메뉴 건너뛰기




Volumn 70, Issue 2, 2010, Pages 203-214

A deviant genetic code in the reduced mitochondrial genome of the picoplanktonic green alga Pycnococcus provasolii

Author keywords

Genome reduction; Green algae; Mitochondrial genome; Nucleotide bias; Prasinophyceae; Variant genetic code

Indexed keywords

ALGAL DNA; NUCLEOTIDE; TRANSFER RNA;

EID: 77649185561     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-010-9322-6     Document Type: Article
Times cited : (27)

References (43)
  • 1
    • 0033572678 scopus 로고    scopus 로고
    • C to U editing of the anticodon of imported mitochondrial tRNA(Trp) allows decoding of the UGA stop codon in Leishmania tarentolae
    • AlfonzoJD,BlancV,EstevezAM,RubioMA,SimpsonL(1999)C- UeditingoftheanticodonofimportedmitochondrialtRNA(Trp) allowsdecodingoftheUGAstopcodoninLeishmaniatarentolae.EMBOJ18: 7056-7062(Pubitemid30000458)
    • (1999) EMBO Journal , vol.18 , Issue.24 , pp. 7056-7062
    • Alfonzo, J.D.1    Blanc, V.2    Estevez, A.M.3    Rubio, M.A.T.4    Simpson, L.5
  • 3
    • 0019423856 scopus 로고
    • Sequence and organization of the human mitochondrial genome
    • DOI 10.1038/290457a0
    • Anderson S, Bankier AT, Barrell BG, de Bruijn MH, Coulson AR, Drouin J, Eperon IC, Nierlich DP, Roe BA, Sanger F, Schreier PH, Smith AJ, Staden R, Young IG (1981) Sequence and Organization of the human mitochondrial genome. Nature 290:457-465 (Pubitemid 11159074)
    • (1981) Nature , vol.290 , Issue.5806 , pp. 457-465
    • Anderson, S.1    Bankier, A.T.2    Barrell, B.G.3
  • 4
    • 0025881012 scopus 로고
    • Strand-specific nucleotide composition bias in echinoderm and vertebrate mitochondrial genomes
    • Asakawa S, Kumazawa Y, Araki T, Himeno H, Miura K, Watanabe K (1991) Strand-specific nucleotide composition bias in echinoderm and vertebrate mitochondrial genomes. J Mol Evol 32:511-520
    • (1991) J Mol Evol , vol.32 , pp. 511-520
    • Asakawa, S.1    Kumazawa, Y.2    Araki, T.3    Himeno, H.4    Miura, K.5    Watanabe, K.6
  • 5
    • 0025761166 scopus 로고
    • Short dispersed repeats localized in spacer regions in Chlamydomonas reinhardtii mitochondrial DNA
    • Boer PH, Gray MW (1991) Short dispersed repeats localized in spacer regions in Chlamydomonas reinhardtii mitochondrial DNA. Curr Genet 19:309-312
    • (1991) Curr Genet , vol.19 , pp. 309-312
    • Boer, P.H.1    Gray, M.W.2
  • 6
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17:540-552
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 7
    • 33646695266 scopus 로고    scopus 로고
    • The complete plastid genome sequence of the parasitic green alga Helicosporidium sp. is highly reduced and structured
    • de Koning AP, Keeling PJ (2006) The complete plastid genome sequence of the parasitic green alga Helicosporidium sp. is highly reduced and structured. BMC Biol 4:12
    • (2006) BMC Biol , vol.4 , pp. 12
    • De Koning, A.P.1    Keeling, P.J.2
  • 8
    • 0031884735 scopus 로고    scopus 로고
    • Complete sequence of the mitochondrial DNA of Chlamydomonas eugametos
    • Denovan-Wright EM, Nedelcu AM, Lee RW (1998) Complete sequence of the mitochondrial DNA of Chlamydomonas eugametos. Plant Mol Biol 36:285-295
    • (1998) Plant Mol Biol , vol.36 , pp. 285-295
    • Denovan-Wright, E.M.1    Nedelcu, A.M.2    Lee, R.W.3
  • 10
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • DOI 10.1093/nar/gkh340
    • Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-1797 (Pubitemid 38832724)
    • (2004) Nucleic Acids Research , vol.32 , Issue.5 , pp. 1792-1797
    • Edgar, R.C.1
  • 11
    • 0033857703 scopus 로고    scopus 로고
    • Phylogenetic analyses of 18S rDNA sequences reveal a new coccoid lineage of the Prasinophyceae (Chlorophyta)
    • DOI 10.1046/j.1529-8817.2000.99105.x
    • Fawley MW, Yun Y, Qin M (2000) Phylogenetic analyses of 18S rDNA sequences reveal a new coccoid lineage of the Prasinophyceae (Chlorophyta). J Phycol 36:387-393 (Pubitemid 30678111)
    • (2000) Journal of Phycology , vol.36 , Issue.2 , pp. 387-393
    • Fawley, M.W.1    Yun, Y.2    Qin, M.3
  • 12
    • 0037252462 scopus 로고    scopus 로고
    • Replication and transcription of mammalian mitochondrial DNA
    • DOI 10.1113/eph8802514
    • Fernandez-Silva P, Enriquez JA, Montoya J (2003) Replication and transcription of mammalian mitochondrial DNA. Exp Physiol 88:41-56 (Pubitemid 36150058)
    • (2003) Experimental Physiology , vol.88 , Issue.1 , pp. 41-56
    • Fernandez-Silva, P.1    Enriquez, J.A.2    Montoya, J.3
  • 13
    • 0030976320 scopus 로고    scopus 로고
    • Strand asymmetries in DNA evolution
    • Francino MP, Ochman H (1997) Strand asymmetries in DNA evolution. Trends Genet 13:240-245
    • (1997) Trends Genet , vol.13 , pp. 240-245
    • Francino, M.P.1    Ochman, H.2
  • 14
    • 0035090476 scopus 로고    scopus 로고
    • Coincidence, coevolution, or causation? DNA content, cell size, and the C-value enigma
    • Gregory TR (2001) Coincidence, coevolution, or causation? DNA content, cell size, and the C-value enigma. Biol Rev Camb Philos Soc 76:65-101
    • (2001) Biol Rev Camb Philos Soc , vol.76 , pp. 65-101
    • Gregory, T.R.1
  • 15
    • 0032524384 scopus 로고    scopus 로고
    • Analyzing genomes with cumulative skew diagrams
    • Grigoriev A (1998) Analyzing genomes with cumulative skew diagrams. Nucleic Acids Res 26:2286-2290
    • (1998) Nucleic Acids Res , vol.26 , pp. 2286-2290
    • Grigoriev, A.1
  • 16
    • 3042806881 scopus 로고    scopus 로고
    • Diversity of picoplanktonic prasinophytes assessed by direct nuclear SSU rDNA sequencing of environmental samples and novel isolates retrieved from oceanic and coastal marine ecosystems
    • DOI 10.1078/143446104774199592
    • Guillou L, Eikrem W, Chrétiennot-Dinet M-J, Le Gall F, Massana R, Romari K, Pedrós-Alió C, Vaulot D (2004) Diversity of picoplanktonic prasinophytes assessed by direct nuclear SSU rDNA sequencing of environmental samples and novel, isolates retrieved from oceanic and coastal marine ecosystems. Protist 155:193-214 (Pubitemid 38889534)
    • (2004) Protist , vol.155 , Issue.2 , pp. 193-214
    • Guillou, L.1    Eikrem, W.2    Chretiennot-Dinet, M.-J.3    Le Gall, F.4    Massana, R.5    Romari, K.6    Pedros-Alio, C.7    Vaulot, D.8
  • 17
    • 13444259388 scopus 로고    scopus 로고
    • TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics
    • Jobb G, von Haeseler A, Strimmer K (2004) TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. BMC Evol Biol 4:18
    • (2004) BMC Evol Biol , vol.4 , pp. 18
    • Jobb, G.1    Von Haeseler, A.2    Strimmer, K.3
  • 19
    • 0035234558 scopus 로고    scopus 로고
    • Rewiring the keyboard: Evolvability of the genetic code
    • Knight RD, Freeland SJ, Landweber LF (2001) Rewiring the keyboard: evolvability of the genetic code. Nat Rev Genet 2:49-58
    • (2001) Nat Rev Genet , vol.2 , pp. 49-58
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 20
    • 0031665387 scopus 로고    scopus 로고
    • The mitochondrial genome of Chlorogonium elongatum inferred from the complete sequence
    • Kroymann J, Zetsche K (1998) The mitochondrial genome of Chlorogonium elongatum inferred from the complete sequence. J Mol Evol 47:431-440
    • (1998) J Mol Evol , vol.47 , pp. 431-440
    • Kroymann, J.1    Zetsche, K.2
  • 21
    • 0342758596 scopus 로고    scopus 로고
    • DNA sequence analysis of the complete mitochondrial genome of the green alga Scenedesmus obliquus: Evidence for UAG being a leucine and UCA being a non-sense codon
    • Kück U, Jekosch K, Holzamer P (2000) DNA sequence analysis of the complete mitochondrial genome of the green alga Scenedesmus obliquus: evidence for UAG being a leucine and UCA being a non-sense codon. Gene 253:13-18
    • (2000) Gene , vol.253 , pp. 13-18
    • Kück, U.1    Jekosch, K.2    Holzamer, P.3
  • 23
    • 17644368841 scopus 로고    scopus 로고
    • Green algae and the origin of land plants
    • Lewis LA, McCourt RM (2004) Green algae and the origin of land plants. Am J Bot 91:1535-1556
    • (2004) Am J Bot , vol.91 , pp. 1535-1556
    • Lewis, L.A.1    McCourt, R.M.2
  • 24
    • 0030854739 scopus 로고    scopus 로고
    • TRNAscan-SE: A program, for improved detection of transfer RNA genes in genomic sequence
    • Lowe TM, Eddy SR (1997) tRNAscan-SE: a program, for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 25:955-964
    • (1997) Nucleic Acids Res , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 25
    • 34247880393 scopus 로고    scopus 로고
    • A comparative genomics analysis of codon reassignments reveals a link with mitochondrial proteome size and a mechanism of genetic code change via suppressor tRNAs
    • Massey SE, Garey JR (2007) A comparative genomics analysis of codon reassignments reveals a link with mitochondrial proteome size and a mechanism of genetic code change via suppressor tRNAs. J Mol Evol 64:399-410
    • (2007) J Mol Evol , vol.64 , pp. 399-410
    • Massey, S.E.1    Garey, J.R.2
  • 26
    • 0033917525 scopus 로고    scopus 로고
    • The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome
    • Nedelcu AM, Lee RW, Lemieux C, Gray MW, Burger G (2000) The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome. Genome Res 10:819-831
    • (2000) Genome Res , vol.10 , pp. 819-831
    • Nedelcu, A.M.1    Lee, R.W.2    Lemieux, C.3    Gray, M.W.4    Burger, G.5
  • 27
    • 1942501620 scopus 로고    scopus 로고
    • The complete mitochondrial DNA sequence of the green alga Pseudendoclonium akinetum (Ulvophyceae) highlights distinctive evolutionary trends in the Chlorophyte and suggests a sister-group relationship between the Ulvophyceae and Chlorophyceae
    • Pombert JF, Otis C, Lemieux C, Turmel M (2004) The complete mitochondrial DNA sequence of the green alga Pseudendoclonium akinetum (Ulvophyceae) highlights distinctive evolutionary trends in the Chlorophyte and suggests a sister-group relationship between the Ulvophyceae and Chlorophyceae. Mol Biol Evol 21:922-935
    • (2004) Mol Biol Evol , vol.21 , pp. 922-935
    • Pombert, J.F.1    Otis, C.2    Lemieux, C.3    Turmel, M.4
  • 28
    • 33644938217 scopus 로고    scopus 로고
    • The complete chloroplast DNA sequence of the green alga Oltmannsiellopsis viridis reveals a distinctive quadripartite architecture in the chloroplast genome of early diverging ulvophytes
    • Pombert JF, Lemieux C, Turmel M (2006) The complete chloroplast DNA sequence of the green alga Oltmannsiellopsis viridis reveals a distinctive quadripartite architecture in the chloroplast genome of early diverging ulvophytes. BMC Biol 4:3
    • (2006) BMC Biol , vol.4 , pp. 3
    • Pombert, J.F.1    Lemieux, C.2    Turmel, M.3
  • 29
    • 78649843153 scopus 로고    scopus 로고
    • Systematica of the green algae: Conflict of classic and modem approaches
    • Brodie J, Lewis J (eds) CRC Press, Taylor & Francis, Boca Raton
    • Pröschold T, Leliaert F (2007) Systematica of the green algae: conflict of classic and modem approaches. In: Brodie J, Lewis J (eds) Unravelling the algae: the past, present, and future of algal systematics. CRC Press, Taylor & Francis, Boca Raton, pp 123-153
    • (2007) Unravelling the Algae: The Past, Present, and Future of Algal Systematics , pp. 123-153
    • Pröschold, T.1    Leliaert, F.2
  • 30
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • Rice P, Longden I, Bleasby A (2000) EMBOSS: the European molecular biology open software suite. Trends Genet 16:276277
    • (2000) Trends Genet , vol.16 , pp. 276277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 31
    • 34047227131 scopus 로고    scopus 로고
    • The complete chloroplast and mitochondrial DNA sequence of Ostreococcus tauri: Organelle genomes of the smallest eukaryote are examples of compaction
    • Robbens S, Derelle E, Ferraz C, Wuyts J, Moreau H, Van de Peer Y (2007) The complete chloroplast and mitochondrial DNA sequence of Ostreococcus tauri: organelle genomes of the smallest eukaryote are examples of compaction. Mol Biol Evol 24:956-968
    • (2007) Mol Biol Evol , vol.24 , pp. 956-968
    • Robbens, S.1    Derelle, E.2    Ferraz, C.3    Wuyts, J.4    Moreau, H.5    Van De Peer, Y.6
  • 32
    • 39749186643 scopus 로고    scopus 로고
    • Mitochondrial genome of the colorless green alga Polytomella capuana: A linear molecule with an unprecedented GC content
    • Smith DR, Lee RW (2008) Mitochondrial genome of the colorless green alga Polytomella capuana: a linear molecule with an unprecedented GC content. Mol Biol Evol 25:487-496
    • (2008) Mol Biol Evol , vol.25 , pp. 487-496
    • Smith, D.R.1    Lee, R.W.2
  • 34
    • 0027966917 scopus 로고
    • Strand asymmetry in human mitochondrial DNA mutations
    • DOI 10.1006/geno.1994.1391
    • Tanaka M, Ozawa T (1994) Strand asymmetry in human mitochondrial DNA mutations. Genomics 22:327-335 (Pubitemid 24258873)
    • (1994) Genomics , vol.22 , Issue.2 , pp. 327-335
    • Tanaka, M.1    Ozawa, T.2
  • 35
    • 0033197514 scopus 로고    scopus 로고
    • The complete mitochondrial DNA sequences of Nephroselmis olivácea and Pedinomonas minor: Two radically different evolutionary patterns within green algae
    • Turmel M, Lemieux C, Burger G, Lang BF, Otis C, Plante I, Gray MW (1999a) The complete mitochondrial DNA sequences of Nephroselmis olivácea and Pedinomonas minor: two radically different evolutionary patterns within green algae. Plant Cell 11:1717-1729
    • (1999) Plant Cell , vol.11 , pp. 1717-1729
    • Turmel, M.1    Lemieux, C.2    Burger, G.3    Lang, B.F.4    Otis, C.5    Plante, I.6    Gray, M.W.7
  • 36
    • 0033621040 scopus 로고    scopus 로고
    • The complete chloroplast DNA sequence of the green alga Nephroselmis olivacea: Insights into the architecture of ancestral chloroplast genomes
    • Turmel M, Otis C, Lemieux C (1999b) The complete chloroplast DNA sequence of the green alga Nephroselmis olivacea: insights into the architecture of ancestral chloroplast genomes. Proc Natl Acad Sci USA 96:10248-10253
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 10248-10253
    • Turmel, M.1    Otis, C.2    Lemieux, C.3
  • 37
    • 34347235160 scopus 로고    scopus 로고
    • An unexpectedly large and loosely packed mitochondrial genome in the charophycean green alga Chlorokybus atmophyticus
    • Turmel M, Otis C, Lemieux C (2007) An unexpectedly large and loosely packed mitochondrial genome in the charophycean green alga Chlorokybus atmophyticus. BMC Genom 8:137
    • (2007) BMC Genom , vol.8 , pp. 137
    • Turmel, M.1    Otis, C.2    Lemieux, C.3
  • 38
    • 60149094050 scopus 로고    scopus 로고
    • The chloroplast genomes of the green algae Pyramimonas, Monomastix, and Pycnococcus shed new light on the evolutionary history of prasinophytes and the origin of the secondary chloroplasts of euglenids
    • Turmel M, Gagnon MC, O'Kelly CJ, Otis C, Lemieux C (2009a) The chloroplast genomes of the green algae Pyramimonas, Monomastix, and Pycnococcus shed new light on the evolutionary history of prasinophytes and the origin of the secondary chloroplasts of euglenids. Mol Biol Evol 26:631-648
    • (2009) Mol Biol Evol , vol.26 , pp. 631-648
    • Turmel, M.1    Gagnon, M.C.2    O'Kelly, C.J.3    Otis, C.4    Lemieux, C.5
  • 39
    • 70349921146 scopus 로고    scopus 로고
    • The chloroplast genomes of the green algae Pedinomonas minor, Parachlorella kessleri and Oocystis solitaria reveal a shared ancestry between the Pedinomonadales and Chlorellales
    • Turmel M, Otis C, Lemieux C (2009b) The chloroplast genomes of the green algae Pedinomonas minor, Parachlorella kessleri and Oocystis solitaria reveal a shared ancestry between the Pedinomonadales and Chlorellales. Mol Biol Evol 26:2317-2331
    • (2009) Mol Biol Evol , vol.26 , pp. 2317-2331
    • Turmel, M.1    Otis, C.2    Lemieux, C.3
  • 40
    • 0027359351 scopus 로고
    • Mitochondrial DNA of Chlamydomonas reinhardtii: The structure of the ends of the linear 15.8-kb genome suggests mechanisms for DNA replication
    • Vahrenholz C, Rieman G, Pratje E, Dujon B, Michaelis G (1993) Mitochondrial DNA of Chlamydomonas reinhardtii: the structure of the ends of the linear 15.8-kb genome suggests mechanisms for DNA replication. Curr Genet 24:241-247
    • (1993) Curr Genet , vol.24 , pp. 241-247
    • Vahrenholz, C.1    Rieman, G.2    Pratje, E.3    Dujon, B.4    Michaelis, G.5
  • 41
    • 0028330225 scopus 로고
    • Complete sequence of the mitochondrial DNA of the chlorophyte alga Prototheca wickerhamii
    • Wolff G, Plante I, Lang BF, Kück U, Burger G (1994) Complete sequence of the mitochondrial DNA of the chlorophyte alga Prototheca wickerhamii. J Mol Biol 237:75-86
    • (1994) J Mol Biol , vol.237 , pp. 75-86
    • Wolff, G.1    Plante, I.2    Lang, B.F.3    Kück, U.4    Burger, G.5
  • 43
    • 55249108232 scopus 로고    scopus 로고
    • Complete mitochondrial DNA sequence of oyster Crassostrea hongkongensis-a case of "Tandem duplication-random loss" for genome rearrangement in Crassostrea?
    • Yu Z, Wei Z, Kong X, Shi W (2008) Complete mitochondrial DNA sequence of oyster Crassostrea hongkongensis-a case of "Tandem duplication-random loss" for genome rearrangement in Crassostrea? BMC Genom. 9:477
    • (2008) BMC Genom. , vol.9 , pp. 477
    • Yu, Z.1    Wei, Z.2    Kong, X.3    Shi, W.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.