메뉴 건너뛰기




Volumn 8, Issue 11, 2013, Pages

Ordinal-level phylogenomics of the arthropod class Diplopoda (millipedes) based on an analysis of 221 nuclear protein-coding loci generated using next-generation sequence analyses

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEAR PROTEIN;

EID: 84893349673     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0079935     Document Type: Article
Times cited : (37)

References (73)
  • 1
    • 77956230468 scopus 로고    scopus 로고
    • Including secondary structure, fossils and molecular dating in the centipede tree of life
    • doi:10.1016/j.ympev.2010.06.022. PubMed: 20601003
    • Murienne J, Edgecombe GD, Giribet G (2010) Including secondary structure, fossils and molecular dating in the centipede tree of life. Mol Phylogenet Evol 57: 301-313. doi:10.1016/j.ympev.2010.06.022. PubMed: 20601003.
    • (2010) Mol Phylogenet Evol , vol.57 , pp. 301-313
    • Murienne, J.1    Edgecombe, G.D.2    Giribet, G.3
  • 2
    • 33846354294 scopus 로고    scopus 로고
    • Current status of the myriapod class diplopoda (millipedes): Taxonomic diversity and phylogeny
    • DOI 10.1146/annurev.ento.52.111805.090210
    • Sierwald P, Bond JE (2007) Current status of the myriapod class diplopoda (Millipedes): Taxonomic diversity and phylogeny. Annu Rev Entomol 52: 401-420. doi:10.1146/annurev.ento.52.111805.090210. PubMed: 17163800. (Pubitemid 46133577)
    • (2007) Annual Review of Entomology , vol.52 , pp. 401-420
    • Sierwald, P.1    Bond, J.E.2
  • 3
    • 67349286462 scopus 로고    scopus 로고
    • Competition between invasive earthworms (Amynthas corticis, Megascolecidae) and native North American millipedes (Pseudopolydesmus erasus, Polydesmidae): Effects on carbon cycling and soil structure
    • doi:10.1016/j.soilbio.2009.03.023
    • Snyder BA, Boots B, Hendrix PF (2009) Competition between invasive earthworms (Amynthas corticis, Megascolecidae) and native North American millipedes (Pseudopolydesmus erasus, Polydesmidae): Effects on carbon cycling and soil structure. Soil Biol Biochem 41: 1442-1449. doi:10.1016/j.soilbio.2009. 03.023.
    • (2009) Soil Biol Biochem , vol.41 , pp. 1442-1449
    • Snyder, B.A.1    Boots, B.2    Hendrix, P.F.3
  • 4
    • 35549009660 scopus 로고    scopus 로고
    • A possible phylogenetic signal in milliped chemical defenses: The polydesmidan milliped Leonardesmus injucundus Shelley & Shear secretes p-cresol and lacks a cyanogenic defense (Diplopoda, Polydesmida, Nearctodesmidae)
    • DOI 10.1016/j.bse.2007.01.005, PII S0305197807000099
    • Shear W, Jones T, Miras H (2007) A possible phylogenetic signal in milliped chemical defenses: The polydesmidan milliped Leonardesmus injucundus Shelley & Shear secretes p-cresol and lacks a cyanogenic defense (Diplopoda, Polydesmida, Nearctodesmidae). Biochem Syst Ecol 35: 838-842. doi:10.1016/j.bse.2007.01.005. (Pubitemid 350018976)
    • (2007) Biochemical Systematics and Ecology , vol.35 , Issue.12 , pp. 838-842
    • Shear, W.A.1    Jones, T.H.2    Miras, H.M.3
  • 5
    • 84893375427 scopus 로고    scopus 로고
    • Chemical defense of a troglobiont millipede, Tetracion jonesi Hoffman (Diplopoda, Callipodida, Abacionidae)
    • doi:10.1163/187525410X12578602960588
    • Shear WA, McPherson IS, Jones TH, Loria SF, Zigler KS (2010) Chemical defense of a troglobiont millipede, Tetracion jonesi Hoffman (Diplopoda, Callipodida, Abacionidae). International J of Myriapology 3: 153-158. doi:10.1163/187525410X12578602960588.
    • (2010) International J of Myriapology , vol.3 , pp. 153-158
    • Shear, W.A.1    McPherson, I.S.2    Jones, T.H.3    Loria, S.F.4    Zigler, K.S.5
  • 6
    • 79959926287 scopus 로고    scopus 로고
    • Atlas of Myriapod Biogeography. I. Indigenous Ordinal and Supra-Ordinal Distributions in the Diplopoda: Perspectives on Taxon Origins and Ages, and a Hypothesis on the Origin and Early Evolution of the Class
    • Shelley RM, Golovatch SI (2011) Atlas of Myriapod Biogeography. I. Indigenous Ordinal and Supra-Ordinal Distributions in the Diplopoda: Perspectives on Taxon Origins and Ages, and a Hypothesis on the Origin and Early Evolution of the Class. Insecta Mundi: 1-134.
    • (2011) Insecta Mundi , pp. 1-134
    • Shelley, R.M.1    Golovatch, S.I.2
  • 9
    • 0346462945 scopus 로고    scopus 로고
    • Morphology and taxonomy of Paleozoic millipedes (Diplopoda: Chilognatha: Archipolypoda) from Scotland
    • Wilson H, Anderson L (2004) Morphology and taxonomy of Paleozoic millipedes (Diplopoda : Chilognatha : Archipolypoda) from Scotland. J Paleontol 78: 169-184. doi:10.1666/0022-3360(2004)078. (Pubitemid 38092734)
    • (2004) Journal of Paleontology , vol.78 , Issue.1 , pp. 169-184
    • Wilson, H.M.1    Anderson, L.I.2
  • 11
    • 77956410686 scopus 로고    scopus 로고
    • Phylogeny of the millipede order Spirobolida (Arthropoda: Diplopoda: Helminthomorpha)
    • doi:10.1111/j.1096-0031.2009.00303.x
    • Pitz KM, Sierwald P (2010) Phylogeny of the millipede order Spirobolida (Arthropoda: Diplopoda: Helminthomorpha). Cladistics 26: 497-525. doi:10.1111/j.1096-0031.2009.00303.x.
    • (2010) Cladistics , vol.26 , pp. 497-525
    • Pitz, K.M.1    Sierwald, P.2
  • 12
    • 0035536905 scopus 로고    scopus 로고
    • A phylogenetic analysis of Myriapoda (Arthropoda) using two nuclear protein-encoding genes
    • Regier J, Shultz J (2001) A phylogenetic analysis of Myriapoda (Arthropoda) using two nuclear protein-encoding genes. Zoological Journal of The Linnean Society-London 132: 469-486
    • (2001) Zoological Journal of the Linnean Society-London , vol.132 , pp. 469-486
    • Regier, J.1    Shultz, J.2
  • 13
    • 9744246914 scopus 로고    scopus 로고
    • Phylogenetic analysis of Myriapoda using three nuclear protein-coding genes
    • DOI 10.1016/j.ympev.2004.09.005, PII S1055790304002842
    • Regier JC, Wilson HM, Shultz JW (2005) Phylogenetic analysis of Myriapoda using three nuclear protein-coding genes. Mol Phylogenet Evol 34: 147-158. doi:10.1016/j.ympev.2004.09.005. PubMed: 15579388. (Pubitemid 39584200)
    • (2005) Molecular Phylogenetics and Evolution , vol.34 , Issue.1 , pp. 147-158
    • Regier, J.C.1    Wilson, H.M.2    Shultz, J.W.3
  • 14
    • 0035989017 scopus 로고    scopus 로고
    • Cryptic speciation in the Anadenobolus excisus millipede species complex on the Island of Jamaica
    • Bond JE, Sierwald P (2002) Cryptic speciation in the Anadenobolus excisus millipede species complex on the Island of Jamaica. Evolution 56: 1123-1135. doi:10.1554/0014-3820(2002)056[1123:CSITAE]2.0.CO;2. PubMed: 12144014. (Pubitemid 34792109)
    • (2002) Evolution , vol.56 , Issue.6 , pp. 1123-1135
    • Bond, J.E.1    Sierwald, P.2
  • 15
    • 33750952290 scopus 로고    scopus 로고
    • Phylogenetic systematics of the colorful, cyanide-producing millipedes of Appalachia (Polydesmida, Xystodesmidae, Apheloriini) using a total evidence Bayesian approach
    • DOI 10.1016/j.ympev.2006.05.043, PII S1055790306002259
    • Marek PE, Bond JE (2006) Phylogenetic systematics of the colorful, cyanide-producing millipedes of Appalachia (Polydesmida, Xystodesmidae, Apheloriini) using a total evidence Bayesian approach. Mol Phylogenet Evol 41: 704-729. doi:10.1016/j.ympev.2006.05.043. PubMed: 16876439. (Pubitemid 44739325)
    • (2006) Molecular Phylogenetics and Evolution , vol.41 , Issue.3 , pp. 704-729
    • Marek, P.E.1    Bond, J.E.2
  • 16
    • 35348899577 scopus 로고    scopus 로고
    • A reassessment of apheloriine millipede phytogeny: Additional taxa, Bayesian inference, and direct optimization (Polydesmida: Xystodesmidae)
    • Marek PE, Bond JE (2007) A reassessment of apheloriine millipede phylogeny: additional taxa, Bayesian inference, and direct optimization (Polydesmida : Xystodesmidae). Zootaxa: 27-39. (Pubitemid 47593972)
    • (2007) Zootaxa , Issue.1610 , pp. 27-39
    • Marek, P.E.1    Bond, J.E.2
  • 17
    • 67649852602 scopus 로고    scopus 로고
    • A Mullerian mimicry ring in Appalachian millipedes
    • doi:10.1073/pnas.0810408106. PubMed: 19487663
    • Marek PE, Bond JE (2009) A Mullerian mimicry ring in Appalachian millipedes. Proc Natl Acad Sci U S A 106: 9755-9760. doi:10.1073/pnas. 0810408106. PubMed: 19487663.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 9755-9760
    • Marek, P.E.1    Bond, J.E.2
  • 18
    • 61849134527 scopus 로고    scopus 로고
    • Pleistocene glacial refugia across the Appalachian Mountains and coastal plain in the millipede genus Narceus: Evidence from population genetic, phylogeographic, and paleoclimatic data
    • doi:10.1186/1471-2148-9-25. PubMed: 19183468
    • Walker MJ, Stockman AK, Marek PE, Bond JE (2009) Pleistocene glacial refugia across the Appalachian Mountains and coastal plain in the millipede genus Narceus: Evidence from population genetic, phylogeographic, and paleoclimatic data. BMC Evol Biol 9: 25. doi:10.1186/1471-2148-9-25. PubMed: 19183468.
    • (2009) BMC Evol Biol , vol.9 , pp. 25
    • Walker, M.J.1    Stockman, A.K.2    Marek, P.E.3    Bond, J.E.4
  • 19
    • 82755186973 scopus 로고    scopus 로고
    • Mountain Refugia Play a Role in Soil Arthropod Speciation on Madagascar: A Case Study of the Endemic Giant Fire-Millipede Genus Aphistogoniulus
    • doi:10.1371/journal.pone.0028035. PubMed: 22162998
    • Wesener T, Raupach MJ, Decker P (2011) Mountain Refugia Play a Role in Soil Arthropod Speciation on Madagascar: A Case Study of the Endemic Giant Fire-Millipede Genus Aphistogoniulus. PLOS ONE 6: e28035. doi:10.1371/journal. pone.0028035. PubMed: 22162998.
    • (2011) PLOS ONE , vol.6
    • Wesener, T.1    Raupach, M.J.2    Decker, P.3
  • 20
    • 70350439629 scopus 로고    scopus 로고
    • A first phylogenetic analysis of Giant Pill-Millipedes (Diplopoda: Sphaerotheriida), a new model Gondwanan taxon, with special emphasis on island gigantism
    • doi:10.1111/j.1096-0031.2009.00267.x
    • Wesener T, VandenSpiegel D (2009) A first phylogenetic analysis of Giant Pill-Millipedes (Diplopoda: Sphaerotheriida), a new model Gondwanan taxon, with special emphasis on island gigantism. Cladistics 25: 545-573. doi:10.1111/j.1096-0031.2009.00267.x.
    • (2009) Cladistics , vol.25 , pp. 545-573
    • Wesener, T.1    VandenSpiegel, D.2
  • 21
    • 42549141319 scopus 로고    scopus 로고
    • Complex copulatory behavior and the proximate effect of genital and body size differences on mechanical reproductive isolation in the millipede genus Parafontaria
    • DOI 10.1086/587075
    • Tanabe T, Sota T (2008) Complex copulatory behavior and the proximate effect of genital and body size differences on mechanical reproductive isolation in the millipede genus Parafontaria. Am Nat 171: 692-699. doi:10.1086/587075. PubMed: 18419575. (Pubitemid 351589851)
    • (2008) American Naturalist , vol.171 , Issue.5 , pp. 692-699
    • Tanabe, T.1    Sota, T.2
  • 22
    • 77649201037 scopus 로고    scopus 로고
    • Multiple speciation events in an arthropod with divergent evolution in sexual morphology
    • doi:10.1098/rspb.2009.1822
    • Sota T, Tanabe T (2010) Multiple speciation events in an arthropod with divergent evolution in sexual morphology. Proc R Soc Lond B-Biol Sci 277: 689-696. doi:10.1098/rspb.2009.1822.
    • (2010) Proc R Soc Lond B-Biol Sci , vol.277 , pp. 689-696
    • Sota, T.1    Tanabe, T.2
  • 23
    • 84859438410 scopus 로고    scopus 로고
    • Evidence for stabilizing selection and slow divergent evolution of male genitalia in a millipede (Antichiropus variabilis)
    • doi:10.1111/j.1558-5646.2011.01509.x. PubMed: 22486694
    • Wojcieszek JM, Simmons LW (2012) Evidence for stabilizing selection and slow divergent evolution of male genitalia in a millipede (Antichiropus variabilis). Evolution 66 (4): 1138-1153. doi:10.1111/j.1558-5646.2011.01509.x. PubMed: 22486694.
    • (2012) Evolution , vol.66 , Issue.4 , pp. 1138-1153
    • Wojcieszek, J.M.1    Simmons, L.W.2
  • 24
    • 81255149161 scopus 로고    scopus 로고
    • Phylogenetic relationships in the millipede family Julidae
    • doi:10.1111/j.1096-0031.2011.00360.x
    • Enghoff H, Petersen G, Seberg O (2011) Phylogenetic relationships in the millipede family Julidae. Cladistics 27: 606-616. doi:10.1111/j.1096-0031.2011. 00360.x.
    • (2011) Cladistics , vol.27 , pp. 606-616
    • Enghoff, H.1    Petersen, G.2    Seberg, O.3
  • 25
    • 9244246975 scopus 로고    scopus 로고
    • A revised, annotated, family-level classification of the Diplopoda
    • Shelley RM (2003) A revised, annotated, family-level classification of the Diplopoda. Arthropoda Selecta 11: 187-207.
    • (2003) Arthropoda Selecta , vol.11 , pp. 187-207
    • Shelley, R.M.1
  • 26
    • 1142288610 scopus 로고
    • Introductory note on the families of Diplopoda
    • OF CookGN Collins, The Craspedosomatidae of North America
    • Cook O (1895) Introductory note on the families of Diplopoda. In OF CookGN Collins, The Craspedosomatidae of North America. Annuals of The New York Academy of Sciences 9: 1-7
    • (1895) Annuals of the New York Academy of Sciences , vol.9 , pp. 1-7
    • Cook, O.1
  • 27
    • 84870324696 scopus 로고    scopus 로고
    • Class Diplopoda de Blainville in Gervais
    • Z-Q Zhang. Animal biodiversity: An outline of higher-level classification and survey of taxonomic richness
    • Shear WA (2011) Class Diplopoda de Blainville in Gervais. In: Z-Q Zhang. Animal biodiversity: An outline of higher-level classification and survey of taxonomic richness. Zootaxa: 159-164. p. 1844.
    • (2011) Zootaxa
    • Shear, W.A.1
  • 30
    • 72249094760 scopus 로고    scopus 로고
    • Evolution of genitalia: Theories, evidence, and new directions
    • doi:10.1007/s10709-009-9358-y. PubMed: 19308664
    • Eberhard WG (2010) Evolution of genitalia: theories, evidence, and new directions. Genetica 138: 5-18. doi:10.1007/s10709-009-9358-y. PubMed: 19308664.
    • (2010) Genetica , vol.138 , pp. 5-18
    • Eberhard, W.G.1
  • 31
    • 5444258894 scopus 로고    scopus 로고
    • Rapid divergent evolution of sexual morphology: Comparative tests of antagonistic coevolution and traditional female choice
    • doi:10.1554/04-143. PubMed: 15521454
    • Eberhard WG (2004) Rapid divergent evolution of sexual morphology: Comparative tests of antagonistic coevolution and traditional female choice. Evolution 58: 1947-1970. doi:10.1554/04-143. PubMed: 15521454.
    • (2004) Evolution , vol.58 , pp. 1947-1970
    • Eberhard, W.G.1
  • 32
    • 84880295812 scopus 로고    scopus 로고
    • Arthropod Phylogenetics in Light of Three Novel Millipede (Myriapoda: Diplopoda) Mitochondrial Genomes with Comments on the Appropriateness of Mitochondrial Genome Sequence Data for Inferring Deep Level Relationships
    • doi:10.1371/journal.pone.0068005. PubMed: 23869209
    • Brewer MS, Swafford L, Spruill CL, Bond JE (2013) Arthropod Phylogenetics in Light of Three Novel Millipede (Myriapoda: Diplopoda) Mitochondrial Genomes with Comments on the Appropriateness of Mitochondrial Genome Sequence Data for Inferring Deep Level Relationships. PLOS ONE 8: e68005. doi:10.1371/journal. pone.0068005. PubMed: 23869209.
    • (2013) PLOS ONE , vol.8
    • Brewer, M.S.1    Swafford, L.2    Spruill, C.L.3    Bond, J.E.4
  • 33
    • 84865291420 scopus 로고    scopus 로고
    • Phylogenomic Resolution of Paleozoic Divergences in Harvestmen (Arachnida, Opiliones) via Analysis of Next-Generation Transcriptome Data
    • doi:10.1371/journal.pone.0042888. PubMed: 22936998
    • Hedin M, Starrett J, Akhter S, Schönhofer AL, Shultz JW (2012) Phylogenomic Resolution of Paleozoic Divergences in Harvestmen (Arachnida, Opiliones) via Analysis of Next-Generation Transcriptome Data. PLOS ONE 7: e42888. doi:10.1371/journal.pone.0042888. PubMed: 22936998.
    • (2012) PLOS ONE , vol.7
    • Hedin, M.1    Starrett, J.2    Akhter, S.3    Schönhofer, A.L.4    Shultz, J.W.5
  • 34
    • 73949154587 scopus 로고    scopus 로고
    • A 454 sequencing approach for large scale phylogenomic analysis of the common emperor scorpion (Pandinus imperator)
    • doi:10.1016/j.ympev.2009.08.014. PubMed: 19695333
    • Roeding F, Borner J, Kube M, Klages S, Reinhardt R et al. (2009) A 454 sequencing approach for large scale phylogenomic analysis of the common emperor scorpion (Pandinus imperator). Mol Phylogenet Evol 53: 826-834. doi:10.1016/j.ympev.2009.08.014. PubMed: 19695333.
    • (2009) Mol Phylogenet Evol , vol.53 , pp. 826-834
    • Roeding, F.1    Borner, J.2    Kube, M.3    Klages, S.4    Reinhardt, R.5
  • 35
    • 83555166100 scopus 로고    scopus 로고
    • Resolving the evolutionary relationships of molluscs with phylogenomic tools
    • doi:10.1038/nature10526. PubMed: 22031330
    • Smith SA, Wilson NG, Goetz FE, Feehery C, Andrade SCS et al. (2011) Resolving the evolutionary relationships of molluscs with phylogenomic tools. Nature 480: 364-367. doi:10.1038/nature10526. PubMed: 22031330.
    • (2011) Nature , vol.480 , pp. 364-367
    • Smith, S.A.1    Wilson, N.G.2    Goetz, F.E.3    Feehery, C.4    Andrade, S.C.S.5
  • 36
    • 73249118931 scopus 로고    scopus 로고
    • Resolving the evolution of extant and extinct ruminants with highthroughput phylogenomics
    • doi:10.1073/pnas.0904691106. PubMed: 19846765
    • Decker JE, Pires JC, Conant GC, McKay SD, Heaton MP et al. (2009) Resolving the evolution of extant and extinct ruminants with highthroughput phylogenomics. Proc Natl Acad Sci U S A 106: 18644- 18649. doi:10.1073/pnas. 0904691106. PubMed: 19846765.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 18644-18649
    • Decker, J.E.1    Pires, J.C.2    Conant, G.C.3    McKay, S.D.4    Heaton, M.P.5
  • 37
    • 79958795493 scopus 로고    scopus 로고
    • Available: Accessed 2012
    • Hannon G (2012) FASTX Toolkit. Available: http://hannonlab.cshl.edu/ fastx-toolkit/index.html. Accessed 2012
    • (2012) FASTX Toolkit
    • Hannon, G.1
  • 38
    • 84893390953 scopus 로고    scopus 로고
    • Available: Accessed 2012
    • Fast QC (2012) FastQC. Available: http://www.bioinformatics.babraham.ac. uk/projects/fastqc/. Accessed 2012
    • (2012) FastQC
    • Fast, Q.C.1
  • 39
    • 79960264362 scopus 로고    scopus 로고
    • Full-length transcriptome assembly from RNA-Seq data without a reference genome
    • doi:10.1038/nbt.1883. PubMed: 21572440
    • Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA et al. (2011) Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol 29: 644-652. doi:10.1038/nbt.1883. PubMed: 21572440.
    • (2011) Nat Biotechnol , vol.29 , pp. 644-652
    • Grabherr, M.G.1    Haas, B.J.2    Yassour, M.3    Levin, J.Z.4    Thompson, D.A.5
  • 40
    • 34249848751 scopus 로고    scopus 로고
    • CEGMA: A pipeline to accurately annotate core genes in eukaryotic genomes
    • DOI 10.1093/bioinformatics/btm071
    • Parra G, Bradnam K, Korf I (2007) CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes. Bioinformatics 23: 1061-1067. doi:10.1093/bioinformatics/btm071. PubMed: 17332020. (Pubitemid 47050556)
    • (2007) Bioinformatics , vol.23 , Issue.9 , pp. 1061-1067
    • Parra, G.1    Bradnam, K.2    Korf, I.3
  • 41
    • 0042902833 scopus 로고    scopus 로고
    • The COG database: An updated version includes eukaryotes
    • doi:10.1186/1471-2105-4-41. PubMed: 12969510
    • Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B et al. (2003) The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4: 41. doi:10.1186/1471-2105-4-41. PubMed: 12969510.
    • (2003) BMC Bioinformatics , vol.4 , pp. 41
    • Tatusov, R.L.1    Fedorova, N.D.2    Jackson, J.D.3    Jacobs, A.R.4    Kiryutin, B.5
  • 42
    • 68849131258 scopus 로고    scopus 로고
    • HaMStR: Profile hidden Markov model based search for orthologs in ESTs
    • doi:10.1186/1471-2148-9-157. PubMed: 19586527
    • Ebersberger I, Strauss S, Haeseler, von A (2009) HaMStR: Profile hidden Markov model based search for orthologs in ESTs. BMC Evol Biol 9: 157. doi:10.1186/1471-2148-9-157. PubMed: 19586527.
    • (2009) BMC Evol Biol , vol.9 , pp. 157
    • Ebersberger, I.1    Strauss, S.2    Haeseler Von, A.3
  • 43
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh K, Misawa K, Kuma K, Miyata T (2002) MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 30: 3059-3066. doi:10.1093/nar/gkf436. PubMed: 12136088. (Pubitemid 34851225)
    • (2002) Nucleic Acids Research , vol.30 , Issue.14 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.-I.3    Miyata, T.4
  • 44
    • 45949107473 scopus 로고    scopus 로고
    • Recent developments in the MAFFT multiple sequence alignment program
    • DOI 10.1093/bib/bbn013, Special Issue: Critical Technologies for Bioinformatics
    • Katoh K, Toh H (2008) Recent developments in the MAFFT multiple sequence alignment program. Brief Bioinform 9: 286-298. doi:10.1093/bib/bbn013. PubMed: 18372315. (Pubitemid 351890825)
    • (2008) Briefings in Bioinformatics , vol.9 , Issue.4 , pp. 286-298
    • Katoh, K.1    Toh, H.2
  • 45
    • 34248188251 scopus 로고    scopus 로고
    • SCaFoS: A tool for Selection, Concatenation and Fusion of Sequences for phylogenomics
    • doi:10.1186/1471-2148-7-S1-S2. PubMed: 17288575
    • Roure B, Rodriguez-Ezpeleta N, Philippe H (2007) SCaFoS: a tool for Selection, Concatenation and Fusion of Sequences for phylogenomics. BMC Evol Biol 7: S2. doi:10.1186/1471-2148-7-S1-S2. PubMed: 17288575.
    • (2007) BMC Evol Biol , vol.7
    • Roure, B.1    Rodriguez-Ezpeleta, N.2    Philippe, H.3
  • 46
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • doi:10.1093/oxfordjournals.molbev.a026334. PubMed: 10742046
    • Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17: 540-552. doi:10.1093/oxfordjournals.molbev.a026334. PubMed: 10742046.
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 47
    • 34547489084 scopus 로고    scopus 로고
    • Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
    • DOI 10.1080/10635150701472164, PII 780704285
    • Talavera G, Castresana J (2007) Improvement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments. Syst Biol 56: 564-577. doi:10.1080/10635150701472164. PubMed: 17654362. (Pubitemid 47171631)
    • (2007) Systematic Biology , vol.56 , Issue.4 , pp. 564-577
    • Talavera, G.1    Castresana, J.2
  • 48
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • doi: 10.1016/S0168-9525(00)02024-2. PubMed: 10827456
    • Rice P, Longden I, Bleasby A (2000) EMBOSS: The European molecular biology open software suite. Trends Genet 16: 276-277. doi: 10.1016/S0168- 9525(00)02024-2. PubMed: 10827456.
    • (2000) Trends Genet , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 49
    • 77950448058 scopus 로고    scopus 로고
    • Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees
    • Kueck P, Meusemann K, Dambach J, Thormann B, Reumont von BM, et al. (2010) Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees. Frontiers in Zoology 7 (10)
    • (2010) Frontiers in Zoology , vol.7 , Issue.10
    • Kueck, P.1    Meusemann, K.2    Dambach, J.3    Thormann, B.4    Von Reumont, B.M.5
  • 50
    • 84893393589 scopus 로고    scopus 로고
    • Available: Accessed 2012
    • Kuck P (2012) ALICUT. Available: http://www.zfmk.de/web/ZFMK-Mitarbeiter/ KckPatrick/Projekte/index.de.html. Accessed 2012
    • (2012) ALICUT
    • Kuck, P.1
  • 51
    • 77954427522 scopus 로고    scopus 로고
    • FASconCAT: Convenient handling of data matrices
    • doi:10.1016/j.ympev.2010.04.024. PubMed: 20416383
    • Kück P, Meusemann K (2010) FASconCAT: Convenient handling of data matrices. Mol Phylogenet Evol 56: 1115-1118. doi:10.1016/j.ympev.2010.04.024. PubMed: 20416383.
    • (2010) Mol Phylogenet Evol , vol.56 , pp. 1115-1118
    • Kück, P.1    Meusemann, K.2
  • 52
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • doi:10.1093/bioinformatics/btl446. PubMed: 16928733
    • Stamatakis A (2006) RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690. doi:10.1093/bioinformatics/btl446. PubMed: 16928733.
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 53
    • 69949126557 scopus 로고    scopus 로고
    • PhyloBayes 3: A Bayesian software package for phylogenetic reconstruction and molecular dating
    • doi:10.1093/bioinformatics/btp368. PubMed: 19535536
    • Lartillot N, Lepage T, Blanquart S (2009) PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating. Bioinformatics 25: 2286-2288. doi:10.1093/bioinformatics/btp368. PubMed: 19535536.
    • (2009) Bioinformatics , vol.25 , pp. 2286-2288
    • Lartillot, N.1    Lepage, T.2    Blanquart, S.3
  • 54
    • 12944280761 scopus 로고
    • HG Bronn's Klassen Ordnungen Tierreichs 5. 2. II. Leipzig, Germany: Akademie Verlag
    • Verhoeff KW (1932) Klasse Diplopoda II. HG Bronn's Klassen Ordnungen Tierreichs 5. 2. II. Leipzig, Germany: Akademie Verlag pp. 1073-2084
    • (1932) Klasse Diplopoda II , pp. 1073-2084
    • Verhoeff, K.W.1
  • 55
    • 21344476091 scopus 로고
    • Anamorphosis in millipedes (Diplopoda) - The present state of knowledge with some developmental and phylogenetic considerations
    • Enghoff H, Dohle W, Blower JG (1993) Anamorphosis in millipedes (Diplopoda) - the present state of knowledge with some developmental and phylogenetic considerations. Zoological Journal of The Linnean Society-London 109: 103-234
    • (1993) Zoological Journal of the Linnean Society-London , vol.109 , pp. 103-234
    • Enghoff, H.1    Dohle, W.2    Blower, J.G.3
  • 56
    • 67649327176 scopus 로고    scopus 로고
    • FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
    • doi:10.1093/molbev/msp077. PubMed: 19377059
    • Price MN, Dehal PS, Arkin AP (2009) FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix. Mol Biol Evol 26: 1641-1650. doi:10.1093/molbev/msp077. PubMed: 19377059.
    • (2009) Mol Biol Evol , vol.26 , pp. 1641-1650
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 57
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2-approximately maximum-likelihood trees for large alignments
    • doi:10.1371/journal.pone.0009490. PubMed: 20224823
    • Price MN, Dehal PS, Arkin AP (2010) FastTree 2-approximately maximum-likelihood trees for large alignments. PLOS ONE 5: e9490. doi:10.1371/journal.pone.0009490. PubMed: 20224823.
    • (2010) PLOS ONE , vol.5
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 58
    • 0036139287 scopus 로고    scopus 로고
    • CONSEL: For assessing the confidence of phylogenetic tree selection
    • Shimodaira H, Hasegawa M, CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17: 1246-1247.
    • Bioinformatics , vol.17 , pp. 1246-1247
    • Shimodaira, H.1    Hasegawa, M.2
  • 60
    • 33746450766 scopus 로고    scopus 로고
    • Juliformian millipedes from the Lower Devonian of euramerica: Implications for the timing of millipede cladogenesis in the Paleozoic
    • doi:10.1666/0022-3360(2006)80[638:JMFTLD]2.0.CO;2
    • Wilson HM (2006) Juliformian millipedes from the Lower Devonian of euramerica: Implications for the timing of millipede cladogenesis in the Paleozoic. J Paleontol 80: 638-649. doi:10.1666/0022-3360(2006)80[638:JMFTLD]2. 0.CO;2.
    • (2006) J Paleontol , vol.80 , pp. 638-649
    • Wilson, H.M.1
  • 61
    • 80055121128 scopus 로고    scopus 로고
    • Dating the arthropod tree based on large-scale transcriptome data
    • doi:10.1016/j.ympev.2011.09.003. PubMed: 21945788
    • Rehm P, Borner J, Meusemann K, Reumont von BM, Simon S, et al (2011) Dating the arthropod tree based on large-scale transcriptome data. Mol Phylogenet Evol 61: 880-887. doi:10.1016/j.ympev.2011.09.003. PubMed: 21945788.
    • (2011) Mol Phylogenet Evol , vol.61 , pp. 880-887
    • Rehm, P.1    Borner, J.2    Meusemann, K.3    Von Reumont, B.M.4    Simon, S.5
  • 62
    • 33344465800 scopus 로고    scopus 로고
    • Relaxed Phylogenetics and Dating with Confidence
    • doi:10.1371/journal.pbio.0040088. PubMed: 16683862
    • Drummond AJ, Ho SYW, Phillips MJ, Rambaut A (2006) Relaxed Phylogenetics and Dating with Confidence. PLOS Biol 4: e88. doi:10.1371/journal.pbio.0040088. PubMed: 16683862.
    • (2006) PLOS Biol , vol.4
    • Drummond, A.J.1    Ho, S.Y.W.2    Phillips, M.J.3    Rambaut, A.4
  • 63
    • 58249100073 scopus 로고    scopus 로고
    • Is a new and general theory of molecular systematics emerging?
    • doi:10.1111/j.1558-5646.2008.00549.x. PubMed: 19146594
    • Edwards SV (2009) Is a new and general theory of molecular systematics emerging? Evolution 63: 1-19. doi:10.1111/j.1558-5646.2008.00549.x. PubMed: 19146594.
    • (2009) Evolution , vol.63 , pp. 1-19
    • Edwards, S.V.1
  • 64
    • 77958144939 scopus 로고    scopus 로고
    • A Phylogenomic Approach to Resolve the Arthropod Tree of Life
    • doi:10.1093/molbev/msq130. PubMed: 20534705
    • Meusemann K, Reumont von BM, Simon S, Roeding F, Strauss S, et al (2010) A Phylogenomic Approach to Resolve the Arthropod Tree of Life. Mol Biol Evol 27: 2451-2464. doi:10.1093/molbev/msq130. PubMed: 20534705.
    • (2010) Mol Biol Evol , vol.27 , pp. 2451-2464
    • Meusemann, K.1    Von Reumont, B.M.2    Simon, S.3    Roeding, F.4    Strauss, S.5
  • 65
    • 80053132393 scopus 로고    scopus 로고
    • Phylogenomics reveals deep molluscan relationships
    • doi:10.1038/nature10382. PubMed: 21892190
    • Kocot KM, Cannon JT, Todt C, Citarella MR, Kohn AB et al. (2011) Phylogenomics reveals deep molluscan relationships. Nature 477: 452-456. doi:10.1038/nature10382. PubMed: 21892190.
    • (2011) Nature , vol.477 , pp. 452-456
    • Kocot, K.M.1    Cannon, J.T.2    Todt, C.3    Citarella, M.R.4    Kohn, A.B.5
  • 67
    • 70349485162 scopus 로고    scopus 로고
    • A synopsis of the milliped genus Brachycybe Wood, 1864 (Platydesmida: Andrognathidae)
    • Shelley R, McAllister C, Tanabe T (2005) A synopsis of the milliped genus Brachycybe Wood, 1864 (Platydesmida: Andrognathidae). Fragmenta Faunistica 48: 137-166.
    • (2005) Fragmenta Faunistica , vol.48 , pp. 137-166
    • Shelley, R.1    McAllister, C.2    Tanabe, T.3
  • 68
    • 67650825174 scopus 로고    scopus 로고
    • Spinnerets in the milliped order Polydesmida, and the phylogenetic significance of spinnerets in millipeds (Diplopoda)
    • doi:10.1163/187525408X395904
    • Shear WA (2008) Spinnerets in the milliped order Polydesmida, and the phylogenetic significance of spinnerets in millipeds (Diplopoda). International J of Myriapodology 1: 123-146. doi:10.1163/187525408X395904.
    • (2008) International J of Myriapodology , vol.1 , pp. 123-146
    • Shear, W.A.1
  • 70
    • 82255195530 scopus 로고    scopus 로고
    • The Cambrian Conundrum: Early Divergence and Later Ecological Success in the Early History of Animals
    • doi:10.1126/science.1206375. PubMed: 22116879
    • Erwin DH, Laflamme M, Tweedt SM, Sperling EA, Pisani D et al. (2011) The Cambrian Conundrum: Early Divergence and Later Ecological Success in the Early History of Animals. Science 334: 1091-1097. doi:10.1126/science.1206375. PubMed: 22116879.
    • (2011) Science , vol.334 , pp. 1091-1097
    • Erwin, D.H.1    Laflamme, M.2    Tweedt, S.M.3    Sperling, E.A.4    Pisani, D.5
  • 71
    • 17844393056 scopus 로고    scopus 로고
    • Occurrence of the milliped Sinocallipus simplipodicus Zhang, 1993 in Laos, with reviews of the Southeast Asian and global callipodidan faunas, and remarks on the phylogenetic position of the order (Callipodida: Sinocallipodidea: Sinocallipodidae)
    • Shear WA, Shelley RM, Heatwole H (2003) Occurrence of the milliped Sinocallipus simplipodicus Zhang, 1993 in Laos, with reviews of the Southeast Asian and global callipodidan faunas, and remarks on the phylogenetic position of the order (Callipodida: Sinocallipodidea: Sinocallipodidae). Zootaxa 365: 1-20.
    • (2003) Zootaxa , vol.365 , pp. 1-20
    • Shear, W.A.1    Shelley, R.M.2    Heatwole, H.3
  • 72
    • 77950551889 scopus 로고    scopus 로고
    • The geological record and phylogeny of the Myriapoda
    • doi:10.1016/j.asd.2009.11.002. PubMed: 19944188
    • Shear WA, Edgecombe GD (2010) The geological record and phylogeny of the Myriapoda. Arthropod Struct Dev 39: 174-190. doi:10.1016/j.asd.2009.11.002. PubMed: 19944188.
    • (2010) Arthropod Struct Dev , vol.39 , pp. 174-190
    • Shear, W.A.1    Edgecombe, G.D.2
  • 73
    • 77950131159 scopus 로고    scopus 로고
    • First evidence for locomotion in the Ediacara biota from the 565 Ma Mistaken Point Formation, Newfoundland
    • doi:10.1130/G30368.1
    • Liu AG, Mcllroy D, Brasier MD (2010) First evidence for locomotion in the Ediacara biota from the 565 Ma Mistaken Point Formation, Newfoundland. Geology 38: 123-126. doi:10.1130/G30368.1.
    • (2010) Geology , vol.38 , pp. 123-126
    • Liu, A.G.1    Mcllroy, D.2    Brasier, M.D.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.