메뉴 건너뛰기




Volumn 39, Issue 2, 2012, Pages 1877-1886

Genome-wide analysis of the heat shock transcription factors in Populus trichocarpa and Medicago truncatula

Author keywords

Bioinformatics analysis; DBD domain; HSFs; RT PCR

Indexed keywords

HEAT SHOCK TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; DNA BINDING PROTEIN;

EID: 84860340884     PISSN: 03014851     EISSN: 15734978     Source Type: Journal    
DOI: 10.1007/s11033-011-0933-9     Document Type: Article
Times cited : (67)

References (43)
  • 1
    • 0029961608 scopus 로고    scopus 로고
    • Molecular responses to drought and cold stress
    • DOI 10.1016/S0958-1669(96)80007-3
    • Shinozaki K, Yamaguchi-Shinozaki K (1996) Molecular responses to drought and cold stress. Curr Opin Biotechnol 7(2):161-167 (Pubitemid 26124072)
    • (1996) Current Opinion in Biotechnology , vol.7 , Issue.2 , pp. 161-167
    • Shinozaki, K.1    Yamaguchi-Shinozaki, K.2
  • 2
    • 0033498862 scopus 로고    scopus 로고
    • Plant cold acclimation: Freezing tolerance genes and regulatory mechanisms
    • Thomashow MF (1999) Plant cold acclimation: freezing tolerance genes and regulatory mechanisms. Annu Rev Plant Physiol Plant Mol Biol 50:571-599 (Pubitemid 129491974)
    • (1999) Annual Review of Plant Biology , vol.50 , pp. 571-599
    • Thomashow, M.F.1
  • 4
    • 0037040541 scopus 로고    scopus 로고
    • Protein folding. Molecular chaperones in the cytosol: From nascent chain to folded protein
    • DOI 10.1126/science.1068408
    • Hartl FU, Hayer-Hartl M (2002) Molecular chaperones in the cytosol: from nascent chain to folded protein. Science 295(5561): 1852-1858 (Pubitemid 34214115)
    • (2002) Science , vol.295 , Issue.5561 , pp. 1852-1858
    • Hartl, F.U.1    Hayer-Hartl, M.2
  • 5
    • 0037047429 scopus 로고    scopus 로고
    • Dynamic remodeling of transcription complexes by molecular chaperones
    • Morimoto RI (2002) Dynamic remodeling of transcription complexes by molecular chaperones. Cell 110(3):281-284
    • (2002) Cell , vol.110 , Issue.3 , pp. 281-284
    • Morimoto, R.I.1
  • 6
    • 0031576350 scopus 로고    scopus 로고
    • The GCN4 leucine zipper can functionally substitute for the heat shock transcription factor's trimerization domain
    • DOI 10.1006/jmbi.1997.1283
    • Drees BL, Grotkopp EK, Nelson HC (1997) The GCN4 leucine zipper can functionally substitute for the heat shock transcription factor's trimerization domain. J Mol Biol 273(1):61-74 (Pubitemid 27460214)
    • (1997) Journal of Molecular Biology , vol.273 , Issue.1 , pp. 61-74
    • Drees, B.L.1    Grotkopp, E.K.2    Nelson, H.C.M.3
  • 7
    • 0023863121 scopus 로고
    • Germline transformation used to define key features of heat-shock response elements
    • Xiao H, Lis JT (1988) Germline transformation used to define key features of heat-shock response elements. Science 239(4844): 1139-1142 (Pubitemid 18084322)
    • (1988) Science , vol.239 , Issue.4844 , pp. 1139-1142
    • Xiao, H.1    Lis, J.T.2
  • 8
    • 0027938515 scopus 로고
    • Cooperative binding of heat shock transcription factor to the Hsp70 promoter in vivo and in vitro
    • Amin J, Fernandez M, Ananthan J, Lis JT, Voellmy R (1994) Cooperative binding of heat shock transcription factor to the Hsp70 promoter in vivo and in vitro. J Biol Chem 269(7): 4804-4811 (Pubitemid 24239453)
    • (1994) Journal of Biological Chemistry , vol.269 , Issue.7 , pp. 4804-4811
    • Amin, J.1    Fernandez, M.2    Ananthan, J.3    Lis, J.T.4    Voellmy, R.5
  • 9
    • 0023427519 scopus 로고
    • Purification and characterization of a heat-shock element binding protein from yeast
    • Sorger PK, Pelham HR (1987) Purification and characterization of a heat-shock element binding protein from yeast. EMBO J 6(10):3035-3041
    • (1987) EMBO J , vol.6 , Issue.10 , pp. 3035-3041
    • Sorger, P.K.1    Pelham, H.R.2
  • 10
    • 0024282788 scopus 로고
    • Isolation of the gene encoding the S. cerevisiae heat shock transcription factor
    • Wiederrecht G, Seto D, Parker CS (1988) Isolation of the gene encoding the S. cerevisiae heat shock transcription factor. Cell 54(6):841-853
    • (1988) Cell , vol.54 , Issue.6 , pp. 841-853
    • Wiederrecht, G.1    Seto, D.2    Parker, C.S.3
  • 11
    • 0025606431 scopus 로고
    • Molecular cloning and expression of a hexameric drosophila heat shock factor subject to negative regulation
    • Clos J, Westwood JT, Becker PB et al (1990) Molecular cloning and expression of a hexameric Drosophila heat shock factor subject to negative regulation. Cell 63(5):1085-1097 (Pubitemid 120034949)
    • (1990) Cell , vol.63 , Issue.5 , pp. 1085-1097
    • Clos, J.1    Timothy Westwood, J.2    Becker, P.B.3    Wilson, S.4    Lambert, K.5    Wu, C.6
  • 12
    • 0025989349 scopus 로고
    • Cloning and characterization of two mouse heat shock factors with distinct inducible and constitutive DNA-binding ability
    • Sarge KD, Zimarino V, Holm K, Wu C, Morimoto RI (1991) Cloning and characterization of two mouse heat shock factors with distinct inducible and constitutive DNA-binding ability. Genes Dev 5(10):1902-1911 (Pubitemid 21905884)
    • (1991) Genes and Development , vol.5 , Issue.10 , pp. 1902-1911
    • Sarge, K.D.1    Zimarino, V.2    Holm, K.3    Wu, C.4    Morimoto, R.I.5
  • 13
    • 0025686194 scopus 로고
    • Three tomato genes code for heat stress transcription factors with a region of remarkable homology to the DNA-binding domain of the yeast HSF
    • Scharf KD, Rose S, Zott W, Schoffl F, Novel L (1990) Three tomato genes code for heat stress transcription factors with a region of remarkable homology to the DNA-binding domain of the yeast HSF. EMBO J 9(13):4495-4501 (Pubitemid 120026007)
    • (1990) EMBO Journal , vol.9 , Issue.13 , pp. 4495-4501
    • Scharf, K.-D.1    Rose, S.2    Zott, W.3    Schoff, F.4    Nover, L.5
  • 14
    • 0027163642 scopus 로고
    • Promoter specificity and deletion analysis of three heat stress transcription factors of tomato
    • Treuter E, Nover L, Ohme K, Scharf KD (1993) Promoter specificity and deletion analysis of three heat stress transcription factors of tomato. Mol Gen Genet 240(1):113-125 (Pubitemid 23205602)
    • (1993) Molecular and General Genetics , vol.240 , Issue.1 , pp. 113-125
    • Treuter, E.1    Nover, L.2    Ohme, K.3    Scharf, K.-D.4
  • 15
    • 0027958045 scopus 로고
    • Crystal structure of the DNA binding domain of the heat shock transcription factor
    • Harrison CJ, Bohm AA, Nelson HC (1994) Crystal structure of the DNA binding domain of the heat shock transcription factor. Science 263(5144):224-227 (Pubitemid 24067928)
    • (1994) Science , vol.263 , Issue.5144 , pp. 224-227
    • Harrison, C.J.1    Bohm, A.A.2    Nelson, H.C.M.3
  • 16
    • 0032936785 scopus 로고    scopus 로고
    • A new use for the 'wing' of the 'winged' helix-turn-helix motif in the HSF-DNA cocrystal
    • DOI 10.1038/8269
    • Littlefield O, Nelson HC (1999) A new use for the 'wing' of the 'winged' helix-turn-helix motif in the HSF-DNA cocrystal. Nat Struct Biol 6(5):464-470 (Pubitemid 29218017)
    • (1999) Nature Structural Biology , vol.6 , Issue.5 , pp. 464-470
    • Littlefield, O.1    Nelson, H.C.M.2
  • 17
    • 0034804489 scopus 로고    scopus 로고
    • Arabidopsis and the heat stress transcription factor world: How many heat stress transcription factors do we need?
    • Nover L, Bharti K, Doring P et al (2001) Arabidopsis and the heat stress transcription factor world: how many heat stress transcription factors do we need? Cell Stress Chaperones 6(3): 177-189 (Pubitemid 32912002)
    • (2001) Cell Stress and Chaperones , vol.6 , Issue.3 , pp. 177-189
    • Nover, L.1    Bharti, K.2    Doring, P.3    Mishra, S.K.4    Ganguli, A.5    Scharf, K.-D.6
  • 18
    • 2942664616 scopus 로고    scopus 로고
    • Characterization of C-terminal domains of Arabidopsis heat stress transcription factors (Hsfs) and identification of a new signature combination of plant class a Hsfs with AHA and NES motifs essential for activator function and intracellular localization
    • DOI 10.1111/j.1365-313X.2004.02111.x
    • Kotak S, Port M, Ganguli A et al (2004) Characterization of C-terminal domains of Arabidopsis heat stress transcription factors (Hsfs) and identification of a new signature combination of plant class A Hsfs with AHA and NES motif essential for activator function and intracellular localization. Plant J 39(1):98-112 (Pubitemid 38893581)
    • (2004) Plant Journal , vol.39 , Issue.1 , pp. 98-112
    • Kotak, S.1    Port, M.2    Ganguli, A.3    Bicker, F.4    Von Koskull-Doring, P.5
  • 19
    • 0030320512 scopus 로고    scopus 로고
    • The Hsf world: Classification and properties of plant heat stress transcription factors
    • Nover L, Scharf KD, Gagliardi D et al (1996) The Hsf world: classification and properties of plant heat stress transcription factors. Cell Stress Chaperones 1(4):215-223
    • (1996) Cell Stress Chaperones , vol.1 , Issue.4 , pp. 215-223
    • Nover, L.1    Scharf, K.D.2    Gagliardi, D.3
  • 21
    • 0035138160 scopus 로고    scopus 로고
    • The balance of nuclear import and export determines the intracellular distribution and function of tomato heat stress transcription factor HsfA2
    • DOI 10.1128/MCB.21.5.1759-1768.2001
    • Heerklotz D, Doring P, Bonzelius F, Winkelhaus S, Nove L (2001) The balance of nuclear import and export determines the intracellular distribution and function of tomato heat stress transcription factor HsfA2. Mol Cell Biol 21(5):1759-1768 (Pubitemid 32156396)
    • (2001) Molecular and Cellular Biology , vol.21 , Issue.5 , pp. 1759-1768
    • Heerklotz, D.1    Doring, P.2    Bonzelius, F.3    Winkelhaus, S.4    Nover, L.5
  • 22
    • 0030910075 scopus 로고    scopus 로고
    • Intracellular distribution and identification of the nuclear localization signals of two plant heat-stress transcription factors
    • DOI 10.1007/s004250050110
    • Lyck R, Harmening U, Hohfeld I, Treuter E, Scharf KD, Nover L (1997) Intracellular distribution and identification of the nuclear localization signals of two plant heat-stress transcription factors. Planta 202(1):117-125 (Pubitemid 27201433)
    • (1997) Planta , vol.202 , Issue.1 , pp. 117-125
    • Lyck, R.1    Harmening, U.2    Hohfeld, I.3    Treuter, E.4    Scharf, K.-D.5    Nover, L.6
  • 25
    • 25444479978 scopus 로고    scopus 로고
    • Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
    • Wistrand M, Sonnhammer EL (2005) Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER. BMC Bioinformatics 6:99
    • (2005) BMC Bioinformatics , vol.6 , pp. 99
    • Wistrand, M.1    Sonnhammer, E.L.2
  • 26
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22(22): 4673-4680 (Pubitemid 24354800)
    • (1994) Nucleic Acids Research , vol.22 , Issue.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 27
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • DOI 10.1093/molbev/msm092
    • Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24(8):1596-1599 (Pubitemid 47236692)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.8 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 28
    • 0006081303 scopus 로고
    • Mathematics vs. evolution: Mathematical evolutionary theory
    • Felsenstein J (1989) Mathematics vs. evolution: mathematical evolutionary theory. Science 246(4932):941-942
    • (1989) Science , vol.246 , Issue.4932 , pp. 941-942
    • Felsenstein, J.1
  • 30
    • 10944230777 scopus 로고    scopus 로고
    • Duplication and divergence: The evolution of new genes and old ideas
    • DOI 10.1146/annurev.genet.38.072902.092831
    • Taylor JS, Raes J (2004) Duplication and divergence: the evolution of new genes and old ideas. Annu Rev Genet 38:615-643 (Pubitemid 40017189)
    • (2004) Annual Review of Genetics , vol.38 , pp. 615-643
    • Taylor, J.S.1    Raes, J.2
  • 31
    • 2642701744 scopus 로고    scopus 로고
    • The FRUITFULL MADS-box gene mediates cell differentiation during Arabidopsis fruit development
    • Gu Q, Ferrandiz C, Yanofsky MF, Martienssen R (1998) The FRUITFULL MADS-box gene mediates cell differentiation during Arabidopsis fruit development. Development 125(8): 1509-1517 (Pubitemid 28239361)
    • (1998) Development , vol.125 , Issue.8 , pp. 1509-1517
    • Gu, Q.1    Ferrandiz, C.2    Yanofsky, M.F.3    Martienssen, R.4
  • 32
    • 49749103942 scopus 로고    scopus 로고
    • Recent duplications dominate NBS-encoding gene expansion in two woody species
    • Yang S, Zhang X, Yue JX, Tian D, Chen JQ (2008) Recent duplications dominate NBS-encoding gene expansion in two woody species. Mol Genet Genomics 280(3):187-198
    • (2008) Mol Genet Genomics , vol.280 , Issue.3 , pp. 187-198
    • Yang, S.1    Zhang, X.2    Yue, J.X.3    Tian, D.4    Chen, J.Q.5
  • 33
    • 0036190876 scopus 로고    scopus 로고
    • GenomePixelizer - A visualization program for comparative genomics within and between species
    • Kozik A, Kochetkova E, Michelmore R (2002) GenomePixeliz-er-a visualization program for comparative genomics within and between species. Bioinformatics 18(2):335-336 (Pubitemid 34183118)
    • (2002) Bioinformatics , vol.18 , Issue.2 , pp. 335-336
    • Kozik, A.1    Kochetkova, E.2    Michelmore, R.3
  • 34
    • 57349083355 scopus 로고    scopus 로고
    • Molecular cloning, tissue distribution and bioinformatics analyses of the rabbit BK channel beta1 subunit gene
    • Zhang XY, Wang S, Yan Z et al (2008) Molecular cloning, tissue distribution and bioinformatics analyses of the rabbit BK channel beta1 subunit gene. Mol Biol Rep 35(4):649-655
    • (2008) Mol Biol Rep , vol.35 , Issue.4 , pp. 649-655
    • Zhang, X.Y.1    Wang, S.2    Yan, Z.3
  • 35
    • 44449148972 scopus 로고    scopus 로고
    • The lambda red proteins promote efficient recombination between diverged sequences: Implications for bacteriophage genome mosaicism
    • Martinsohn JT, Radman M, Petit MA (2008) The lambda red proteins promote efficient recombination between diverged sequences: implications for bacteriophage genome mosaicism. PLoS Genet 4(5):e1000065
    • (2008) PLoS Genet , vol.4 , Issue.5
    • Martinsohn, J.T.1    Radman, M.2    Petit, M.A.3
  • 36
    • 0022379715 scopus 로고
    • Morphological study of the mammalian stress response: Characterization of changes in cytoplasmic organelles, cytoskeleton, and nucleoli, and appearance of intranuclear actin filaments in rat fibroblasts after heat-shock treatment
    • DOI 10.1083/jcb.101.4.1198
    • Welch WJ, Suhan JP (1985) Morphological study of the mammalian stress response: characterization of changes in cytoplas-mic organelles, cytoskeleton, and nucleoli, and appearance of intranuclear actin filaments in rat fibroblasts after heat-shock treatment. J Cell Biol 101(4):1198-1211 (Pubitemid 16203736)
    • (1985) Journal of Cell Biology , vol.101 , Issue.4 , pp. 1198-1211
    • Welch, W.J.1    Suhan, J.P.2
  • 37
    • 33746271646 scopus 로고    scopus 로고
    • Comparison of current BLAST software on nucleotide sequences
    • Elizabeth Cha I, Rouchka EC (2005) Comparison of current BLAST software on nucleotide sequences. IPDPS 19:8
    • (2005) IPDPS , vol.19 , pp. 8
    • Elizabeth Cha, I.1    Rouchka, E.C.2
  • 38
    • 0034671866 scopus 로고    scopus 로고
    • The origins of genomic duplications in Arabidopsis
    • DOI 10.1126/science.290.5499.2114
    • Vision TJ, Brown DG, Tanksley SD (2000) The origins of genomic duplications in Arabidopsis. Science 290(5499): 2114-2117 (Pubitemid 32001585)
    • (2000) Science , vol.290 , Issue.5499 , pp. 2114-2117
    • Vision, T.J.1    Brown, D.G.2    Tanksley, S.D.3
  • 39
    • 0038505670 scopus 로고    scopus 로고
    • The evolution of floral homeotic gene function
    • DOI 10.1002/bies.10292
    • Irish VF (2003) The evolution of floral homeotic gene function. Bioessays 25(7):637-646 (Pubitemid 36850792)
    • (2003) BioEssays , vol.25 , Issue.7 , pp. 637-646
    • Irish, V.F.1
  • 40
    • 79954420388 scopus 로고    scopus 로고
    • Whole-genome survey and characterization of MADS-box gene family in maize and sorghum
    • Zhao Y, Li XY, Chen WJ et al (2011) Whole-genome survey and characterization of MADS-box gene family in maize and sorghum. Plant Cell Tiss Organ Cult 105:159-173
    • (2011) Plant Cell Tiss Organ Cult , vol.105 , pp. 159-173
    • Zhao, Y.1    Li, X.Y.2    Chen, W.J.3
  • 41
    • 0037097984 scopus 로고    scopus 로고
    • In the complex family of heat stress transcription factors, HsfA1 has a unique role as master regulator of thermotolerance in tomato
    • DOI 10.1101/gad.228802
    • Mishra SK, Tripp J, Winkelhaus S et al (2002) In the complex family of heat stress transcription factors, HsfA1 has a unique role as master regulator of thermotolerance in tomato. Genes Dev 16(12):1555-1567 (Pubitemid 34686336)
    • (2002) Genes and Development , vol.16 , Issue.12 , pp. 1555-1567
    • Mishra, S.K.1    Tripp, J.2    Winkelhaus, S.3    Tschiersch, B.4    Theres, K.5    Nover, L.6    Scharf, K.-D.7
  • 42
    • 33846345430 scopus 로고    scopus 로고
    • A heat-inducible transcription factor, Hsf2, is required for extension of acquired thermotolerance in Arabidopsis
    • Charng YY, Liu HC, Liu NY et al (2007) A heat-inducible transcription factor, Hsf2, is required for extension of acquired thermotolerance in Arabidopsis. Plant Physiol 143(1):251-262
    • (2007) Plant Physiol , vol.143 , Issue.1 , pp. 251-262
    • Charng, Y.Y.1    Liu, H.C.2    Liu, N.Y.3
  • 43
    • 0032126562 scopus 로고    scopus 로고
    • Expression levels of heat shock factors are not functionally coupled to the rate of expression of heat shock genes
    • DOI 10.1023/A:1006801205904
    • Victor M, Benecke BJ (1998) Expression levels of heat shock factors are not functionally coupled to the rate of expression of heat shock genes. Mol Biol Rep 25(3):135-141 (Pubitemid 28324687)
    • (1998) Molecular Biology Reports , vol.25 , Issue.3 , pp. 135-141
    • Victor, M.1    Benecke, B.-J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.