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Volumn 6, Issue 6, 2011, Pages

The first insight into the tissue specific taxus transcriptome via illumina second generation sequencing

Author keywords

[No Author keywords available]

Indexed keywords

TAXANE DERIVATIVE; MESSENGER RNA; TAXOID;

EID: 79959472680     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0021220     Document Type: Article
Times cited : (177)

References (40)
  • 1
    • 38849200942 scopus 로고    scopus 로고
    • Phylogenetic Relationships of the Genus Taxus Inferred from Chloroplast Intergenic Spacer and Nuclear Coding DNA
    • Hao DC, Huang B, Yang L, (2008) Phylogenetic Relationships of the Genus Taxus Inferred from Chloroplast Intergenic Spacer and Nuclear Coding DNA. Biol pharm bull 31: 260-265.
    • (2008) Biol Pharm Bull , vol.31 , pp. 260-265
    • Hao, D.C.1    Huang, B.2    Yang, L.3
  • 2
    • 56249103747 scopus 로고    scopus 로고
    • Interspecific relationships and origins of Taxaceae and Cephalotaxaceae revealed by partitioned Bayesian analyses of chloroplast and nuclear DNA sequences
    • Hao DC, Xiao PG, Huang B, Ge GB, Yang L, (2008) Interspecific relationships and origins of Taxaceae and Cephalotaxaceae revealed by partitioned Bayesian analyses of chloroplast and nuclear DNA sequences. Plant syst evol 276: 89-104.
    • (2008) Plant Syst Evol , vol.276 , pp. 89-104
    • Hao, D.C.1    Xiao, P.G.2    Huang, B.3    Ge, G.B.4    Yang, L.5
  • 3
    • 0035926851 scopus 로고    scopus 로고
    • Taxol, a Molecule for All Seasons
    • Kingston DGI, (2001) Taxol, a Molecule for All Seasons. Chem Comm 10: 867-880.
    • (2001) Chem Comm , vol.10 , pp. 867-880
    • Kingston, D.G.I.1
  • 4
    • 49149107714 scopus 로고    scopus 로고
    • Profiling of yew hair roots from various species using ultra-performance liquid chromatography/electrospray ionization mass spectrometry
    • Ge GB, Luan HW, Zhang YY, He YQ, Liu XB, et al. (2008) Profiling of yew hair roots from various species using ultra-performance liquid chromatography/electrospray ionization mass spectrometry. Rapid Commun Mass Spectrom 22: 2315-2323.
    • (2008) Rapid Commun Mass Spectrom , vol.22 , pp. 2315-2323
    • Ge, G.B.1    Luan, H.W.2    Zhang, Y.Y.3    He, Y.Q.4    Liu, X.B.5
  • 5
    • 44949193282 scopus 로고    scopus 로고
    • Chemotaxonomic study of medicinal Taxus species with fingerprint and multivariate analysis
    • Ge GB, Zhang YY, Hao DC, Hu Y, Luan HW, et al. (2008) Chemotaxonomic study of medicinal Taxus species with fingerprint and multivariate analysis. Planta Med 74: 773-779.
    • (2008) Planta Med , vol.74 , pp. 773-779
    • Ge, G.B.1    Zhang, Y.Y.2    Hao, D.C.3    Hu, Y.4    Luan, H.W.5
  • 6
    • 0034142272 scopus 로고    scopus 로고
    • Screening of the needles of different yew species and cultivars for paclitaxel and related taxoids
    • van Rozendaal E, Lelyveld G, van Beek T, (2000) Screening of the needles of different yew species and cultivars for paclitaxel and related taxoids. Phytochemistry 53: 383-389.
    • (2000) Phytochemistry , vol.53 , pp. 383-389
    • van Rozendaal, E.1    Lelyveld, G.2    van Beek, T.3
  • 7
    • 34249723655 scopus 로고    scopus 로고
    • Advanced sequencing technologies and their wider impact in microbiology
    • Hall N, (2007) Advanced sequencing technologies and their wider impact in microbiology. J Exp Biol 210: 1518-1525.
    • (2007) J Exp Biol , vol.210 , pp. 1518-1525
    • Hall, N.1
  • 8
    • 37749031255 scopus 로고    scopus 로고
    • Next-generation sequencing transforms today's biology
    • Schuster SC, (2008) Next-generation sequencing transforms today's biology. Nat Methods 5: 16-18.
    • (2008) Nat Methods , vol.5 , pp. 16-18
    • Schuster, S.C.1
  • 9
    • 52949096084 scopus 로고    scopus 로고
    • Next-generation DNA sequencing methods
    • Mardis ER, (2008) Next-generation DNA sequencing methods. Annu Rev Genomics Hum Genet 9: 387-402.
    • (2008) Annu Rev Genomics Hum Genet , vol.9 , pp. 387-402
    • Mardis, E.R.1
  • 10
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies - the next generation
    • Metzker ML, (2010) Sequencing technologies- the next generation. Nat Rev Genet 11: 31-46.
    • (2010) Nat Rev Genet , vol.11 , pp. 31-46
    • Metzker, M.L.1
  • 11
    • 64749084488 scopus 로고    scopus 로고
    • An approach to transcriptome analysis of non-model organisms using short-read sequences
    • Collins LJ, Biggs PJ, Voelckel C, Joly S, (2008) An approach to transcriptome analysis of non-model organisms using short-read sequences. Genome Inform 21: 3-14.
    • (2008) Genome Inform , vol.21 , pp. 3-14
    • Collins, L.J.1    Biggs, P.J.2    Voelckel, C.3    Joly, S.4
  • 12
    • 78650502725 scopus 로고    scopus 로고
    • De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweet potato (Ipomoea batatas)
    • Wang Z, Fang B, Chen J, Zhang X, Luo Z, et al. (2010) De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweet potato (Ipomoea batatas). BMC Genomics 11: 726.
    • (2010) BMC Genomics , vol.11 , pp. 726
    • Wang, Z.1    Fang, B.2    Chen, J.3    Zhang, X.4    Luo, Z.5
  • 13
    • 78649501801 scopus 로고    scopus 로고
    • De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq
    • Mizrachi E, Hefer CA, Ranik M, Joubert F, Myburg AA, (2010) De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq. BMC Genomics 11: 681.
    • (2010) BMC Genomics , vol.11 , pp. 681
    • Mizrachi, E.1    Hefer, C.A.2    Ranik, M.3    Joubert, F.4    Myburg, A.A.5
  • 14
    • 79951828683 scopus 로고    scopus 로고
    • De novo assembly of chickpea transcriptome using short reads for gene discovery and marker identification
    • Garg R, Patel RK, Tyagi AK, Jain M, (2011) De novo assembly of chickpea transcriptome using short reads for gene discovery and marker identification. DNA Res 18: 53-63.
    • (2011) DNA Res , vol.18 , pp. 53-63
    • Garg, R.1    Patel, R.K.2    Tyagi, A.K.3    Jain, M.4
  • 15
    • 79951563108 scopus 로고    scopus 로고
    • OrchidBase: A Collection of Sequences of the Transcriptome Derived from Orchids
    • Fu CH, Chen YW, Hsiao YY, Pan ZJ, Liu ZJ, et al. (2011) OrchidBase: A Collection of Sequences of the Transcriptome Derived from Orchids. Plant Cell Physiol 52: 238-243.
    • (2011) Plant Cell Physiol , vol.52 , pp. 238-243
    • Fu, C.H.1    Chen, Y.W.2    Hsiao, Y.Y.3    Pan, Z.J.4    Liu, Z.J.5
  • 16
  • 17
    • 70349636603 scopus 로고    scopus 로고
    • Next-generation tag sequencing for cancer gene expression profiling
    • Morrissy AS, Morin RD, Delaney A, Zeng T, McDonald H, et al. (2009) Next-generation tag sequencing for cancer gene expression profiling. Genome Res 19: 1825-1835.
    • (2009) Genome Res , vol.19 , pp. 1825-1835
    • Morrissy, A.S.1    Morin, R.D.2    Delaney, A.3    Zeng, T.4    McDonald, H.5
  • 18
    • 71049118230 scopus 로고    scopus 로고
    • Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant
    • Xu Q, Yu K, Zhu A, Ye J, Liu Q, et al. (2009) Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant. BMC Genomics 10: 540.
    • (2009) BMC Genomics , vol.10 , pp. 540
    • Xu, Q.1    Yu, K.2    Zhu, A.3    Ye, J.4    Liu, Q.5
  • 19
    • 78149302502 scopus 로고    scopus 로고
    • Cultured cambial meristematic cells as a source of plant natural products
    • Lee EK, Jin YW, Park JH, Yoo YM, Hong SM, et al. (2010) Cultured cambial meristematic cells as a source of plant natural products. Nat Biotechnol 28: 1213-1217.
    • (2010) Nat Biotechnol , vol.28 , pp. 1213-1217
    • Lee, E.K.1    Jin, Y.W.2    Park, J.H.3    Yoo, Y.M.4    Hong, S.M.5
  • 20
    • 79952988820 scopus 로고    scopus 로고
    • The first insight into the Taxus genome via fosmid library construction and end sequencing
    • Hao DC, Yang L, Xiao PG, (2011) The first insight into the Taxus genome via fosmid library construction and end sequencing. Mol Genet Genomics 285: 197-205.
    • (2011) Mol Genet Genomics , vol.285 , pp. 197-205
    • Hao, D.C.1    Yang, L.2    Xiao, P.G.3
  • 21
    • 79952486339 scopus 로고    scopus 로고
    • Transcriptome Analysis of Taxus cuspidata Needles Based on 454 Pyrosequencing
    • Wu Q, Sun C, Luo H, Li Y, Niu Y, et al. (2011) Transcriptome Analysis of Taxus cuspidata Needles Based on 454 Pyrosequencing. Planta Med 77: 394-400.
    • (2011) Planta Med , vol.77 , pp. 394-400
    • Wu, Q.1    Sun, C.2    Luo, H.3    Li, Y.4    Niu, Y.5
  • 24
    • 0036851226 scopus 로고    scopus 로고
    • Elucidation of the methylerythritol phosphate pathway for isoprenoid biosynthesis in bacteria and plastids. A metabolic milestone achieved through genomics
    • Rodríguez-Concepción M, Boronat A, (2002) Elucidation of the methylerythritol phosphate pathway for isoprenoid biosynthesis in bacteria and plastids. A metabolic milestone achieved through genomics. Plant Physiol 130: 1079-1089.
    • (2002) Plant Physiol , vol.130 , pp. 1079-1089
    • Rodríguez-Concepción, M.1    Boronat, A.2
  • 25
    • 2942656782 scopus 로고    scopus 로고
    • Random sequencing of an induced Taxus cell cDNA library for identification of clones involved in Taxol biosynthesis
    • Jennewein S, Wildung MR, Chau M, Walker K, Croteau R, (2004) Random sequencing of an induced Taxus cell cDNA library for identification of clones involved in Taxol biosynthesis. Proc Natl Acad Sci U S A 101: 9149-9154.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 9149-9154
    • Jennewein, S.1    Wildung, M.R.2    Chau, M.3    Walker, K.4    Croteau, R.5
  • 26
    • 0242669969 scopus 로고    scopus 로고
    • Taxoid metabolism: Taxoid 14beta-hydroxylase is a cytochrome P450-dependent monooxygenase
    • Jennewein S, Rithner CD, Williams RM, Croteau R, (2003) Taxoid metabolism: Taxoid 14beta-hydroxylase is a cytochrome P450-dependent monooxygenase. Arch Biochem Biophys 413: 262-270.
    • (2003) Arch Biochem Biophys , vol.413 , pp. 262-270
    • Jennewein, S.1    Rithner, C.D.2    Williams, R.M.3    Croteau, R.4
  • 28
    • 33845402189 scopus 로고    scopus 로고
    • Cytochrome P450 oxygenases of Taxol biosynthesis
    • Kaspera R, Croteau R, (2006) Cytochrome P450 oxygenases of Taxol biosynthesis. Phytochem Rev 5: 433-444.
    • (2006) Phytochem Rev , vol.5 , pp. 433-444
    • Kaspera, R.1    Croteau, R.2
  • 29
    • 27544457332 scopus 로고    scopus 로고
    • Preliminary assessment of the C13-side chain 2′-hydroxylase involved in taxol biosynthesis
    • Long RM, Croteau R, (2005) Preliminary assessment of the C13-side chain 2′-hydroxylase involved in taxol biosynthesis. Biochem Biophys Res Commun 338: 410-417.
    • (2005) Biochem Biophys Res Commun , vol.338 , pp. 410-417
    • Long, R.M.1    Croteau, R.2
  • 30
    • 67649786543 scopus 로고    scopus 로고
    • Taxol biosynthesis: Identification and characterization of two acetyl CoA:taxoid-O-acetyl transferases that divert pathway flux away from Taxol production
    • Hampel D, Mau CJ, Croteau RB, (2009) Taxol biosynthesis: Identification and characterization of two acetyl CoA:taxoid-O-acetyl transferases that divert pathway flux away from Taxol production. Arch Biochem Biophys 487: 91-97.
    • (2009) Arch Biochem Biophys , vol.487 , pp. 91-97
    • Hampel, D.1    Mau, C.J.2    Croteau, R.B.3
  • 31
    • 0030681260 scopus 로고    scopus 로고
    • The significance of digital gene expression profiles
    • Audic S, Claverie JM, (1997) The significance of digital gene expression profiles. Genome Res 7: 986-995.
    • (1997) Genome Res , vol.7 , pp. 986-995
    • Audic, S.1    Claverie, J.M.2
  • 32
    • 57149085481 scopus 로고    scopus 로고
    • Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms
    • 't Hoen PA, Ariyurek Y, Thygesen HH, Vreugdenhil E, Vossen RH, et al. (2008) Deep sequencing-based expression analysis shows major advances in robustness, resolution and inter-lab portability over five microarray platforms. Nucleic Acids Res 36: e141.
    • (2008) Nucleic Acids Res , vol.36
    • 't Hoen, P.A.1    Ariyurek, Y.2    Thygesen, H.H.3    Vreugdenhil, E.4    Vossen, R.H.5
  • 34
    • 9444225935 scopus 로고    scopus 로고
    • Java Treeview--extensible visualization of microarray data
    • Saldanha AJ, (2004) Java Treeview--extensible visualization of microarray data. Bioinformatics 20: 3246-3248.
    • (2004) Bioinformatics , vol.20 , pp. 3246-3248
    • Saldanha, A.J.1
  • 35
    • 0345701916 scopus 로고    scopus 로고
    • Taxus metabolomics: methyl jasmonate preferentially induces production of taxoids oxygenated at C-13 in Taxus x media cell cultures
    • Ketchum RE, Rithner CD, Qiu D, Kim YS, Williams RM, et al. (2003) Taxus metabolomics: methyl jasmonate preferentially induces production of taxoids oxygenated at C-13 in Taxus x media cell cultures. Phytochemistry 62: 901-909.
    • (2003) Phytochemistry , vol.62 , pp. 901-909
    • Ketchum, R.E.1    Rithner, C.D.2    Qiu, D.3    Kim, Y.S.4    Williams, R.M.5
  • 36
    • 75649124547 scopus 로고    scopus 로고
    • De novo assembly of human genomes with massively parallel short read sequencing
    • Li R, Zhu H, Ruan J, Qian W, Fang X, et al. (2010) De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 20: 265-272.
    • (2010) Genome Res , vol.20 , pp. 265-272
    • Li, R.1    Zhu, H.2    Ruan, J.3    Qian, W.4    Fang, X.5
  • 37
    • 0033290515 scopus 로고    scopus 로고
    • ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences
    • Iseli C, Jongeneel CV, Bucher P, (1999) ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences. Proc Int Conf Intell Syst Mol Biol pp. 138-148.
    • (1999) Proc Int Conf Intell Syst Mol Biol , pp. 138-148
    • Iseli, C.1    Jongeneel, C.V.2    Bucher, P.3
  • 38
    • 24644503098 scopus 로고    scopus 로고
    • Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
    • Conesa A, Götz S, García-Gómez JM, Terol J, Talón M, et al. (2005) Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21: 3674-3676.
    • (2005) Bioinformatics , vol.21 , pp. 3674-3676
    • Conesa, A.1    Götz, S.2    García-Gómez, J.M.3    Terol, J.4    Talón, M.5
  • 39
    • 33747846582 scopus 로고    scopus 로고
    • WEGO: a web tool for plotting GO annotations
    • Ye J, Fang L, Zheng H, Zhang Y, Chen J, et al. (2006) WEGO: a web tool for plotting GO annotations. Nucleic Acids Res 34 (Web Server issue): W293-297.
    • (2006) Nucleic Acids Res , vol.34 , Issue.Web Server issue , pp. 293-297
    • Ye, J.1    Fang, L.2    Zheng, H.3    Zhang, Y.4    Chen, J.5
  • 40
    • 0035733108 scopus 로고    scopus 로고
    • The control of the false discovery rate in multiple testing under dependency
    • Benjamini Y, Yekutieli D, (2001) The control of the false discovery rate in multiple testing under dependency. The Annals of Statistics 29: 1165-1188.
    • (2001) The Annals of Statistics , vol.29 , pp. 1165-1188
    • Benjamini, Y.1    Yekutieli, D.2


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