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Volumn 10, Issue , 2009, Pages

Integrating microarray analysis and the soybean genome to understand the soybeans iron deficiency response

Author keywords

[No Author keywords available]

Indexed keywords

5' UNTRANSLATED REGION; ARTICLE; CONTROLLED STUDY; GENE CLUSTER; GENE EXPRESSION; GENE IDENTIFICATION; GENOTYPE; IRON DEFICIENCY; MICROARRAY ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT GENOME; PROTEIN ASSEMBLY; PROTEIN MOTIF; QUANTITATIVE TRAIT LOCUS; REAL TIME POLYMERASE CHAIN REACTION; SINGLE NUCLEOTIDE POLYMORPHISM; SOYBEAN; STRESS; CLUSTER ANALYSIS; DNA MICROARRAY; DNA SEQUENCE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; PLANT DISEASE; PLANT GENE; PROMOTER REGION;

EID: 69549111116     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-10-376     Document Type: Article
Times cited : (52)

References (51)
  • 1
    • 3142781945 scopus 로고    scopus 로고
    • Iron, Ferritin, and Nutrition
    • 10.1146/annurev.nutr.24.012003.132212 15189124
    • Theil EC Iron, Ferritin, and Nutrition Annual Review of Nutrition 2004, 24:327-343 10.1146/annurev.nutr.24.012003.132212 15189124
    • (2004) Annual Review of Nutrition , vol.24 , pp. 327-343
    • Theil, E.C.1
  • 2
    • 33644750424 scopus 로고    scopus 로고
    • Progress in the genetic understanding of palnt iron and zinc nutrition
    • 10.1111/j.1399-3054.2006.00646.x
    • Ghandilyan A Vreugdenhil D Aarts aMGM Progress in the genetic understanding of palnt iron and zinc nutrition Physiologia Plantarum 2006, 126:407-417 10.1111/j.1399-3054.2006.00646.x
    • (2006) Physiologia Plantarum , vol.126 , pp. 407-417
    • Ghandilyan, A.1    Vreugdenhil, D.2    Aarts, A.M.G.M.3
  • 4
    • 2342599095 scopus 로고    scopus 로고
    • Mapping genetic loci for iron deficiency chlorosis in soybean
    • 10.1023/A:1009637320805
    • Lin S Cianzio SR Shoemaker RC Mapping genetic loci for iron deficiency chlorosis in soybean Molecular Breeding 1997, 3:219-229 10.1023/ A:1009637320805
    • (1997) Molecular Breeding , vol.3 , pp. 219-229
    • Lin, S.1    Cianzio, S.R.2    Shoemaker, R.C.3
  • 5
    • 0345566366 scopus 로고    scopus 로고
    • Soybean: Iron Deficiency of Soybean in the Upper Midwest and Associated Soil Properties
    • Hansen NC Schmitt MA Anderson JE Strock JS Soybean: Iron Deficiency of Soybean in the Upper Midwest and Associated Soil Properties Agronomy Journal 2003, 95:1595-1601
    • (2003) Agronomy Journal , vol.95 , pp. 1595-1601
    • Hansen, N.C.1    Schmitt, M.A.2    Anderson, J.E.3    Strock, J.S.4
  • 6
    • 0012676332 scopus 로고
    • Soil chemical factors associated with soybean chlorosis in calciaquolls of western minnesota
    • Inskeep WP Bloom PR Soil chemical factors associated with soybean chlorosis in calciaquolls of western minnesota Agronomy Journal 1987, 79:779-786
    • (1987) Agronomy Journal , vol.79 , pp. 779-786
    • Inskeep, W.P.1    Bloom, P.R.2
  • 7
    • 0000527867 scopus 로고
    • Different Strategies for Iron Acquisition in Higher Plants
    • 10.1111/j.1399-3054.1987.tb06137.x
    • Romheld V Different Strategies for Iron Acquisition in Higher Plants Physiol Plant 1987, 70:231-234 10.1111/j.1399-3054.1987.tb06137.x
    • (1987) Physiol Plant , vol.70 , pp. 231-234
    • Romheld, V.1
  • 8
    • 0002286083 scopus 로고
    • Evidence for a Specific Uptake System for Iron Phytosiderophores in Roots of Grasses
    • 10.1104/pp.80.1.175 1075078 16664577
    • Romheld V Marschner H Evidence for a Specific Uptake System for Iron Phytosiderophores in Roots of Grasses Plant Physiol 1986, 80(1):175-180 10.1104/pp.80.1.175 1075078 16664577
    • (1986) Plant Physiol , vol.80 , Issue.1 , pp. 175-180
    • Romheld, V.1    Marschner, H.2
  • 9
    • 0345392723 scopus 로고    scopus 로고
    • Overexpression of the FRO2 ferric chelate reductase confers tolerance to growth on low iron and uncovers posttranscriptional control
    • 10.1104/pp.103.025122 281606 14526117
    • Connolly EL Campbell NH Grotz N Prichard CL Guerinot ML Overexpression of the FRO2 ferric chelate reductase confers tolerance to growth on low iron and uncovers posttranscriptional control Plant Physiol 2003, 133(3):1102-1110 10.1104/pp.103.025122 281606 14526117
    • (2003) Plant Physiol , vol.133 , Issue.3 , pp. 1102-1110
    • Connolly, E.L.1    Campbell, N.H.2    Grotz, N.3    Prichard, C.L.4    Guerinot, M.L.5
  • 10
    • 0031887581 scopus 로고    scopus 로고
    • Field and nutrient solution tests measure similar mechanisms controlling iron deficiency chlorosis in soybean
    • Lin S Baumer JS Ivers D Cianzio SR Shoemaker RC Field and nutrient solution tests measure similar mechanisms controlling iron deficiency chlorosis in soybean Crop Science 1998, 38:254-259
    • (1998) Crop Science , pp. 254-259
    • Lin, S.1    Baumer, J.S.2    Ivers, D.3    Cianzio, S.R.4    Shoemaker, R.C.5
  • 13
    • 37249087838 scopus 로고    scopus 로고
    • Coordinate gene regulation during hematopoiesis is related to genomic organization
    • 10.1371/journal.pbio.0050309
    • Kosak ST Scalzo D Alworth SV Li F Palmer S Enver T Lee JSJ Groudine M Coordinate gene regulation during hematopoiesis is related to genomic organization PLoS Biology 2007, 5(11):2602-2613 10.1371/ journal.pbio.0050309
    • (2007) PLoS Biology , vol.5 , Issue.11 , pp. 2602-2613
    • Kosak, S.T.1    Scalzo, D.2    Alworth, S.V.3    Li, F.4    Palmer, S.5    Enver, T.6    Lee, J.S.J.7    Groudine, M.8
  • 14
    • 0036890388 scopus 로고    scopus 로고
    • Natural selection promotes the conservation of linkage of co-expressed genes
    • 10.1016/S0168-9525(02)02813-5 12446137
    • Hurst LD Williams EJB Pal C Natural selection promotes the conservation of linkage of co-expressed genes TRENDS in Genetics 2002, 18(12):604-606 10.1016/S0168-9525(02)02813-5 12446137
    • (2002) TRENDS in Genetics , vol.18 , Issue.12 , pp. 604-606
    • Hurst, L.D.1    Williams, E.J.B.2    Pal, C.3
  • 15
    • 3042569650 scopus 로고    scopus 로고
    • Coexpression of neighboring genes in the genome of Arabidopsis thaliana
    • 10.1101/gr.2131104 419784 15173112
    • Williams EJBa Bowles DJ Coexpression of neighboring genes in the genome of Arabidopsis thaliana Genome Research 2004, 14:1060-1067 10.1101/ gr.2131104 419784 15173112
    • (2004) Genome Research , vol.14 , pp. 1060-1067
    • Williams, E.J.Ba.1    Bowles, D.J.2
  • 16
    • 34848897175 scopus 로고    scopus 로고
    • Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains
    • 10.1007/s11103-007-9209-0 2039854 17641976
    • Ren XY Stickema W Nap JP Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains Plant Molecular Biology 2007, 65:205-217 10.1007/s11103-007-9209-0 2039854 17641976
    • (2007) Plant Molecular Biology , vol.65 , pp. 205-217
    • Ren, X.Y.1    Stickema, W.2    Nap, J.P.3
  • 17
    • 39149119250 scopus 로고    scopus 로고
    • Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes
    • 10.1016/j.ygeno.2007.11.002 18082363
    • Michalak P Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes Genomics 2008, 91(3):243-248 10.1016/j.ygeno.2007.11.002 18082363
    • (2008) Genomics , vol.91 , Issue.3 , pp. 243-248
    • Michalak, P.1
  • 18
    • 34248650427 scopus 로고    scopus 로고
    • Gene expession neighborhoods
    • 10.1186/1475-4924-1-4
    • Oliver B Parisi M Clark D Gene expession neighborhoods Journal of Biology 2002, 1(1):1-4 10.1186/1475-4924-1-4
    • (2002) Journal of Biology , vol.1 , Issue.1 , pp. 1-4
    • Oliver, B.1    Parisi, M.2    Clark, D.3
  • 20
    • 19544382556 scopus 로고    scopus 로고
    • DATF: A Database of Arabidopsis Transcription Factors
    • 10.1093/bioinformatics/bti334 15731212
    • Guo AY He K Liu D Bai S Gu X Wei L Luo J DATF: A Database of Arabidopsis Transcription Factors Bioinformatics 2005, 21:2568-2569 10.1093/ bioinformatics/bti334 15731212
    • (2005) Bioinformatics , vol.21 , pp. 2568-2569
    • Guo, A.Y.1    He, K.2    Liu, D.3    Bai, S.4    Gu, X.5    Wei, L.6    Luo, J.7
  • 22
    • 0000699697 scopus 로고
    • The genomic relationship between Glycine max (L.) Merr. and G. soja Sieb. and Zucc. as revealed by pachytene chromosome analysis
    • 10.1007/BF00303516
    • Singh RJ Hymowitz T The genomic relationship between Glycine max (L.) Merr. and G. soja Sieb. and Zucc. as revealed by pachytene chromosome analysis Theor Appl Genet 1988, 76:705-711 10.1007/BF00303516
    • (1988) Theor Appl Genet , vol.76 , pp. 705-711
    • Singh, R.J.1    Hymowitz, T.2
  • 24
    • 0035201585 scopus 로고    scopus 로고
    • Response of Arabidopsis to iron deficiency stress as revealed by microarray analysis
    • 10.1104/pp.010191 129273 11706184
    • Thimm O Essigmann B Kloska S Altmann T Buckhout TJ Response of Arabidopsis to iron deficiency stress as revealed by microarray analysis Plant Physiology 2001, 127:1030-1043 10.1104/pp.010191 129273 11706184
    • (2001) Plant Physiology , vol.127 , pp. 1030-1043
    • Thimm, O.1    Essigmann, B.2    Kloska, S.3    Altmann, T.4    Buckhout, T.J.5
  • 25
    • 0034078393 scopus 로고    scopus 로고
    • Metabolic responses incucumber (Cucumis sativus L.) roots under Fe-deficiency: A 31P-nuclear magnetic resonance in-vivo study
    • 10.1007/s004250050707 10872232
    • Espen L Dell'Orto M De Nissi P Zocchi G Metabolic responses incucumber (Cucumis sativus L.) roots under Fe-deficiency: A 31P-nuclear magnetic resonance in-vivo study Planta 2000, 210:985-992 10.1007/s004250050707 10872232
    • (2000) Planta , vol.210 , pp. 985-992
    • Espen, L.1    Dell'Orto, M.2    De Nissi, P.3    Zocchi, G.4
  • 26
    • 34247220295 scopus 로고    scopus 로고
    • Iron deficiency differently affects metabolic responses in soybean roots
    • 10.1093/jxb/erl259 17229758
    • Zocchi G De Nisi P Dell'Orto M Espen L Gallina PM Iron deficiency differently affects metabolic responses in soybean roots Journal of experimental botany 2007, 58(5):993-1000 10.1093/jxb/erl259 17229758
    • (2007) Journal of Experimental Botany , vol.58 , Issue.5 , pp. 993-1000
    • Zocchi, G.1    De Nisi, P.2    Dell'Orto, M.3    Espen, L.4    Gallina, P.M.5
  • 28
    • 34047142294 scopus 로고    scopus 로고
    • Protective effect of nitric oxide on iron deficiency-induced oxidative stress in maize (Zea mays)
    • 10.1016/j.jplph.2006.02.011 16690167
    • Sun B Jing Y Chen K Song L Chen F Zhang L Protective effect of nitric oxide on iron deficiency-induced oxidative stress in maize (Zea mays) Journal of plant physiology 2007, 164(5):536-543 10.1016/ j.jplph.2006.02.011 16690167
    • (2007) Journal of Plant Physiology , vol.164 , Issue.5 , pp. 536-543
    • Sun, B.1    Jing, Y.2    Chen, K.3    Song, L.4    Chen, F.5    Zhang, L.6
  • 29
    • 26944466421 scopus 로고    scopus 로고
    • Local coexpression domains of two to four genes in the genome of Arabidopsis
    • 10.1104/pp.104.055673 1150408 15923337
    • Ren X Stickema W Nap J Local coexpression domains of two to four genes in the genome of Arabidopsis Plant Physiology 2005, 138:923-934 10.1104/ pp.104.055673 1150408 15923337
    • (2005) Plant Physiology , vol.138 , pp. 923-934
    • Ren, X.1    Stickema, W.2    Nap, J.3
  • 30
    • 33644871314 scopus 로고    scopus 로고
    • Islands of co-expressed neighboruring genes in Arabidopsis thaliana suggest higher-order chromosome domains
    • 10.1111/j.1365-313X.2005.02619.x 16412082
    • Zhan S Horrocks J Lukens LN Islands of co-expressed neighboruring genes in Arabidopsis thaliana suggest higher-order chromosome domains Plant Journal 2006, 45:347-357 10.1111/j.1365-313X.2005.02619.x 16412082
    • (2006) Plant Journal , vol.45 , pp. 347-357
    • Zhan, S.1    Horrocks, J.2    Lukens, L.N.3
  • 31
    • 25444516785 scopus 로고    scopus 로고
    • Chromosomal clustering of a human transcriptome reveals regulatory Background
    • 10.1186/1471-2105-6-230 1261156 16171528
    • Vogel JH von Heydebrek A Purmmann a A Sperling S Chromosomal clustering of a human transcriptome reveals regulatory Background BMC Bioinformatics 2005, 6:230 10.1186/1471-2105-6-230 1261156 16171528
    • (2005) BMC Bioinformatics , vol.6 , pp. 230
    • Vogel, J.H.1    von Heydebrek, A.2    Purmmann, A.3    Sperling, S.4
  • 32
    • 55849095488 scopus 로고    scopus 로고
    • Single feature polymorphism discovery in rice
    • 10.1371/journal.pone.0000284 1808426 17372626
    • Kumar R Qiu J Joshi T Valliyodan B Xu D Nguyen HT Single feature polymorphism discovery in rice PLoS One 2007, 2(3):e284 10.1371/ journal.pone.0000284 1808426 17372626
    • (2007) PLoS One , vol.2 , Issue.3
    • Kumar, R.1    Qiu, J.2    Joshi, T.3    Valliyodan, B.4    Xu, D.5    Nguyen, H.T.6
  • 34
    • 27644503979 scopus 로고    scopus 로고
    • Molecular marker Satt481 is sssociated with iron-deficiency chlorosis resistance in a soybean breeding population
    • 10.2135/cropsci2004.0510
    • Charlson DV Grant D Bailey TB Cianzio SR Shoemaker RC Molecular marker Satt481 is sssociated with iron-deficiency chlorosis resistance in a soybean breeding population Crop Science 2005:2394-2399 10.2135/ cropsci2004.0510
    • (2005) Crop Science , pp. 2394-2399
    • Charlson, D.V.1    Grant, D.2    Bailey, T.B.3    Cianzio, S.R.4    Shoemaker, R.C.5
  • 35
    • 43349088558 scopus 로고    scopus 로고
    • Association mapping of iron deficiency chlorosis loci in soybean (Glycine max L. Merr.) advanced breeding lines
    • 10.1007/s00122-008-0710-x 18292984
    • Wang J McLean PE Lee R Goos RJ Helms T Association mapping of iron deficiency chlorosis loci in soybean (Glycine max L. Merr.) advanced breeding lines Theoretical and Applied Genetics 2008, 116(6):777-787 10.1007/s00122-008-0710-x 18292984
    • (2008) Theoretical and Applied Genetics , vol.116 , Issue.6 , pp. 777-787
    • Wang, J.1    McLean, P.E.2    Lee, R.3    Goos, R.J.4    Helms, T.5
  • 36
    • 34547877622 scopus 로고    scopus 로고
    • A novel nucleus-encoded chloroplast protein, PIFI, is involved in NAD(P)H dehydrogenase complex-mediated chlororespiratory electron transport in Arabidopsis
    • 10.1104/pp.107.103218 1949905 17573537
    • Wang D Portis AR A novel nucleus-encoded chloroplast protein, PIFI, is involved in NAD(P)H dehydrogenase complex-mediated chlororespiratory electron transport in Arabidopsis Plant Physiology 2007, 144(4):1742-1752 10.1104/pp.107.103218 1949905 17573537
    • (2007) Plant Physiology , vol.144 , Issue.4 , pp. 1742-1752
    • Wang, D.1    Portis, A.R.2
  • 39
    • 40249095934 scopus 로고    scopus 로고
    • FIT interacts iwth AtbHLH38 and AtbHLH39 in regulating iron uptake gene expression for iron homeostasis in Arabidopsis
    • 10.1038/cr.2008.26 18268542
    • Youxi Y Wu H Wang N Li J Zhao W Du J Wang D Ling H FIT interacts iwth AtbHLH38 and AtbHLH39 in regulating iron uptake gene expression for iron homeostasis in Arabidopsis Cell Research 2008, 18:385-397 10.1038/ cr.2008.26 18268542
    • (2008) Cell Research , vol.18 , pp. 385-397
    • Youxi, Y.1    Wu, H.2    Wang, N.3    Li, J.4    Zhao, W.5    Du, J.6    Wang, D.7    Ling, H.8
  • 40
    • 34548034674 scopus 로고    scopus 로고
    • Iron deficiency-mediated stress regulation of four subgroup Ib BHLH genes in Arabidopsis thaliana
    • 10.1007/s00425-007-0535-x 17516080
    • Wang HY Klatte M Jakoby M Baumlein H Weisshaar B Bauer P Iron deficiency-mediated stress regulation of four subgroup Ib BHLH genes in Arabidopsis thaliana Planta 2007, 226:897-908 10.1007/s00425-007-0535-x 17516080
    • (2007) Planta , vol.226 , pp. 897-908
    • Wang, H.Y.1    Klatte, M.2    Jakoby, M.3    Baumlein, H.4    Weisshaar, B.5    Bauer, P.6
  • 41
    • 0001626259 scopus 로고
    • Possible identification of quantitative trait loci affecting iron efficiency in soybean
    • 10.1080/01904169209364462
    • Diers BW Cianzio SR Shoemaker RC Possible identification of quantitative trait loci affecting iron efficiency in soybean Journal of Plant Nutrition 1992, 15(10):2127-2136 10.1080/01904169209364462
    • (1992) Journal of Plant Nutrition , vol.15 , Issue.10 , pp. 2127-2136
    • Diers, B.W.1    Cianzio, S.R.2    Shoemaker, R.C.3
  • 42
    • 84886765612 scopus 로고    scopus 로고
    • Affymetrix http://www.affymetrix.com
    • Affymetrix
  • 43
    • 0005052243 scopus 로고    scopus 로고
    • USDA A, National Genetic Resources Program GRIN National Germplasm Resources Laboratory, Beltsville, Maryland
    • USDA A, National Genetic Resources Program Germplasm Resource Information Network - GRIN National Germplasm Resources Laboratory, Beltsville, Maryland 2004
    • (2004) Germplasm Resource Information Network - GRIN
  • 44
    • 17744413236 scopus 로고    scopus 로고
    • Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application
    • Li C Wong WH Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application Genome Biology 2001, 2(8):1-11
    • (2001) Genome Biology , vol.2 , Issue.8 , pp. 1-11
    • Li, C.1    Wong, W.H.2
  • 45
    • 0343183683 scopus 로고
    • A preliminary linkage test with Agouti and Undulated mice; the fifth linkage-group
    • 10.1038/hdy.1949.16
    • Fisher R A preliminary linkage test with Agouti and Undulated mice; the fifth linkage-group Heredity 1949, 3:229-241 10.1038/hdy.1949.16
    • (1949) Heredity , vol.3 , pp. 229-241
    • Fisher, R.1
  • 47
    • 0034668118 scopus 로고    scopus 로고
    • Quantitative reverse transcription-polymerase chain reaction to study mRNA decay: Comparison of endpoint and real-time methods
    • 10.1006/abio.2000.4753 11017702
    • Schmittgen TD Zakrajsek BA Mills AG Gorn V Singer MJ Reed MW Quantitative reverse transcription-polymerase chain reaction to study mRNA decay: Comparison of endpoint and real-time methods Analytical Biochemistry 2000, 285:194-204 10.1006/abio.2000.4753 11017702
    • (2000) Analytical Biochemistry , vol.285 , pp. 194-204
    • Schmittgen, T.D.1    Zakrajsek, B.A.2    Mills, A.G.3    Gorn, V.4    Singer, M.J.5    Reed, M.W.6
  • 48
    • 33744810323 scopus 로고    scopus 로고
    • High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis
    • 10.1101/gr.5011206 1473188 16702412
    • West MA van Leeuwen H Kozik A Kliebenstein DJ Doerge RW St Clair DA Michelmore RW High-density haplotyping with microarray-based expression and single feature polymorphism markers in Arabidopsis Genome Research 2006, 16(6):787-795 10.1101/gr.5011206 1473188 16702412
    • (2006) Genome Research , vol.16 , Issue.6 , pp. 787-795
    • West, M.A.1    van Leeuwen, H.2    Kozik, A.3    Kliebenstein, D.J.4    Doerge, R.W.5    St Clair, D.A.6    Michelmore, R.W.7
  • 49
    • 0142121516 scopus 로고    scopus 로고
    • Exploration, normalization and summaries of high density oligonucleotide array probe level data
    • 10.1093/biostatistics/4.2.249 12925520
    • Irizarry RA Hobbs B Collin F Beazer-Barclay YD Antonellis KJ Scherf U Speed TP Exploration, normalization and summaries of high density oligonucleotide array probe level data Biostatistics 2003, 4:249-264 10.1093/biostatistics/4.2.249 12925520
    • (2003) Biostatistics , vol.4 , pp. 249-264
    • Irizarry, R.A.1    Hobbs, B.2    Collin, F.3    Beazer-Barclay, Y.D.4    Antonellis, K.J.5    Scherf, U.6    Speed, T.P.7
  • 50
    • 0034636168 scopus 로고    scopus 로고
    • Genome organization in dicots: Genome duplication in Arabidopsis and synteny between soybean and Arabidopsis
    • 10.1073/pnas.070430597
    • Grant D Cregan P Shoemaker RC Genome organization in dicots: Genome duplication in Arabidopsis and synteny between soybean and Arabidopsis Proceedings of the National Academy of Science 2000, 97(8):4168-4173 10.1073/pnas.070430597
    • (2000) Proceedings of the National Academy of Science , vol.97 , Issue.8 , pp. 4168-4173
    • Grant, D.1    Cregan, P.2    Shoemaker, R.C.3
  • 51
    • 33747823564 scopus 로고    scopus 로고
    • MEME: Discovering and analyzing DNA and protein sequence motifs
    • Web Server
    • Bailey TL Wiliams N Misleh C Li WW MEME: Discovering and analyzing DNA and protein sequence motifs Nucleic Acids Research 1996, 34: Web Server W369-W373
    • (1996) Nucleic Acids Research , vol.34
    • Bailey, T.L.1    Wiliams, N.2    Misleh, C.3    Li, W.W.4


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