메뉴 건너뛰기




Volumn 6, Issue 6, 2014, Pages 1448-1453

Genes and junk in plant mitochondria-repair mechanisms and selection

Author keywords

DNA repair; Junk DNA; Mitochondrial genome; Mutation rate

Indexed keywords

PLANT DNA;

EID: 84925883848     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evu115     Document Type: Article
Times cited : (67)

References (48)
  • 1
    • 0038612979 scopus 로고    scopus 로고
    • Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS
    • Abdelnoor RV, et al. 2003. Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS. Proc Natl Acad Sci U S A. 100:5968-5973.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 5968-5973
    • Abdelnoor, R.V.1
  • 2
    • 33746467893 scopus 로고    scopus 로고
    • Mitochondrial genome dynamics in plants and animals: Convergent gene fusions of a MutS homolog
    • Abdelnoor RV, et al. 2006. Mitochondrial genome dynamics in plants and animals: convergent gene fusions of a MutS homolog. J Mol Evol. 63: 165-173.
    • (2006) J Mol Evol. , vol.63 , pp. 165-173
    • Abdelnoor, R.V.1
  • 3
    • 79251638682 scopus 로고    scopus 로고
    • The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats
    • Alverson AJ, Zhuo S, Rice DW, Sloan DB, Palmer JD. 2011. The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats. PLoS One 6:e16404.
    • (2011) PLoS One , vol.6 , pp. e16404
    • Alverson, A.J.1    Zhuo, S.2    Rice, D.W.3    Sloan, D.B.4    Palmer, J.D.5
  • 4
    • 71549141989 scopus 로고    scopus 로고
    • Diversity of the Arabidopsis mitochondrial genome occurs via nuclear-controlled recombination activity
    • Arrieta-Montiel MP, Shedge V, Davila J, Christensen AC, Mackenzie SA. 2009. Diversity of the Arabidopsis mitochondrial genome occurs via nuclear-controlled recombination activity. Genetics 183:1261-1268.
    • (2009) Genetics , vol.183 , pp. 1261-1268
    • Arrieta-Montiel, M.P.1    Shedge, V.2    Davila, J.3    Christensen, A.C.4    Mackenzie, S.A.5
  • 5
    • 0027016508 scopus 로고
    • Mitochondrial rps14 is a transcribed and edited pseudogene in Arabidopsis thaliana
    • Aubert D, Bisanz-Seyer C, Herzog M. 1992. Mitochondrial rps14 is a transcribed and edited pseudogene in Arabidopsis thaliana. Plant Mol Biol. 20:1169-1174.
    • (1992) Plant Mol Biol. , vol.20 , pp. 1169-1174
    • Aubert, D.1    Bisanz-Seyer, C.2    Herzog, M.3
  • 6
    • 84899745039 scopus 로고    scopus 로고
    • Pentatricopeptide repeat proteins in plants
    • Barkan A, Small I. 2014. Pentatricopeptide repeat proteins in plants. Annu Rev Plant Biol. 65:415-442.
    • (2014) Annu Rev Plant Biol. , vol.65 , pp. 415-442
    • Barkan, A.1    Small, I.2
  • 7
    • 73049087266 scopus 로고    scopus 로고
    • Plant mitochondria possess a short-patch base excision DNA repair pathway
    • Boesch P, et al. 2009. Plant mitochondria possess a short-patch base excision DNA repair pathway. Nucleic Acids Res. 37:5690-5700.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 5690-5700
    • Boesch, P.1
  • 8
    • 0037549394 scopus 로고    scopus 로고
    • Refuge of spandrels
    • Brenner S. 1998. Refuge of spandrels. Curr Biol. 8:R669.
    • (1998) Curr Biol. , vol.8 , pp. R669
    • Brenner, S.1
  • 9
    • 77955933529 scopus 로고    scopus 로고
    • Crystal structures of DNA-Whirly complexes and their role in Arabidopsis organelle genome repair
    • Cappadocia L, et al. 2010. Crystal structures of DNA-Whirly complexes and their role in Arabidopsis organelle genome repair. Plant Cell 22: 1849-1867.
    • (2010) Plant Cell , vol.22 , pp. 1849-1867
    • Cappadocia, L.1
  • 10
    • 11144236816 scopus 로고    scopus 로고
    • Mitochondrial substitution rates are extraordinarily elevated and variable in a genus of flowering plants
    • Cho Y, Mower JP, Qiu YL, Palmer JD. 2004. Mitochondrial substitution rates are extraordinarily elevated and variable in a genus of flowering plants. Proc Natl Acad Sci U S A. 101:17741-17746.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 17741-17746
    • Cho, Y.1    Mower, J.P.2    Qiu, Y.L.3    Palmer, J.D.4
  • 11
    • 84891596059 scopus 로고    scopus 로고
    • Plant mitochondrial genome evolution can be explained by DNA repair mechanisms
    • Christensen AC. 2013. Plant mitochondrial genome evolution can be explained by DNA repair mechanisms. Genome Biol Evol. 5: 1079-1086.
    • (2013) Genome Biol Evol. , vol.5 , pp. 1079-1086
    • Christensen, A.C.1
  • 12
    • 80053199003 scopus 로고    scopus 로고
    • Double-strand break repair processes drive evolution of the mitochondrial genome in Arabidopsis
    • Davila JI, et al. 2011. Double-strand break repair processes drive evolution of the mitochondrial genome in Arabidopsis. BMC Biol. 9:64.
    • (2011) BMC Biol. , vol.9 , pp. 64
    • Davila, J.I.1
  • 13
    • 84892542829 scopus 로고    scopus 로고
    • Female and male gamete mitochondria are distinct and complementary in transcription, structure, and genome function
    • de Paula WB, et al. 2013. Female and male gamete mitochondria are distinct and complementary in transcription, structure, and genome function. Genome Biol Evol. 5:1969-1977.
    • (2013) Genome Biol Evol. , vol.5 , pp. 1969-1977
    • De Paula, W.B.1
  • 14
    • 13244255415 scopus 로고    scopus 로고
    • MUSCLE: A multiple sequence alignment method with reduced time and space complexity
    • Edgar RC. 2004. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 5:113.
    • (2004) BMC Bioinformatics , vol.5 , pp. 113
    • Edgar, R.C.1
  • 15
    • 0032829056 scopus 로고    scopus 로고
    • The gene for mitochondrial ribosomal protein S14 has been transferred to the nucleus in Arabidopsis thaliana
    • Figueroa P, et al. 1999. The gene for mitochondrial ribosomal protein S14 has been transferred to the nucleus in Arabidopsis thaliana. Mol Gen Genet. 262:139-144.
    • (1999) Mol Gen Genet. , vol.262 , pp. 139-144
    • Figueroa, P.1
  • 16
    • 34547128656 scopus 로고    scopus 로고
    • Mapping of mitochondrial mRNA termini in Arabidopsis thaliana: T-elements contribute to 5′ and 3′ end formation
    • Forner J, Weber B, Thuss S, Wildum S, Binder S. 2007. Mapping of mitochondrial mRNA termini in Arabidopsis thaliana: t-elements contribute to 5′ and 3′ end formation. Nucleic Acids Res. 35:3676-3692.
    • (2007) Nucleic Acids Res. , vol.35 , pp. 3676-3692
    • Forner, J.1    Weber, B.2    Thuss, S.3    Wildum, S.4    Binder, S.5
  • 18
    • 84887141327 scopus 로고    scopus 로고
    • Ribonucleotides misincorporated into DNA act as strand-discrimination signals in eukaryotic mismatch repair
    • Ghodgaonkar MM, et al. 2013. Ribonucleotides misincorporated into DNA act as strand-discrimination signals in eukaryotic mismatch repair. Mol Cell. 50:323-332.
    • (2013) Mol Cell. , vol.50 , pp. 323-332
    • Ghodgaonkar, M.M.1
  • 19
    • 84897098341 scopus 로고    scopus 로고
    • The plant mitochondrial genome: Dynamics and maintenance
    • Gualberto JM, et al. 2013. The plant mitochondrial genome: dynamics and maintenance. Biochimie 100:107-120.
    • (2013) Biochimie , vol.100 , pp. 107-120
    • Gualberto, J.M.1
  • 20
    • 0033004412 scopus 로고    scopus 로고
    • Cotranscription of the rpl5-rps14-cob gene cluster in pea mitochondria
    • Hoffmann M, Dombrowski S, Guha C, Binder S. 1999. Cotranscription of the rpl5-rps14-cob gene cluster in pea mitochondria. Mol Gen Genet. 261:537-545.
    • (1999) Mol Gen Genet. , vol.261 , pp. 537-545
    • Hoffmann, M.1    Dombrowski, S.2    Guha, C.3    Binder, S.4
  • 21
    • 84904731897 scopus 로고    scopus 로고
    • Stopped in its tracks: The RNA polymerase molecular motor as a robust sensor of DNA damage
    • Howan K, Monnet J, Fan J, Strick TR. 2014. Stopped in its tracks: the RNA polymerase molecular motor as a robust sensor of DNA damage. DNA Repair (Amst) pii:S1568-7864(14)00059-7.
    • (2014) DNA Repair (Amst)
    • Howan, K.1    Monnet, J.2    Fan, J.3    Strick, T.R.4
  • 22
    • 84868192844 scopus 로고    scopus 로고
    • A RAD52-like single-stranded DNA binding protein affects mitochondrial DNA repair by recombination
    • Janicka S, et al. 2012. A RAD52-like single-stranded DNA binding protein affects mitochondrial DNA repair by recombination. Plant J. 72: 423-435.
    • (2012) Plant J. , vol.72 , pp. 423-435
    • Janicka, S.1
  • 23
    • 84871266434 scopus 로고    scopus 로고
    • Capturing the biofuelwellhead and powerhouse: The chloroplast and mitochondrial genomes of the leguminous feedstock tree Pongamia pinnata
    • Kazakoff SH, et al. 2012. Capturing the biofuelwellhead and powerhouse: the chloroplast and mitochondrial genomes of the leguminous feedstock tree Pongamia pinnata. PLoS One 7:e51687.
    • (2012) PLoS One , vol.7 , pp. e51687
    • Kazakoff, S.H.1
  • 24
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol. 16:111-120.
    • (1980) J Mol Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 25
    • 84878577317 scopus 로고    scopus 로고
    • The monomeric GIY-YIG homing endonuclease I-BmoI uses a molecular anchor and a flexible tether to sequentially nick DNA
    • Kleinstiver BP, Wolfs JM, Edgell DR. 2013. The monomeric GIY-YIG homing endonuclease I-BmoI uses a molecular anchor and a flexible tether to sequentially nick DNA. Nucleic Acids Res. 41:5413-5427.
    • (2013) Nucleic Acids Res. , vol.41 , pp. 5413-5427
    • Kleinstiver, B.P.1    Wolfs, J.M.2    Edgell, D.R.3
  • 27
    • 42449130956 scopus 로고    scopus 로고
    • Break-induced replication: What is it and what is it for?
    • Llorente B, Smith CE, Symington LS. 2008. Break-induced replication: what is it and what is it for? Cell Cycle 7:859-864.
    • (2008) Cell Cycle , vol.7 , pp. 859-864
    • Llorente, B.1    Smith, C.E.2    Symington, L.S.3
  • 29
    • 33645214213 scopus 로고    scopus 로고
    • Mutation pressure and the evolution of organelle genomic architecture
    • Lynch M, Koskella B, Schaack S. 2006. Mutation pressure and the evolution of organelle genomic architecture. Science 311:1727-1730.
    • (2006) Science , vol.311 , pp. 1727-1730
    • Lynch, M.1    Koskella, B.2    Schaack, S.3
  • 30
    • 84860553218 scopus 로고    scopus 로고
    • RecA-dependent DNA repair results in increased heteroplasmy of the Arabidopsis mitochondrial genome
    • Miller-Messmer M, et al. 2012. RecA-dependent DNA repair results in increased heteroplasmy of the Arabidopsis mitochondrial genome. Plant Physiol. 159:211-226.
    • (2012) Plant Physiol. , vol.159 , pp. 211-226
    • Miller-Messmer, M.1
  • 31
    • 42949157236 scopus 로고    scopus 로고
    • The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
    • Ming R, et al. 2008. The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature 452:991-996.
    • (2008) Nature , vol.452 , pp. 991-996
    • Ming, R.1
  • 32
    • 0028863007 scopus 로고
    • Intron-encoded endonuclease I-TevI binds as a monomer to effect sequential cleavage via conformational changes in the td homing site
    • Mueller JE, Smith D, Bryk M, Belfort M. 1995. Intron-encoded endonuclease I-TevI binds as a monomer to effect sequential cleavage via conformational changes in the td homing site. EMBO J. 14: 5724-5735.
    • (1995) EMBO J. , vol.14 , pp. 5724-5735
    • Mueller, J.E.1    Smith, D.2    Bryk, M.3    Belfort, M.4
  • 33
    • 50549201557 scopus 로고
    • The relation of recombination to mutational advance
    • Muller HJ. 1964. The relation of recombination to mutational advance. Mutat Res. 106:2-9.
    • (1964) Mutat Res. , vol.106 , pp. 2-9
    • Muller, H.J.1
  • 34
    • 84880087159 scopus 로고    scopus 로고
    • De novo assembly of the complete organelle genome sequences of azuki bean (Vigna angularis) using next-generation sequencers
    • Naito K, Kaga A, Tomooka N, Kawase M. 2013. De novo assembly of the complete organelle genome sequences of azuki bean (Vigna angularis) using next-generation sequencers. Breed Sci. 63:176-182.
    • (2013) Breed Sci. , vol.63 , pp. 176-182
    • Naito, K.1    Kaga, A.2    Tomooka, N.3    Kawase, M.4
  • 35
    • 84900861850 scopus 로고    scopus 로고
    • Mitochondrial genome sequence of the legume Vicia faba
    • Negruk V. 2013. Mitochondrial genome sequence of the legume Vicia faba. Front Plant Sci. 4:128.
    • (2013) Front Plant Sci. , vol.4 , pp. 128
    • Negruk, V.1
  • 37
    • 85003342377 scopus 로고    scopus 로고
    • Pervasive survival of expressed mitochondrial rps14 pseudogenes in grasses and their relatives for 80 million years following three functional transfers to the nucleus
    • Ong HC, Palmer JD. 2006. Pervasive survival of expressed mitochondrial rps14 pseudogenes in grasses and their relatives for 80 million years following three functional transfers to the nucleus. BMC Evol Biol. 6:55.
    • (2006) BMC Evol Biol. , vol.6 , pp. 55
    • Ong, H.C.1    Palmer, J.D.2
  • 38
    • 0024259002 scopus 로고
    • Plant mitochondrial DNA evolves rapidly in structure, but slowly in sequence
    • Palmer JD, Herbon LA. 1988. Plant mitochondrial DNA evolves rapidly in structure, but slowly in sequence. J Mol Evol. 28:87-97.
    • (1988) J Mol Evol. , vol.28 , pp. 87-97
    • Palmer, J.D.1    Herbon, L.A.2
  • 39
    • 31544435757 scopus 로고    scopus 로고
    • Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae
    • Parkinson CL, et al. 2005. Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae. BMC Evol Biol. 5:73.
    • (2005) BMC Evol Biol. , vol.5 , pp. 73
    • Parkinson, C.L.1
  • 40
    • 0030197641 scopus 로고    scopus 로고
    • The rpl5-rps14-cob gene arrangement in Solanumtuberosum: Rps14 is a transcribed and unedited pseudogene
    • Quinones V, et al. 1996. The rpl5-rps14-cob gene arrangement in Solanumtuberosum: rps14 is a transcribed and unedited pseudogene. Plant Mol Biol. 31:937-943.
    • (1996) Plant Mol Biol. , vol.31 , pp. 937-943
    • Quinones, V.1
  • 41
    • 84876144707 scopus 로고    scopus 로고
    • The "fossilized" mitochondrial genome of Liriodendron tulipifera: Ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate
    • Richardson AO, Rice DW, Young GJ, Alverson AJ, Palmer JD. 2013. The "fossilized" mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate. BMC Biol. 11:29.
    • (2013) BMC Biol. , vol.11 , pp. 29
    • Richardson, A.O.1    Rice, D.W.2    Young, G.J.3    Alverson, A.J.4    Palmer, J.D.5
  • 42
    • 34250657287 scopus 로고    scopus 로고
    • Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs
    • Shedge V, Arrieta-Montiel M, Christensen AC, Mackenzie SA. 2007. Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs. Plant Cell 19:1251-1264.
    • (2007) Plant Cell , vol.19 , pp. 1251-1264
    • Shedge, V.1    Arrieta-Montiel, M.2    Christensen, A.C.3    Mackenzie, S.A.4
  • 43
    • 84868520476 scopus 로고    scopus 로고
    • Intraspecific variation in mitochondrial genome sequence, structure, and gene content in Silene vulgaris, an angiosperm with pervasive cytoplasmic male sterility
    • Sloan DB, Muller K, McCauley DE, Taylor DR, Storchova H. 2012. Intraspecific variation in mitochondrial genome sequence, structure, and gene content in Silene vulgaris, an angiosperm with pervasive cytoplasmic male sterility. New Phytol. 196:1228-1239.
    • (2012) New Phytol. , vol.196 , pp. 1228-1239
    • Sloan, D.B.1    Muller, K.2    McCauley, D.E.3    Taylor, D.R.4    Storchova, H.5
  • 44
    • 84856483430 scopus 로고    scopus 로고
    • Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates
    • Sloan DB, et al. 2012. Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates. PLoS Biol. 10:e1001241.
    • (2012) PLoS Biol. , vol.10 , pp. e1001241
    • Sloan, D.B.1
  • 45
    • 84863337944 scopus 로고    scopus 로고
    • Angiosperm phylogeny: 17 genes, 640 taxa
    • Soltis DE, et al. 2011. Angiosperm phylogeny: 17 genes, 640 taxa. Am J Bot. 98:704-730.
    • (2011) Am J Bot. , vol.98 , pp. 704-730
    • Soltis, D.E.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.