메뉴 건너뛰기




Volumn 63, Issue 6, 2014, Pages 862-878

Mitochondrial phylogenomics of early land plants: Mitigating the effects of saturation, compositional heterogeneity, and codon-usage bias

Author keywords

Compositional heterogeneity; Early land plants; Evolutionary saturation; Mitochondrial genome; Phylogenomics; Synonymous codon usage bias

Indexed keywords

ALGAE; ANTHOCEROTOPHYTA; BRYOPHYTA; BRYOPHYTES; EMBRYOPHYTA; MARCHANTIOPHYTA; STREPTOPHYTA; TRACHEOPHYTA;

EID: 84909618628     PISSN: 10635157     EISSN: 1076836X     Source Type: Journal    
DOI: 10.1093/sysbio/syu049     Document Type: Article
Times cited : (103)

References (133)
  • 1
    • 77954272855 scopus 로고    scopus 로고
    • TranslatorX: Multiple alignment of nucleotide sequences guided by amino acid translations
    • Abascal F., Zardoya R., Telford M.J. 2010. TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations. Nucleic Acids Res. 38:W7-W13.
    • (2010) Nucleic Acids Res. , vol.38 , pp. W7-W13
    • Abascal, F.1    Zardoya, R.2    Telford, M.J.3
  • 2
    • 0029974748 scopus 로고    scopus 로고
    • Model of amino acid substitution in proteins encoded by mitochondrial DNA
    • Adachi J., Hasegawa M. 1996. Model of amino acid substitution in proteins encoded by mitochondrial DNA. J. Mol. Evol. 42:459-468.
    • (1996) J. Mol. Evol. , vol.42 , pp. 459-468
    • Adachi, J.1    Hasegawa, M.2
  • 3
    • 0016355478 scopus 로고
    • A newlook at the statistical model identification
    • Akaike H. 1974. A newlook at the statistical model identification. IEEE Trans. Automat. Control 19:716-723.
    • (1974) IEEE Trans. Automat. Control , vol.19 , pp. 716-723
    • Akaike, H.1
  • 6
    • 84871755351 scopus 로고    scopus 로고
    • Codon usage bias: Causative factors, quantification methods and genome-wide patterns: With emphasis on insect genomes
    • Behura S.K., Severson D.W. 2013. Codon usage bias: causative factors, quantification methods and genome-wide patterns: with emphasis on insect genomes. Biol. Rev. 88:49-61.
    • (2013) Biol. Rev. , vol.88 , pp. 49-61
    • Behura, S.K.1    Severson, D.W.2
  • 7
    • 0037819441 scopus 로고    scopus 로고
    • Widespread horizontal transfer of mitochondrial genes in flowering plants
    • Bergthorsson U., Adams K.L., Thomason B., Palmer J.D. 2003. Widespread horizontal transfer of mitochondrial genes in flowering plants. Nature 424:197-201.
    • (2003) Nature , vol.424 , pp. 197-201
    • Bergthorsson, U.1    Adams, K.L.2    Thomason, B.3    Palmer, J.D.4
  • 8
    • 11144228905 scopus 로고    scopus 로고
    • Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella
    • Bergthorsson U., Richardson A.O., Young G.J., Goertzen L.R., Palmer J.D. 2004. Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella. Proc. Natl Acad. Sci. U. S. A. 101:17747-17752.
    • (2004) Proc. Natl Acad. Sci. U. S. A. , vol.101 , pp. 17747-17752
    • Bergthorsson, U.1    Richardson, A.O.2    Young, G.J.3    Goertzen, L.R.4    Palmer, J.D.5
  • 9
    • 47249122561 scopus 로고    scopus 로고
    • A site-and time-heterogeneous model of amino acid replacement
    • Blanquart S., Lartillot N. 2008. A site-and time-heterogeneous model of amino acid replacement. Mol. Biol. Evol. 25:842-858.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 842-858
    • Blanquart, S.1    Lartillot, N.2
  • 10
    • 84989491914 scopus 로고
    • Summary of green plant phylogeny and classification
    • Bremer K. 1985. Summary of green plant phylogeny and classification. Cladistics 1:369-385.
    • (1985) Cladistics , vol.1 , pp. 369-385
    • Bremer, K.1
  • 11
    • 37249003697 scopus 로고    scopus 로고
    • The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics
    • Brown J.M., Lemmon A.R. 2007. The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics. Syst. Biol. 56:643-655.
    • (2007) Syst. Biol. , vol.56 , pp. 643-655
    • Brown, J.M.1    Lemmon, A.R.2
  • 12
    • 0036623259 scopus 로고    scopus 로고
    • Model misspecification and probabilistic tests of topology: Evidence from empirical data sets
    • Buckley T.R. 2002. Model misspecification and probabilistic tests of topology: evidence from empirical data sets. Syst. Biol. 51:509-523.
    • (2002) Syst. Biol. , vol.51 , pp. 509-523
    • Buckley, T.R.1
  • 13
    • 84863338313 scopus 로고    scopus 로고
    • Inferring the higher-order phylogeny of mosses (Bryophyta) and relatives using a large, multigene plastid data set
    • Chang Y., Graham S.W. 2011. Inferring the higher-order phylogeny of mosses (Bryophyta) and relatives using a large, multigene plastid data set. Am. J. Bot. 98:839-849.
    • (2011) Am. J. Bot. , vol.98 , pp. 839-849
    • Chang, Y.1    Graham, S.W.2
  • 14
    • 39749142161 scopus 로고    scopus 로고
    • The mitochondrial genome of the gymnosperm Cycas taitungensis contains a novel family of short interspersed elements, Bpu sequences, and abundant RNA editing sites
    • Chaw S.M., Shih A.C., Wang D., Wu Y.W., Liu S.M., Chou T.Y. 2008. The mitochondrial genome of the gymnosperm Cycas taitungensis contains a novel family of short interspersed elements, Bpu sequences, and abundant RNA editing sites. Mol. Biol. Evol. 25:603-615.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 603-615
    • Chaw, S.M.1    Shih, A.C.2    Wang, D.3    Wu, Y.W.4    Liu, S.M.5    Chou, T.Y.6
  • 15
    • 84902994618 scopus 로고    scopus 로고
    • Analyses of charophyte chloroplast genomes help characterize the ancestral chloroplast genome of land plants
    • Civáň P., Foster P.G., Embley T.M., Séneca A., Cox C.J. 2014. Analyses of charophyte chloroplast genomes help characterize the ancestral chloroplast genome of land plants. Genome Biol. Evol. 6: 897-911.
    • (2014) Genome Biol. Evol. , vol.6 , pp. 897-911
    • Civáň, P.1    Foster, P.G.2    Embley, T.M.3    Séneca, A.4    Cox, C.J.5
  • 17
    • 84894600564 scopus 로고    scopus 로고
    • Conflicting phylogenies for early land plants are caused by composition biases among synonymous substitutions
    • Cox C.J., Li B., Foster P.G., Embley T.M., Civáň P. 2014. Conflicting phylogenies for early land plants are caused by composition biases among synonymous substitutions. Syst. Biol. 63:272-279.
    • (2014) Syst. Biol. , vol.63 , pp. 272-279
    • Cox, C.J.1    Li, B.2    Foster, P.G.3    Embley, T.M.4    Civáň, P.5
  • 18
    • 84890055562 scopus 로고    scopus 로고
    • Morphology and classification of the Marchantiophyta
    • Goffinet B., Shaw A.J., editors. Cambridge (UK): Cambridge University Press
    • nd ed. Cambridge (UK): Cambridge University Press. p. 1-54.
    • (2009) nd Ed. , pp. 1-54
    • Crandall-Stotler, B.1    Stotler, R.E.2    Long, D.G.3
  • 19
    • 77954403053 scopus 로고    scopus 로고
    • BMGE (Block Mapping and Gathering with Entropy): A new software for selection of phylogenetic informative regions from multiple sequence alignments
    • Criscuolo A., Gribaldo S. 2010. BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments. BMC Evol. Biol. 10:210.
    • (2010) BMC Evol. Biol. , vol.10 , pp. 210
    • Criscuolo, A.1    Gribaldo, S.2
  • 20
    • 80053446686 scopus 로고    scopus 로고
    • ReplacementMatrix: A web server for maximum-likelihood estimation of amino acid replacement rate matrices
    • Dang C.C., Lefort V., Le V.S., Le Q.S., Gascuel O. 2011. ReplacementMatrix: a web server for maximum-likelihood estimation of amino acid replacement rate matrices. Bioinformatics 27:2758-2760.
    • (2011) Bioinformatics , vol.27 , pp. 2758-2760
    • Dang, C.C.1    Lefort, V.2    Le, V.S.3    Le, Q.S.4    Gascuel, O.5
  • 21
    • 3543051830 scopus 로고    scopus 로고
    • Mauve: Multiple alignment of conserved genomic sequence with rearrangements
    • Darling A.C.E., Mau B., Blattner F.R., Perna N.T. 2004. Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res. 14:1394-1403.
    • (2004) Genome Res. , vol.14 , pp. 1394-1403
    • Darling, A.C.E.1    Mau, B.2    Blattner, F.R.3    Perna, N.T.4
  • 22
    • 17744394753 scopus 로고    scopus 로고
    • Phylogenomics and the reconstruction of the tree of life
    • Delsuc F., Brinkmann H., Philippe H. 2005. Phylogenomics and the reconstruction of the tree of life. Nat. Rev. Genet. 6:361-375.
    • (2005) Nat. Rev. Genet. , vol.6 , pp. 361-375
    • Delsuc, F.1    Brinkmann, H.2    Philippe, H.3
  • 23
    • 56549086194 scopus 로고    scopus 로고
    • Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants
    • Drouin G., Daoud H., Xia J. 2008. Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants. Mol. Phylogenet. Evol. 49:827-831.
    • (2008) Mol. Phylogenet. Evol. , vol.49 , pp. 827-831
    • Drouin, G.1    Daoud, H.2    Xia, J.3
  • 24
    • 0033301420 scopus 로고    scopus 로고
    • Phylogenetic relationships of land plants using mitochondrial small-subunit rDNA sequences
    • Duff R.J., Nickrent D.L. 1999. Phylogenetic relationships of land plants using mitochondrial small-subunit rDNA sequences. Am. J. Bot. 86:372-386.
    • (1999) Am. J. Bot. , vol.86 , pp. 372-386
    • Duff, R.J.1    Nickrent, D.L.2
  • 26
    • 84894413419 scopus 로고    scopus 로고
    • Cryptospores and cryptophytes reveal hidden diversity in early land floras
    • Edwards D., Morris J.L., Richardson J.B., Kenrick P. 2014. Cryptospores and cryptophytes reveal hidden diversity in early land floras. New Phytol. 202:50-78.
    • (2014) New Phytol. , vol.202 , pp. 50-78
    • Edwards, D.1    Morris, J.L.2    Richardson, J.B.3    Kenrick, P.4
  • 27
    • 78650511270 scopus 로고    scopus 로고
    • Multigene phylogeny of the green lineage reveals the origin and diversification of land plants
    • Finet C., Timme R.E., Delwiche C.F., Marlétaz F. 2010. Multigene phylogeny of the green lineage reveals the origin and diversification of land plants. Curr. Biol. 20:2217-2222.
    • (2010) Curr. Biol. , vol.20 , pp. 2217-2222
    • Finet, C.1    Timme, R.E.2    Delwiche, C.F.3    Marlétaz, F.4
  • 28
    • 84876220942 scopus 로고    scopus 로고
    • Land plant RNA editing or: Don't be fooled by plant organellar DNA sequences
    • Bock R., Knoop V., editors. Dordrecht: Springer
    • Finster S., Legen J., Qu Y., Schmitz-Linneweber C. 2012. Land plant RNA editing or: don't be fooled by plant organellar DNA sequences. In: Bock R., Knoop V., editors. Genomics of chloroplasts and mitochondria. Dordrecht: Springer. p. 293-321.
    • (2012) Genomics of Chloroplasts and Mitochondria , pp. 293-321
    • Finster, S.1    Legen, J.2    Qu, Y.3    Schmitz-Linneweber, C.4
  • 29
    • 67749108209 scopus 로고    scopus 로고
    • INDELible: A flexible simulator of biological sequence evolution
    • Fletcher W., Yang Z. 2009. INDELible: a flexible simulator of biological sequence evolution. Mol. Biol. Evol. 26:1879-1888.
    • (2009) Mol. Biol. Evol. , vol.26 , pp. 1879-1888
    • Fletcher, W.1    Yang, Z.2
  • 30
    • 3242701529 scopus 로고    scopus 로고
    • Modeling compositional heterogeneity
    • Foster P.G. 2004. Modeling compositional heterogeneity. Syst. Biol. 53:485-495.
    • (2004) Syst. Biol. , vol.53 , pp. 485-495
    • Foster, P.G.1
  • 31
    • 77949936124 scopus 로고    scopus 로고
    • Plastid genome sequencing, comparative genomics, and phylogenomics: Current status and prospects
    • Gao L., Su Y.J., Wang T. 2010. Plastid genome sequencing, comparative genomics, and phylogenomics: current status and prospects. J. Syst. Evol. 48:77-93.
    • (2010) J. Syst. Evol. , vol.48 , pp. 77-93
    • Gao, L.1    Su, Y.J.2    Wang, T.3
  • 32
    • 85130124588 scopus 로고    scopus 로고
    • Bryophyte phylogeny and the evolution of land plants: Evidence from development and ultrastructure
    • Bates J.W., Ashton N.W., Duckett J.G., editors. Leeds (UK): Maney and the British Bryological Society
    • Garbary D.J., Renzaglia K. 1998. Bryophyte phylogeny and the evolution of land plants: evidence from development and ultrastructure. In: Bates J.W., Ashton N.W., Duckett J.G., editors. Bryology for the twenty-first century. Leeds (UK): Maney and the British Bryological Society. p. 45-63.
    • (1998) Bryology for the Twenty-First Century , pp. 45-63
    • Garbary, D.J.1    Renzaglia, K.2
  • 33
    • 0027130509 scopus 로고
    • The phylogeny of land plants: A cladistic analysis based on male gametogenesis
    • Garbary D.J., Renzaglia K.S., Duckett J.G. 1993. The phylogeny of land plants: a cladistic analysis based on male gametogenesis. Plant Syst. Evol. 188:237-269.
    • (1993) Plant Syst. Evol. , vol.188 , pp. 237-269
    • Garbary, D.J.1    Renzaglia, K.S.2    Duckett, J.G.3
  • 34
    • 0002158855 scopus 로고    scopus 로고
    • Origin and phylogenetic relationships of bryophytes
    • Shaw A.J., Goffinet B., editors. Cambridge (UK): Cambridge University Press
    • Goffinet B. 2000. Origin and phylogenetic relationships of bryophytes. In: Shaw A.J., Goffinet B., editors. The biology of bryophytes. Cambridge (UK): Cambridge University Press. p. 124-149.
    • (2000) The Biology of Bryophytes , pp. 124-149
    • Goffinet, B.1
  • 35
    • 84948136797 scopus 로고    scopus 로고
    • The evolution of body formin bryophytes
    • Goffinet B., Buck W.R. 2013. The evolution of body formin bryophytes. Ann. Plant Rev. 45:51-90.
    • (2013) Ann. Plant Rev. , vol.45 , pp. 51-90
    • Goffinet, B.1    Buck, W.R.2
  • 36
    • 84927071428 scopus 로고    scopus 로고
    • Morphology, anatomy, and classification of the Bryophyta
    • Goffinet B., Shaw A.J., editors. Cambridge (UK): Cambridge University Press
    • nd ed. Cambridge (UK): Cambridge University Press. p. 55-138.
    • (2009) nd Ed. , pp. 55-138
    • Goffinet, B.1    Buck, W.R.2    Shaw, A.J.3
  • 37
    • 0034351387 scopus 로고    scopus 로고
    • Likelihood-based tests of topologies in phylogenetics
    • Goldman N., Anderson J.P., Rodrigo A.G. 2000. Likelihood-based tests of topologies in phylogenetics. Syst. Biol. 49:652-670.
    • (2000) Syst. Biol. , vol.49 , pp. 652-670
    • Goldman, N.1    Anderson, J.P.2    Rodrigo, A.G.3
  • 39
    • 0020491327 scopus 로고
    • Codon usage in bacteria: Correlation with gene expressivity
    • Gouy M., Gautier C. 1982. Codon usage in bacteria: correlation with gene expressivity. Nucleic Acids Res. 10:7055-7074.
    • (1982) Nucleic Acids Res. , vol.10 , pp. 7055-7074
    • Gouy, M.1    Gautier, C.2
  • 40
  • 41
    • 0000236958 scopus 로고    scopus 로고
    • Phylogenetic relationships of bryophytes inferred from nuclear-encoded rRNA gene sequences
    • Hedderson T.A., Chapman R.L., Rootes W. 1996. Phylogenetic relationships of bryophytes inferred from nuclear-encoded rRNA gene sequences. Plant Syst. Evol. 200:213-224.
    • (1996) Plant Syst. Evol. , vol.200 , pp. 213-224
    • Hedderson, T.A.1    Chapman, R.L.2    Rootes, W.3
  • 42
    • 0001078679 scopus 로고
    • Evolution of green plants as deduced from 5S rRNA sequences
    • Hori H., Lim B.-L., Osawa S. 1985. Evolution of green plants as deduced from 5S rRNA sequences. Proc. Natl Acad. Sci. U. S. A. 82:820-823.
    • (1985) Proc. Natl Acad. Sci. U. S. A. , vol.82 , pp. 820-823
    • Hori, H.1    Lim, B.-L.2    Osawa, S.3
  • 43
    • 30744470609 scopus 로고    scopus 로고
    • Application of phylogenetic networks in evolutionary studies
    • Huson D.H., Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Mol. Biol. Evol. 23:254-267.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 254-267
    • Huson, D.H.1    Bryant, D.2
  • 45
    • 33745810231 scopus 로고    scopus 로고
    • Phylogenetic estimation under codon models can be biased by codon usage heterogeneity
    • Inagaki Y., Roger A.J. 2006. Phylogenetic estimation under codon models can be biased by codon usage heterogeneity. Mol. Phylogenet. Evol. 40:428-434.
    • (2006) Mol. Phylogenet. Evol. , vol.40 , pp. 428-434
    • Inagaki, Y.1    Roger, A.J.2
  • 46
    • 4644327551 scopus 로고    scopus 로고
    • Phylogenetic artifacts can be caused by leucine, serine, and arginine codon usage heterogeneity: Dinoflagellate plastid origins as a case study
    • Inagaki Y., Simpson A.G., Dacks J.B., Roger A.J. 2004. Phylogenetic artifacts can be caused by leucine, serine, and arginine codon usage heterogeneity: dinoflagellate plastid origins as a case study. Syst. Biol. 53:582-593.
    • (2004) Syst. Biol. , vol.53 , pp. 582-593
    • Inagaki, Y.1    Simpson, A.G.2    Dacks, J.B.3    Roger, A.J.4
  • 50
    • 0026691182 scopus 로고
    • The rapid generation of mutation data matrices from protein sequences
    • Jones D.T., Taylor W.R., Thornton J.M. 1992. The rapid generation of mutation data matrices from protein sequences. Comput. Appl. Biosci. 8:275-282.
    • (1992) Comput. Appl. Biosci. , vol.8 , pp. 275-282
    • Jones, D.T.1    Taylor, W.R.2    Thornton, J.M.3
  • 53
    • 13744252890 scopus 로고    scopus 로고
    • MAFFT version 5: Improvement in accuracy of multiple sequence alignment
    • Katoh K., Kuma K.-I., Toh H., Miyata T. 2005. MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res. 33:511-518.
    • (2005) Nucleic Acids Res. , vol.33 , pp. 511-518
    • Katoh, K.1    Kuma, K.-I.2    Toh, H.3    Miyata, T.4
  • 54
    • 33645816587 scopus 로고    scopus 로고
    • Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified
    • Keane T.M., Creevey C.J., Pentony M.M., Naughton T.J., Mclnerney J.O. 2006. Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified. BMC Evol. Biol. 6:29.
    • (2006) BMC Evol. Biol. , vol.6 , pp. 29
    • Keane, T.M.1    Creevey, C.J.2    Pentony, M.M.3    Naughton, T.J.4    Mclnerney, J.O.5
  • 55
    • 16344369451 scopus 로고    scopus 로고
    • Inferring phylogeny using genomic characters: A case study using land plant plastomes
    • Goffinet B, Hollowell V, Magill R, editors. St. Louis: Missouri Botanical Garden Press
    • Kelch D.G., Driskell A., Mishler B.D. 2004. Inferring phylogeny using genomic characters: a case study using land plant plastomes. In: Goffinet B, Hollowell V, Magill R, editors. Molecular systematics of bryophytes. St. Louis: Missouri Botanical Garden Press. p. 3-12.
    • (2004) Molecular Systematics of Bryophytes , pp. 3-12
    • Kelch, D.G.1    Driskell, A.2    Mishler, B.D.3
  • 58
    • 0024307824 scopus 로고
    • Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
    • Kishino H., Hasegawa M. 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J. Mol. Evol. 29:170-179.
    • (1989) J. Mol. Evol. , vol.29 , pp. 170-179
    • Kishino, H.1    Hasegawa, M.2
  • 59
    • 0035220937 scopus 로고    scopus 로고
    • A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
    • research0010
    • Knight R.D., Freeland S.J., Landweber L.F. 2001. A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Genome Biol. 2:research0010.
    • (2001) Genome Biol. , vol.2
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 60
    • 4744343662 scopus 로고    scopus 로고
    • The mitochondrial DNA of land plants: Peculiarities in phylogenetic perspective
    • Knoop V. 2004. The mitochondrial DNA of land plants: peculiarities in phylogenetic perspective. Curr. Genet. 46:123-139.
    • (2004) Curr. Genet. , vol.46 , pp. 123-139
    • Knoop, V.1
  • 61
    • 2442691520 scopus 로고    scopus 로고
    • A Bayesian mixturemodel for across-site heterogeneities in the amino-acid replacement process
    • Lartillot N., Philippe H. 2004. A Bayesian mixturemodel for across-site heterogeneities in the amino-acid replacement process. Mol. Biol. Evol. 21:1095-1109.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 1095-1109
    • Lartillot, N.1    Philippe, H.2
  • 62
    • 33644826560 scopus 로고    scopus 로고
    • Computing Bayes factors using thermodynamic integration
    • Lartillot N., Philippe H. 2006. Computing Bayes factors using thermodynamic integration. Syst. Biol. 55:195-207.
    • (2006) Syst. Biol. , vol.55 , pp. 195-207
    • Lartillot, N.1    Philippe, H.2
  • 63
    • 69949126557 scopus 로고    scopus 로고
    • PhyloBayes 3: A Bayesian software package for phylogenetic reconstruction and molecular dating
    • Lartillot N., Lepage T., Blanquart S. 2009. PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating. Bioinformatics 25:2286-2288.
    • (2009) Bioinformatics , vol.25 , pp. 2286-2288
    • Lartillot, N.1    Lepage, T.2    Blanquart, S.3
  • 64
    • 0031156914 scopus 로고    scopus 로고
    • Phylogenetic relationships of the liverworts (Hepaticae), a basal embryophyte lineage, inferred from nucleotide sequence data of the chloroplast gene rbcL
    • Lewis L.A., Mishler B.D., Vilgalys R. 1997. Phylogenetic relationships of the liverworts (Hepaticae), a basal embryophyte lineage, inferred from nucleotide sequence data of the chloroplast gene rbcL. Mol. Phylogenet. Evol. 7:377-393.
    • (1997) Mol. Phylogenet. Evol. , vol.7 , pp. 377-393
    • Lewis, L.A.1    Mishler, B.D.2    Vilgalys, R.3
  • 65
    • 19044373497 scopus 로고    scopus 로고
    • Polytomies and Bayesian phylogenetic inference
    • Lewis P.O., Holder M.T., Holsinger K.E. 2005. Polytomies and Bayesian phylogenetic inference. Syst. Biol. 54:241-253.
    • (2005) Syst. Biol. , vol.54 , pp. 241-253
    • Lewis, P.O.1    Holder, M.T.2    Holsinger, K.E.3
  • 66
    • 47249090871 scopus 로고    scopus 로고
    • Optimal data partitioning and a test case for ray-finned fishes (Actinopterygii) based on ten nuclear loci
    • Li C., Lu G., Orti G. 2008. Optimal data partitioning and a test case for ray-finned fishes (Actinopterygii) based on ten nuclear loci. Syst. Biol. 57:519-539.
    • (2008) Syst. Biol. , vol.57 , pp. 519-539
    • Li, C.1    Lu, G.2    Orti, G.3
  • 67
    • 11044232003 scopus 로고    scopus 로고
    • Analysis of factors shaping codon usage in the mitochondrion genome of Oryza sativa
    • Liu Q., Feng Y., Xue Q. 2004. Analysis of factors shaping codon usage in the mitochondrion genome of Oryza sativa. Mitochondrion 4:313-320.
    • (2004) Mitochondrion , vol.4 , pp. 313-320
    • Liu, Q.1    Feng, Y.2    Xue, Q.3
  • 68
    • 80053599728 scopus 로고    scopus 로고
    • The mitochondrial genomes of the early land plants Treubia lacunosa and Anomodon rugelii: Dynamic and conservative evolution
    • Liu Y., Xue J.Y., Wang B., Li L., Qiu Y.L. 2011. The mitochondrial genomes of the early land plants Treubia lacunosa and Anomodon rugelii: dynamic and conservative evolution. PLoS One 6:e25836.
    • (2011) PLoS One , vol.6 , pp. e25836
    • Liu, Y.1    Xue, J.Y.2    Wang, B.3    Li, L.4    Qiu, Y.L.5
  • 69
    • 84873189632 scopus 로고    scopus 로고
    • Organellar genome, nuclear ribosomal DNA repeat unit, and microsatellites isolated froma small-scale of 454GS FLX sequencing on two mosses
    • Liu Y., Forrest L.L., Bainard J.D., Budke J.M., Goffinet B. 2013. Organellar genome, nuclear ribosomal DNA repeat unit, and microsatellites isolated froma small-scale of 454GS FLX sequencing on two mosses. Mol. Phylogenet. Evol. 66:1089-1094.
    • (2013) Mol. Phylogenet. Evol. , vol.66 , pp. 1089-1094
    • Liu, Y.1    Forrest, L.L.2    Bainard, J.D.3    Budke, J.M.4    Goffinet, B.5
  • 71
    • 0028361182 scopus 로고
    • Recovering evolutionary trees under a more realistic model of sequence evolution
    • Lockhart P.J., Steel M.A., Hendy M.D., Penny D. 1994. Recovering evolutionary trees under a more realistic model of sequence evolution. Mol. Biol. Evol. 11:605-612.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 605-612
    • Lockhart, P.J.1    Steel, M.A.2    Hendy, M.D.3    Penny, D.4
  • 73
    • 0029863292 scopus 로고    scopus 로고
    • RNA editing in bryophytes and a molecular phylogeny of land plants
    • Malek O., Lättig K., Hiesel R., Brennicke A., Knoop V. 1996. RNA editing in bryophytes and a molecular phylogeny of land plants. EMBO J. 15:1403-1411.
    • (1996) EMBO J. , vol.15 , pp. 1403-1411
    • Malek, O.1    Lättig, K.2    Hiesel, R.3    Brennicke, A.4    Knoop, V.5
  • 74
    • 38449093214 scopus 로고    scopus 로고
    • Phylogenetic systematics and biogeography of hummingbirds: Bayesian and maximum likelihood analyses of partitioned data and selection of an appropriate partitioning strategy
    • McGuire J.A., Witt C.C., Altshuler D.L., Remsen J. 2007. Phylogenetic systematics and biogeography of hummingbirds: Bayesian and maximum likelihood analyses of partitioned data and selection of an appropriate partitioning strategy. Syst. Biol. 56:837-856.
    • (2007) Syst. Biol. , vol.56 , pp. 837-856
    • McGuire, J.A.1    Witt, C.C.2    Altshuler, D.L.3    Remsen, J.4
  • 75
    • 0031851853 scopus 로고    scopus 로고
    • GCUA: General codon usage analysis
    • McInerney J.O. 1998. GCUA: general codon usage analysis. Bioinformatics 14:372-373.
    • (1998) Bioinformatics , vol.14 , pp. 372-373
    • McInerney, J.O.1
  • 76
    • 0001452723 scopus 로고
    • A cladistic approach to the phylogeny of the "bryophytes"
    • Mishler B.D., Churchill S.P. 1984. A cladistic approach to the phylogeny of the "bryophytes". Brittonia 36:406-424.
    • (1984) Brittonia , vol.36 , pp. 406-424
    • Mishler, B.D.1    Churchill, S.P.2
  • 77
    • 0033844505 scopus 로고    scopus 로고
    • The evolution of base composition and phylogenetic inference
    • Mooers A.Ø., Holmes E.C. 2000. The evolution of base composition and phylogenetic inference. Trends Ecol. Evol. 15:365-369.
    • (2000) Trends Ecol. Evol. , vol.15 , pp. 365-369
    • Mooers, A.Ø.1    Holmes, E.C.2
  • 78
    • 77949494249 scopus 로고    scopus 로고
    • Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots
    • Moore M.J., Soltis P.S., Bell C.D., Burleigh J.G., Soltis D.E. 2010. Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots. Proc. Natl Acad. Sci. U. S. A. 107:4623-4628.
    • (2010) Proc. Natl Acad. Sci. U. S. A. , vol.107 , pp. 4623-4628
    • Moore, M.J.1    Soltis, P.S.2    Bell, C.D.3    Burleigh, J.G.4    Soltis, D.E.5
  • 79
    • 0003078723 scopus 로고
    • Approximate Bayesian inference with the weighted likelihood bootstrap
    • Newton M.A., Raftery A.E. 1994. Approximate Bayesian inference with the weighted likelihood bootstrap. J. R. Statist. Soc. Ser. B 56:3-48.
    • (1994) J. R. Statist. Soc. Ser. B , vol.56 , pp. 3-48
    • Newton, M.A.1    Raftery, A.E.2
  • 80
    • 0033638953 scopus 로고    scopus 로고
    • Multigene phylogeny of land plants with special reference to bryophytes and the earliest land plants
    • Nickrent D.L., Parkinson C.L., Palmer J.D., Duff R.J. 2000. Multigene phylogeny of land plants with special reference to bryophytes and the earliest land plants. Mol. Biol. Evol. 17:1885-1895.
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 1885-1895
    • Nickrent, D.L.1    Parkinson, C.L.2    Palmer, J.D.3    Duff, R.J.4
  • 81
    • 0032784470 scopus 로고    scopus 로고
    • Molecular phylogenetic analysis among bryophytes and tracheophytes based on combined data of plastid coded genes and the 18S rRNA gene
    • Nishiyama T., Kato M. 1999. Molecular phylogenetic analysis among bryophytes and tracheophytes based on combined data of plastid coded genes and the 18S rRNA gene. Mol. Biol. Evol. 16:1027-1036.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1027-1036
    • Nishiyama, T.1    Kato, M.2
  • 83
    • 0026558482 scopus 로고
    • Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA - A: A primitive form of plant mitochondrial genome
    • Oda K., Yamato K., Ohta E., Nakamura Y., Takemura M., Nozato N., Akashi K., Kanegae T., Ogura Y., Kohchi T., Ohyama, K. 1992. Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA - a: A primitive form of plant mitochondrial genome. J. Mol. Biol. 223:1-7.
    • (1992) J. Mol. Biol. , vol.223 , pp. 1-7
    • Oda, K.1    Yamato, K.2    Ohta, E.3    Nakamura, Y.4    Takemura, M.5    Nozato, N.6    Akashi, K.7    Kanegae, T.8    Ogura, Y.9    Kohchi, T.10    Ohyama, K.11
  • 84
    • 0024259002 scopus 로고
    • Plant mitochondrial DNA evolved rapidly in structure, but slowly in sequence
    • Palmer J.D., Herbon L.A. 1988. Plant mitochondrial DNA evolved 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
  • 86
    • 0032874259 scopus 로고    scopus 로고
    • The rooting of the universal tree of life is not reliable
    • Philippe H., Forterre P. 1999. The rooting of the universal tree of life is not reliable. J. Mol. Evol. 49:509-523.
    • (1999) J. Mol. Evol. , vol.49 , pp. 509-523
    • Philippe, H.1    Forterre, P.2
  • 87
    • 78650304100 scopus 로고    scopus 로고
    • Synonymous but not the same: The causes and consequences of codon bias
    • Plotkin J.B., Kudla G. 2011. Synonymous but not the same: the causes and consequences of codon bias. Nat. Rev. Genet. 12:32-42.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 32-42
    • Plotkin, J.B.1    Kudla, G.2
  • 88
    • 56849112458 scopus 로고    scopus 로고
    • Phylogeny and evolution of charophytic algae and land plants
    • Qiu Y.L. 2008. Phylogeny and evolution of charophytic algae and land plants. J. Syst. Evol. 46:287-306.
    • (2008) J. Syst. Evol. , vol.46 , pp. 287-306
    • Qiu, Y.L.1
  • 89
    • 0032514486 scopus 로고    scopus 로고
    • The gain of three mitochondrial introns identifies liverworts as the earliest land plants
    • Qiu Y.L., Cho Y., Cox J.C., Palmer J.D. 1998. The gain of three mitochondrial introns identifies liverworts as the earliest land plants. Nature 394:671-674.
    • (1998) Nature , vol.394 , pp. 671-674
    • Qiu, Y.L.1    Cho, Y.2    Cox, J.C.3    Palmer, J.D.4
  • 92
  • 94
    • 78049317316 scopus 로고    scopus 로고
    • Utility of a large, multigene plastid data set in inferring higher-order relationships in ferns and relatives (monilophytes)
    • Rai H.S., Graham S.W. 2010. Utility of a large, multigene plastid data set in inferring higher-order relationships in ferns and relatives (monilophytes). Am. J. Bot. 97:1444-1456.
    • (2010) Am. J. Bot. , vol.97 , pp. 1444-1456
    • Rai, H.S.1    Graham, S.W.2
  • 95
    • 0030928378 scopus 로고    scopus 로고
    • Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
    • Rambaut A., Grass N.C. 1997. Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees. Comput. Appl. Biosci. 13:235-238.
    • (1997) Comput. Appl. Biosci. , vol.13 , pp. 235-238
    • Rambaut, A.1    Grass, N.C.2
  • 98
    • 84927045893 scopus 로고    scopus 로고
    • New insights into morphology, anatomy, and systematics of hornworts
    • Goffinet B., Shaw A.J., editors. Cambridge (UK): Cambridge University Press
    • nd ed. Cambridge (UK): Cambridge University Press. p. 139-171.
    • (2009) nd Ed. , pp. 139-171
    • Renzaglia, K.S.1    Villarreal, J.C.2    Duff, R.J.3
  • 100
    • 0242365676 scopus 로고    scopus 로고
    • Genome-scale approaches to resolving incongruence in molecular phylogenies
    • Rokas A., Williams B.L., King N., Carroll S.B. 2003. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 425:798-804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.L.2    King, N.3    Carroll, S.B.4
  • 102
    • 84871849373 scopus 로고    scopus 로고
    • Serine codon-usage bias in deep phylogenomics: Pancrustacean relationships as a case study
    • Rota-Stabelli O., Lartillot N., Philippe H., Pisani D. 2013. Serine codon-usage bias in deep phylogenomics: pancrustacean relationships as a case study. Syst. Biol. 62:121-133.
    • (2013) Syst. Biol. , vol.62 , pp. 121-133
    • Rota-Stabelli, O.1    Lartillot, N.2    Philippe, H.3    Pisani, D.4
  • 103
    • 84897584050 scopus 로고    scopus 로고
    • From algae to angiosperms-inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes
    • Ruhfel B.R., Gitzendanner M.A., Soltis P.S., Soltis D.E., Burleigh J.G. 2014. From algae to angiosperms-inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes. BMC Evol. Biol. 14:23.
    • (2014) BMC Evol. Biol. , vol.14 , pp. 23
    • Ruhfel, B.R.1    Gitzendanner, M.A.2    Soltis, P.S.3    Soltis, D.E.4    Burleigh, J.G.5
  • 104
    • 0036205377 scopus 로고    scopus 로고
    • TREEPUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing
    • Schmidt H.A., Strimmer K., Vingron M., von Haeseler A. 2002. TREEPUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18:502-504.
    • (2002) Bioinformatics , vol.18 , pp. 502-504
    • Schmidt, H.A.1    Strimmer, K.2    Vingron, M.3    Von Haeseler, A.4
  • 105
    • 85006614419 scopus 로고
    • Estimating the dimension of a model
    • Schwarz G. 1978. Estimating the dimension of a model. Ann. Statist. 6:461-464.
    • (1978) Ann. Statist. , vol.6 , pp. 461-464
    • Schwarz, G.1
  • 107
    • 0036623258 scopus 로고    scopus 로고
    • An approximately unbiased test of phylogenetic tree selection
    • Shimodaira H. 2002. An approximately unbiased test of phylogenetic tree selection. Syst. Biol. 51:492-508.
    • (2002) Syst. Biol. , vol.51 , pp. 492-508
    • Shimodaira, H.1
  • 108
    • 0032766857 scopus 로고    scopus 로고
    • Multiple comparisons of log-likelihoods with applications to phylogenetic inference
    • Shimodaira H., Hasegawa M. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16:1114-1116.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1114-1116
    • Shimodaira, H.1    Hasegawa, M.2
  • 109
    • 0036139287 scopus 로고    scopus 로고
    • CONSEL: For assessing the confidence of phylogenetic tree selection
    • Shimodaira H., Hasegawa M. 2001. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17:1246-1247.
    • (2001) Bioinformatics , vol.17 , pp. 1246-1247
    • Shimodaira, H.1    Hasegawa, M.2
  • 110
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688-2690.
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 111
    • 11144317388 scopus 로고    scopus 로고
    • Adaptive basis of codon usage in the haploid moss Physcomitrella patens
    • Stenøien H.K. 2005. Adaptive basis of codon usage in the haploid moss Physcomitrella patens. Heredity 94:87-93.
    • (2005) Heredity , vol.94 , pp. 87-93
    • Stenøien, H.K.1
  • 112
    • 0031002417 scopus 로고    scopus 로고
    • Likelihood-mapping: A simple method to visualize phylogenetic content of a sequence alignment
    • Strimmer K., von Haeseler A. 1997. Likelihood-mapping: a simple method to visualize phylogenetic content of a sequence alignment. Proc. Natl Acad. Sci. U. S. A. 94:6815-6819.
    • (1997) Proc. Natl Acad. Sci. U. S. A. , vol.94 , pp. 6815-6819
    • Strimmer, K.1    Von Haeseler, A.2
  • 114
    • 34547489084 scopus 로고    scopus 로고
    • Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
    • Talavera G., Castresana J. 2007. Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol. 56:564-577.
    • (2007) Syst. Biol. , vol.56 , pp. 564-577
    • Talavera, G.1    Castresana, J.2
  • 115
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees
    • Tamura K., Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.
    • (1993) Mol. Biol. Evol. , vol.10 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 116
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
    • Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28:2731-2739.
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 2731-2739
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5    Kumar, S.6
  • 117
    • 17644399464 scopus 로고    scopus 로고
    • Life history biology of early land plants: Deciphering the gametophyte phase
    • Taylor T.N., Kerp H., Hass H. 2005. Life history biology of early land plants: deciphering the gametophyte phase. Proc. Natl Acad. Sci. U. S. A. 102:5892-5897.
    • (2005) Proc. Natl Acad. Sci. U. S. A. , vol.102 , pp. 5892-5897
    • Taylor, T.N.1    Kerp, H.2    Hass, H.3
  • 118
    • 33847669179 scopus 로고    scopus 로고
    • The mitochondrial genome of the moss Physcomitrella patens sheds new light on mitochondrial evolution in land plants
    • Terasawa K., Odahara M., Kabeya Y., Kikugawa T., Sekine Y., Fujiwara M., Sato N. 2007. The mitochondrial genome of the moss Physcomitrella patens sheds new light on mitochondrial evolution in land plants. Mol. Biol. Evol. 24:699-709.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 699-709
    • Terasawa, K.1    Odahara, M.2    Kabeya, Y.3    Kikugawa, T.4    Sekine, Y.5    Fujiwara, M.6    Sato, N.7
  • 119
    • 84892491452 scopus 로고    scopus 로고
    • Tracing the evolution of streptophyte algae and their mitochondrial genome
    • Turmel M., Otis C., Lemieux C. 2013. Tracing the evolution of streptophyte algae and their mitochondrial genome. Genome Biol. Evol. 5:1817-1835.
    • (2013) Genome Biol. Evol. , vol.5 , pp. 1817-1835
    • Turmel, M.1    Otis, C.2    Lemieux, C.3
  • 120
    • 71149092653 scopus 로고    scopus 로고
    • The complete mitochondrial genome sequence of the liverwort Pleurozia purpurea reveals extremely conservative mitochondrial genome evolution in liverworts
    • Wang B., Xue J., Li L., Liu Y., Qiu Y.L. 2009. The complete mitochondrial genome sequence of the liverwort Pleurozia purpurea reveals extremely conservative mitochondrial genome evolution in liverworts. Curr. Genet. 55:601-609.
    • (2009) Curr. Genet. , vol.55 , pp. 601-609
    • Wang, B.1    Xue, J.2    Li, L.3    Liu, Y.4    Qiu, Y.L.5
  • 121
    • 78649568720 scopus 로고    scopus 로고
    • Complex mutation and weak selection together determined the codon usage bias in bryophyte mitochondrial genomes
    • Wang B., Liu J., Jin L., Feng X.Y., Chen J.Q. 2010. Complex mutation and weak selection together determined the codon usage bias in bryophyte mitochondrial genomes. J. Integr. Plant Biol. 52:1100-1108.
    • (2010) J. Integr. Plant Biol. , vol.52 , pp. 1100-1108
    • Wang, B.1    Liu, J.2    Jin, L.3    Feng, X.Y.4    Chen, J.Q.5
  • 125
    • 0023462635 scopus 로고
    • Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs
    • Wolfe K.H., Li W.H., Sharp P.M. 1987. Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. Proc. Natl Acad. Sci. U. S. A. 84:9054-9058.
    • (1987) Proc. Natl Acad. Sci. U. S. A. , vol.84 , pp. 9054-9058
    • Wolfe, K.H.1    Li, W.H.2    Sharp, P.M.3
  • 126
    • 0141591517 scopus 로고    scopus 로고
    • Horizontal gene transfer from flowering plants to Gnetum
    • Won H., Renner S.S. 2003. Horizontal gene transfer from flowering plants to Gnetum. Proc. Natl Acad. Sci. U. S. A. 100:10824-10829.
    • (2003) Proc. Natl Acad. Sci. U. S. A. , vol.100 , pp. 10824-10829
    • Won, H.1    Renner, S.S.2
  • 129
    • 0028961933 scopus 로고
    • On the use of nucleic acid sequences to infer early branchings in the tree of life
    • Yang Z., Roberts D. 1995. On the use of nucleic acid sequences to infer early branchings in the tree of life. Mol. Biol. Evol. 12:451-458.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 451-458
    • Yang, Z.1    Roberts, D.2
  • 130
    • 82255160638 scopus 로고    scopus 로고
    • An efficient procedure for plant organellar genome assembly, based on whole genome data from the 454 GS FLX sequencing platform
    • Zhang T., Zhang X., Hu S., Yu J. 2011. An efficient procedure for plant organellar genome assembly, based on whole genome data from the 454 GS FLX sequencing platform. Plant Methods 7:38.
    • (2011) Plant Methods , vol.7 , pp. 38
    • Zhang, T.1    Zhang, X.2    Hu, S.3    Yu, J.4
  • 131
    • 84883284590 scopus 로고    scopus 로고
    • Origin of land plants using the multispecies coalescent model
    • Zhong B., Liu L., Yan Z., Penny D. 2013. Origin of land plants using the multispecies coalescent model. Trends Plant Sci. 18:492-495.
    • (2013) Trends Plant Sci. , vol.18 , pp. 492-495
    • Zhong, B.1    Liu, L.2    Yan, Z.3    Penny, D.4
  • 132
    • 84891816782 scopus 로고    scopus 로고
    • Streptophyte algae and the origin of land plants revisited using heterogeneous models with three new algal chloroplast genomes
    • Zhong B., Xi Z., Goremykin V.V., Fong R., Mclenachan P.A., Novis P.M., Davis C.C., Penny D. 2014. Streptophyte algae and the origin of land plants revisited using heterogeneous models with three new algal chloroplast genomes. Mol. Biol. Evol. 31:177-183.
    • (2014) Mol. Biol. Evol. , vol.31 , pp. 177-183
    • Zhong, B.1    Xi, Z.2    Goremykin, V.V.3    Fong, R.4    Mclenachan, P.A.5    Novis, P.M.6    Davis, C.C.7    Penny, D.8
  • 133
    • 70350344794 scopus 로고    scopus 로고
    • Analysis of synonymous codon-usage patterns in different plant mitochondrial genomes
    • Zhou M., Li X. 2009. Analysis of synonymous codon-usage patterns in different plant mitochondrial genomes. Mol. Biol. Rep. 36:2039-2046.
    • (2009) Mol. Biol. Rep. , vol.36 , pp. 2039-2046
    • Zhou, M.1    Li, X.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.