메뉴 건너뛰기




Volumn 5, Issue JUN, 2014, Pages

A novel phylogeny and morphological reconstruction of the PIN genes and first phylogeny of the ACC-oxidases (ACOs)

Author keywords

1 aminocyclopropane 1 carboxylate oxidase; Ancestral reconstruction; Auxin; Ethylene synthesis; GC mutational bias; PIN formed

Indexed keywords


EID: 84979499919     PISSN: None     EISSN: 1664462X     Source Type: Journal    
DOI: 10.3389/fpls.2014.00296     Document Type: Article
Times cited : (14)

References (43)
  • 2
    • 84905014943 scopus 로고    scopus 로고
    • Paralagous radiations of PIN proteins with multiple origins of non-canonica PIN structure
    • [Epub ahead of print]
    • Bennett, T., Brockington, S. F., Rothfels, C., Graham, S., Stevenson, D. and Kutchan, T. et al. (2014). Paralagous radiations of PIN proteins with multiple origins of non-canonica PIN structure. Mol. Biol. Evol. doi: 10.1093/molbev/msu147. [Epub ahead of print].
    • (2014) Mol. Biol. Evol
    • Bennett, T.1    Brockington, S.F.2    Rothfels, C.3    Graham, S.4    Stevenson, D.5    Kutchan, T.6
  • 3
    • 0034521366 scopus 로고    scopus 로고
    • Ethylene: A gaseous signal molecule in plants
    • Bleecker, B., and Kende, H. (2000). Ethylene: a gaseous signal molecule in plants. Annu. Rev. Cell Dev. Biol. 16, 1-18. doi: 10.1146/annurev.cellbio.16.1.1
    • (2000) Annu. Rev. Cell Dev. Biol , vol.16 , pp. 1-18
    • Bleecker, B.1    Kende, H.2
  • 4
    • 0032053634 scopus 로고    scopus 로고
    • Expression and characterization of three tomato 1-aminocyclopropane-1-carboxylate oxidase cDNAs in yeast
    • Bidonde, S., Ferrer, M. A., Zegzouti, H., Ramassamy, S., Latché, A., Pech, J. C., et al. (1998). Expression and characterization of three tomato 1-aminocyclopropane-1-carboxylate oxidase cDNAs in yeast. Eur. J. Biochem. 253, 20-26. doi: 10.1046/j.1432-1327.1998.2530020.x
    • (1998) Eur. J. Biochem , vol.253 , pp. 20-26
    • Bidonde, S.1    Ferrer, M.A.2    Zegzouti, H.3    Ramassamy, S.4    Latché, A.5    Pech, J.C.6
  • 5
    • 84881589621 scopus 로고    scopus 로고
    • Diversification and expression of the PIN, AUX/LAX, and ABCB families of putative auxin transporters in Populus
    • Carraro, N., Tisdale-Orr, T. E., Clouse, R. M., Knöller, A. S., and Spicer, R. (2012). Diversification and expression of the PIN, AUX/LAX, and ABCB families of putative auxin transporters in Populus. Front. Plant Sci. 3:17. doi: 10.3389/fpls.2012.00017
    • (2012) Front. Plant Sci , vol.3 , pp. 17
    • Carraro, N.1    Tisdale-Orr, T.E.2    Clouse, R.M.3    Knöller, A.S.4    Spicer, R.5
  • 6
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • Castresana, J. (2000). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol. Biol. Evol. 17, 540-552. doi: 10.1093/oxfordjournals.molbev.a026334
    • (2000) Mol. Biol. Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 7
    • 2442517979 scopus 로고    scopus 로고
    • Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes
    • Chaw, S. M., Chang, C. C., Chen, H. L., and Li, W. H. (2004). Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes. J. Mol. Evol. 58, 424-441. doi: 10.1007/s00239-003-2564-9
    • (2004) J. Mol. Evol , vol.58 , pp. 424-441
    • Chaw, S.M.1    Chang, C.C.2    Chen, H.L.3    Li, W.H.4
  • 8
    • 0036016860 scopus 로고    scopus 로고
    • Subcellular localization of 1-aminocyclopropane-1-carboxylic acid oxidase in apple fruit
    • Chung, M.-C., Chou, S.-J., Kuang, L.-Y., Charng, Y.-Y., and Yang, S. F. (2002). Subcellular localization of 1-aminocyclopropane-1-carboxylic acid oxidase in apple fruit. Plant Cell Physiol. 43, 549-554. doi: 10.1093/pcp/pcf067
    • (2002) Plant Cell Physiol , vol.43 , pp. 549-554
    • Chung, M.-C.1    Chou, S.-J.2    Kuang, L.-Y.3    Charng, Y.-Y.4    Yang, S.F.5
  • 9
    • 33645937969 scopus 로고    scopus 로고
    • Ethylene biosynthesis and signaling: An overview
    • De Paepe, A., and Van der Straeten, D. (2005). Ethylene biosynthesis and signaling: an overview. Vitam. Horm. 72, 399-430. doi: 10.1016/S0083-6729(05)72011-2
    • (2005) Vitam. Horm , vol.72 , pp. 399-430
    • De Paepe, A.1    Van Der Straeten, D.2
  • 10
    • 78650965806 scopus 로고    scopus 로고
    • Unraveling the evolution of auxin signaling
    • De Smet, I., Voss, U., Lau, S., Wilson, M., Shao, N., Timme, R. E., et al. (2011). Unraveling the evolution of auxin signaling. Plant Physiol. 155, 209-221. doi: 10.1104/pp.110.168161
    • (2011) Plant Physiol , vol.155 , pp. 209-221
    • De Smet, I.1    Voss, U.2    Lau, S.3    Wilson, M.4    Shao, N.5    Timme, R.E.6
  • 11
  • 12
    • 45749124657 scopus 로고    scopus 로고
    • TNT, a free program for phylogenetic analysis
    • Goloboff, P. A., Farris, J. S., and Nixon, K. C. (2008). TNT, a free program for phylogenetic analysis. Cladistics 24, 774-786. doi: 10.1111/j.1096-0031.2008.00217.x
    • (2008) Cladistics , vol.24 , pp. 774-786
    • Goloboff, P.A.1    Farris, J.S.2    Nixon, K.C.3
  • 13
    • 84856585935 scopus 로고    scopus 로고
    • Phytozome: A comparative platform for green plant genomics
    • Goodstein, D. M., Shu, S., Howson, R., Neupane, R., Hayes, R. D., Fazo, J., et al. (2012). Phytozome: a comparative platform for green plant genomics. Nucleic Acids Res. 40, D1178-D1186. doi: 10.1093/nar/gkr944
    • (2012) Nucleic Acids Res , vol.40 , pp. D1178-D1186
    • Goodstein, D.M.1    Shu, S.2    Howson, R.3    Neupane, R.4    Hayes, R.D.5    Fazo, J.6
  • 14
    • 74549125386 scopus 로고    scopus 로고
    • SeaView Version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building
    • Gouy, M., Guindon, S., and Gascuel, O. (2010). SeaView Version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol. Biol. Evol. 27, 221-224. doi: 10.1093/molbev/msp259
    • (2010) Mol. Biol. Evol , vol.27 , pp. 221-224
    • Gouy, M.1    Guindon, S.2    Gascuel, O.3
  • 16
    • 33747853165 scopus 로고    scopus 로고
    • Ethylene in induced conifer defense: CDNA cloning, protein expression, and cellular and subcellular localization of 1-aminocyclopropane-1-carboxylate oxidase in resin duct and phenolic parenchyma cells
    • Hudgins, J. W., Ralph, S. G., Franceschi, V. R., and Bohlmann, J. (2006). Ethylene in induced conifer defense: cDNA cloning, protein expression, and cellular and subcellular localization of 1-aminocyclopropane-1-carboxylate oxidase in resin duct and phenolic parenchyma cells. Planta 224, 865-877. doi: 10.1007/s00425-006-0274-4
    • (2006) Planta , vol.224 , pp. 865-877
    • Hudgins, J.W.1    Ralph, S.G.2    Franceschi, V.R.3    Bohlmann, J.4
  • 17
    • 0030754175 scopus 로고    scopus 로고
    • Ethylene biosynthesis: The role of 1-aminocyclopropane-lcarboxylate (ACC) oxidase, and its possible evolutionary origin
    • John, P. (1997). Ethylene biosynthesis: the role of 1-aminocyclopropane-lcarboxylate (ACC) oxidase, and its possible evolutionary origin. Physiol. Plant. 100, 583-592. doi: 10.1111/j.1399-3054.1997.tb03064.x
    • (1997) Physiol. Plant , vol.100 , pp. 583-592
    • John, P.1
  • 18
    • 68049142320 scopus 로고    scopus 로고
    • Multiple alignment of DNA sequences with MAFFT
    • Katoh, K., Asimenos, G., and Toh, H. (2009). Multiple alignment of DNA sequences with MAFFT. Methods Mol. Biol. 537, 39-64. doi: 10.1007/978-1-59745-251-9_3
    • (2009) Methods Mol. Biol , vol.537 , pp. 39-64
    • Katoh, K.1    Asimenos, G.2    Toh, H.3
  • 19
    • 77951919340 scopus 로고    scopus 로고
    • The PIN-FORMED (PIN) protein family of auxin transporters
    • Křeček, P., Skùpa, P., Libus, J., Naramoto, S., Tejos, R., Friml, J., et al. (2009). The PIN-FORMED (PIN) protein family of auxin transporters. Genome Biol. 10, 1-11. doi: 10.1186/gb-2009-10-12-249
    • (2009) Genome Biol , vol.10 , pp. 1-11
    • Křeček, P.1    Skùpa, P.2    Libus, J.3    Naramoto, S.4    Tejos, R.5    Friml, J.6
  • 21
    • 68949147930 scopus 로고    scopus 로고
    • Recent advances in ethylene research
    • Lin, Z., Zhong, S., and Grierson, D. (2009). Recent advances in ethylene research. J. Exp. Bot. 60, 3311-3336. doi: 10.1093/jxb/erp204
    • (2009) J. Exp. Bot , vol.60 , pp. 3311-3336
    • Lin, Z.1    Zhong, S.2    Grierson, D.3
  • 25
    • 0034899781 scopus 로고    scopus 로고
    • Evaluation of methods for the prediction of membrane spanning regions
    • Moller, S., Croning, M. D. R., and Apweiler, R. (2001). Evaluation of methods for the prediction of membrane spanning regions. Bioinformatics 17, 646-653. doi: 10.1093/bioinformatics/17.7.646
    • (2001) Bioinformatics , vol.17 , pp. 646-653
    • Moller, S.1    Croning, M.D.R.2    Apweiler, R.3
  • 26
    • 0000927158 scopus 로고
    • Requirement of the auxin polar transport system in early stages of Arabidopsis floral bud formation
    • Okada, K., Ueda, J., Komaki, M. K., Bell, C. J., and Shimura, Y. (1991). Requirement of the auxin polar transport system in early stages of Arabidopsis floral bud formation. Plant Cell 3, 677-684. doi: 10.1105/tpc.3.7.677
    • (1991) Plant Cell , vol.3 , pp. 677-684
    • Okada, K.1    Ueda, J.2    Komaki, M.K.3    Bell, C.J.4    Shimura, Y.5
  • 27
    • 16344379189 scopus 로고    scopus 로고
    • The PIN auxin efflux facilitators: Evolutionary and functional perspectives
    • Paponov, I. A., Teale, W. D., Trebar, M., Blilou, I., and Palme, K. (2005). The PIN auxin efflux facilitators: evolutionary and functional perspectives. Trends Plant Sci. 10, 170-177. doi: 10.1016/j.tplants.2005.02.009
    • (2005) Trends Plant Sci , vol.10 , pp. 170-177
    • Paponov, I.A.1    Teale, W.D.2    Trebar, M.3    Blilou, I.4    Palme, K.5
  • 28
    • 0024117869 scopus 로고
    • Homology in classical and molecular biology
    • Patterson, C. (1988). Homology in classical and molecular biology. Mol. Biol. Evol. 5, 603-625.
    • (1988) Mol. Biol. Evol , vol.5 , pp. 603-625
    • Patterson, C.1
  • 29
    • 33745277565 scopus 로고    scopus 로고
    • Ethene (Ethylene) production in the marine macroalga Ulva (Enteromorpha) intestinalis L. (Chlorophyta, Ulvophyceae): Effect of light-stress and co-production with dimethyl sulphide
    • Plettner, I. N. A., Steinke, M., and Malin, G. (2005). Ethene (ethylene) production in the marine macroalga Ulva (Enteromorpha) intestinalis L. (Chlorophyta, Ulvophyceae): effect of light-stress and co-production with dimethyl sulphide. Plant Cell Environ. 28, 1136-1145. doi: 10.1111/j.1365-3040.2005.01351.x
    • (2005) Plant Cell Environ , vol.28 , pp. 1136-1145
    • Plettner, I.N.A.1    Steinke, M.2    Malin, G.3
  • 30
    • 65349188109 scopus 로고    scopus 로고
    • Auxin and other signals on the move in plants
    • Robert, H. S., and Friml, J. (2009). Auxin and other signals on the move in plants. Nat. Chem. Biol. 5, 325-332. doi: 10.1038/nchembio.170
    • (2009) Nat. Chem. Biol , vol.5 , pp. 325-332
    • Robert, H.S.1    Friml, J.2
  • 31
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou, N., and Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425.
    • (1987) Mol. Biol. Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 32
    • 0024724225 scopus 로고
    • Cloning the mRNA encoding l-aminocyclopropane-l-carboxylate synthase, the key enzyme for ethylene biosynthesis in plants
    • Sato, T., and Theologis, A. (1989). Cloning the mRNA encoding l-aminocyclopropane-l-carboxylate synthase, the key enzyme for ethylene biosynthesis in plants. Proc. Natl. Acad. Sci. U.S.A. 86, 6621-6625. doi: 10.1073/pnas.86.17.6621
    • (1989) Proc. Natl. Acad. Sci. U.S.A. , vol.86 , pp. 6621-6625
    • Sato, T.1    Theologis, A.2
  • 33
    • 0033785582 scopus 로고    scopus 로고
    • A fundamental problem with amino-acid-sequence characters for phylogenetic analyses
    • Simmons, M. (2000). A fundamental problem with amino-acid-sequence characters for phylogenetic analyses. Cladistics 16, 274-282. doi: 10.1111/j.1096-0031.2000.tb00283.x
    • (2000) Cladistics , vol.16 , pp. 274-282
    • Simmons, M.1
  • 34
    • 0036557785 scopus 로고    scopus 로고
    • Conflict between amino acid and nucleotide characters
    • Simmons, M., Ochoterena, H., and Freudenstein, J. V. (2002). Conflict between amino acid and nucleotide characters. Cladistics 18, 200-206. doi: 10.1111/j.1096-0031.2002.tb00148.x
    • (2002) Cladistics , vol.18 , pp. 200-206
    • Simmons, M.1    Ochoterena, H.2    Freudenstein, J.V.3
  • 35
    • 50249100595 scopus 로고    scopus 로고
    • A rapid bootstrap algorithm for the RAxML web servers
    • Stamatakis, A., Hoover, P., and Rougemont, J. (2008). A rapid bootstrap algorithm for the RAxML web servers. Syst. Biol. 57, 758-771. doi: 10.1080/10635150802429642
    • (2008) Syst. Biol , vol.57 , pp. 758-771
    • Stamatakis, A.1    Hoover, P.2    Rougemont, J.3
  • 36
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • Tamura, K., Dudley, J., Nei, M., and Kumar, S. (2007). MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24, 1596-1599. doi: 10.1093/molbev/msm092
    • (2007) Mol. Biol. Evol , vol.24 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 37
    • 73649145874 scopus 로고    scopus 로고
    • POY version 4: Phylogenetic analysis using dynamic homologies
    • Varón, A., Sy Vinh, L., and Wheeler, W. C. (2009). POY version 4: phylogenetic analysis using dynamic homologies. Cladistics 26, 72-85. doi: 10.1111/j.1096-0031.2009.00282.x
    • (2009) Cladistics , vol.26 , pp. 72-85
    • Varón, A.1    Sy Vinh, L.2    Wheeler, W.C.3
  • 38
    • 84871716260 scopus 로고    scopus 로고
    • Origin and evolution of PIN auxin transporters in the green lineage
    • Viaene, T., Delwiche, C. F., Rensing, S. A., and Friml, J. (2013). Origin and evolution of PIN auxin transporters in the green lineage. Trends Plant Sci. 18, 5-10. doi: 10.1016/j.tplants.2012.08.009
    • (2013) Trends Plant Sci , vol.18 , pp. 5-10
    • Viaene, T.1    Delwiche, C.F.2    Rensing, S.A.3    Friml, J.4
  • 39
    • 0036274678 scopus 로고    scopus 로고
    • Ethylene biosynthesis and signaling networks
    • Wang, K. L., Li, H., and Ecker, J. R. (2002). Ethylene biosynthesis and signaling networks. Plant Cell 14(Suppl.), S131-S152. doi: 10.1105/tpc.001768
    • (2002) Plant Cell , vol.14 , pp. S131-S152
    • Wang, K.L.1    Li, H.2    Ecker, J.R.3
  • 40
    • 79959907815 scopus 로고    scopus 로고
    • The ABA-mediated switch between submersed and emersed life-styles in aquatic macrophytes
    • Wanke, D. (2011). The ABA-mediated switch between submersed and emersed life-styles in aquatic macrophytes. J. Plant Res. 124, 467-475. doi: 10.1007/s10265-011-0434-x
    • (2011) J. Plant Res , vol.124 , pp. 467-475
    • Wanke, D.1
  • 41
    • 84871975473 scopus 로고    scopus 로고
    • Studies of Physcomitrella patens reveal that ethylene-mediated submergence responses arose relatively early in land-plant evolution
    • Yasumura, Y., Pierik, R., Fricker, M. D., Voesenek, L. A., and Harberd, N. P. (2012). Studies of Physcomitrella patens reveal that ethylene-mediated submergence responses arose relatively early in land-plant evolution. Plant J. 72, 947-959. doi: 10.1111/tpj.12005
    • (2012) Plant J , vol.72 , pp. 947-959
    • Yasumura, Y.1    Pierik, R.2    Fricker, M.D.3    Voesenek, L.A.4    Harberd, N.P.5
  • 42
    • 77952494718 scopus 로고    scopus 로고
    • Involvement of ethylene and nitric oxide in cell death in mastoparan-treated unicellular alga Chlamydomonas reinhardtii
    • Yordanova, Z. P., Iakimova, E. T., Cristescu, S. M., Harren, F. J. M., Kapchina-Toteva, V. M., and Woltering, E. J. (2010). Involvement of ethylene and nitric oxide in cell death in mastoparan-treated unicellular alga Chlamydomonas reinhardtii. Cell Biol. Int. 34, 301-308. doi: 10.1042/CBI20090138
    • (2010) Cell Biol. Int , vol.34 , pp. 301-308
    • Yordanova, Z.P.1    Iakimova, E.T.2    Cristescu, S.M.3    Harren, F.J.M.4    Kapchina-Toteva, V.M.5    Woltering, E.J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.