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Volumn 51, Issue 4, 2010, Pages 491-510

Molecular evolution and positive Darwinian selection of the gymnosperm photosynthetic rubisco enzyme;Chinese Source

Author keywords

Chloroplast rbcl; Gymnosperm; Maximum likelihood; Physicochemical evolution; Positive selection

Indexed keywords

CEPHALOTAXACEAE; GYMNOSPERMAE; TAXACEAE;

EID: 78650626330     PISSN: 1817406X     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (7)

References (33)
  • 1
    • 69149084832 scopus 로고    scopus 로고
    • A DNA barcode for land plants
    • CBOL Plant Working Group
    • CBOL Plant Working Group. 2009. A DNA barcode for land plants. Proc. Natl. Acad. Sci. USA 106: 12794-12797.
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 12794-12797
  • 2
    • 54149095268 scopus 로고    scopus 로고
    • Evolutionary switch and genetic convergence on rbcL following the evolution of C4 photosynthesis
    • Christin, P.A., N. Salamin, A.M. Muasya, E.H. Roalson, F. Russier, and G. Besnard. 2008. Evolutionary switch and genetic convergence on rbcL following the evolution of C4 photosynthesis. Mol. Biol. Evol. 25: 2361-2368.
    • (2008) Mol. Biol. Evol , vol.25 , pp. 2361-2368
    • Christin, P.A.1    Salamin, N.2    Muasya, A.M.3    Roalson, E.H.4    Russier, F.5    Besnard, G.6
  • 3
    • 33846818777 scopus 로고    scopus 로고
    • Combined empirical and mechanistic codon model
    • Doron-Faigenboim, A. and T.A. Pupko. 2007. Combined empirical and mechanistic codon model. Mol. Biol. Evol. 24: 388-397.
    • (2007) Mol. Biol. Evol , vol.24 , pp. 388-397
    • Doron-Faigenboim, A.1    Pupko, T.A.2
  • 5
    • 0027377540 scopus 로고
    • Relationship between amino acid properties and protein compressibility
    • Gromiha, M.M. and P.K. Ponnuswamy. 1993. Relationship between amino acid properties and protein compressibility. J. Theo. Biol. 165: 87-100.
    • (1993) J. Theo. Biol , vol.165 , pp. 87-100
    • Gromiha, M.M.1    Ponnuswamy, P.K.2
  • 6
    • 0031473847 scopus 로고    scopus 로고
    • SWISS-MODEL and the Swiss-Pdb-Viewer: An environment for comparative protein modeling
    • Guex, N. and M.C. Peitsch. 1997. SWISS-MODEL and the Swiss-Pdb-Viewer: An environment for comparative protein modeling. Electrophoresis 18: 2714-2723.
    • (1997) Electrophoresis , vol.18 , pp. 2714-2723
    • Guex, N.1    Peitsch, M.C.2
  • 7
    • 77951499889 scopus 로고    scopus 로고
    • Molecular evolution and positive Darwinian selection of the chloroplast maturase matK
    • DOI 10.1007/s10265-009-0261-5
    • Hao, D.C., S.L. Chen, and P.G. Xiao. 2009. Molecular evolution and positive Darwinian selection of the chloroplast maturase matK. J. Plant Res. DOI 10.1007/s10265-009-0261-5.
    • (2009) J. Plant Res
    • Hao, D.C.1    Chen, S.L.2    Xiao, P.G.3
  • 8
    • 56249103747 scopus 로고    scopus 로고
    • Interspecific relationships and origins of Taxaceae and Cephalotaxaceae revealed by partitioned Bayesian analyses of chloroplast and nuclear DNA sequences
    • Hao, D.C., P.G. Xiao, B. Huang, G.B. Ge, and L. Yang. 2008. Interspecific relationships and origins of Taxaceae and Cephalotaxaceae revealed by partitioned Bayesian analyses of chloroplast and nuclear DNA sequences. Plant Syst. Evol. 276: 89-104.
    • (2008) Plant Syst. Evol , vol.276 , pp. 89-104
    • Hao, D.C.1    Xiao, P.G.2    Huang, B.3    Ge, G.B.4    Yang, L.5
  • 9
    • 46649088563 scopus 로고    scopus 로고
    • Complete nucleotide sequence of the Cryptomeriajaponica D. Don. chloroplast genome and comparative chloroplast genomics: Diversified genomic structure of coniferousspecies
    • Hirao, T., A. Watanabe, M. Kurita, T. Kondo, and K. Takata. 2008. Complete nucleotide sequence of the Cryptomeriajaponica D. Don. chloroplast genome and comparative chloroplast genomics: diversified genomic structure of coniferousspecies. BMC Plant Biol. 8: 70.
    • (2008) BMC Plant Biol , vol.8 , pp. 70
    • Hirao, T.1    Watanabe, A.2    Kurita, M.3    Kondo, T.4    Takata, K.5
  • 10
    • 84864279851 scopus 로고    scopus 로고
    • Molecular adaptation of rbcL in the heterophyllous aquatic plant Potamogeton
    • Iida, S., A. Miyagi, S. Aoki, M. Ito, Y. Kadono, and K. Kosuge. 2009. Molecular adaptation of rbcL in the heterophyllous aquatic plant Potamogeton. PLoS ONE 4: e4633.
    • (2009) PLoS ONE , vol.4
    • Iida, S.1    Miyagi, A.2    Aoki, S.3    Ito, M.4    Kadono, Y.5    Kosuge, K.6
  • 11
    • 34249811509 scopus 로고    scopus 로고
    • Widespread positive selection in the photosynthetic Rubisco enzyme
    • Kapralov, M.V. and D.A. Filatov. 2007. Widespread positive selection in the photosynthetic Rubisco enzyme. BMC Evol. Biol. 7: 73.
    • (2007) BMC Evol. Biol , vol.7 , pp. 73
    • Kapralov, M.V.1    Filatov, D.A.2
  • 12
    • 11844307195 scopus 로고    scopus 로고
    • Altered intersubunit interactions in crystal structures of catalytically compromised ribulose-1,5-bisphosphate carboxylase/oxygenase
    • Karkehabadi, S., T.C. Taylor, R.J. Spreitzer, and I. Andersson. 2005. Altered intersubunit interactions in crystal structures of catalytically compromised ribulose-1,5-bisphosphate carboxylase/oxygenase. Biochemistry 44: 113-120.
    • (2005) Biochemistry , vol.44 , pp. 113-120
    • Karkehabadi, S.1    Taylor, T.C.2    Spreitzer, R.J.3    Andersson, I.4
  • 13
    • 33645721697 scopus 로고    scopus 로고
    • Cysteines 449 and 459 modulate the reduction-oxidation conformational changes of ribulose 1,5-bisphosphate carboxylase/oxygenase and the translocation of the enzyme to membranes during stress
    • Marin-Navarro, J. and J. Moreno. 2006. Cysteines 449 and 459 modulate the reduction-oxidation conformational changes of ribulose 1,5-bisphosphate carboxylase/oxygenase and the translocation of the enzyme to membranes during stress. Plant Cell Environ. 29: 898-908.
    • (2006) Plant Cell Environ , vol.29 , pp. 898-908
    • Marin-Navarro, J.1    Moreno, J.2
  • 14
    • 0034982702 scopus 로고    scopus 로고
    • Estimating the influence of selection on the variable amino acid sites of the cytochrome b protein functional domains
    • McClellan, D.A. and K.G. McCracken. 2001. Estimating the influence of selection on the variable amino acid sites of the cytochrome b protein functional domains. Mol. Biol. Evol. 18: 917-925.
    • (2001) Mol. Biol. Evol , vol.18 , pp. 917-925
    • McClellan, D.A.1    McCracken, K.G.2
  • 15
  • 16
    • 0037737982 scopus 로고    scopus 로고
    • Evidence for the adaptive evolution of the carbon fixation gene rbcL during diversification in temperature tolerance of a clade of hot spring cyanobacteria
    • Miller, S.R. 2003. Evidence for the adaptive evolution of the carbon fixation gene rbcL during diversification in temperature tolerance of a clade of hot spring cyanobacteria. Mol. Ecol. 12: 1237-1246.
    • (2003) Mol. Ecol , vol.12 , pp. 1237-1246
    • Miller, S.R.1
  • 18
    • 33748594712 scopus 로고    scopus 로고
    • Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: Contrasting matK, trnT-F and rbcL in basal angiosperms
    • Müller, K.F., T. Borsch, and K.W. Hilu. 2006. Phylogenetic utility of rapidly evolving DNA at high taxonomical levels: contrasting matK, trnT-F and rbcL in basal angiosperms. Mol. Phylogenet. Evol. 41: 99-117.
    • (2006) Mol. Phylogenet. Evol , vol.41 , pp. 99-117
    • Müller, K.F.1    Borsch, T.2    Hilu, K.W.3
  • 19
    • 66149086564 scopus 로고    scopus 로고
    • Reliabilities of identifying positive selection by the branch-site and the site-prediction methods
    • Nozawa, M., Y. Suzuki, and M. Nei. 2009. Reliabilities of identifying positive selection by the branch-site and the site-prediction methods. Proc. Natl. Acad. Sci. USA 106: 6700-6705.
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 6700-6705
    • Nozawa, M.1    Suzuki, Y.2    Nei, M.3
  • 20
    • 0034714290 scopus 로고    scopus 로고
    • Activase region on chloroplast Ribulose-1,5-bisphosphate carboxylase/oxygenase
    • Ott, C.M., B.D. Smith, A.R. Jr. Portis, and R.J. Spreitzer. 2000. Activase region on chloroplast Ribulose-1,5-bisphosphate carboxylase/oxygenase. J. Biol. Chem. 275: 26241-26244.
    • (2000) J. Biol. Chem , vol.275 , pp. 26241-26244
    • Ott, C.M.1    Smith, B.D.2    Portis Jr., A.R.3    Spreitzer, R.J.4
  • 21
    • 63649121061 scopus 로고    scopus 로고
    • Genotype-specific regulation of cold-responsive genes in cypress (Cupressus sempervirens L.)
    • Pedron, L., P. Baldi, A.M. Hietaletala and N. La Porta. 2009. Genotype-specific regulation of cold-responsive genes in cypress (Cupressus sempervirens L.). Gene 437: 45-53.
    • (2009) Gene , vol.437 , pp. 45-53
    • Pedron, L.1    Baldi, P.2    Hiet-aletala, A.M.3    la Porta, N.4
  • 22
    • 0036009361 scopus 로고    scopus 로고
    • Variation in the k(cat) of Rubisco in C(3) and C(4) plants and some implications for photosynthetic performance at high and low temperature
    • Sage, R.F. 2002. Variation in the k(cat) of Rubisco in C(3) and C(4) plants and some implications for photosynthetic performance at high and low temperature. J. Exp. Bot. 53: 609-620.
    • (2002) J. Exp. Bot , vol.53 , pp. 609-620
    • Sage, R.F.1
  • 25
    • 28044454726 scopus 로고    scopus 로고
    • Phylogenetic engineering at an interface between large and small subunits imparts landplant kinetic properties to algal Rubisco
    • Spreitzer, R.J., S.R. Peddi, and S. Satagopan. 2005. Phylogenetic engineering at an interface between large and small subunits imparts landplant kinetic properties to algal Rubisco. Proc. Natl. Acad. Sci. USA 102: 17225-17230.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 17225-17230
    • Spreitzer, R.J.1    Peddi, S.R.2    Satagopan, S.3
  • 26
    • 0037001967 scopus 로고    scopus 로고
    • RUBISCO: Structure, regulatory interactions, and possibilities for a better enzyme
    • Spreitzer, R.J. and M.E. Salvucci. 2002. RUBISCO: structure, regulatory interactions, and possibilities for a better enzyme. Annu. Rev. Plant Biol. 53: 449-475.
    • (2002) Annu. Rev. Plant Biol , vol.53 , pp. 449-475
    • Spreitzer, R.J.1    Salvucci, M.E.2
  • 27
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24: 1596-1599.
    • (2007) Mol. Biol. Evol , vol.24 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 28
    • 0031592468 scopus 로고    scopus 로고
    • The structure of the complex between rubisco and its natural substrate ribulose 1,5-bisphosphate
    • Taylor, T.C. and I. Andersson. 1997. The structure of the complex between rubisco and its natural substrate ribulose 1,5-bisphosphate. J. Mol. Biol. 265: 432-444.
    • (1997) J. Mol. Biol , vol.265 , pp. 432-444
    • Taylor, T.C.1    Andersson, I.2
  • 29
    • 0030464070 scopus 로고    scopus 로고
    • A common structural basis for the inhibition of ribulose 1,5-bisphosphate carboxylase by 4-carboxyarabinitol 1,5-bisphosphate and xylulose 1,5-bisphosphate
    • Taylor, T.C., M. D. Fothergill, and I. Andersson. 1996. A common structural basis for the inhibition of ribulose 1,5-bisphosphate carboxylase by 4-carboxyarabinitol 1,5-bisphosphate and xylulose 1,5-bisphosphate. J. Biol. Chem. 271: 32894-32899.
    • (1996) J. Biol. Chem , vol.271 , pp. 32894-32899
    • Taylor, T.C.1    Fothergill, M.D.2    Andersson, I.3
  • 30
    • 49649087976 scopus 로고    scopus 로고
    • Thermal acclimation of photosynthesis in black spruce [Picea mariana (Mill.) B.S.P.]
    • Way, D.A. and R.F. Sage. 2008. Thermal acclimation of photosynthesis in black spruce [Picea mariana (Mill.) B.S.P.]. Plant Cell Environ. 31: 1250-1262.
    • (2008) Plant Cell Environ , vol.31 , pp. 1250-1262
    • Way, D.A.1    Sage, R.F.2
  • 31
    • 0043123111 scopus 로고    scopus 로고
    • RevTrans: Multiple alignment of coding DNA from aligned amino acid sequences
    • Wernersson, R. and A.G. Pedersen. 2003. RevTrans: Multiple alignment of coding DNA from aligned amino acid sequences. Nucl. Acid. Res. 31: 3537-3539.
    • (2003) Nucl. Acid. Res , vol.31 , pp. 3537-3539
    • Wernersson, R.1    Pedersen, A.G.2
  • 33
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: A program package for phylogenetic analysis by maximum likelihood
    • Yang, Z. 2007. PAML 4: a program package for phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24: 1586-1591.
    • (2007) Mol. Biol. Evol , vol.24 , pp. 1586-1591
    • Yang, Z.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.