메뉴 건너뛰기




Volumn 29, Issue 11, 2017, Pages 2786-2800

Coordinated functional divergence of genes after genome duplication in Arabidopsis Thaliana

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTATION; ARABIDOPSIS; BIOLOGICAL MODEL; DUPLICATE GENE; GENE DUPLICATION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE ONTOLOGY; GENETIC VARIATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; MOLECULAR EVOLUTION; PHYSIOLOGICAL STRESS; PLANT GENE; PLANT GENOME;

EID: 85037719494     PISSN: 10404651     EISSN: 1532298X     Source Type: Journal    
DOI: 10.1105/tpc.17.00531     Document Type: Article
Times cited : (43)

References (109)
  • 1
    • 33644785898 scopus 로고    scopus 로고
    • Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism. Nat. Cell Biol. 8: 249–256. Erratum
    • Abas, L., Benjamins, R., Malenica, N., Paciorek, T., Wiśniewska, J., Moulinier-Anzola, J.C., Sieberer, T., Friml, J., and Luschnig, C. (2006). Intracellular trafficking and proteolysis of the Arabidopsis auxin-efflux facilitator PIN2 are involved in root gravitropism. Nat. Cell Biol. 8: 249–256. Erratum. Nat. Cell Biol. 8: 424.
    • (2006) Nat. Cell Biol , vol.8 , pp. 424
    • Abas, L.1    Benjamins, R.2    Malenica, N.3    Paciorek, T.4    Wiśniewska, J.5    Moulinier-Anzola, J.C.6    Sieberer, T.7    Friml, J.8    Luschnig, C.9
  • 2
    • 14744277777 scopus 로고    scopus 로고
    • Polyploidy and genome evolution in plants
    • Adams, K.L., and Wendel, J.F. (2005). Polyploidy and genome evolution in plants. Curr. Opin. Plant Biol. 8: 135–141.
    • (2005) Curr. Opin. Plant Biol. , vol.8 , pp. 135-141
    • Adams, K.L.1    Wendel, J.F.2
  • 3
    • 33750858684 scopus 로고    scopus 로고
    • Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia
    • Aury, J.M., et al. (2006). Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia. Nature 444: 171–178.
    • (2006) Nature , vol.444 , pp. 171-178
    • Aury, J.M.1
  • 4
    • 84899736752 scopus 로고    scopus 로고
    • Light regulation of plant defense
    • Ballaré, C.L. (2014). Light regulation of plant defense. Annu. Rev. Plant Biol. 65: 335–363.
    • (2014) Annu. Rev. Plant Biol. , vol.65 , pp. 335-363
    • Ballaré, C.L.1
  • 5
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y., and Hochberg, Y. (1995). Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B 57: 289–300.
    • (1995) J. R. Stat. Soc. B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 7
    • 84866294456 scopus 로고    scopus 로고
    • Gene balance hypothesis: Connecting issues of dosage sensitivity across biological disciplines
    • Birchler, J.A., and Veitia, R.A. (2012). Gene balance hypothesis: connecting issues of dosage sensitivity across biological disciplines. Proc. Natl. Acad. Sci. USA 109: 14746–14753.
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109 , pp. 14746-14753
    • Birchler, J.A.1    Veitia, R.A.2
  • 8
    • 3142732892 scopus 로고    scopus 로고
    • Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution
    • Blanc, G., and Wolfe, K.H. (2004a). Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 16: 1679–1691.
    • (2004) Plant Cell , vol.16 , pp. 1679-1691
    • Blanc, G.1    Wolfe, K.H.2
  • 9
    • 3142700743 scopus 로고    scopus 로고
    • Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes
    • Blanc, G., and Wolfe, K.H. (2004b). Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16: 1667–1678.
    • (2004) Plant Cell , vol.16 , pp. 1667-1678
    • Blanc, G.1    Wolfe, K.H.2
  • 11
    • 0037783246 scopus 로고    scopus 로고
    • Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis
    • Borner, G.H.H., Lilley, K.S., Stevens, T.J., and Dupree, P. (2003). Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis. Plant Physiol. 132: 568–577.
    • (2003) Plant Physiol , vol.132 , pp. 568-577
    • Borner, G.H.H.1    Lilley, K.S.2    Stevens, T.J.3    Dupree, P.4
  • 12
    • 84871719089 scopus 로고    scopus 로고
    • CDPKs in immune and stress signaling
    • Boudsocq, M., and Sheen, J. (2013). CDPKs in immune and stress signaling. Trends Plant Sci. 18: 30–40.
    • (2013) Trends Plant Sci , vol.18 , pp. 30-40
    • Boudsocq, M.1    Sheen, J.2
  • 14
    • 84890788054 scopus 로고    scopus 로고
    • My body is a cage: Mechanisms and modulation of plant cell growth
    • Braidwood, L., Breuer, C., and Sugimoto, K. (2014). My body is a cage: mechanisms and modulation of plant cell growth. New Phytol. 201: 388–402.
    • (2014) New Phytol , vol.201 , pp. 388-402
    • Braidwood, L.1    Breuer, C.2    Sugimoto, K.3
  • 15
    • 0035478854 scopus 로고    scopus 로고
    • Random forests
    • Breiman, L. (2001). Random forests. Mach. Learn. 45: 5–32.
    • (2001) Mach. Learn. , vol.45 , pp. 5-32
    • Breiman, L.1
  • 17
    • 77950388941 scopus 로고    scopus 로고
    • Polygenic and directional regulatory evolution across pathways in Saccharomyces
    • Bullard, J.H., Mostovoy, Y., Dudoit, S., and Brem, R.B. (2010). Polygenic and directional regulatory evolution across pathways in Saccharomyces. Proc. Natl. Acad. Sci. USA 107: 5058–5063.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 5058-5063
    • Bullard, J.H.1    Mostovoy, Y.2    Dudoit, S.3    Brem, R.B.4
  • 18
    • 67650757433 scopus 로고    scopus 로고
    • TrimAl: A tool for automated alignment trimming in large-scale phylogenetic analyses
    • Capella-Gutiérrez, S., Silla-Martínez, J.M., and Gabaldón, T. (2009). trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25: 1972–1973.
    • (2009) Bioinformatics , vol.25 , pp. 1972-1973
    • Capella-Gutiérrez, S.1    Silla-Martínez, J.M.2    Gabaldón, T.3
  • 19
    • 84960427383 scopus 로고    scopus 로고
    • Information integration and communication in plant growth regulation
    • Chaiwanon, J., Wang, W., Zhu, J.Y., Oh, E., and Wang, Z.Y. (2016). Information integration and communication in plant growth regulation. Cell 164: 1257–1268.
    • (2016) Cell , vol.164 , pp. 1257-1268
    • Chaiwanon, J.1    Wang, W.2    Zhu, J.Y.3    Oh, E.4    Wang, Z.Y.5
  • 20
    • 34248328910 scopus 로고    scopus 로고
    • Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids
    • Chen, Z.J. (2007). Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annu. Rev. Plant Biol. 58: 377–406.
    • (2007) Annu. Rev. Plant Biol. , vol.58 , pp. 377-406
    • Chen, Z.J.1
  • 21
    • 75949117260 scopus 로고    scopus 로고
    • Molecular mechanisms of polyploidy and hybrid vigor
    • Chen, Z.J. (2010). Molecular mechanisms of polyploidy and hybrid vigor. Trends Plant Sci. 15: 57–71.
    • (2010) Trends Plant Sci , vol.15 , pp. 57-71
    • Chen, Z.J.1
  • 22
    • 84884678887 scopus 로고    scopus 로고
    • The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers
    • Cheng, S., et al. (2013). The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers. Plant Cell 25: 2813–2830.
    • (2013) Plant Cell , vol.25 , pp. 2813-2830
    • Cheng, S.1
  • 24
    • 44949226058 scopus 로고    scopus 로고
    • Structural and signaling networks for the polar cell growth machinery in pollen tubes
    • Cheung, A.Y., and Wu, H.M. (2008). Structural and signaling networks for the polar cell growth machinery in pollen tubes. Annu. Rev. Plant Biol. 59: 547–572.
    • (2008) Annu. Rev. Plant Biol. , vol.59 , pp. 547-572
    • Cheung, A.Y.1    Wu, H.M.2
  • 25
    • 84975889788 scopus 로고    scopus 로고
    • DEG9, a serine protease, modulates cytokinin and light signaling by regulating the level of ARABIDOPSIS RESPONSE REGULATOR 4
    • Chi, W., Li, J., He, B., Chai, X., Xu, X., Sun, X., Jiang, J., Feng, P., Zuo, J., Lin, R., Rochaix, J.D., and Zhang, L. (2016). DEG9, a serine protease, modulates cytokinin and light signaling by regulating the level of ARABIDOPSIS RESPONSE REGULATOR 4. Proc. Natl. Acad. Sci. USA 113: E3568–E3576.
    • (2016) Proc. Natl. Acad. Sci. USA , vol.113 , pp. E3568-E3576
    • Chi, W.1    Li, J.2    He, B.3    Chai, X.4    Xu, X.5    Sun, X.6    Jiang, J.7    Feng, P.8    Zuo, J.9    Lin, R.10    Rochaix, J.D.11    Zhang, L.12
  • 26
    • 33646230540 scopus 로고    scopus 로고
    • Functional partitioning of yeast co-expression networks after genome duplication
    • Conant, G.C., and Wolfe, K.H. (2006). Functional partitioning of yeast co-expression networks after genome duplication. PLoS Biol. 4: e109.
    • (2006) Plos Biol , vol.4
    • Conant, G.C.1    Wolfe, K.H.2
  • 27
    • 56549119570 scopus 로고    scopus 로고
    • Turning a hobby into a job: How duplicated genes find new functions
    • Conant, G.C., and Wolfe, K.H. (2008). Turning a hobby into a job: how duplicated genes find new functions. Nat. Rev. Genet. 9: 938–950.
    • (2008) Nat. Rev. Genet. , vol.9 , pp. 938-950
    • Conant, G.C.1    Wolfe, K.H.2
  • 28
    • 27644525170 scopus 로고    scopus 로고
    • Growth of the plant cell wall
    • Cosgrove, D.J. (2005). Growth of the plant cell wall. Nat. Rev. Mol. Cell Biol. 6: 850–861.
    • (2005) Nat. Rev. Mol. Cell Biol. , vol.6 , pp. 850-861
    • Cosgrove, D.J.1
  • 29
    • 80051752071 scopus 로고    scopus 로고
    • The pathogen-actin connection: A platform for defense signaling in plants
    • Day, B., Henty, J.L., Porter, K.J., and Staiger, C.J. (2011). The pathogen-actin connection: a platform for defense signaling in plants. Annu. Rev. Phytopathol. 49: 483–506.
    • (2011) Annu. Rev. Phytopathol. , vol.49 , pp. 483-506
    • Day, B.1    Henty, J.L.2    Porter, K.J.3    Staiger, C.J.4
  • 30
    • 84863780541 scopus 로고    scopus 로고
    • CORNET 2.0: Integrating plant coexpression, protein-protein interactions, regulatory interactions, gene associations and functional annotations
    • De Bodt, S., Hollunder, J., Nelissen, H., Meulemeester, N., and Inzé, D. (2012). CORNET 2.0: integrating plant coexpression, protein-protein interactions, regulatory interactions, gene associations and functional annotations. New Phytol. 195: 707–720.
    • (2012) New Phytol , vol.195 , pp. 707-720
    • De Bodt, S.1    Hollunder, J.2    Nelissen, H.3    Meulemeester, N.4    Inzé, D.5
  • 32
    • 79960130876 scopus 로고    scopus 로고
    • An ensemble biclustering approach for querying gene expression compendia with experimental lists
    • De Smet, R., and Marchal, K. (2011). An ensemble biclustering approach for querying gene expression compendia with experimental lists. Bioinformatics 27: 1948–1956.
    • (2011) Bioinformatics , vol.27 , pp. 1948-1956
    • De Smet, R.1    Marchal, K.2
  • 33
    • 84859890901 scopus 로고    scopus 로고
    • Redundancy and rewiring of genetic networks following genome-wide duplication events
    • De Smet, R., and Van de Peer, Y. (2012). Redundancy and rewiring of genetic networks following genome-wide duplication events. Curr. Opin. Plant Biol. 15: 168–176.
    • (2012) Curr. Opin. Plant Biol. , vol.15 , pp. 168-176
    • De Smet, R.1    Van De Peer, Y.2
  • 34
    • 82555165963 scopus 로고    scopus 로고
    • Cell polarity in plants: When two do the same, it is not the same
    • Dettmer, J., and Friml, J. (2011). Cell polarity in plants: when two do the same, it is not the same….. Curr. Opin. Cell Biol. 23: 686–696.
    • (2011) Curr. Opin. Cell Biol. , vol.23 , pp. 686-696
    • Dettmer, J.1    Friml, J.2
  • 35
    • 35348970485 scopus 로고    scopus 로고
    • GeneSrF and varSelRF: A web-based tool and R package for gene selection and classification using random forest
    • Diaz-Uriarte, R. (2007). GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest. BMC Bioinformatics 8: 328.
    • (2007) BMC Bioinformatics , vol.8 , pp. 328
    • Diaz-Uriarte, R.1
  • 36
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • Edgar, R.C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32: 1792–1797.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 37
    • 84936817684 scopus 로고    scopus 로고
    • The butterfly plant arms-race escalated by gene and genome duplications
    • Edger, P.P., et al. (2015). The butterfly plant arms-race escalated by gene and genome duplications. Proc. Natl. Acad. Sci. USA 112: 8362–8366.
    • (2015) Proc. Natl. Acad. Sci. USA , vol.112 , pp. 8362-8366
    • Edger, P.P.1
  • 38
    • 84908614289 scopus 로고    scopus 로고
    • An update on receptor-like kinase involvement in the maintenance of plant cell wall integrity
    • Engelsdorf, T., and Hamann, T. (2014). An update on receptor-like kinase involvement in the maintenance of plant cell wall integrity. Ann. Bot. 114: 1339–1347.
    • (2014) Ann. Bot. , vol.114 , pp. 1339-1347
    • Engelsdorf, T.1    Hamann, T.2
  • 40
    • 67650915748 scopus 로고    scopus 로고
    • Gene duplication and evolutionary novelty in plants
    • Flagel, L.E., and Wendel, J.F. (2009). Gene duplication and evolutionary novelty in plants. New Phytol. 183: 557–564.
    • (2009) New Phytol , vol.183 , pp. 557-564
    • Flagel, L.E.1    Wendel, J.F.2
  • 42
    • 33745610025 scopus 로고    scopus 로고
    • Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity
    • Freeling, M., and Thomas, B.C. (2006). Gene-balanced duplications, like tetraploidy, provide predictable drive to increase morphological complexity. Genome Res. 16: 805–814.
    • (2006) Genome Res , vol.16 , pp. 805-814
    • Freeling, M.1    Thomas, B.C.2
  • 44
    • 84922544816 scopus 로고    scopus 로고
    • Are tetraploids more successful? Floral signals, reproductive success and floral isolation in mixed-ploidy populations of a terrestrial orchid
    • Gross, K., and Schiestl, F.P. (2015). Are tetraploids more successful? Floral signals, reproductive success and floral isolation in mixed-ploidy populations of a terrestrial orchid. Ann. Bot. 115: 263–273.
    • (2015) Ann. Bot. , vol.115 , pp. 263-273
    • Gross, K.1    Schiestl, F.P.2
  • 46
    • 84982871958 scopus 로고    scopus 로고
    • The footprint of polygenic adaptation on stress-responsive cis-regulatory divergence in the Arabidopsis genus
    • He, F., Arce, A.L., Schmitz, G., Koornneef, M., Novikova, P., Beyer, A., and de Meaux, J. (2016). The footprint of polygenic adaptation on stress-responsive cis-regulatory divergence in the Arabidopsis genus. Mol. Biol. Evol. 33: 2088–2101.
    • (2016) Mol. Biol. Evol. , vol.33 , pp. 2088-2101
    • He, F.1    Arce, A.L.2    Schmitz, G.3    Koornneef, M.4    Novikova, P.5    Beyer, A.6    De Meaux, J.7
  • 48
    • 84953249455 scopus 로고    scopus 로고
    • The cytoskeleton and its regulation by calcium and protons
    • Hepler, P.K. (2016). The cytoskeleton and its regulation by calcium and protons. Plant Physiol. 170: 3–22.
    • (2016) Plant Physiol , vol.170 , pp. 3-22
    • Hepler, P.K.1
  • 49
    • 84880708210 scopus 로고    scopus 로고
    • Control of cell wall extensibility during pollen tube growth
    • Hepler, P.K., Rounds, C.M., and Winship, L.J. (2013). Control of cell wall extensibility during pollen tube growth. Mol. Plant 6: 998–1017.
    • (2013) Mol. Plant , vol.6 , pp. 998-1017
    • Hepler, P.K.1    Rounds, C.M.2    Winship, L.J.3
  • 50
    • 84892641918 scopus 로고    scopus 로고
    • Whole genome and tandem duplicate retention facilitated glucosinolate pathway diversification in the mustard family
    • Hofberger, J.A., Lyons, E., Edger, P.P., Chris Pires, J., and Eric Schranz, M. (2013). Whole genome and tandem duplicate retention facilitated glucosinolate pathway diversification in the mustard family. Genome Biol. Evol. 5: 2155–2173.
    • (2013) Genome Biol. Evol. , vol.5 , pp. 2155-2173
    • Hofberger, J.A.1    Lyons, E.2    Edger, P.P.3    Chris Pires, J.4    Eric Schranz, M.5
  • 51
    • 77956272960 scopus 로고    scopus 로고
    • Gene cooption and convergent evolution of oxygen transport hemoglobins in jawed and jawless vertebrates
    • Hoffmann, F.G., Opazo, J.C., and Storz, J.F. (2010). Gene cooption and convergent evolution of oxygen transport hemoglobins in jawed and jawless vertebrates. Proc. Natl. Acad. Sci. USA 107: 14274–14279.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 14274-14279
    • Hoffmann, F.G.1    Opazo, J.C.2    Storz, J.F.3
  • 53
    • 84903564815 scopus 로고    scopus 로고
    • Growth-defense tradeoffs in plants: A balancing act to optimize fitness
    • Huot, B., Yao, J., Montgomery, B.L., and He, S.Y. (2014). Growth-defense tradeoffs in plants: a balancing act to optimize fitness. Mol. Plant 7: 1267–1287.
    • (2014) Mol. Plant , vol.7 , pp. 1267-1287
    • Huot, B.1    Yao, J.2    Montgomery, B.L.3    He, S.Y.4
  • 54
  • 55
    • 0036699526 scopus 로고    scopus 로고
    • Revealing modular organization in the yeast transcriptional network
    • Ihmels, J., Friedlander, G., Bergmann, S., Sarig, O., Ziv, Y., and Barkai, N. (2002). Revealing modular organization in the yeast transcriptional network. Nat. Genet. 31: 370–377.
    • (2002) Nat. Genet. , vol.31 , pp. 370-377
    • Ihmels, J.1    Friedlander, G.2    Bergmann, S.3    Sarig, O.4    Ziv, Y.5    Barkai, N.6
  • 56
    • 84898047288 scopus 로고    scopus 로고
    • Expansion of banana (Musa acuminata) gene families involved in ethylene biosynthesis and signalling after lineage-specific whole-genome duplications
    • Jourda, C., Cardi, C., Mbéguié-A-Mbéguié, D., Bocs, S., Garsmeur, O., D’Hont, A., and Yahiaoui, N. (2014). Expansion of banana (Musa acuminata) gene families involved in ethylene biosynthesis and signalling after lineage-specific whole-genome duplications. New Phytol. 202: 986–1000.
    • (2014) New Phytol , vol.202 , pp. 986-1000
    • Jourda, C.1    Cardi, C.2    Mbéguié-A-Mbéguié, D.3    Bocs, S.4    Garsmeur, O.5    D’Hont, A.6    Yahiaoui, N.7
  • 57
    • 85019014551 scopus 로고    scopus 로고
    • Mechanisms to mitigate the trade-off between growth and defense
    • Karasov, T.L., Chae, E., Herman, J.J., and Bergelson, J. (2017). Mechanisms to mitigate the trade-off between growth and defense. Plant Cell 29: 666–680.
    • (2017) Plant Cell , vol.29 , pp. 666-680
    • Karasov, T.L.1    Chae, E.2    Herman, J.J.3    Bergelson, J.4
  • 58
    • 84869206568 scopus 로고    scopus 로고
    • The cell wall-associated kinases, WAKs, as pectin receptors
    • Kohorn, B.D., and Kohorn, S.L. (2012). The cell wall-associated kinases, WAKs, as pectin receptors. Front. Plant Sci. 3: 88.
    • (2012) Front. Plant Sci. , vol.3 , pp. 88
    • Kohorn, B.D.1    Kohorn, S.L.2
  • 60
    • 84863615537 scopus 로고    scopus 로고
    • Proteasomal degradation resolves competition between cell polarization and cellular wound healing
    • Kono, K., Saeki, Y., Yoshida, S., Tanaka, K., and Pellman, D. (2012). Proteasomal degradation resolves competition between cell polarization and cellular wound healing. Cell 150: 151–164.
    • (2012) Cell , vol.150 , pp. 151-164
    • Kono, K.1    Saeki, Y.2    Yoshida, S.3    Tanaka, K.4    Pellman, D.5
  • 61
    • 84866996105 scopus 로고    scopus 로고
    • Early embryogenesis in flowering plants: Setting up the basic body pattern
    • Lau, S., Slane, D., Herud, O., Kong, J., and Jürgens, G. (2012). Early embryogenesis in flowering plants: setting up the basic body pattern. Annu. Rev. Plant Biol. 63: 483–506.
    • (2012) Annu. Rev. Plant Biol. , vol.63 , pp. 483-506
    • Lau, S.1    Slane, D.2    Herud, O.3    Kong, J.4    Jürgens, G.5
  • 62
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: Identification of ortholog groups for eukaryotic genomes
    • Li, L., Stoeckert, C.J., Jr., and Roos, D.S. (2003). OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 13: 2178–2189.
    • (2003) Genome Res , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert, C.J.2    Roos, D.S.3
  • 63
    • 84890330381 scopus 로고    scopus 로고
    • Comparative genomics suggests that an ancestral polyploidy event leads to enhanced root nodule symbiosis in the Papilionoideae
    • Li, Q.G., Zhang, L., Li, C., Dunwell, J.M., and Zhang, Y.M. (2013). Comparative genomics suggests that an ancestral polyploidy event leads to enhanced root nodule symbiosis in the Papilionoideae. Mol. Biol. Evol. 30: 2602–2611.
    • (2013) Mol. Biol. Evol. , vol.30 , pp. 2602-2611
    • Li, Q.G.1    Zhang, L.2    Li, C.3    Dunwell, J.M.4    Zhang, Y.M.5
  • 64
    • 84960421688 scopus 로고    scopus 로고
    • Gene duplicability of core genes is highly consistent across all angiosperms
    • Li, Z., Defoort, J., Tasdighian, S., Maere, S., Van de Peer, Y., and De Smet, R. (2016). Gene duplicability of core genes is highly consistent across all angiosperms. Plant Cell 28: 326–344.
    • (2016) Plant Cell , vol.28 , pp. 326-344
    • Li, Z.1    Defoort, J.2    Tasdighian, S.3    Maere, S.4    Van De Peer, Y.5    De Smet, R.6
  • 65
    • 84938886231 scopus 로고    scopus 로고
    • At the border: The plasma membrane-cell wall continuum
    • Liu, Z., Persson, S., and Sánchez-Rodríguez, C. (2015). At the border: the plasma membrane-cell wall continuum. J. Exp. Bot. 66: 1553–1563.
    • (2015) J. Exp. Bot. , vol.66 , pp. 1553-1563
    • Liu, Z.1    Persson, S.2    Sánchez-Rodríguez, C.3
  • 67
    • 24044440971 scopus 로고    scopus 로고
    • BiNGO: A Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks
    • Maere, S., Heymans, K., and Kuiper, M. (2005b). BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21: 3448–3449.
    • (2005) Bioinformatics , vol.21 , pp. 3448-3449
    • Maere, S.1    Heymans, K.2    Kuiper, M.3
  • 69
    • 85008661161 scopus 로고    scopus 로고
    • Signaling with ions: The keystone for apical cell growth and morphogenesis in pollen tubes
    • Michard, E., Simon, A.A., Tavares, B., Wudick, M.M., and Feijó, J.A. (2017). Signaling with ions: the keystone for apical cell growth and morphogenesis in pollen tubes. Plant Physiol. 173: 91–111.
    • (2017) Plant Physiol , vol.173 , pp. 91-111
    • Michard, E.1    Simon, A.A.2    Tavares, B.3    Wudick, M.M.4    Feijó, J.A.5
  • 71
    • 84954287697 scopus 로고    scopus 로고
    • Understanding CrRLK1L function: Cell walls and growth control
    • Nissen, K.S., Willats, W.G., and Malinovsky, F.G. (2016). Understanding CrRLK1L function: cell walls and growth control. Trends Plant Sci. 21: 516–527.
    • (2016) Trends Plant Sci , vol.21 , pp. 516-527
    • Nissen, K.S.1    Willats, W.G.2    Malinovsky, F.G.3
  • 72
    • 24044471657 scopus 로고    scopus 로고
    • Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW
    • Oliver, T., Schmidt, B., Nathan, D., Clemens, R., and Maskell, D. (2005). Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW. Bioinformatics 21: 3431–3432.
    • (2005) Bioinformatics , vol.21 , pp. 3431-3432
    • Oliver, T.1    Schmidt, B.2    Nathan, D.3    Clemens, R.4    Maskell, D.5
  • 73
    • 17844390103 scopus 로고    scopus 로고
    • Novel specificities emerge by stepwise duplication of functional modules
    • Pereira-Leal, J.B., and Teichmann, S.A. (2005). Novel specificities emerge by stepwise duplication of functional modules. Genome Res. 15: 552–559.
    • (2005) Genome Res , vol.15 , pp. 552-559
    • Pereira-Leal, J.B.1    Teichmann, S.A.2
  • 74
    • 84883295137 scopus 로고    scopus 로고
    • Regulation of cytoskeletal dynamics by phospholipase D and phosphatidic acid
    • Pleskot, R., Li, J., Zárský, V., Potocký, M., and Staiger, C.J. (2013). Regulation of cytoskeletal dynamics by phospholipase D and phosphatidic acid. Trends Plant Sci. 18: 496–504.
    • (2013) Trends Plant Sci , vol.18 , pp. 496-504
    • Pleskot, R.1    Li, J.2    Zárský, V.3    Potocký, M.4    Staiger, C.J.5
  • 75
    • 0036845822 scopus 로고    scopus 로고
    • Splitting pairs: The diverging fates of duplicated genes
    • Prince, V.E., and Pickett, F.B. (2002). Splitting pairs: the diverging fates of duplicated genes. Nat. Rev. Genet. 3: 827–837.
    • (2002) Nat. Rev. Genet. , vol.3 , pp. 827-837
    • Prince, V.E.1    Pickett, F.B.2
  • 76
    • 84959010819 scopus 로고    scopus 로고
    • Polygenic evolution of a sugar specialization trade-off in yeast
    • Roop, J.I., Chang, K.C., and Brem, R.B. (2016). Polygenic evolution of a sugar specialization trade-off in yeast. Nature 530: 336–339.
    • (2016) Nature , vol.530 , pp. 336-339
    • Roop, J.I.1    Chang, K.C.2    Brem, R.B.3
  • 77
    • 67649837028 scopus 로고    scopus 로고
    • Old dogs, new tricks: Regulatory evolution in conserved genetic modules leads to novel mor-phologies in plants
    • Rosin, F.M., and Kramer, E.M. (2009). Old dogs, new tricks: regulatory evolution in conserved genetic modules leads to novel mor-phologies in plants. Dev. Biol. 332: 25–35.
    • (2009) Dev. Biol. , vol.332 , pp. 25-35
    • Rosin, F.M.1    Kramer, E.M.2
  • 78
    • 84877657393 scopus 로고    scopus 로고
    • Growth mechanisms in tip-growing plant cells
    • Rounds, C.M., and Bezanilla, M. (2013). Growth mechanisms in tip-growing plant cells. Annu. Rev. Plant Biol. 64: 243–265.
    • (2013) Annu. Rev. Plant Biol. , vol.64 , pp. 243-265
    • Rounds, C.M.1    Bezanilla, M.2
  • 82
    • 84954097444 scopus 로고    scopus 로고
    • Genome-wide dosage-dependent and -independent regulation contributes to gene expression and evolutionary novelty in plant polyploids
    • Shi, X., Zhang, C., Ko, D.K., and Chen, Z.J. (2015). Genome-wide dosage-dependent and -independent regulation contributes to gene expression and evolutionary novelty in plant polyploids. Mol. Biol. Evol. 32: 2351–2366.
    • (2015) Mol. Biol. Evol. , vol.32 , pp. 2351-2366
    • Shi, X.1    Zhang, C.2    Ko, D.K.3    Chen, Z.J.4
  • 83
    • 24944510397 scopus 로고    scopus 로고
    • Urochordate betagamma-crystallin and the evolutionary origin of the vertebrate eye lens
    • Shimeld, S.M., Purkiss, A.G., Dirks, R.P., Bateman, O.A., Slingsby, C., and Lubsen, N.H. (2005). Urochordate betagamma-crystallin and the evolutionary origin of the vertebrate eye lens. Curr. Biol. 15: 1684–1689.
    • (2005) Curr. Biol. , vol.15 , pp. 1684-1689
    • Shimeld, S.M.1    Purkiss, A.G.2    Dirks, R.P.3    Bateman, O.A.4    Slingsby, C.5    Lubsen, N.H.6
  • 84
    • 84962437293 scopus 로고    scopus 로고
    • Ancient WGD events as drivers of key innovations in angiosperms
    • Soltis, P.S., and Soltis, D.E. (2016). Ancient WGD events as drivers of key innovations in angiosperms. Curr. Opin. Plant Biol. 30: 159–165.
    • (2016) Curr. Opin. Plant Biol. , vol.30 , pp. 159-165
    • Soltis, P.S.1    Soltis, D.E.2
  • 85
    • 80054019114 scopus 로고    scopus 로고
    • Wound repair: Toward understanding and integration of single-cell and multicellular wound responses
    • Sonnemann, K.J., and Bement, W.M. (2011). Wound repair: toward understanding and integration of single-cell and multicellular wound responses. Annu. Rev. Cell Dev. Biol. 27: 237–263.
    • (2011) Annu. Rev. Cell Dev. Biol. , vol.27 , pp. 237-263
    • Sonnemann, K.J.1    Bement, W.M.2
  • 86
    • 84899553363 scopus 로고    scopus 로고
    • RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies
    • Stamatakis, A. (2014). RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30: 1312–1313.
    • (2014) Bioinformatics , vol.30 , pp. 1312-1313
    • Stamatakis, A.1
  • 87
    • 84866458802 scopus 로고    scopus 로고
    • Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees
    • Stolzer, M., Lai, H., Xu, M., Sathaye, D., Vernot, B., and Durand, D. (2012). Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees. Bioinformatics 28: i409– i415.
    • (2012) Bioinformatics , vol.28 , pp. i409-i415
    • Stolzer, M.1    Lai, H.2    Xu, M.3    Sathaye, D.4    Vernot, B.5    Durand, D.6
  • 89
    • 33747847779 scopus 로고    scopus 로고
    • PAL2NAL: Robust conversion of protein sequence alignments into the corresponding codon alignments
    • Suyama, M., Torrents, D., and Bork, P. (2006). PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments. Nucleic Acids Res. 34: W609––W612.
    • (2006) Nucleic Acids Res , vol.34
    • Suyama, M.1    Torrents, D.2    Bork, P.3
  • 90
    • 10944230777 scopus 로고    scopus 로고
    • Duplication and divergence: The evolution of new genes and old ideas
    • Taylor, J.S., and Raes, J. (2004). Duplication and divergence: the evolution of new genes and old ideas. Annu. Rev. Genet. 38: 615–643.
    • (2004) Annu. Rev. Genet. , vol.38 , pp. 615-643
    • Taylor, J.S.1    Raes, J.2
  • 91
    • 23044460008 scopus 로고    scopus 로고
    • Phosphatidic acid: A multifunctional stress signaling lipid in plants
    • Testerink, C., and Munnik, T. (2005). Phosphatidic acid: a multifunctional stress signaling lipid in plants. Trends Plant Sci. 10: 368–375.
    • (2005) Trends Plant Sci , vol.10 , pp. 368-375
    • Testerink, C.1    Munnik, T.2
  • 92
    • 84979742790 scopus 로고    scopus 로고
    • A dynamic interplay between membranes and the cytoskeleton critical for cell development and signaling
    • Thomas, C., and Staiger, C.J. (2014). A dynamic interplay between membranes and the cytoskeleton critical for cell development and signaling. Front. Plant Sci. 5: 335.
    • (2014) Front. Plant Sci. , vol.5 , pp. 335
    • Thomas, C.1    Staiger, C.J.2
  • 93
    • 0036439421 scopus 로고    scopus 로고
    • Gene co-option in physiological and morphological evolution
    • True, J.R., and Carroll, S.B. (2002). Gene co-option in physiological and morphological evolution. Annu. Rev. Cell Dev. Biol. 18: 53–80.
    • (2002) Annu. Rev. Cell Dev. Biol. , vol.18 , pp. 53-80
    • True, J.R.1    Carroll, S.B.2
  • 95
    • 70349325524 scopus 로고    scopus 로고
    • The evolutionary significance of ancient genome duplications
    • Van de Peer, Y., Maere, S., and Meyer, A. (2009). The evolutionary significance of ancient genome duplications. Nat. Rev. Genet. 10: 725–732.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 725-732
    • Van De Peer, Y.1    Maere, S.2    Meyer, A.3
  • 96
    • 85020808664 scopus 로고    scopus 로고
    • The evolutionary significance of polyploidy
    • Van de Peer, Y., Mizrachi, E., and Marchal, K. (2017). The evolutionary significance of polyploidy. Nat. Rev. Genet. 18: 411–424.
    • (2017) Nat. Rev. Genet. , vol.18 , pp. 411-424
    • Van De Peer, Y.1    Mizrachi, E.2    Marchal, K.3
  • 97
    • 84902983212 scopus 로고    scopus 로고
    • Tangled up in two: A burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution
    • Vanneste, K., Maere, S., and Van de Peer, Y. (2014). Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution. Philos. T. R. Soc. B 369: 20130353.
    • (2014) Philos. T. R. Soc. B , vol.369 , pp. 20130353
    • Vanneste, K.1    Maere, S.2    Van De Peer, Y.3
  • 98
    • 84871822072 scopus 로고    scopus 로고
    • Inference of genome duplications from age distributions revisited
    • Vanneste, K., Van de Peer, Y., and Maere, S. (2013). Inference of genome duplications from age distributions revisited. Mol. Biol. Evol. 30: 177–190.
    • (2013) Mol. Biol. Evol. , vol.30 , pp. 177-190
    • Vanneste, K.1    Van De Peer, Y.2    Maere, S.3
  • 99
    • 84877309040 scopus 로고    scopus 로고
    • Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods
    • Väremo, L., Nielsen, J., and Nookaew, I. (2013). Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods. Nucleic Acids Res. 41: 4378–4391.
    • (2013) Nucleic Acids Res , vol.41 , pp. 4378-4391
    • Väremo, L.1    Nielsen, J.2    Nookaew, I.3
  • 100
    • 84878220916 scopus 로고    scopus 로고
    • Interacting glutamate receptor-like proteins in phloem regulate lateral root initiation in Arabidopsis
    • Vincill, E.D., Clarin, A.E., Molenda, J.N., and Spalding, E.P. (2013). Interacting glutamate receptor-like proteins in phloem regulate lateral root initiation in Arabidopsis. Plant Cell 25: 1304–1313.
    • (2013) Plant Cell , vol.25 , pp. 1304-1313
    • Vincill, E.D.1    Clarin, A.E.2    Molenda, J.N.3    Spalding, E.P.4
  • 101
    • 34548501747 scopus 로고    scopus 로고
    • Natural history and evolutionary principles of gene duplication in fungi
    • Wapinski, I., Pfeffer, A., Friedman, N., and Regev, A. (2007). Natural history and evolutionary principles of gene duplication in fungi. Nature 449: 54–61.
    • (2007) Nature , vol.449 , pp. 54-61
    • Wapinski, I.1    Pfeffer, A.2    Friedman, N.3    Regev, A.4
  • 102
    • 77951623809 scopus 로고    scopus 로고
    • Generation of a novel wing colour pattern by the Wingless morphogen
    • Werner, T., Koshikawa, S., Williams, T.M., and Carroll, S.B. (2010). Generation of a novel wing colour pattern by the Wingless morphogen. Nature 464: 1143–1148.
    • (2010) Nature , vol.464 , pp. 1143-1148
    • Werner, T.1    Koshikawa, S.2    Williams, T.M.3    Carroll, S.B.4
  • 103
    • 84865332818 scopus 로고    scopus 로고
    • Growth control and cell wall signaling in plants
    • Wolf, S., Hématy, K., and Höfte, H. (2012). Growth control and cell wall signaling in plants. Annu. Rev. Plant Biol. 63: 381–407.
    • (2012) Annu. Rev. Plant Biol. , vol.63 , pp. 381-407
    • Wolf, S.1    Hématy, K.2    Höfte, H.3
  • 105
    • 0036649020 scopus 로고    scopus 로고
    • Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters
    • Wu, L.F., Hughes, T.R., Davierwala, A.P., Robinson, M.D., Stoughton, R., and Altschuler, S.J. (2002). Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters. Nat. Genet. 31: 255–265.
    • (2002) Nat. Genet. , vol.31 , pp. 255-265
    • Wu, L.F.1    Hughes, T.R.2    Davierwala, A.P.3    Robinson, M.D.4    Stoughton, R.5    Altschuler, S.J.6
  • 106
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: Phylogenetic analysis by maximum likelihood
    • Yang, Z. (2007). PAML 4: phylogenetic analysis by maximum likelihood. Mol. Biol. Evol. 24: 1586–1591.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 1586-1591
    • Yang, Z.1
  • 109
    • 84996565591 scopus 로고    scopus 로고
    • Evolution of herbivore-induced early defense signaling was shaped by genome-wide duplications in Nicotiana
    • Zhou, W., Brockmöller, T., Ling, Z., Omdahl, A., Baldwin, I.T., and Xu, S. (2016). Evolution of herbivore-induced early defense signaling was shaped by genome-wide duplications in Nicotiana. eLife pii: e19531.
    • (2016) Elife
    • Zhou, W.1    Brockmöller, T.2    Ling, Z.3    Omdahl, A.4    Baldwin, I.T.5    Xu, S.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.