.2    Napthine, S.3    Brierley, I.4
  • 10
    • 0037139583 scopus 로고    scopus 로고
    • Recoding: Translational bifurcations in gene expression
    • Baranov, P. V., Gesteland, R. F., Atkins, J. F. Recoding: translational bifurcations in gene expression. Gene 286, 187-201 (2002).
    • (2002) Gene , vol.286 , pp. 187-201
    • Baranov, P.V.1    Gesteland, R.F.2    Atkins, J.F.3
  • 11
    • 33846701422 scopus 로고    scopus 로고
    • Identification of functional, endogenous programmed ? 1 ribosomal frameshift signals in the genome of Saccharomyces cerevisiae
    • Jacobs, J. L., Belew, A. T., Rakauskaite, R., Dinman, J. D. Identification of functional, endogenous programmed ? 1 ribosomal frameshift signals in the genome of Saccharomyces cerevisiae. Nucleic Acids Research 35, 165-174 (2007).
    • (2007) Nucleic Acids Research , vol.35 , pp. 165-174
    • Jacobs, J.L.1    Belew, A.T.2    Rakauskaite, R.3    Dinman, J.D.4
  • 12
    • 0022547355 scopus 로고
    • Expression of peptide chain release factor 2 requires high-efficiency frameshift
    • Craigen, W. J., Caskey, C. T. Expression of peptide chain release factor 2 requires high-efficiency frameshift. Nature 322, 273-275 (1986).
    • (1986) Nature , vol.322 , pp. 273-275
    • Craigen, W.J.1    Caskey, C.T.2
  • 13
    • 33749831201 scopus 로고    scopus 로고
    • ARFA: A program for annotating bacterial release factor genes, including prediction of programmed ribosomal frameshifting
    • Bekaert, M., Atkins, J. F., Baranov, P. V. ARFA: a program for annotating bacterial release factor genes, including prediction of programmed ribosomal frameshifting. Bioinformatics 22, 2463-2465 (2006).
    • (2006) Bioinformatics , vol.22 , pp. 2463-2465
    • Bekaert, M.1    Atkins, J.F.2    Baranov, P.V.3
  • 14
    • 34247876224 scopus 로고    scopus 로고
    • Ribosomal frameshifting in decoding antizyme mRNAs from yeast and protists to humans: Close to 300 cases reveal remarkable diversity despite underlying conservation
    • Ivanov, I. P., Atkins, J. F. Ribosomal frameshifting in decoding antizyme mRNAs from yeast and protists to humans: close to 300 cases reveal remarkable diversity despite underlying conservation. Nucleic Acids Research 35, 1842-1858 (2007).
    • (2007) Nucleic Acids Research , vol.35 , pp. 1842-1858
    • Ivanov, I.P.1    Atkins, J.F.2
  • 15
    • 80053133170 scopus 로고    scopus 로고
    • Polyamine sensing by nascent ornithine decarboxylase antizyme stimulates decoding of its mRNA
    • Kurian, L., Palanimurugan, R., Gödderz, D., Dohmen, R. J. Polyamine sensing by nascent ornithine decarboxylase antizyme stimulates decoding of its mRNA. Nature 477, 490-U147 (2011).
    • (2011) Nature , vol.477 , pp. 490-547
    • Kurian, L.1    Palanimurugan, R.2    Gödderz, D.3    Dohmen, R.J.4
  • 16
    • 0027384191 scopus 로고
    • Competition between frameshifting, termination and suppression at the frameshift site in the Escherichia coli release factor-2 mRNA
    • Adamski, F. M., Donly, B. C., Tate, W. P. Competition between frameshifting, termination and suppression at the frameshift site in the Escherichia coli release factor-2 mRNA. Nucleic Acids Research 21, 5074-5078 (1993).
    • (1993) Nucleic Acids Research , vol.21 , pp. 5074-5078
    • Adamski, F.M.1    Donly, B.C.2    Tate, W.P.3
  • 17
    • 84867620850 scopus 로고    scopus 로고
    • Mechanisms and implications of programmed translational frameshifting Interdisciplinary Reviews
    • Wiley
    • Dinman, J. D. Mechanisms and implications of programmed translational frameshifting. Wiley interdisciplinary reviews. RNA 3, 661-673 (2012).
    • (2012) RNA , vol.3 , pp. 661-673
    • Dinman, J.D.1
  • 18
    • 23444435083 scopus 로고
    • Polyamines regulate the expression of ornithine decarboxylase antizyme in vitro by inducing ribosomal frameshifting
    • Rom, E., Kahana, C. Polyamines regulate the expression of ornithine decarboxylase antizyme in vitro by inducing ribosomal frameshifting. Proc Natl Acad Sci. USA 91, 3959-3963 (1994).
    • (1994) Proc Natl Acad Sci. USA , vol.91 , pp. 3959-3963
    • Rom, E.1    Kahana, C.2
  • 19
    • 0037805757 scopus 로고    scopus 로고
    • Selection on the genes of Euplotes crassus Tec1 and Tec2 transposons: Evolutionary appearance of a programmed frameshift in a Tec2 gene encoding a tyrosine family site-specific recombinase
    • Doak, T. G., Witherspoon, D. J., Jahn, C. L., Herrick, G. Selection on the genes of Euplotes crassus Tec1 and Tec2 transposons: Evolutionary appearance of a programmed frameshift in a Tec2 gene encoding a tyrosine family site-specific recombinase. Eukaryotic Cell 2, 95-102 (2003).
    • (2003) Eukaryotic Cell , vol.2 , pp. 95-102
    • Doak, T.G.1    Witherspoon, D.J.2    Jahn, C.L.3    Herrick, G.4
  • 20
    • 0027438329 scopus 로고
    • Structures of the Euplotes crassus Tec1 and Tec2 elements-Identification of putative transposase coding regions
    • Jahn, C. L., Doktor, S. Z., Frels, J. S., Jaraczewski, J. W., Krikau, M. F. Structures of the Euplotes crassus Tec1 and Tec2 elements-Identification of putative transposase coding regions. Gene 133, 71-78 (1993).
    • (1993) Gene , vol.133 , pp. 71-78
    • Jahn, C.L.1    Doktor, S.Z.2    Frels, J.S.3    Jaraczewski, J.W.4    Krikau, M.F.5
  • 21
    • 0035126718 scopus 로고    scopus 로고
    • Analysis of micronuclear, macronuclear and cDNA sequences encoding the regulatory subunit of cAMP-dependent protein kinase of Euplotes octocarinatus: Evidence for a ribosomal frameshift
    • Tan, M., Heckmann, K., Brünen-Nieweler, C. Analysis of micronuclear, macronuclear and cDNA sequences encoding the regulatory subunit of cAMP-dependent protein kinase of Euplotes octocarinatus: Evidence for a ribosomal frameshift. Journal of Eukaryotic Microbiology 48, 80-87 (2001).
    • (2001) Journal of Eukaryotic Microbiology , vol.48 , pp. 80-87
    • Tan, M.1    Heckmann, K.2    Brünen-Nieweler, C.3
  • 22
    • 0034816549 scopus 로고    scopus 로고
    • Programmed translational frameshifting is likely required for expressions of genes encoding putative nuclear protein kinases of the ciliate Euplotes octocarinatus
    • Tan, M., Liang, A., Heckmann, K., Brünen Nieweler, C. Programmed translational frameshifting is likely required for expressions of genes encoding putative nuclear protein kinases of the ciliate Euplotes octocarinatus. Journal of Eukaryotic Microbiology 48, 575-582 (2001).
    • (2001) Journal of Eukaryotic Microbiology , vol.48 , pp. 575-582
    • Tan, M.1    Liang, A.2    Heckmann, K.3    Brünen Nieweler, C.4
  • 23
    • 0034669177 scopus 로고    scopus 로고
    • Euplotes telomerase contains an La motif protein produced by apparent translational frameshifting
    • Aigner, S. et al. Euplotes telomerase contains an La motif protein produced by apparent translational frameshifting. Embo J 19, 6230-6239 (2000).
    • (2000) Embo J , vol.19 , pp. 6230-6239
    • Aigner, S.1
  • 24
    • 77249086276 scopus 로고    scopus 로고
    • A novel protein kinase from the ciliate Euplotes raikovi with close structural identity to the mammalian intestinal and male-germ cell kinases: Characterization and functional implications in the autocrine pheromone signaling loop
    • Vallesi, A., Di Pretoro, B., Ballarini, P., Apone, F., Luporini, P. A novel protein kinase from the ciliate Euplotes raikovi with close structural identity to the mammalian intestinal and male-germ cell kinases: Characterization and functional implications in the autocrine pheromone signaling loop. Protist 161, 250-263 (2010).
    • (2010) Protist , vol.161 , pp. 250-263
    • Vallesi, A.1    Di Pretoro, B.2    Ballarini, P.3    Apone, F.4    Luporini, P.5
  • 25
    • 84876009311 scopus 로고    scopus 로고
    • Characterization and expression of the gene encoding En-MAPK1, an intestinal cell kinase (ICK)-like kinase activated by the autocrine pheromone-signaling loop in the polar ciliate, Euplotes nobilii
    • Candelori, A., Luporini, P., Alimenti, C., Vallesi, A. Characterization and expression of the gene encoding En-MAPK1, an intestinal cell kinase (ICK)-like kinase activated by the autocrine pheromone-signaling loop in the polar ciliate, Euplotes nobilii. International Journal of Molecular Sciences 14, 7457-7467 (2013).
    • (2013) International Journal of Molecular Sciences , vol.14 , pp. 7457-7467
    • Candelori, A.1    Luporini, P.2    Alimenti, C.3    Vallesi, A.4
  • 26
    • 0037806033 scopus 로고    scopus 로고
    • Developmentally programmed gene elimination in Euplotes crassus facilitates a switch in the telomerase catalytic subunit
    • Karamysheva, Z. et al. Developmentally programmed gene elimination in Euplotes crassus facilitates a switch in the telomerase catalytic subunit. Cell 113, 565-576 (2003).
    • (2003) Cell , vol.113 , pp. 565-576
    • Karamysheva, Z.1
  • 27
    • 2942695707 scopus 로고    scopus 로고
    • Evolution of programmed ribosomal frameshifting in the TERT genes of Euplotes
    • Möllenbeck, M., Gavin, M. C., Klobutcher, L. A. Evolution of programmed ribosomal frameshifting in the TERT genes of Euplotes. Journal of Molecular Evolution 58, 701-711 (2004).
    • (2004) Journal of Molecular Evolution , vol.58 , pp. 701-711
    • Möllenbeck, M.1    Gavin, M.C.2    Klobutcher, L.A.3
  • 28
    • 0037106337 scopus 로고    scopus 로고
    • Oligomerization of the telomerase reverse transcriptase from Euplotes crassus
    • Wang, L., Dean, S. R., Shippen, D. E. Oligomerization of the telomerase reverse transcriptase from Euplotes crassus. Nucleic Acids Research 30, 4032-4039 (2002).
    • (2002) Nucleic Acids Research , vol.30 , pp. 4032-4039
    • Wang, L.1    Dean, S.R.2    Shippen, D.E.3
  • 29
    • 80052960863 scopus 로고    scopus 로고
    • Next-generation transcriptome assembly
    • Martin, J. A., Wang, Z. Next-generation transcriptome assembly. Nature Reviews Genetics 12, 671-682 (2011).
    • (2011) Nature Reviews Genetics , vol.12 , pp. 671-682
    • Martin, J.A.1    Wang, Z.2
  • 30
    • 84873111080 scopus 로고    scopus 로고
    • The Oxytricha trifallax macronuclear genome: A complex eukaryotic genome with 16,000 tiny chromosomes
    • Swart, E. C. et al. The Oxytricha trifallax macronuclear genome: a complex eukaryotic genome with 16,000 tiny chromosomes. PLoS Biology 11, e1001473 (2013).
    • (2013) PLoS Biology , vol.11 , pp. e1001473
    • Swart, E.C.1
  • 31
    • 84926132930 scopus 로고    scopus 로고
    • The draft assembly of the radically organized Stylonychia lemnae macronuclear genome
    • Aeschlimann, S. H. et al. The draft assembly of the radically organized Stylonychia lemnae macronuclear genome. Genome Biology and Evolution 6, 1707-1723 (2014).
    • (2014) Genome Biology and Evolution , vol.6 , pp. 1707-1723
    • Aeschlimann, S.H.1
  • 32
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splice junctions with RNA-Seq
    • Trapnell, C., Pachter, L., Salzberg, S. L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 33
    • 77952123055 scopus 로고    scopus 로고
    • Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
    • Trapnell, C. et al. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature Biotechnology 28, 511-515 (2010).
    • (2010) Nature Biotechnology , vol.28 , pp. 511-515
    • Trapnell, C.1
  • 34
    • 84877610803 scopus 로고    scopus 로고
    • GeneTack database: Genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences
    • Antonov, I., Baranov, P., Borodovsky, M. GeneTack database: genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences. Nucleic Acids Research 41, D152-156 (2013).
    • (2013) Nucleic Acids Research 41, D152-156
    • Antonov, I.1    Baranov, P.2    Borodovsky, M.3
  • 35
    • 0032919364 scopus 로고    scopus 로고
    • KEGG: Kyoto Encyclopedia of Genes and Genomes
    • Ogata, H. et al. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Research 27, 29-34 (1999).
    • (1999) Nucleic Acids Research , vol.27 , pp. 29-34
    • Ogata, H.1
  • 36
    • 2142738304 scopus 로고    scopus 로고
    • WebLogo: A Sequence Logo Generator
    • John-Marc Chandonia & Brenner, a. S. E.
    • Gavin E. Crooks, Gary Hon, John-Marc Chandonia & Brenner, a. S. E. WebLogo: A sequence logo generator. Genome Research 14, 1188-1190 (2004).
    • (2004) Genome Research , vol.14 , pp. 1188-1190
    • Crooks, G.E.1    Hon, G.2
  • 37
    • 0037074005 scopus 로고    scopus 로고
    • Shifty ciliates: Frequent programmed translatinal frameshifting in Euplotids
    • Klobutcher, L. A., Farabaugh, P. J. Shifty ciliates: frequent programmed translatinal frameshifting in Euplotids. Cell 111, 763-766 (2002).
    • (2002) Cell , vol.111 , pp. 763-766
    • Klobutcher, L.A.1    Farabaugh, P.J.2
  • 38
    • 65249136560 scopus 로고    scopus 로고
    • Connection between stop codon reassignment and frequent use of shifty stop frameshifting
    • Vallabhaneni, H., Fan-Minogue, H., Bedwell, D. M., Farabaugh, P. J. Connection between stop codon reassignment and frequent use of shifty stop frameshifting. RNA 15, 889-897 (2009).
    • (2009) RNA , vol.15 , pp. 889-897
    • Vallabhaneni, H.1    Fan-Minogue, H.2    Bedwell, D.M.3    Farabaugh, P.J.4
  • 39
    • 0036792830 scopus 로고    scopus 로고
    • TRNomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodonsparing strategies and domain-specific features
    • Marck, C., Grosjean, H. tRNomics: analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodonsparing strategies and domain-specific features. RNA 8, 1189-1232 (2002).
    • (2002) RNA , vol.8 , pp. 1189-1232
    • Marck, C.1    Grosjean, H.2
  • 40
    • 0028214356 scopus 로고
    • Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions
    • Pavesi, A., Conterio, F., Bolchi, A., Dieci, G., Ottonello, S. Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions. Nucleic Acids Research 22, 1247-1256 (1994).
    • (1994) Nucleic Acids Research , vol.22 , pp. 1247-1256
    • Pavesi, A.1    Conterio, F.2    Bolchi, A.3    Dieci, G.4    Ottonello, S.5
  • 41
    • 0021647586 scopus 로고
    • The sup8 tRNALeu gene of Schizosaccharomyces pombe has an unusual intervening sequence and reduced pairing in the anticodon stem
    • Sumner-Smith, M. et al. The sup8 tRNALeu gene of Schizosaccharomyces pombe has an unusual intervening sequence and reduced pairing in the anticodon stem. Mol Gen Genet 197, 447-452 (1984).
    • (1984) Mol Gen Genet , vol.197 , pp. 447-452
    • Sumner-Smith, M.1
  • 42
    • 0025034751 scopus 로고
    • Genes for the plastid elongation factor Tu and ribosomal protein S7 and six tRNA genes on the 73 kb DNA from Astasia longa that resembles the chloroplast DNA of Euglena
    • Siemeister, G., Buchholz, C., Hachtel, W. Genes for the plastid elongation factor Tu and ribosomal protein S7 and six tRNA genes on the 73 kb DNA from Astasia longa that resembles the chloroplast DNA of Euglena. Mol Gen Genet 220, 425-432 (1990).
    • (1990) Mol Gen Genet , vol.220 , pp. 425-432
    • Siemeister, G.1    Buchholz, C.2    Hachtel, W.3
  • 43
    • 0347783961 scopus 로고
    • Frameshift suppression: A nucleotide addition in the anticodon of a glycine transfer RNA
    • Riddle, D. L., Carbon, J. Frameshift suppression: a nucleotide addition in the anticodon of a glycine transfer RNA. Nature: New Biology 242, 230-234 (1973).
    • (1973) Nature: New Biology , vol.242 , pp. 230-234
    • Riddle, D.L.1    Carbon, J.2
  • 44
    • 0035970290 scopus 로고    scopus 로고
    • Expanding the genetic code: Selection of efficient suppressors of four-base codons and identification of "shifty" four-base codons with a library approach in Escherichia coli
    • Magliery, T. J., Anderson, J. C., Schultz, P. G. Expanding the genetic code: selection of efficient suppressors of four-base codons and identification of "shifty" four-base codons with a library approach in Escherichia coli. J Mol Biol 307, 755-769 (2001).
    • (2001) J Mol Biol , vol.307 , pp. 755-769
    • Magliery, T.J.1    Anderson, J.C.2    Schultz, P.G.3
  • 45
    • 0026681537 scopus 로고
    • Insertion (sufB) in the anticodon loop or base substitution (sufC) in the anticodon stem of tRNA(Pro)2 from Salmonella typhimurium induces suppression of frameshift mutations
    • Sroga, G. E., Nemoto, F., Kuchino, Y., Bjork, G. R. Insertion (sufB) in the anticodon loop or base substitution (sufC) in the anticodon stem of tRNA(Pro)2 from Salmonella typhimurium induces suppression of frameshift mutations. Nucleic Acids Research 20, 3463-3469 (1992).
    • (1992) Nucleic Acids Research , vol.20 , pp. 3463-3469
    • Sroga, G.E.1    Nemoto, F.2    Kuchino, Y.3    Bjork, G.R.4
  • 46
    • 0015515154 scopus 로고
    • Externally suppressible + 1 "glycine" frameshift: Possible quadruplet isomers for glycine and proline
    • Yourno, J. Externally suppressible + 1 "glycine" frameshift: possible quadruplet isomers for glycine and proline. Nature: New Biology 239, 219-221 (1972).
    • (1972) Nature: New Biology , vol.239 , pp. 219-221
    • Yourno, J.1
  • 47
    • 0019934548 scopus 로고
    • Nucleotide sequence of the SUF2 frameshift suppressor gene of Saccharomyces cerevisiae
    • Cummins, C. M., Donahue, T. F., Culbertson, M. R. Nucleotide sequence of the SUF2 frameshift suppressor gene of Saccharomyces cerevisiae. Proc Natl Acad Sci. USA 79, 3565-3569 (1982).
    • (1982) Proc Natl Acad Sci. USA , vol.79 , pp. 3565-3569
    • Cummins, C.M.1    Donahue, T.F.2    Culbertson, M.R.3
  • 48
    • 0021740710 scopus 로고
    • Codon recognition during frameshift suppression in Saccharomyces cerevisiae
    • Gaber, R. F., Culbertson, M. R. Codon recognition during frameshift suppression in Saccharomyces cerevisiae. Molecular and Cellular Biology 4, 2052-2061 (1984).
    • (1984) Molecular and Cellular Biology , vol.4 , pp. 2052-2061
    • Gaber, R.F.1    Culbertson, M.R.2
  • 49
    • 84907227935 scopus 로고    scopus 로고
    • Structural insights into + 1 frameshifting promoted by expanded or modification-deficient anticodon stem loops
    • Maehigashi, T., Dunkle, J. A., Miles, S. J., Dunham, C. M. Structural insights into + 1 frameshifting promoted by expanded or modification-deficient anticodon stem loops. Proc Natl Acad Sci. USA 111, 12740-12745 (2014).
    • (2014) Proc Natl Acad Sci. USA , vol.111 , pp. 12740-12745
    • Maehigashi, T.1    Dunkle, J.A.2    Miles, S.J.3    Dunham, C.M.4
  • 50
    • 0027071928 scopus 로고
    • Seven, eight and nine-membered anticodon loop mutants of tRNA (2Arg) which cause + 1 frameshifting Tolerance of DHU Arm and Other Secondary Mutations
    • Tuohy, T. M., Thompson, S., Gesteland, R. F., Atkins, J. F. Seven, eight and nine-membered anticodon loop mutants of tRNA (2Arg) which cause + 1 frameshifting. Tolerance of DHU arm and other secondary mutations. J Mol Biol 228, 1042-1054 (1992).
    • (1992) J Mol Biol , vol.228 , pp. 1042-1054
    • Tuohy, T.M.1    Thompson, S.2    Gesteland, R.F.3    Atkins, J.F.4
  • 51
    • 84911474578 scopus 로고    scopus 로고
    • Structural insights into translational recoding by frameshift suppressor tRNASufJ
    • Fagan, C. E., Maehigashi, T., Dunkle, J. A., Miles, S. J., Dunham, C. M. Structural insights into translational recoding by frameshift suppressor tRNASufJ. RNA 20, 1944-1954 (2014).
    • (2014) RNA , vol.20 , pp. 1944-1954
    • Fagan, C.E.1    Maehigashi, T.2    Dunkle, J.A.3    Miles, S.J.4    Dunham, C.M.5
  • 52
    • 85013317579 scopus 로고
    • Identification of cell surface polypeptides of the hypotrich ciliate Euplotes octocarinatus
    • Freiburg, M. Identification of cell surface polypeptides of the hypotrich ciliate Euplotes octocarinatus. Arch.Protistenkd 143, 311-318 (1992).
    • (1992) Arch.Protistenkd , vol.143 , pp. 311-318
    • Freiburg, M.1
  • 53
    • 3042631307 scopus 로고    scopus 로고
    • Genome sequence assembly using trace signals and additional sequence information
    • Chevreux, B., Wetter, T., Suhai, S. Genome sequence assembly using trace signals and additional sequence information. German Conference on Bioinformatics, 45-56 (1999).
    • (1999) German Conference on Bioinformatics , pp. 45-56
    • Chevreux, B.1    Wetter, T.2    Suhai, S.3
  • 55
    • 84860771820 scopus 로고    scopus 로고
    • SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing
    • Bankevich, A. et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of Computational Biology 19, 455-477 (2012).
    • (2012) Journal of Computational Biology , vol.19 , pp. 455-477
    • Bankevich, A.1
  • 57
    • 70749160527 scopus 로고    scopus 로고
    • The mitochondrial genomes of the ciliates Euplotes minuta and Euplotes crassus
    • De Graaf, R. M. et al. The mitochondrial genomes of the ciliates Euplotes minuta and Euplotes crassus. BMC Genomics 10, 514 (2009).
    • (2009) BMC Genomics , vol.10 , pp. 514
    • De Graaf, R.M.1
  • 58
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H., Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 59
    • 0030854739 scopus 로고    scopus 로고
    • TRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • Lowe, T. M., Eddy, S. R. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Research 25, 955-964 (1997).
    • (1997) Nucleic Acids Research , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 60
    • 0042902833 scopus 로고    scopus 로고
    • The COG database: An updated version includes eukaryotes
    • Tatusov, R. L. et al. The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4, 41 (2003).
    • (2003) BMC Bioinformatics , vol.4 , pp. 41
    • Tatusov, R.L.1
  • 61
    • 77952988108 scopus 로고    scopus 로고
    • A new generation of homology search tools based on probabilistic inference Genome Informatics
    • Eddy, S. R. A new generation of homology search tools based on probabilistic inference. Genome informatics. International Conference on Genome Informatics 23, 205-211 (2009).
    • (2009) International Conference on Genome Informatics , vol.23 , pp. 205-211
    • Eddy, S.R.1
  • 62
    • 33747830848 scopus 로고    scopus 로고
    • AUGUSTUS: Ab initio prediction of alternative transcripts
    • Stanke, M. et al. AUGUSTUS: ab initio prediction of alternative transcripts. Nucleic Acids Research 34, W435-439 (2006).
    • (2006) Nucleic Acids Research , vol.34 , pp. W435-439
    • Stanke, M.1
  • 63
    • 0141905891 scopus 로고    scopus 로고
    • Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies
    • Haas, B. J. et al. Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies. Nucleic Acids Research 31, 5654-5666 (2003).
    • (2003) Nucleic Acids Research , vol.31 , pp. 5654-5666
    • Haas, B.J.1
  • 64
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • Rice, P., Longden, I., Bleasby, A. EMBOSS: the European molecular biology open software suite. Trends in Genetics 16, 276-277 (2000).
    • (2000) Trends in Genetics , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 65
    • 38549146894 scopus 로고    scopus 로고
    • The Pfam protein families database
    • Finn, R. D. et al. The Pfam protein families database. Nucleic Acids Research 36, D281-D288 (2008).
    • (2008) Nucleic Acids Research , vol.36 , pp. D281-D28288
    • Finn, R.D.1
  • 66
    • 84946074739 scopus 로고    scopus 로고
    • The InterPro protein families database: The classification resource after 15 years
    • Mitchell, A. et al. The InterPro protein families database: the classification resource after 15 years. Nucleic Acids Research 43, D213-221 (2015).
    • (2015) Nucleic Acids Research , vol.43 , pp. D213-221
    • Mitchell, A.1
  • 67
    • 24044440971 scopus 로고    scopus 로고
    • BiNGO: A Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks
    • Maere, S., Heymans, K., Kuiper, M. BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21, 3448-3449 (2005).
    • (2005) Bioinformatics , vol.21 , pp. 3448-3449
    • Maere, S.1    Heymans, K.2    Kuiper, M.3
  • 68
    • 0242490780 scopus 로고    scopus 로고
    • Cytoscape: A software environment for integrated models of biomolecular interaction networks
    • Shannon, P. et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Research 13, 2498-2504 (2003).
    • (2003) Genome Research , vol.13 , pp. 2498-2504
    • Shannon, P.1
  • 69
    • 33747868144 scopus 로고    scopus 로고
    • KOBAS server: A web-based platform for automated annotation and pathway identification
    • Wu, J., Mao, X., Cai, T., Luo, J., Wei, L. KOBAS server: a web-based platform for automated annotation and pathway identification. Nucleic Acids Research 34, W720-724 (2006).
    • (2006) Nucleic Acids Research , vol.34 , pp. W720-724
    • Wu, J.1    Mao, X.2    Cai, T.3    Luo, J.4    Wei, L.5
  • 70
    • 0037017382 scopus 로고    scopus 로고
    • 1 Frameshifting as a novel mechanism to generate a cryptic cytotoxic T lymphocyte epitope derived from human interleukin 10
    • Saulquin, X. et al. + 1 Frameshifting as a novel mechanism to generate a cryptic cytotoxic T lymphocyte epitope derived from human interleukin 10. The Journal of Experimental Medicine 195, 353-358 (2002).
    • (2002) The Journal of Experimental Medicine , vol.195 , pp. 353-358
    • Saulquin, X.1
  • 71
    • 0032168048 scopus 로고    scopus 로고
    • A second mammalian antizyme: Conservation of programmed ribosomal frameshifting
    • Ivanov, I. P., Gesteland, R. F., Atkins, J. F. A second mammalian antizyme: Conservation of programmed ribosomal frameshifting. Genomics 52, 119-129 (1998).
    • (1998) Genomics , vol.52 , pp. 119-129
    • Ivanov, I.P.1    Gesteland, R.F.2    Atkins, J.F.3
  • 73
    • 0028831608 scopus 로고
    • Autoregulatory frameshifting in decoding mammalian ornithine decarboxylase antizyme
    • Matsufuji, S. et al. Autoregulatory frameshifting in decoding mammalian ornithine decarboxylase antizyme. Cell 80, 51-60 (1995).
    • (1995) Cell , vol.80 , pp. 51-60
    • Matsufuji, S.1
  • 74
    • 0031450803 scopus 로고    scopus 로고
    • Polyamines regulate both transcription and translation of the gene encoding ornithine decarboxylase antizyme in mouse
    • Nilsson, J., Koskiniemi, S., Persson, K., Grahn, B., Holm, I. Polyamines regulate both transcription and translation of the gene encoding ornithine decarboxylase antizyme in mouse. European Journal of Biochemistry 250, 223-231 (1997).
    • (1997) European Journal of Biochemistry , vol.250 , pp. 223-231
    • Nilsson, J.1    Koskiniemi, S.2    Persson, K.3    Grahn, B.4    Holm, I.5
  • 75
    • 0034678904 scopus 로고    scopus 로고
    • Conservation of polyamine regulation by translational frameshifting from yeast to mammals
    • Ivanov, I. P., Matsufuji, S., Murakami, Y., Gesteland, R. F., Atkins, J. F. Conservation of polyamine regulation by translational frameshifting from yeast to mammals. Embo J 19, 1907-1917 (2000).
    • (2000) Embo J , vol.19 , pp. 1907-1917
    • Ivanov, I.P.1    Matsufuji, S.2    Murakami, Y.3    Gesteland, R.F.4    Atkins, J.F.5
  • 76
    • 0033957475 scopus 로고    scopus 로고
    • Two zebrafish (Danio rerio) antizymes with different expression and activities
    • Saito, T. et al. Two zebrafish (Danio rerio) antizymes with different expression and activities. Biochem J 345, 99-106 (2000).
    • (2000) Biochem J , vol.345 , pp. 99-106
    • Saito, T.1
  • 77
    • 0031909867 scopus 로고    scopus 로고
    • The Drosophila gene for antizyme requires ribosomal frameshifting for expression and contains an intronic gene for snRNP Sm D3 on the opposite strand
    • Ivanov, I. P., Simin, K., Letsou, A., Atkins, J. F., Gesteland, R. F. The Drosophila gene for antizyme requires ribosomal frameshifting for expression and contains an intronic gene for snRNP Sm D3 on the opposite strand. Molecular and Cellular Biology 18, 1553-1561 (1998).
    • (1998) Molecular and Cellular Biology , vol.18 , pp. 1553-1561
    • Ivanov, I.P.1    Simin, K.2    Letsou, A.3    Atkins, J.F.4    Gesteland, R.F.5
  • 78
    • 0031474466 scopus 로고    scopus 로고
    • Programmed translational frameshifting in a gene required for yeast telomere replication
    • Morris, D. K., Lundblad, V. Programmed translational frameshifting in a gene required for yeast telomere replication. Curr Biol 7, 969-976 (1997).
    • (1997) Curr Biol , vol.7 , pp. 969-976
    • Morris, D.K.1    Lundblad, V.2
  • 79
    • 15644379785 scopus 로고    scopus 로고
    • Isolation and characterization of a novel actin filament-binding protein from Saccharomyces cerevisiae
    • Asakura, T. et al. Isolation and characterization of a novel actin filament-binding protein from Saccharomyces cerevisiae. Oncogene 16, 121-130 (1998).
    • (1998) Oncogene , vol.16 , pp. 121-130
    • Asakura, T.1
  • 80
    • 0141926716 scopus 로고    scopus 로고
    • Genome and proteome of Listeria monocytogenes phage PSA: An unusual case for programmed+ 1 translational frameshifting in structural protein synthesis
    • Zimmer, M., Sattelberger, E., Inman, R. B., Calendar, R., Loessner, M. J. Genome and proteome of Listeria monocytogenes phage PSA: an unusual case for programmed+ 1 translational frameshifting in structural protein synthesis. Molecular Microbiology 50, 303-317 (2003).
    • (2003) Molecular Microbiology , vol.50 , pp. 303-317
    • Zimmer, M.1    Sattelberger, E.2    Inman, R.B.3    Calendar, R.4    Loessner, M.J.5
  • 81
    • 84877747839 scopus 로고    scopus 로고
    • Ribosomal frameshifting used in influenza A virus expression occurs within the sequence UCC-UUU-CGU and is in the + 1 direction
    • Firth, A. et al. Ribosomal frameshifting used in influenza A virus expression occurs within the sequence UCC-UUU-CGU and is in the + 1 direction. Open Biology 2, 120109 (2012).
    • (2012) Open Biology , vol.2 , pp. 120109
    • Firth, A.1


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