메뉴 건너뛰기




Volumn 202, Issue 3, 2014, Pages 952-963

A transcriptomics-based kinetic model for ethylene biosynthesis in tomato (Solanum lycopersicum) fruit: Development, validation and exploration of novel regulatory mechanisms

Author keywords

Ethylene biosynthesis; Gene expression; Kinetic modeling; Network model; Systems biology; Tomato

Indexed keywords

CARBOXYLIC ACID; DATA SET; ETHYLENE; FRUIT; GENE EXPRESSION; GENETIC ANALYSIS; HORMONE; METABOLISM; MUTATION; NUMERICAL MODEL; PROTEIN; PROTEOMICS; REGULATORY APPROACH; RIPENING;

EID: 84898030115     PISSN: 0028646X     EISSN: 14698137     Source Type: Journal    
DOI: 10.1111/nph.12685     Document Type: Article
Times cited : (31)

References (73)
  • 1
    • 33344476119 scopus 로고    scopus 로고
    • Transcriptome and selected metabolite analyses reveal multiple points of ethylene control during tomato fruit development
    • Alba R, Payton P, Fei ZJ, McQuinn R, Debbie P, Martin GB, Tanksley SD, Giovannoni JJ. 2005. Transcriptome and selected metabolite analyses reveal multiple points of ethylene control during tomato fruit development. Plant Cell 17: 2954-2965.
    • (2005) Plant Cell , vol.17 , pp. 2954-2965
    • Alba, R.1    Payton, P.2    Fei, Z.J.3    McQuinn, R.4    Debbie, P.5    Martin, G.B.6    Tanksley, S.D.7    Giovannoni, J.J.8
  • 2
    • 0036793537 scopus 로고    scopus 로고
    • Ethylene biosynthesis and action in tomato: a model for climacteric fruit ripening
    • Alexander L, Grierson D. 2002. Ethylene biosynthesis and action in tomato: a model for climacteric fruit ripening. Journal of Experimental Botany 53: 2039-2055.
    • (2002) Journal of Experimental Botany , vol.53 , pp. 2039-2055
    • Alexander, L.1    Grierson, D.2
  • 3
    • 0030131131 scopus 로고    scopus 로고
    • Differential expression of the 1-aminocyclopropane-1-carboxylate oxidase gene family of tomato
    • Barry CS, Blume B, Bouzayen M, Cooper W, Hamilton AJ, Grierson D. 1996. Differential expression of the 1-aminocyclopropane-1-carboxylate oxidase gene family of tomato. Plant Journal 9: 525-535.
    • (1996) Plant Journal , vol.9 , pp. 525-535
    • Barry, C.S.1    Blume, B.2    Bouzayen, M.3    Cooper, W.4    Hamilton, A.J.5    Grierson, D.6
  • 4
    • 0033912478 scopus 로고    scopus 로고
    • The regulation of 1-aminocyclopropane-1-carboxylic acid synthase gene expression during the transition from system-1 to system-2 ethylene synthesis in tomato
    • Barry CS, Llop-Tous MI, Grierson D. 2000. The regulation of 1-aminocyclopropane-1-carboxylic acid synthase gene expression during the transition from system-1 to system-2 ethylene synthesis in tomato. Plant Physiology 123: 979-986.
    • (2000) Plant Physiology , vol.123 , pp. 979-986
    • Barry, C.S.1    Llop-Tous, M.I.2    Grierson, D.3
  • 6
    • 0006249345 scopus 로고
    • Intracellular sites of synthesis and storage of 1-(malonylamino)cyclopropane-1-carboxylic acid in Acer pseudoplatanus cells
    • Bouzayen M, Latche A, Alibert G, Pech JC. 1988. Intracellular sites of synthesis and storage of 1-(malonylamino)cyclopropane-1-carboxylic acid in Acer pseudoplatanus cells. Plant Physiology 88: 613-617.
    • (1988) Plant Physiology , vol.88 , pp. 613-617
    • Bouzayen, M.1    Latche, A.2    Alibert, G.3    Pech, J.C.4
  • 7
    • 0001723071 scopus 로고
    • Carrier-mediated uptake of 1-(malonylamino)cyclopropane-1-carboxylic acid in vacuoles isolated from Catharanthus roseus cells
    • Bouzayen M, Latche A, Pech JC, Marigo G. 1989. Carrier-mediated uptake of 1-(malonylamino)cyclopropane-1-carboxylic acid in vacuoles isolated from Catharanthus roseus cells. Plant Physiology 91: 1317-1322.
    • (1989) Plant Physiology , vol.91 , pp. 1317-1322
    • Bouzayen, M.1    Latche, A.2    Pech, J.C.3    Marigo, G.4
  • 8
    • 79959404046 scopus 로고    scopus 로고
    • Protocol: an updated integrated methodology for analysis of metabolites and enzyme activities of ethylene biosynthesis
    • Bulens I, Van de Poel B, Hertog MLAT, De Proft MP, Geeraerd AH, Nicolai BM. 2011. Protocol: an updated integrated methodology for analysis of metabolites and enzyme activities of ethylene biosynthesis. Plant Methods 7: 17.
    • (2011) Plant Methods , vol.7 , pp. 17
    • Bulens, I.1    Van de Poel, B.2    Hertog, M.L.A.T.3    De Proft, M.P.4    Geeraerd, A.H.5    Nicolai, B.M.6
  • 14
    • 0037237630 scopus 로고    scopus 로고
    • Long-distance transport of gases in plants: a perspective on internal aeration and radial oxygen loss from roots
    • Colmer TD. 2003. Long-distance transport of gases in plants: a perspective on internal aeration and radial oxygen loss from roots. Plant, Cell & Environment 26: 17-36.
    • (2003) Plant, Cell & Environment , vol.26 , pp. 17-36
    • Colmer, T.D.1
  • 15
    • 0014937223 scopus 로고
    • Central dogma of molecular biology
    • Crick F. 1970. Central dogma of molecular biology. Nature 227: 561-563.
    • (1970) Nature , vol.227 , pp. 561-563
    • Crick, F.1
  • 18
    • 79251559717 scopus 로고    scopus 로고
    • Identification of potential target genes for the tomato fruit-ripening regulator RIN by chromatin immunoprecipitation
    • Fujisawa M, Nakano T, Ito Y. 2011. Identification of potential target genes for the tomato fruit-ripening regulator RIN by chromatin immunoprecipitation. BMC Plant Biology 11: 26.
    • (2011) BMC Plant Biology , vol.11 , pp. 26
    • Fujisawa, M.1    Nakano, T.2    Ito, Y.3
  • 20
    • 33644800225 scopus 로고    scopus 로고
    • ETHY. A theory of fruit climacteric ethylene emission
    • Genard M, Gouble B. 2005. ETHY. A theory of fruit climacteric ethylene emission. Plant Physiology 139: 531-545.
    • (2005) Plant Physiology , vol.139 , pp. 531-545
    • Genard, M.1    Gouble, B.2
  • 22
    • 0033747011 scopus 로고    scopus 로고
    • Antisense inhibition of the Nr gene restores normal ripening to the tomato Never-ripe mutant, consistent with the ethylene receptor-inhibition model
    • Hackett RM, Ho CW, Lin ZF, Foote HCC, Fray RG, Grierson D. 2000. Antisense inhibition of the Nr gene restores normal ripening to the tomato Never-ripe mutant, consistent with the ethylene receptor-inhibition model. Plant Physiology 124: 1079-1085.
    • (2000) Plant Physiology , vol.124 , pp. 1079-1085
    • Hackett, R.M.1    Ho, C.W.2    Lin, Z.F.3    Foote, H.C.C.4    Fray, R.G.5    Grierson, D.6
  • 23
    • 0008439551 scopus 로고
    • Activity of aging carnation flower parts and the effects of 1-(malonylamino)cyclopropane-1-carboxylic acid-induced ethylene
    • Hanley KM, Meir S, Bramlage WJ. 1989. Activity of aging carnation flower parts and the effects of 1-(malonylamino)cyclopropane-1-carboxylic acid-induced ethylene. Plant Physiology 91: 1126-1130.
    • (1989) Plant Physiology , vol.91 , pp. 1126-1130
    • Hanley, K.M.1    Meir, S.2    Bramlage, W.J.3
  • 27
    • 0001237373 scopus 로고
    • The conversion of 1-(malonylamino)cyclopropane-1-carboxylic acid to 1-aminocyclo propane-1-carboxylic acid in plant tissues
    • Jiao XZ, Philosophhadas S, Su LY, Yang SF. 1986. The conversion of 1-(malonylamino)cyclopropane-1-carboxylic acid to 1-aminocyclo propane-1-carboxylic acid in plant tissues. Plant Physiology 81: 637-641.
    • (1986) Plant Physiology , vol.81 , pp. 637-641
    • Jiao, X.Z.1    Philosophhadas, S.2    Su, L.Y.3    Yang, S.F.4
  • 32
    • 0036500993 scopus 로고    scopus 로고
    • Systems biology: a brief overview
    • Kitano H. 2002. Systems biology: a brief overview. Science 295: 1662-1664.
    • (2002) Science , vol.295 , pp. 1662-1664
    • Kitano, H.1
  • 34
    • 84861851644 scopus 로고    scopus 로고
    • Multi-dimensional regulation of metabolic networks shaping plant development and performance
    • Kooke R, Keurentjes JJB. 2012. Multi-dimensional regulation of metabolic networks shaping plant development and performance. Journal of Experimental Botany 63: 3353-3365.
    • (2012) Journal of Experimental Botany , vol.63 , pp. 3353-3365
    • Kooke, R.1    Keurentjes, J.J.B.2
  • 35
    • 0028408386 scopus 로고
    • The never ripe mutation blocks ethylene perception in tomato
    • Lanahan MB, Yen HC, Giovannoni JJ, Klee HJ. 1994. The never ripe mutation blocks ethylene perception in tomato. Plant Cell 6: 521-530.
    • (1994) Plant Cell , vol.6 , pp. 521-530
    • Lanahan, M.B.1    Yen, H.C.2    Giovannoni, J.J.3    Klee, H.J.4
  • 38
    • 33846647495 scopus 로고    scopus 로고
    • Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data
    • Liebermeister W, Klipp E. 2006. Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data. Theoretical Biology and Medical Modelling 3: 42.
    • (2006) Theoretical Biology and Medical Modelling , vol.3 , pp. 42
    • Liebermeister, W.1    Klipp, E.2
  • 40
    • 0000691194 scopus 로고
    • Ethylene promotes the capability to malonylate 1-aminocyclopropane-1-carboxylic acid and d-amino acids in preclimacteric tomato fruits
    • Liu Y, Su LY, Yang SF. 1985. Ethylene promotes the capability to malonylate 1-aminocyclopropane-1-carboxylic acid and d-amino acids in preclimacteric tomato fruits. Plant Physiology 77: 891-895.
    • (1985) Plant Physiology , vol.77 , pp. 891-895
    • Liu, Y.1    Su, L.Y.2    Yang, S.F.3
  • 42
    • 80455140281 scopus 로고    scopus 로고
    • The tomato MADS-box transcription factor RIPENING INHIBITOR interacts with promoters involved in numerous ripening processes in a COLORLESS NONRIPENING-dependent manner
    • Martel C, Vrebalov J, Tafelmeyer P, Giovannoni JJ. 2011. The tomato MADS-box transcription factor RIPENING INHIBITOR interacts with promoters involved in numerous ripening processes in a COLORLESS NONRIPENING-dependent manner. Plant Physiology 157: 1568-1579.
    • (2011) Plant Physiology , vol.157 , pp. 1568-1579
    • Martel, C.1    Vrebalov, J.2    Tafelmeyer, P.3    Giovannoni, J.J.4
  • 43
    • 0029411677 scopus 로고
    • A new 1-aminocyclopropane-1-carboxylic acid-conjugating activity in tomato fruit
    • Martin MN, Cohen JD, Saftner RA. 1995. A new 1-aminocyclopropane-1-carboxylic acid-conjugating activity in tomato fruit. Plant Physiology 109: 917-926.
    • (1995) Plant Physiology , vol.109 , pp. 917-926
    • Martin, M.N.1    Cohen, J.D.2    Saftner, R.A.3
  • 44
    • 0028858945 scopus 로고
    • Purification and characterization of 1-aminocyclo-propane-1-carboxylic acid N-malonyltransferase from tomato fruit
    • Martin MN, Saftner RA. 1995. Purification and characterization of 1-aminocyclo-propane-1-carboxylic acid N-malonyltransferase from tomato fruit. Plant Physiology 108: 1241-1249.
    • (1995) Plant Physiology , vol.108 , pp. 1241-1249
    • Martin, M.N.1    Saftner, R.A.2
  • 46
    • 84855184956 scopus 로고    scopus 로고
    • Tissue- and cell-type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation
    • Matas AJ, Yeats TH, Buda GJ, Zheng Y, Chatterjee S, Toghe T, Ponnala L, Adato A, Aharoni A, Stark R et al. 2011. Tissue- and cell-type specific transcriptome profiling of expanding tomato fruit provides insights into metabolic and regulatory specialization and cuticle formation. Plant Cell 23: 3893-3910.
    • (2011) Plant Cell , vol.23 , pp. 3893-3910
    • Matas, A.J.1    Yeats, T.H.2    Buda, G.J.3    Zheng, Y.4    Chatterjee, S.5    Toghe, T.6    Ponnala, L.7    Adato, A.8    Aharoni, A.9    Stark, R.10
  • 47
    • 77953053140 scopus 로고    scopus 로고
    • Polyamines and cellular metabolism in plants: transgenic approaches reveal different responses to diamine putrescine versus higher polyamines spermidine and spermine
    • Mattoo AK, Minocha SC, Minocha R, Handa AK. 2010. Polyamines and cellular metabolism in plants: transgenic approaches reveal different responses to diamine putrescine versus higher polyamines spermidine and spermine. Amino Acids 38: 405-413.
    • (2010) Amino Acids , vol.38 , pp. 405-413
    • Mattoo, A.K.1    Minocha, S.C.2    Minocha, R.3    Handa, A.K.4
  • 49
    • 0001185919 scopus 로고    scopus 로고
    • Free polyamine contents and decarboxylase activities during tomato development and ripening
    • Morilla A, Garcia JM, Albi MA. 1996. Free polyamine contents and decarboxylase activities during tomato development and ripening. Journal of Agricultural and Food Chemistry 44: 2608-2611.
    • (1996) Journal of Agricultural and Food Chemistry , vol.44 , pp. 2608-2611
    • Morilla, A.1    Garcia, J.M.2    Albi, M.A.3
  • 50
    • 0032246290 scopus 로고    scopus 로고
    • Differential expression and internal feedback regulation of 1-aminocyclopropane-1-carboxylate synthase, 1-aminocyclopropane-1-carboxylate oxidase, and ethylene receptor genes in tomato fruit during development and ripening
    • Nakatsuka A, Murachi S, Okunishi H, Shiomi S, Nakano R, Kubo Y, Inaba A. 1998. Differential expression and internal feedback regulation of 1-aminocyclopropane-1-carboxylate synthase, 1-aminocyclopropane-1-carboxylate oxidase, and ethylene receptor genes in tomato fruit during development and ripening. Plant Physiology 118: 1295-1305.
    • (1998) Plant Physiology , vol.118 , pp. 1295-1305
    • Nakatsuka, A.1    Murachi, S.2    Okunishi, H.3    Shiomi, S.4    Nakano, R.5    Kubo, Y.6    Inaba, A.7
  • 51
    • 14844283792 scopus 로고    scopus 로고
    • Ethylene-binding activity, gene expression levels, and receptor system output for ethylene receptor family members from Arabidopsis and tomato
    • O'Malley RC, Rodriguez FI, Esch JJ, Binder BM, O'Donnell P, Klee HJ, Bleecker AB. 2005. Ethylene-binding activity, gene expression levels, and receptor system output for ethylene receptor family members from Arabidopsis and tomato. Plant Journal 41: 651-659.
    • (2005) Plant Journal , vol.41 , pp. 651-659
    • O'Malley, R.C.1    Rodriguez, F.I.2    Esch, J.J.3    Binder, B.M.4    O'Donnell, P.5    Klee, H.J.6    Bleecker, A.B.7
  • 52
    • 84855766776 scopus 로고    scopus 로고
    • Computational models of plant development and form
    • Prusinkiewicz P, Runions A. 2012. Computational models of plant development and form. New Phytologist 193: 549-569.
    • (2012) New Phytologist , vol.193 , pp. 549-569
    • Prusinkiewicz, P.1    Runions, A.2
  • 54
    • 84859355304 scopus 로고    scopus 로고
    • Kinetic modelling of plant metabolic pathways
    • Rohwer JM. 2012. Kinetic modelling of plant metabolic pathways. Journal of Experimental Botany 63: 2275-2292.
    • (2012) Journal of Experimental Botany , vol.63 , pp. 2275-2292
    • Rohwer, J.M.1
  • 55
    • 79955632307 scopus 로고    scopus 로고
    • Protein phosphatase 2A controls ethylene biosynthesis by differentially regulating the turnover of ACC synthase isoforms
    • Skottke KR, Yoon GM, Kieber JJ, DeLong A. 2011. Protein phosphatase 2A controls ethylene biosynthesis by differentially regulating the turnover of ACC synthase isoforms. Plos Genetics 7: e1001370.
    • (2011) Plos Genetics , vol.7
    • Skottke, K.R.1    Yoon, G.M.2    Kieber, J.J.3    DeLong, A.4
  • 56
    • 4043089251 scopus 로고    scopus 로고
    • The oxylipin signal jasmonic acid is activated by an enzyme that conjugates it to isoleucine in Arabidopsis
    • Staswick PE, Tiryaki I. 2004. The oxylipin signal jasmonic acid is activated by an enzyme that conjugates it to isoleucine in Arabidopsis. Plant Cell 16: 2117-2127.
    • (2004) Plant Cell , vol.16 , pp. 2117-2127
    • Staswick, P.E.1    Tiryaki, I.2
  • 58
    • 0035958873 scopus 로고    scopus 로고
    • Phosphorylation of tomato 1-aminocyclopropane-1-carboxylic acid synthase, LE-ACS2, at the C-terminal region
    • Tatsuki M, Mori H. 2001. Phosphorylation of tomato 1-aminocyclopropane-1-carboxylic acid synthase, LE-ACS2, at the C-terminal region. Journal of Biological Chemistry 276: 28051-28057.
    • (2001) Journal of Biological Chemistry , vol.276 , pp. 28051-28057
    • Tatsuki, M.1    Mori, H.2
  • 59
    • 0001273192 scopus 로고
    • Behaviors of 1-aminocyclopropane-1-carboxylic acid (Acc) and Acc synthase responsible for ethylene production in normal and mutant (nor and rin) tomato fruits at various ripening stages
    • Terai H. 1993. Behaviors of 1-aminocyclopropane-1-carboxylic acid (Acc) and Acc synthase responsible for ethylene production in normal and mutant (nor and rin) tomato fruits at various ripening stages. Journal of the Japanese Society of Horticultural Sciences 61: 805-812.
    • (1993) Journal of the Japanese Society of Horticultural Sciences , vol.61 , pp. 805-812
    • Terai, H.1
  • 60
    • 0026627761 scopus 로고
    • One rotten apple spoils the whole bushel - the role of ethylene in fruit ripening
    • Theologis A. 1992. One rotten apple spoils the whole bushel - the role of ethylene in fruit ripening. Cell 70: 181-184.
    • (1992) Cell , vol.70 , pp. 181-184
    • Theologis, A.1
  • 61
    • 84989742231 scopus 로고
    • Compartmentation and transport of 1-aminocyclopropane-1-carboxylic acid and N-malonyl-1-aminocyclopropane-1-carboxylic acid in barley and wheat mesophyll-cells and protoplasts
    • Tophof S, Martinoia E, Kaiser G, Hartung W, Amrhein N. 1989. Compartmentation and transport of 1-aminocyclopropane-1-carboxylic acid and N-malonyl-1-aminocyclopropane-1-carboxylic acid in barley and wheat mesophyll-cells and protoplasts. Physiologia Plantarum 75: 333-339.
    • (1989) Physiologia Plantarum , vol.75 , pp. 333-339
    • Tophof, S.1    Martinoia, E.2    Kaiser, G.3    Hartung, W.4    Amrhein, N.5
  • 63
    • 84868325411 scopus 로고    scopus 로고
    • Targeted systems biology profiling of tomato fruit reveals coordination of the Yang cycle and a distinct regulation of ethylene biosynthesis during postclimacteric ripening
    • Van de Poel B, Bulens I, Markoula A, Hertog MLAT, Dreesen R, Wirtz M, Vandonicnk S, Oppermann Y, Keulemans J, Hell R et al. 2012a. Targeted systems biology profiling of tomato fruit reveals coordination of the Yang cycle and a distinct regulation of ethylene biosynthesis during postclimacteric ripening. Plant Physiology 160: 1498-1514.
    • (2012) Plant Physiology , vol.160 , pp. 1498-1514
    • Van de Poel, B.1    Bulens, I.2    Markoula, A.3    Hertog, M.L.A.T.4    Dreesen, R.5    Wirtz, M.6    Vandonicnk, S.7    Oppermann, Y.8    Keulemans, J.9    Hell, R.10
  • 64
    • 84877714383 scopus 로고    scopus 로고
    • S-adenosyl-l-methionine usage during climacteric ripening of tomato in relation to ethylene and polyamine biosynthesis and transmethylation capacity
    • Van de Poel B, Bulens I, Oppermann Y, Hertog MLAT, Nicolai BM, Sauter M, Geeraerd AH. 2012b. S-adenosyl-l-methionine usage during climacteric ripening of tomato in relation to ethylene and polyamine biosynthesis and transmethylation capacity. Physiologia Plantarum 148: 176-188.
    • (2012) Physiologia Plantarum , vol.148 , pp. 176-188
    • Van de Poel, B.1    Bulens, I.2    Oppermann, Y.3    Hertog, M.L.A.T.4    Nicolai, B.M.5    Sauter, M.6    Geeraerd, A.H.7
  • 70
    • 5044227742 scopus 로고    scopus 로고
    • The evolution of molecular biology into systems biology
    • Westerhoff HV, Palsson BO. 2004. The evolution of molecular biology into systems biology. Nature Biotechnology 22: 1249-1252.
    • (2004) Nature Biotechnology , vol.22 , pp. 1249-1252
    • Westerhoff, H.V.1    Palsson, B.O.2
  • 71
    • 0029561719 scopus 로고
    • An ethylene-inducible component of signal-transduction encoded by Never-ripe
    • Wilkinson JQ, Lanahan MB, Yen HC, Giovannoni JJ, Klee HJ. 1995. An ethylene-inducible component of signal-transduction encoded by Never-ripe. Science 270: 1807-1809.
    • (1995) Science , vol.270 , pp. 1807-1809
    • Wilkinson, J.Q.1    Lanahan, M.B.2    Yen, H.C.3    Giovannoni, J.J.4    Klee, H.J.5
  • 72
    • 13844256924 scopus 로고    scopus 로고
    • Different effects on ACC oxidase gene silencing triggered by RNA interference in transgenic tomato
    • Xiong AS, Yao QH, Peng RH, Li X, Han PL, Fan HQ. 2005. Different effects on ACC oxidase gene silencing triggered by RNA interference in transgenic tomato. Plant Cell Reports 23: 639-646.
    • (2005) Plant Cell Reports , vol.23 , pp. 639-646
    • Xiong, A.S.1    Yao, Q.H.2    Peng, R.H.3    Li, X.4    Han, P.L.5    Fan, H.Q.6
  • 73
    • 58149361773 scopus 로고    scopus 로고
    • Functions of the ERF transcription factor family in plants
    • Xu ZS, Chen M, Li LC, Ma YZ. 2008. Functions of the ERF transcription factor family in plants. Botany 86: 969-977.
    • (2008) Botany , vol.86 , pp. 969-977
    • Xu, Z.S.1    Chen, M.2    Li, L.C.3    Ma, Y.Z.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.