메뉴 건너뛰기




Volumn 3, Issue , 2013, Pages

Identification of highly-disrupted tRNA genes in nuclear genome of the red alga, Cyanidioschyzon merolae 10D

Author keywords

[No Author keywords available]

Indexed keywords

TRANSFER RNA;

EID: 84881330761     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep02321     Document Type: Article
Times cited : (14)

References (54)
  • 1
    • 0031901605 scopus 로고    scopus 로고
    • The primitive red algae Cyanidium caldarium and Cyanidioschyzon merolae as model system for investigating the dividing apparatus of mitochondria and plastids
    • Kuroiwa, T. The primitive red algae Cyanidium caldarium and Cyanidioschyzon merolae as model system for investigating the dividing apparatus of mitochondria and plastids. Bioessays 20, 344-354 (1998). (Pubitemid 28205552)
    • (1998) BioEssays , vol.20 , Issue.4 , pp. 344-354
    • Kuroiwa, T.1
  • 3
    • 34548308787 scopus 로고    scopus 로고
    • A 100%-complete sequence reveals unusually simple genomic features in the hot-spring red alga cyanidioschyzon merolae
    • Nozaki, H. et al. A 100%-complete sequence reveals unusually simple genomic features in the hot-spring red alga Cyanidioschyzon merolae. BMC Biol. 5, 28 (2007).
    • (2007) BMC Biol , vol.5 , pp. 28
    • Nozaki, H.1
  • 5
    • 0344874260 scopus 로고    scopus 로고
    • Identification of BHB splicing motifs in intron-containing tRNAs from 18 archaea: Evolutionary implications
    • DOI 10.1261/rna.5132503
    • Marck, C. & Grosjean, H. Identification of BHB splicing motifs in introncontaining tRNAs from 18 archaea: evolutionary implications. RNA 9, 1516-1531 (2003). (Pubitemid 37463477)
    • (2003) RNA , vol.9 , Issue.12 , pp. 1516-1531
    • Marck, C.1    Grosjean, H.2
  • 6
    • 77951529990 scopus 로고    scopus 로고
    • Permuted trna genes in the nuclear and nucleomorph genomes of photosynthetic eukaryotes
    • Maruyama, S., Sugahara, J., Kanai, A. & Nozaki, H. Permuted tRNA genes in the nuclear and nucleomorph genomes of photosynthetic eukaryotes. Mol. Biol. Evol. 27, 1070-1076 (2010).
    • (2010) Mol. Biol. Evol , vol.27 , pp. 1070-1076
    • Maruyama, S.1    Sugahara, J.2    Kanai, A.3    Nozaki, H.4
  • 7
    • 79953861250 scopus 로고    scopus 로고
    • Discovery of permuted and recently split transfer rnas in archaea
    • Chan, P., Cozen, A. E. & Lowe, T. M. Discovery of permuted and recently split transfer RNAs in Archaea. Genome Biol. 12, R38 (2011).
    • (2011) Genome Biol , vol.12
    • Chan, P.1    Cozen, A.E.2    Lowe, T.M.3
  • 8
    • 0024291338 scopus 로고
    • Substrate recognition and splice site determination in yeast trna splicing
    • Reyes, V. M. & Abelson, J. Substrate recognition and splice site determination in yeast tRNA splicing. Cell 55, 719-730 (1988).
    • (1988) Cell , vol.55 , pp. 719-730
    • Reyes, V.M.1    Abelson, J.2
  • 9
    • 84881320626 scopus 로고
    • eds Söll, D, RajBhandary, U. L. (ASM Press, Washington, D.C.)
    • Shawn, K. W. & Abelson, J. in tRNA, eds Söll, D, RajBhandary, U. L. (ASM Press, Washington, D.C.), pp 79-92 (1995).
    • (1995) TRNA , pp. 79-92
    • Shawn, K.W.1    Abelson, J.2
  • 11
    • 42449113800 scopus 로고    scopus 로고
    • RNA-splicing endonuclease structure and function
    • Calvin, K. & Li, H. RNA-splicing endonuclease structure and function. Cell Mol. Life Sci. 65, 1176-1185 (2008).
    • (2008) Cell Mol. Life Sci , vol.65 , pp. 1176-1185
    • Calvin, K.1    Li, H.2
  • 12
    • 0036792830 scopus 로고    scopus 로고
    • TRNomics: Analysis of trna genes from 50 genomes of eukarya, archaea, and bacteria reveals anticodon-sparing strategies and domainspecific features
    • Marck, C. & Grosjean, H. tRNomics: analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domainspecific features. RNA 8, 1189-1232 (2002).
    • (2002) RNA , vol.8 , pp. 1189-1232
    • Marck, C.1    Grosjean, H.2
  • 13
    • 0022870078 scopus 로고
    • Binding and cleavage of pre-tRNA by the Xenopus splicing endonuclease: Two separable steps on the intron excision reaction
    • Baldi, M. I., Mattoccia, E., Ciafrè, S., Attardi, D. G. & Tocchini-Valentini, G. P. Binding and cleavage of pre-tRNA by the Xenopus splicing endonuclease: two separable steps of the intron excision reaction. Cell 47, 965-971 (1986). (Pubitemid 17005069)
    • (1986) Cell , vol.47 , Issue.6 , pp. 965-971
    • Baldi, M.I.1    Mattoccia, E.2    Ciafre, S.3
  • 14
    • 0023084848 scopus 로고
    • Substrate recognition and identification of splice sites by the tRNA-splicing endonuclease and ligase from Saccharomyces cerevisiae
    • Greer, C. L., Söll, D. & Willis, I. Substrate recognition and identification of splice sites by the tRNA-splicing endonuclease and ligase from Saccharomyces cerevisiae. Mol. Cell Biol. 7, 76-84 (1987). (Pubitemid 17230386)
    • (1987) Molecular and Cellular Biology , vol.7 , Issue.1 , pp. 76-84
    • Greer, C.L.1    Soll, D.2    Willis, I.3
  • 15
    • 0242395997 scopus 로고    scopus 로고
    • The eucaryal trna splicing endonuclease recognizes a tripartite set of rna elements
    • Di Nicola Negri, E. et al. The eucaryal tRNA splicing endonuclease recognizes a tripartite set of RNA elements. Cell 89, 859-66 (1997).
    • (1997) Cell , vol.89 , pp. 859-866
    • Di Nicola Negri, E.1
  • 16
    • 0030730820 scopus 로고    scopus 로고
    • The yeast tRNA splicing endonuclease: A tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases
    • Trotta, C. R. et al. The yeast tRNA splicing endonuclease: a tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases. Cell 89, 849-858 (1997). (Pubitemid 27513511)
    • (1997) Cell , vol.89 , Issue.6 , pp. 849-858
    • Trotta, C.R.1    Miao, F.2    Arn, E.A.3    Stevens, S.W.4    Ho, C.K.5    Rauhut, R.6    Abelson, J.N.7
  • 18
    • 33646538487 scopus 로고    scopus 로고
    • RNA recognition and cleavage by a splicing endonuclease
    • DOI 10.1126/science.1126629
    • Xue, S., Calvin, K. & Li, H. RNA recognition and cleavage by a splicing endonuclease. Science 312, 906-910 (2006). (Pubitemid 43727322)
    • (2006) Science , vol.312 , Issue.5775 , pp. 906-910
    • Xue, S.1    Calvin, K.2    Li, H.3
  • 19
    • 13444251251 scopus 로고    scopus 로고
    • Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5′- and 3′-halves
    • DOI 10.1038/nature03233
    • Randau, L., Münch, R., Hohn, M. J., Jahn, D. & Söll, D. Nanoarchaeum equitans creates functional tRNAs from separate genes for their 59- and 39-halves. Nature 433, 537-541 (2005). (Pubitemid 40204312)
    • (2005) Nature , vol.433 , Issue.7025 , pp. 537-541
    • Randau, L.1    Munch, R.2    Hohn, M.J.3    Jahn, D.4    Soll, D.5
  • 22
    • 83755220048 scopus 로고    scopus 로고
    • A novel three-unit trna splicing endonuclease found in ultrasmall archaea possesses broad substrate specificity
    • Fujishima, K. et al. A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity. Nucleic Acids Res. 39, 9695-9704 (2011).
    • (2011) Nucleic Acids Res , vol.39 , pp. 9695-9704
    • Fujishima, K.1
  • 23
    • 0019883546 scopus 로고
    • Two conserved sequence blocks within eukaryotic trna genes are major promoter elements
    • Galli, G., Hofstetter, H. & Birnstiel, M. L. Two conserved sequence blocks within eukaryotic tRNA genes are major promoter elements. Nature 294, 626-631 (1981).
    • (1981) Nature , vol.294 , pp. 626-631
    • Galli, G.1    Hofstetter, H.2    Birnstiel, M.L.3
  • 24
    • 0035967858 scopus 로고    scopus 로고
    • The RNA polymerase III transcription apparatus
    • DOI 10.1006/jmbi.2001.4732
    • Geiduschek, E. P. & Kassavetis, G. A. The RNA polymerase III transcription apparatus. J. Mol. Biol. 310, 1-26 (2001). (Pubitemid 32621715)
    • (2001) Journal of Molecular Biology , vol.310 , Issue.1 , pp. 1-26
    • Geiduschek, E.P.1    Kassavetis, G.A.2
  • 25
    • 0034666017 scopus 로고    scopus 로고
    • Transcription termination by rna polymerase iii in fission yeast. A genetic and biochemically tractable model system
    • Hamada, M., Sakulich, A. L., Koduru, S. B. & Maraia, R. J. Transcription termination by RNA polymerase III in fission yeast. A genetic and biochemically tractable model system. J. Biol. Chem. 275, 29076-29081 (2000).
    • (2000) J. Biol. Chem , vol.275 , pp. 29076-29081
    • Hamada, M.1    Sakulich, A.L.2    Koduru, S.B.3    Maraia, R.J.4
  • 26
    • 56449099760 scopus 로고    scopus 로고
    • Comprehensive analysis of archaeal trna genes reveals rapid increase of trna introns in the order thermoproteales
    • Sugahara, J. et al. Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales. Mol. Biol. Evol. 25, 2709-2716 (2008).
    • (2008) Mol. Biol. Evol , vol.25 , pp. 2709-2716
    • Sugahara, J.1
  • 29
    • 0025269273 scopus 로고
    • Genomic organization and physical mapping of the transfer rna genes in escherichia coli k12
    • Komine, Y., Adachi, T., Inokuchi, H. & Ozeki, H. Genomic organization and physical mapping of the transfer RNA genes in Escherichia coli K12. J. Mol. Biol. 212, 579-598 (1990).
    • (1990) J. Mol. Biol , vol.212 , pp. 579-598
    • Komine, Y.1    Adachi, T.2    Inokuchi, H.3    Ozeki, H.4
  • 30
    • 34047143747 scopus 로고    scopus 로고
    • Automated parallel isolation of multiple species of non-coding rnas by the reciprocal circulating chromatography method
    • Miyauchi, K., Ohara, T. & Suzuki, T. Automated parallel isolation of multiple species of non-coding RNAs by the reciprocal circulating chromatography method. Nucleic Acids Res. 35, e24 (2007).
    • (2007) Nucleic Acids Res , vol.35
    • Miyauchi, K.1    Ohara, T.2    Suzuki, T.3
  • 31
    • 34548767727 scopus 로고    scopus 로고
    • Chaplet column chromatography: Isolation of a large set of indivisual rnas in a single step
    • Suzuki, T. & Suzuki, T. Chaplet column chromatography: Isolation of a large set of indivisual RNAs in a single step. Methods in Enzymology 425, 25010-25014 (2007).
    • (2007) Methods in Enzymology , vol.425 , pp. 25010-25014
    • Suzuki, T.1    Suzuki, T.2
  • 32
    • 0029151159 scopus 로고
    • The trna processing enzyme rnase t is essential for maturation of 5s rna
    • Li, Z. & Deutscher, M. P. The tRNA processing enzyme RNase T is essential for maturation of 5S RNA. Proc. Natl. Acad. Sci. USA 92, 6883-6886 (1995).
    • (1995) Proc. Natl. Acad. Sci. USA , vol.92 , pp. 6883-6886
    • Li, Z.1    Deutscher, M.P.2
  • 33
    • 0030576503 scopus 로고    scopus 로고
    • Maturation pathways for E. coli tRNA precursors: A random multienzyme process in vivo
    • DOI 10.1016/S0092-8674(00)80123-3
    • Li, Z. & Deutscher, M. P. Maturation pathways for E. coli tRNA precursors: a random multienzyme process in vivo. Cell 86, 503-512 (1996). (Pubitemid 26272090)
    • (1996) Cell , vol.86 , Issue.3 , pp. 503-512
    • Li, Z.1    Deutscher, M.P.2
  • 34
    • 70350500192 scopus 로고    scopus 로고
    • Structural basis for translational fidelity ensured by transfer rna lysidine synthetase
    • Nakanishi, K. et al. Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase. Nature 461, 1144-1148 (2009).
    • (2009) Nature , vol.461 , pp. 1144-1148
    • Nakanishi, K.1
  • 36
    • 0025580878 scopus 로고
    • The numerous modified nucleotides in eukaryotic ribosomal rna
    • Maden, B. E. The numerous modified nucleotides in eukaryotic ribosomal RNA. Prog. Nucleic Acid Res. Mol. Biol. 39, 241-303 (1990).
    • (1990) Prog. Nucleic Acid Res. Mol. Biol , vol.39 , pp. 241-303
    • Maden, B.E.1
  • 37
    • 0028949935 scopus 로고
    • Classical and novel approaches to the detection and localization of the numerous modified nucleotides in eukaryotic ribosomal rna
    • Maden, B. E., Corbett, M. E., Heeney, P. A., Pugh, K. & Ajuh, P. M. Classical and novel approaches to the detection and localization of the numerous modified nucleotides in eukaryotic ribosomal RNA. Biochimie 77, 22-29 (1995).
    • (1995) Biochimie , vol.77 , pp. 22-29
    • Maden, B.E.1    Corbett, M.E.2    Heeney, P.A.3    Pugh, K.4    Ajuh, P.M.5
  • 38
    • 0030604698 scopus 로고    scopus 로고
    • Site-specific ribose methylation of preribosomal RNA: A novel function for small nucleolar RNAs
    • DOI 10.1016/S0092-8674(00)81308-2
    • Kiss-László, Z., Henry, Y., Bachellerie, J. P., Caizergues-Ferrer, M. & Kiss, T. Sitespecific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. Cell 85, 1077-1088 (1996). (Pubitemid 26231174)
    • (1996) Cell , vol.85 , Issue.7 , pp. 1077-1088
    • Kiss-Laszlo, Z.1    Henry, Y.2    Bachellerie, J.-P.3    Caizergues-Ferrer, M.4    Kiss, T.5
  • 39
    • 0029883805 scopus 로고    scopus 로고
    • Alternative structures in duplex DNA formed within the trinucleotide repeats of the myotonic dystrophy and fragile X loci
    • DOI 10.1021/bi9601013
    • Pearson, C. E. & Sinden, R. R. Alternative structures in duplex DNA formed within the trinucleotide repeats of the myotonic dystrophy and fragile X loci. Biochemistry 35, 5041-5053 (1996). (Pubitemid 26126721)
    • (1996) Biochemistry , vol.35 , Issue.15 , pp. 5041-5053
    • Pearson, C.E.1    Sinden, R.R.2
  • 42
    • 36248953763 scopus 로고    scopus 로고
    • Impaired tRNA Nuclear Export Links DNA Damage and Cell-Cycle Checkpoint
    • DOI 10.1016/j.cell.2007.09.042, PII S0092867407012780
    • Ghavidel, A. et al. Impaired tRNA nuclear export links DNA damage and cellcycle checkpoint. Cell 131, 915-926 (2007). (Pubitemid 350138086)
    • (2007) Cell , vol.131 , Issue.5 , pp. 915-926
    • Ghavidel, A.1    Kislinger, T.2    Pogoutse, O.3    Sopko, R.4    Jurisica, I.5    Emili, A.6
  • 43
    • 80051839405 scopus 로고    scopus 로고
    • The intron of trna-trpcca is dispensable for growth and translation of saccharomyces cerevisiae
    • Mori, S., Kajita, T., Endo, T. & Yoshihisa, T. The intron of tRNA-TrpCCA is dispensable for growth and translation of Saccharomyces cerevisiae. RNA 17, 1760-1769 (2011).
    • (2011) RNA , vol.17 , pp. 1760-1769
    • Mori, S.1    Kajita, T.2    Endo, T.3    Yoshihisa, T.4
  • 44
    • 46449136416 scopus 로고    scopus 로고
    • Transfer RNA genes in pieces
    • DOI 10.1038/embor.2008.101, PII EMBOR2008101
    • Randau, L. & Söll, D. Transfer RNA genes in pieces. EMBO Rep. 9, 623-628 (2008). (Pubitemid 351927682)
    • (2008) EMBO Reports , vol.9 , Issue.7 , pp. 623-628
    • Randau, L.1    Soll, D.2
  • 45
    • 51049124543 scopus 로고    scopus 로고
    • Transfer rna genes in pieces are an ancestral character
    • Di Giulio, M. Transfer RNA genes in pieces are an ancestral character. EMBO Rep. 9, 820-821 (2008).
    • (2008) EMBO Rep , vol.9 , pp. 820-821
    • Di Giulio, M.1
  • 47
    • 62449123460 scopus 로고    scopus 로고
    • Tri-split trna is a transfer rna made from 3 transcripts that provides insight into the evolution of fragmented trnas in archaea
    • Fujishima, K. et al. Tri-split tRNA is a transfer RNA made from 3 transcripts that provides insight into the evolution of fragmented tRNAs in archaea. Proc. Natl. Acad. Sci. USA 106, 2683-2687 (2009).
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 2683-2687
    • Fujishima, K.1
  • 48
    • 0036567510 scopus 로고    scopus 로고
    • Descent of a split RNA
    • Williams, K. P. Descent of a split RNA. Nucleic Acids Res. 30, 2025-2030 (2002). (Pubitemid 34537600)
    • (2002) Nucleic Acids Research , vol.30 , Issue.9 , pp. 2025-2030
    • Williams, K.P.1
  • 49
    • 46849083273 scopus 로고    scopus 로고
    • Permuted trna genes of cyanidioschyzon merolae, the origin of the trna molecule and the root of the eukarya domain
    • Di Giulio, M. Permuted tRNA genes of Cyanidioschyzon merolae, the origin of the tRNA molecule and the root of the Eukarya domain. J. Theor. Biol. 253, 587-592 (2008).
    • (2008) J. Theor. Biol , vol.253 , pp. 587-592
    • Di Giulio, M.1
  • 51
    • 0034739469 scopus 로고    scopus 로고
    • Identification of two catalytic subunits of trna splicing endonuclease from arabidopsis thaliana
    • Akama, K., Junker, V. & Beier, H. Identification of two catalytic subunits of tRNA splicing endonuclease from Arabidopsis thaliana. Gene 257, 177-185 (2000).
    • (2000) Gene , vol.257 , pp. 177-185
    • Akama, K.1    Junker, V.2    Beier, H.3
  • 52
    • 0030854739 scopus 로고    scopus 로고
    • TRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • DOI 10.1093/nar/25.5.955
    • Lowe, T. M. & Eddy, S. R. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25, 955-964 (1997). (Pubitemid 27298263)
    • (1997) Nucleic Acids Research , vol.25 , Issue.5 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.