메뉴 건너뛰기




Volumn 15, Issue 1, 2014, Pages

Multi-tissue transcriptomics of the black widow spider reveals expansions, co-options, and functional processes of the silk gland gene toolkit

Author keywords

de novo assembly; Gene family; Latrodectus hesperus; Molecular evolution; Spidroin

Indexed keywords

ARTHROPOD PROTEIN; GLUE PROTEIN; SILK; SILK FIBROIN; SPIDROIN; TRANSCRIPTOME; UNCLASSIFIED DRUG;

EID: 84902215637     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-15-365     Document Type: Article
Times cited : (61)

References (66)
  • 1
    • 79959300621 scopus 로고    scopus 로고
    • Applications of next generation sequencing in molecular ecology of non-model organisms
    • 10.1038/hdy.2010.152, 3186121, 21139633
    • Ekblom R, Galindo J. Applications of next generation sequencing in molecular ecology of non-model organisms. Heredity 2011, 107(1):1-15. 10.1038/hdy.2010.152, 3186121, 21139633.
    • (2011) Heredity , vol.107 , Issue.1 , pp. 1-15
    • Ekblom, R.1    Galindo, J.2
  • 2
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies - the next generation
    • 10.1038/nrg2626, 19997069
    • Metzker ML. Sequencing technologies - the next generation. Nat Rev Genet 2010, 11(1):31-46. 10.1038/nrg2626, 19997069.
    • (2010) Nat Rev Genet , vol.11 , Issue.1 , pp. 31-46
    • Metzker, M.L.1
  • 3
    • 50649089207 scopus 로고    scopus 로고
    • RNA-Seq: an assessment of technical reproducibility and comparison with gene expression arrays
    • 10.1101/gr.079558.108, 2527709, 18550803
    • Marioni JC, Mason CE, Mane SM, Stephens M, Gilad Y. RNA-Seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome Res 2008, 18(9):1509-1517. 10.1101/gr.079558.108, 2527709, 18550803.
    • (2008) Genome Res , vol.18 , Issue.9 , pp. 1509-1517
    • Marioni, J.C.1    Mason, C.E.2    Mane, S.M.3    Stephens, M.4    Gilad, Y.5
  • 4
    • 84877801923 scopus 로고    scopus 로고
    • A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly
    • 10.1186/1471-2164-14-167, 3655071, 23496952
    • Francis WR, Christianson LM, Kiko R, Powers ML, Shaner NC, D Haddock SH. A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly. BMC Genomics 2013, 14(1):167. 10.1186/1471-2164-14-167, 3655071, 23496952.
    • (2013) BMC Genomics , vol.14 , Issue.1 , pp. 167
    • Francis, W.R.1    Christianson, L.M.2    Kiko, R.3    Powers, M.L.4    Shaner, N.C.5    Haddock, S.H.D.6
  • 6
    • 84883246010 scopus 로고    scopus 로고
    • The root transcriptome for North American ginseng assembled and profiled across seasonal development
    • 10.1186/1471-2164-14-564, 3751939, 23957709
    • Wu D, Austin RS, Zhou S, Brown D. The root transcriptome for North American ginseng assembled and profiled across seasonal development. BMC Genomics 2013, 14(1):564. 10.1186/1471-2164-14-564, 3751939, 23957709.
    • (2013) BMC Genomics , vol.14 , Issue.1 , pp. 564
    • Wu, D.1    Austin, R.S.2    Zhou, S.3    Brown, D.4
  • 7
    • 84863726848 scopus 로고    scopus 로고
    • Transcriptome analysis of the citrus red mite, Panonychus citri, and its gene expression by exposure to insecticide/acaricide
    • 10.1111/j.1365-2583.2012.01148.x, 22676046
    • Niu J, Dou W, Ding T, Shen G, Zhang K, Smagghe G, Wang J. Transcriptome analysis of the citrus red mite, Panonychus citri, and its gene expression by exposure to insecticide/acaricide. Insect Mol Biol 2012, 21(4):422-436. 10.1111/j.1365-2583.2012.01148.x, 22676046.
    • (2012) Insect Mol Biol , vol.21 , Issue.4 , pp. 422-436
    • Niu, J.1    Dou, W.2    Ding, T.3    Shen, G.4    Zhang, K.5    Smagghe, G.6    Wang, J.7
  • 8
    • 84860491097 scopus 로고    scopus 로고
    • Digital gene expression analysis based on integrated de novo transcriptome assembly of sweet potato [Ipomoea batatas (L.) Lam]
    • 10.1371/journal.pone.0036234, 3338685, 22558397
    • Tao X, Gu Y, Wang H, Zheng W, Li X, Zhao C, Zhang Y. Digital gene expression analysis based on integrated de novo transcriptome assembly of sweet potato [Ipomoea batatas (L.) Lam]. PLoS One 2012, 7(4):e36234. 10.1371/journal.pone.0036234, 3338685, 22558397.
    • (2012) PLoS One , vol.7 , Issue.4
    • Tao, X.1    Gu, Y.2    Wang, H.3    Zheng, W.4    Li, X.5    Zhao, C.6    Zhang, Y.7
  • 9
    • 84881662079 scopus 로고    scopus 로고
    • Transcriptome deep-sequencing and clustering of expressed isoforms from Favia corals
    • 10.1186/1471-2164-14-546, 3751062, 23937070
    • Pooyaei Mehr SF, DeSalle R, Kao H, Narechania A, Han Z, Tchernov D, Pieribone V, Gruber DF. Transcriptome deep-sequencing and clustering of expressed isoforms from Favia corals. BMC Genomics 2013, 14(1):546. 10.1186/1471-2164-14-546, 3751062, 23937070.
    • (2013) BMC Genomics , vol.14 , Issue.1 , pp. 546
    • Pooyaei Mehr, S.F.1    DeSalle, R.2    Kao, H.3    Narechania, A.4    Han, Z.5    Tchernov, D.6    Pieribone, V.7    Gruber, D.F.8
  • 10
    • 84880060179 scopus 로고    scopus 로고
    • Transcriptome characterisation of the ant Formica exsecta with new insights into the evolution of desaturase genes in social hymenoptera
    • 10.1371/journal.pone.0068200, 3709892, 23874539
    • Badouin H, Belkhir K, Gregson E, Galindo J, Sundström L, Martin SJ, Butlin RK, Smadja CM. Transcriptome characterisation of the ant Formica exsecta with new insights into the evolution of desaturase genes in social hymenoptera. PLoS One 2013, 8(7):e68200. 10.1371/journal.pone.0068200, 3709892, 23874539.
    • (2013) PLoS One , vol.8 , Issue.7
    • Badouin, H.1    Belkhir, K.2    Gregson, E.3    Galindo, J.4    Sundström, L.5    Martin, S.J.6    Butlin, R.K.7    Smadja, C.M.8
  • 11
    • 84872766313 scopus 로고    scopus 로고
    • De novo transcriptome assembly in chili pepper (Capsicum frutescens) to identify genes involved in the biosynthesis of capsaicinoids
    • 10.1371/journal.pone.0048156, 3551913, 23349661
    • Liu S, Li W, Wu Y, Chen C, Lei J. De novo transcriptome assembly in chili pepper (Capsicum frutescens) to identify genes involved in the biosynthesis of capsaicinoids. PLoS One 2013, 8(1):e48156. 10.1371/journal.pone.0048156, 3551913, 23349661.
    • (2013) PLoS One , vol.8 , Issue.1
    • Liu, S.1    Li, W.2    Wu, Y.3    Chen, C.4    Lei, J.5
  • 12
    • 0003483227 scopus 로고    scopus 로고
    • The world spider catalog, version 14.0
    • Platnick NI. The world spider catalog, version 14.0. [http://research.amnh.org/entomology/spiders/catalog/index.html].
    • Platnick, N.I.1
  • 13
    • 57849118282 scopus 로고    scopus 로고
    • First divergence time estimate of spiders, scorpions, mites and ticks (Subphylum: Chelicerata) inferred from mitochondrial phylogeny
    • 10.1007/s10493-008-9203-5, 18931924
    • Jeyaprakash A, Hoy MA. First divergence time estimate of spiders, scorpions, mites and ticks (Subphylum: Chelicerata) inferred from mitochondrial phylogeny. Exp Appl Acarol 2009, 47(1):1-18. 10.1007/s10493-008-9203-5, 18931924.
    • (2009) Exp Appl Acarol , vol.47 , Issue.1 , pp. 1-18
    • Jeyaprakash, A.1    Hoy, M.A.2
  • 17
    • 79959634465 scopus 로고    scopus 로고
    • Spinning gland transcriptomics from two main clades of spiders (Order: Araneae)-insights on their molecular, anatomical and behavioral evolution
    • 10.1371/journal.pone.0021634, 3126850, 21738742
    • Prosdocimi F, Bittencourt D, da Silva FR, Kirst M, Motta PC, Rech EL. Spinning gland transcriptomics from two main clades of spiders (Order: Araneae)-insights on their molecular, anatomical and behavioral evolution. PLoS One 2011, 6(6):e21634. 10.1371/journal.pone.0021634, 3126850, 21738742.
    • (2011) PLoS One , vol.6 , Issue.6
    • Prosdocimi, F.1    Bittencourt, D.2    da Silva, F.R.3    Kirst, M.4    Motta, P.C.5    Rech, E.L.6
  • 18
    • 84896713613 scopus 로고    scopus 로고
    • The venom gland transcriptome of Latrodectus tredecimguttatus revealed by deep sequencing and cDNA library analysis
    • 10.1371/journal.pone.0081357, 3842942, 24312294
    • He Q, Duan Z, Yu Y, Liu Z, Liu Z, Liang S. The venom gland transcriptome of Latrodectus tredecimguttatus revealed by deep sequencing and cDNA library analysis. PLoS One 2013, 8(11):e81357. 10.1371/journal.pone.0081357, 3842942, 24312294.
    • (2013) PLoS One , vol.8 , Issue.11
    • He, Q.1    Duan, Z.2    Yu, Y.3    Liu, Z.4    Liu, Z.5    Liang, S.6
  • 19
    • 84889073986 scopus 로고    scopus 로고
    • De novo characterization of the gene-rich transcriptomes of two color-polymorphic spiders, Theridion grallator and T. californicum (Araneae: Theridiidae), with special reference to pigment genes
    • 10.1186/1471-2164-14-862, 3878950, 24314324
    • Croucher PJ, Brewer MS, Winchell CJ, Oxford GS, Gillespie RG. De novo characterization of the gene-rich transcriptomes of two color-polymorphic spiders, Theridion grallator and T. californicum (Araneae: Theridiidae), with special reference to pigment genes. BMC Genomics 2013, 14(1):862. 10.1186/1471-2164-14-862, 3878950, 24314324.
    • (2013) BMC Genomics , vol.14 , Issue.1 , pp. 862
    • Croucher, P.J.1    Brewer, M.S.2    Winchell, C.J.3    Oxford, G.S.4    Gillespie, R.G.5
  • 20
    • 84856987115 scopus 로고    scopus 로고
    • Orthologous genes identified by transcriptome sequencing in the spider genus Stegodyphus
    • 10.1186/1471-2164-13-70, 3350440, 22333217
    • Mattila TM, Bechsgaard JS, Hansen TT, Schierup MH, Bilde T. Orthologous genes identified by transcriptome sequencing in the spider genus Stegodyphus. BMC Genomics 2012, 13(1):70-70. 10.1186/1471-2164-13-70, 3350440, 22333217.
    • (2012) BMC Genomics , vol.13 , Issue.1 , pp. 70-70
    • Mattila, T.M.1    Bechsgaard, J.S.2    Hansen, T.T.3    Schierup, M.H.4    Bilde, T.5
  • 22
    • 13744260273 scopus 로고    scopus 로고
    • Gumfooted lines in black widow cobwebs and the mechanical properties of spider capture silk
    • 10.1016/j.zool.2004.11.001, 16351953
    • Blackledge TA, Summers AP, Hayashi CY. Gumfooted lines in black widow cobwebs and the mechanical properties of spider capture silk. Zoology (Jena) 2005, 108(1):41-46. 10.1016/j.zool.2004.11.001, 16351953.
    • (2005) Zoology (Jena) , vol.108 , Issue.1 , pp. 41-46
    • Blackledge, T.A.1    Summers, A.P.2    Hayashi, C.Y.3
  • 24
    • 38349088918 scopus 로고    scopus 로고
    • Composition and hierarchical organisation of a spider silk
    • 10.1371/journal.pone.0000998, 1994588, 17912375
    • Sponner A, Vater W, Monajembashi S, Unger E, Grosse F, Weisshart K. Composition and hierarchical organisation of a spider silk. PLoS One 2007, 2(10):e998. 10.1371/journal.pone.0000998, 1994588, 17912375.
    • (2007) PLoS One , vol.2 , Issue.10
    • Sponner, A.1    Vater, W.2    Monajembashi, S.3    Unger, E.4    Grosse, F.5    Weisshart, K.6
  • 26
    • 84856943369 scopus 로고    scopus 로고
    • Conserved C-terminal domain of spider tubuliform spidroin 1 contributes to extensibility in synthetic fibers
    • 10.1021/bm201262n, 22176138
    • Gnesa E, Hsia Y, Yarger JL, Weber W, Lin-Cereghino J, Lin-Cereghino G, Tang S, Agari K, Vierra C. Conserved C-terminal domain of spider tubuliform spidroin 1 contributes to extensibility in synthetic fibers. Biomacromolecules 2012, 13(2):304-312. 10.1021/bm201262n, 22176138.
    • (2012) Biomacromolecules , vol.13 , Issue.2 , pp. 304-312
    • Gnesa, E.1    Hsia, Y.2    Yarger, J.L.3    Weber, W.4    Lin-Cereghino, J.5    Lin-Cereghino, G.6    Tang, S.7    Agari, K.8    Vierra, C.9
  • 27
    • 77956629695 scopus 로고    scopus 로고
    • Recombinant spider silk proteins for applications in biomaterials
    • 10.1002/mabi.201000071, 20602494
    • Spiess K, Lammel A, Scheibel T. Recombinant spider silk proteins for applications in biomaterials. Macromol Biosci 2010, 10(9):998-1007. 10.1002/mabi.201000071, 20602494.
    • (2010) Macromol Biosci , vol.10 , Issue.9 , pp. 998-1007
    • Spiess, K.1    Lammel, A.2    Scheibel, T.3
  • 28
    • 0029925013 scopus 로고    scopus 로고
    • Silk properties determined by gland-specific expression of a spider fibroin gene family
    • 10.1126/science.272.5258.112, 8600519
    • Guerette PA, Ginzinger DG, Weber BHF, Gosline JM. Silk properties determined by gland-specific expression of a spider fibroin gene family. Science 1996, 272(5258):112-115. 10.1126/science.272.5258.112, 8600519.
    • (1996) Science , vol.272 , Issue.5258 , pp. 112-115
    • Guerette, P.A.1    Ginzinger, D.G.2    Weber, B.H.F.3    Gosline, J.M.4
  • 29
    • 0035970888 scopus 로고    scopus 로고
    • Extreme diversity, conservation, and convergence of spider silk fibroin sequences
    • 10.1126/science.1057561, 11283372
    • Gatesy J, Hayashi C, Motriuk D, Woods J, Lewis R. Extreme diversity, conservation, and convergence of spider silk fibroin sequences. Science 2001, 291(5513):2603-2605. 10.1126/science.1057561, 11283372.
    • (2001) Science , vol.291 , Issue.5513 , pp. 2603-2605
    • Gatesy, J.1    Hayashi, C.2    Motriuk, D.3    Woods, J.4    Lewis, R.5
  • 30
    • 0032963575 scopus 로고    scopus 로고
    • Hypotheses that correlate the sequence, structure, and mechanical properties of spider silk proteins
    • Hayashi CY, Shipley NH, Lewis RV. Hypotheses that correlate the sequence, structure, and mechanical properties of spider silk proteins. Int J Biol Macromol 1999, 24(2-3):271-275.
    • (1999) Int J Biol Macromol , vol.24 , Issue.2-3 , pp. 271-275
    • Hayashi, C.Y.1    Shipley, N.H.2    Lewis, R.V.3
  • 31
    • 15444368211 scopus 로고    scopus 로고
    • Characterization of the protein components of Nephila clavipes dragline silk
    • 10.1021/bi047671k, 15779899
    • Sponner A, Schlott B, Vollrath F, Unger E, Grosse F, Weisshart K. Characterization of the protein components of Nephila clavipes dragline silk. Biochemistry 2005, 44(12):4727-4736. 10.1021/bi047671k, 15779899.
    • (2005) Biochemistry , vol.44 , Issue.12 , pp. 4727-4736
    • Sponner, A.1    Schlott, B.2    Vollrath, F.3    Unger, E.4    Grosse, F.5    Weisshart, K.6
  • 32
    • 36849026592 scopus 로고    scopus 로고
    • Aciniform spidroin, a constituent of egg case sacs and wrapping silk fibers from the black widow spider Latrodectus hesperus
    • 10.1074/jbc.M705791200, 17921147
    • Vasanthavada K, Hu X, Falick AM, La Mattina C, Moore AMF, Jones PR, Yee R, Reza R, Tuton T, Vierra C. Aciniform spidroin, a constituent of egg case sacs and wrapping silk fibers from the black widow spider Latrodectus hesperus. J Biol Chem 2007, 282(48):35088-35097. 10.1074/jbc.M705791200, 17921147.
    • (2007) J Biol Chem , vol.282 , Issue.48 , pp. 35088-35097
    • Vasanthavada, K.1    Hu, X.2    Falick, A.M.3    La Mattina, C.4    Moore, A.M.F.5    Jones, P.R.6    Yee, R.7    Reza, R.8    Tuton, T.9    Vierra, C.10
  • 33
    • 84873588081 scopus 로고    scopus 로고
    • Ancient properties of spider silks revealed by the complete gene sequence of the prey-wrapping silk protein (AcSp1)
    • 10.1093/molbev/mss254, 3563967, 23155003
    • Ayoub NA, Garb JE, Kuelbs A, Hayashi CY. Ancient properties of spider silks revealed by the complete gene sequence of the prey-wrapping silk protein (AcSp1). Mol Biol Evol 2013, 30(3):589-601. 10.1093/molbev/mss254, 3563967, 23155003.
    • (2013) Mol Biol Evol , vol.30 , Issue.3 , pp. 589-601
    • Ayoub, N.A.1    Garb, J.E.2    Kuelbs, A.3    Hayashi, C.Y.4
  • 34
    • 36649007963 scopus 로고    scopus 로고
    • Blueprint for a high-performance biomaterial: full-length spider dragline silk genes
    • 10.1371/journal.pone.0000514, 1885213, 17565367
    • Ayoub NA, Garb JE, Tinghitella RM, Collin MA, Hayashi CY. Blueprint for a high-performance biomaterial: full-length spider dragline silk genes. PLoS One 2007, 2(6):e514. 10.1371/journal.pone.0000514, 1885213, 17565367.
    • (2007) PLoS One , vol.2 , Issue.6
    • Ayoub, N.A.1    Garb, J.E.2    Tinghitella, R.M.3    Collin, M.A.4    Hayashi, C.Y.5
  • 35
    • 23044432901 scopus 로고    scopus 로고
    • Araneoid egg case silk: a fibroin with novel ensemble repeat units from the black widow spider, Latrodectus hesperus
    • 10.1021/bi050494i, 16042378
    • Hu X, Lawrence B, Kohler K, Falick AM, Moore AMF, McMullen E, Jones PR, Vierra C. Araneoid egg case silk: a fibroin with novel ensemble repeat units from the black widow spider, Latrodectus hesperus. Biochemistry 2005, 44(30):10020-10027. 10.1021/bi050494i, 16042378.
    • (2005) Biochemistry , vol.44 , Issue.30 , pp. 10020-10027
    • Hu, X.1    Lawrence, B.2    Kohler, K.3    Falick, A.M.4    Moore, A.M.F.5    McMullen, E.6    Jones, P.R.7    Vierra, C.8
  • 36
    • 33645221987 scopus 로고    scopus 로고
    • Spider egg case core fibers: trimeric complexes assembled from TuSp1, ECP-1, and ECP-2
    • 10.1021/bi052105q, 16533031
    • Hu X, Kohler K, Falick AM, Moore AMF, Jones PR, Vierra C. Spider egg case core fibers: trimeric complexes assembled from TuSp1, ECP-1, and ECP-2. Biochemistry 2006, 45(11):3506-3516. 10.1021/bi052105q, 16533031.
    • (2006) Biochemistry , vol.45 , Issue.11 , pp. 3506-3516
    • Hu, X.1    Kohler, K.2    Falick, A.M.3    Moore, A.M.F.4    Jones, P.R.5    Vierra, C.6
  • 37
    • 77949769815 scopus 로고    scopus 로고
    • Silk gene transcripts in the developing tubuliform glands of the Western black widow, Latrodectus hesperus
    • Casem ML, Collin MA, Ayoub NA, Hayashi CY. Silk gene transcripts in the developing tubuliform glands of the Western black widow, Latrodectus hesperus. J Arachnol 2010, 38(1):99-103.
    • (2010) J Arachnol , vol.38 , Issue.1 , pp. 99-103
    • Casem, M.L.1    Collin, M.A.2    Ayoub, N.A.3    Hayashi, C.Y.4
  • 38
    • 20544450200 scopus 로고    scopus 로고
    • Characterization of a novel class II bHLH transcription factor from the black widow spider, Latrodectus hesperus, with silk-gland restricted patterns of expression
    • 10.1089/dna.2005.24.371, 15941389
    • Kohler K, Thayer W, Le T, Sembhi A, Vasanthavada K, Moore AMF, Vierra CA. Characterization of a novel class II bHLH transcription factor from the black widow spider, Latrodectus hesperus, with silk-gland restricted patterns of expression. DNA Cell Biol 2005, 24(6):371-380. 10.1089/dna.2005.24.371, 15941389.
    • (2005) DNA Cell Biol , vol.24 , Issue.6 , pp. 371-380
    • Kohler, K.1    Thayer, W.2    Le, T.3    Sembhi, A.4    Vasanthavada, K.5    Moore, A.M.F.6    Vierra, C.A.7
  • 39
    • 70350063816 scopus 로고    scopus 로고
    • Spider web glue: two proteins expressed from opposite strands of the same DNA sequence
    • 10.1021/bm900681w, 19731928
    • Choresh O, Bayarmagnai B, Lewis RV. Spider web glue: two proteins expressed from opposite strands of the same DNA sequence. Biomacromolecules 2009, 10(10):2852-2856. 10.1021/bm900681w, 19731928.
    • (2009) Biomacromolecules , vol.10 , Issue.10 , pp. 2852-2856
    • Choresh, O.1    Bayarmagnai, B.2    Lewis, R.V.3
  • 41
    • 2542623618 scopus 로고    scopus 로고
    • Molecular and mechanical properties of major ampullate silk of the black widow spider, Latrodectus hesperus
    • 10.1021/bm0342640, 15132648
    • Lawrence BA, Vierra CA, Moore AMF. Molecular and mechanical properties of major ampullate silk of the black widow spider, Latrodectus hesperus. Biomacromolecules 2004, 5(3):689-695. 10.1021/bm0342640, 15132648.
    • (2004) Biomacromolecules , vol.5 , Issue.3 , pp. 689-695
    • Lawrence, B.A.1    Vierra, C.A.2    Moore, A.M.F.3
  • 42
    • 0042430621 scopus 로고    scopus 로고
    • Genome sizes of spiders
    • 10.1093/jhered/esg070, 12920099
    • Gregory TR. Genome sizes of spiders. J Hered 2003, 94(4):285-290. 10.1093/jhered/esg070, 12920099.
    • (2003) J Hered , vol.94 , Issue.4 , pp. 285-290
    • Gregory, T.R.1
  • 43
    • 70350418753 scopus 로고    scopus 로고
    • Pyriform spidroin 1, a novel member of the silk gene family that anchors dragline silk fibers in attachment discs of the black widow spider, Latrodectus hesperus
    • 10.1074/jbc.M109.021378, 2781455, 19666476
    • Blasingame E, Tuton-Blasingame T, Larkin L, Falick AM, Zhao L, Fong J, Vaidyanathan V, Visperas A, Geurts P, Hu X, La Mattina C, Vierra C. Pyriform spidroin 1, a novel member of the silk gene family that anchors dragline silk fibers in attachment discs of the black widow spider, Latrodectus hesperus. J Biol Chem 2009, 284(42):29097-29108. 10.1074/jbc.M109.021378, 2781455, 19666476.
    • (2009) J Biol Chem , vol.284 , Issue.42 , pp. 29097-29108
    • Blasingame, E.1    Tuton-Blasingame, T.2    Larkin, L.3    Falick, A.M.4    Zhao, L.5    Fong, J.6    Vaidyanathan, V.7    Visperas, A.8    Geurts, P.9    Hu, X.10    La Mattina, C.11    Vierra, C.12
  • 44
    • 77955292367 scopus 로고    scopus 로고
    • Untangling spider silk evolution with spidroin terminal domains
    • 10.1186/1471-2148-10-243, 2928236, 20696068
    • Garb JE, Ayoub NA, Hayashi CY. Untangling spider silk evolution with spidroin terminal domains. BMC Evol Biol 2010, 10(1):243-243. 10.1186/1471-2148-10-243, 2928236, 20696068.
    • (2010) BMC Evol Biol , vol.10 , Issue.1 , pp. 243-243
    • Garb, J.E.1    Ayoub, N.A.2    Hayashi, C.Y.3
  • 45
    • 84872483518 scopus 로고    scopus 로고
    • Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensive in silico assessment of RNA-Seq experiments
    • 10.1111/mec.12014, 22998089
    • Vijay N, Poelstra JW, Künstner A, Wolf JBW. Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensive in silico assessment of RNA-Seq experiments. Mol Ecol 2013, 22(3):620-634. 10.1111/mec.12014, 22998089.
    • (2013) Mol Ecol , vol.22 , Issue.3 , pp. 620-634
    • Vijay, N.1    Poelstra, J.W.2    Künstner, A.3    Wolf, J.B.W.4
  • 46
    • 83855165105 scopus 로고    scopus 로고
    • Repetitive DNA and next-generation sequencing: computational challenges and solutions
    • Treangen TJ, Salzberg SL. Repetitive DNA and next-generation sequencing: computational challenges and solutions. Nat Rev Genet 2012, 13(1):36-46.
    • (2012) Nat Rev Genet , vol.13 , Issue.1 , pp. 36-46
    • Treangen, T.J.1    Salzberg, S.L.2
  • 47
    • 84876566349 scopus 로고    scopus 로고
    • OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs
    • 10.1093/nar/gks1116, 3531149, 23180791
    • Waterhouse RM, Tegenfeldt F, Li J, Zdobnov EM, Kriventseva EV. OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs. Nucleic Acids Res 2013, 41:D358-D365. 10.1093/nar/gks1116, 3531149, 23180791.
    • (2013) Nucleic Acids Res , vol.41
    • Waterhouse, R.M.1    Tegenfeldt, F.2    Li, J.3    Zdobnov, E.M.4    Kriventseva, E.V.5
  • 48
    • 33645047928 scopus 로고    scopus 로고
    • Wolbachia and other endosymbiont infections in spiders
    • 10.1111/j.1365-294X.2005.02802.x, 16448417
    • Goodacre SL, Martin OY, Thomas CFG, Hewitt GM. Wolbachia and other endosymbiont infections in spiders. Mol Ecol 2006, 15(2):517-527. 10.1111/j.1365-294X.2005.02802.x, 16448417.
    • (2006) Mol Ecol , vol.15 , Issue.2 , pp. 517-527
    • Goodacre, S.L.1    Martin, O.Y.2    Thomas, C.F.G.3    Hewitt, G.M.4
  • 49
    • 80053345905 scopus 로고    scopus 로고
    • SignalP 4.0: discriminating signal peptides from transmembrane regions
    • 10.1038/nmeth.1701, 21959131
    • Petersen TN, Brunak S, von Heijne G, Nielsen H. SignalP 4.0: discriminating signal peptides from transmembrane regions. Nat Methods 2011, 8(10):785-786. 10.1038/nmeth.1701, 21959131.
    • (2011) Nat Methods , vol.8 , Issue.10 , pp. 785-786
    • Petersen, T.N.1    Brunak, S.2    von Heijne, G.3    Nielsen, H.4
  • 51
    • 34249848751 scopus 로고    scopus 로고
    • CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes
    • 10.1093/bioinformatics/btm071, 17332020
    • Parra G, Bradnam K, Korf I. CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes. Bioinformatics 2007, 23(9):1061-1067. 10.1093/bioinformatics/btm071, 17332020.
    • (2007) Bioinformatics , vol.23 , Issue.9 , pp. 1061-1067
    • Parra, G.1    Bradnam, K.2    Korf, I.3
  • 52
    • 84902125190 scopus 로고    scopus 로고
    • Dramatic expansion of the black widow toxin arsenal uncovered by multi-tissue transcriptomics and venom proteomics
    • Haney RA, Ayoub NA, Clarke T, Hayashi CY, Garb JE. Dramatic expansion of the black widow toxin arsenal uncovered by multi-tissue transcriptomics and venom proteomics. BMC Genomics 2014, 15:366.
    • (2014) BMC Genomics , vol.15 , pp. 366
    • Haney, R.A.1    Ayoub, N.A.2    Clarke, T.3    Hayashi, C.Y.4    Garb, J.E.5
  • 53
    • 34047094278 scopus 로고    scopus 로고
    • Duplicated Hox genes in the spider Cupiennius salei
    • 10.1186/1742-9994-4-10, 1838909, 17355624
    • Schwager EE, Schoppmeier M, Pechmann M, Damen WGM. Duplicated Hox genes in the spider Cupiennius salei. Front Zool 2007, 4:10. 10.1186/1742-9994-4-10, 1838909, 17355624.
    • (2007) Front Zool , vol.4 , pp. 10
    • Schwager, E.E.1    Schoppmeier, M.2    Pechmann, M.3    Damen, W.G.M.4
  • 54
    • 2542585370 scopus 로고    scopus 로고
    • Spider silk protein refolding is controlled by changing pH
    • 10.1021/bm034307c, 15132650
    • Dicko C, Vollrath F, Kenney JM. Spider silk protein refolding is controlled by changing pH. Biomacromolecules 2004, 5(3):704-710. 10.1021/bm034307c, 15132650.
    • (2004) Biomacromolecules , vol.5 , Issue.3 , pp. 704-710
    • Dicko, C.1    Vollrath, F.2    Kenney, J.M.3
  • 55
    • 84886098561 scopus 로고    scopus 로고
    • Babraham Bioinformatics FastQC Package
    • Babraham Bioinformatics FastQC Package. [http://www.bioinformatics.babraham.ac.uk/projects/fastqc/].
  • 56
    • 84859768479 scopus 로고    scopus 로고
    • Oases: robust de novo RNA-Seq assembly across the dynamic range of expression levels
    • 10.1093/bioinformatics/bts094, 3324515, 22368243
    • Schulz MH, Zerbino DR, Vingron M, Birney E. Oases: robust de novo RNA-Seq assembly across the dynamic range of expression levels. Bioinformatics 2012, 28(8):1086-1092. 10.1093/bioinformatics/bts094, 3324515, 22368243.
    • (2012) Bioinformatics , vol.28 , Issue.8 , pp. 1086-1092
    • Schulz, M.H.1    Zerbino, D.R.2    Vingron, M.3    Birney, E.4
  • 57
    • 84902180361 scopus 로고    scopus 로고
    • EMBOSS GetOrf
    • EMBOSS GetOrf. [http://emboss.sourceforge.net/apps/cvs/emboss/apps/getorf.html].
  • 58
    • 84886755895 scopus 로고    scopus 로고
    • BLASTCLUST
    • BLASTCLUST. [ftp://ftp.ncbi.nih.gov/blast/documents/blastclust.html].
  • 59
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • 10.1016/S0022-2836(05)80360-2, 2231712
    • Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990, 215(3):403-410. 10.1016/S0022-2836(05)80360-2, 2231712.
    • (1990) J Mol Biol , vol.215 , Issue.3 , pp. 403-410
    • Altschul, S.F.1    Gish, W.2    Miller, W.3    Myers, E.W.4    Lipman, D.J.5
  • 62
    • 77953212372 scopus 로고    scopus 로고
    • Gene ontology analysis for RNA-Seq: accounting for selection bias
    • 10.1186/gb-2010-11-2-r14, 2872874, 20132535
    • Young MD, Wakefield MJ, Smyth GK, Oshlack A. Gene ontology analysis for RNA-Seq: accounting for selection bias. Genome Biol 2010, 11(2):R14. 10.1186/gb-2010-11-2-r14, 2872874, 20132535.
    • (2010) Genome Biol , vol.11 , Issue.2
    • Young, M.D.1    Wakefield, M.J.2    Smyth, G.K.3    Oshlack, A.4
  • 63
    • 79961123152 scopus 로고    scopus 로고
    • RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
    • Li B, Dewey CN. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinform 2011, 12(1):323-323.
    • (2011) BMC Bioinform , vol.12 , Issue.1 , pp. 323-323
    • Li, B.1    Dewey, C.N.2
  • 64
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • 10.1093/nar/gkh340, 390337, 15034147
    • Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004, 32(5):1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
    • (2004) Nucleic Acids Res , vol.32 , Issue.5 , pp. 1792-1797
    • Edgar, R.C.1
  • 65
    • 77950806408 scopus 로고    scopus 로고
    • New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
    • 10.1093/sysbio/syq010, 20525638
    • Guindon S, Dufayard J, Lefort V, Anisimova M, Hordijk W, Gascuel O. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 2010, 59(3):307-321. 10.1093/sysbio/syq010, 20525638.
    • (2010) Syst Biol , vol.59 , Issue.3 , pp. 307-321
    • Guindon, S.1    Dufayard, J.2    Lefort, V.3    Anisimova, M.4    Hordijk, W.5    Gascuel, O.6
  • 66
    • 1042304216 scopus 로고    scopus 로고
    • APE: Analyses of Phylogenetics and Evolution in R language
    • 10.1093/bioinformatics/btg412, 14734327
    • Paradis E, Claude J, Strimmer K. APE: Analyses of Phylogenetics and Evolution in R language. Bioinformatics 2004, 20(2):289-290. 10.1093/bioinformatics/btg412, 14734327.
    • (2004) Bioinformatics , vol.20 , Issue.2 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.