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Volumn 2014, Issue 1, 2014, Pages

Evidence that ebolaviruses and cuevaviruses have been diverging from marburgviruses since the Miocene

Author keywords

Cricetidae; Divergence estimation; Ebolavirus; Filoviruses; Marburgvirus; NP; Paleovirus; VP35

Indexed keywords

ARTICLE; BIOINFORMATICS; CUEVAVIRUS; DNA SEQUENCE; EBOLA VIRUS; EBOLAVIRUS LIKE NP GENE; EBOLAVIRUS LIKE VP35 GENE; EVOLUTION; FILOVIRIDAE; GENETIC DISTANCE; MARBURG VIRUS; MIOCENE; MUTATION RATE; NONHUMAN; NUCLEOTIDE SEQUENCE; ORTHOLOGY; PHYLOGENY; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; VIRUS GENE;

EID: 84907710141     PISSN: None     EISSN: 21678359     Source Type: Journal    
DOI: 10.7717/peerj.556     Document Type: Article
Times cited : (25)

References (55)
  • 1
    • 70350389388 scopus 로고    scopus 로고
    • Supraspecies relationships in the subfamily Arvicolinae (Rodentia, Cricetidae): an unexpected result of nuclear gene analysis
    • Abramson I, Lebedev S, Tesakov S, Bannikova A. 2009. Supraspecies relationships in the subfamily Arvicolinae (Rodentia, Cricetidae): an unexpected result of nuclear gene analysis. Molecular Biology 43:834-846 DOI 10.1134/S0026893309050148.
    • (2009) Molecular Biology , vol.43 , pp. 834-846
    • Abramson, I.1    Lebedev, S.2    Tesakov, S.3    Bannikova, A.4
  • 2
    • 4444220955 scopus 로고    scopus 로고
    • Should we be worried about long-branch attraction in real data sets? Investigations using metazoan 18S rDNA
    • Anderson FE, Swofford DL. 2004. Should we be worried about long-branch attraction in real data sets? Investigations using metazoan 18S rDNA. Molecular Phylogenetics and Evolution 33:440-451 DOI 10.1016/j.ympev.2004.06.015.
    • (2004) Molecular Phylogenetics and Evolution , vol.33 , pp. 440-451
    • Anderson, F.E.1    Swofford, D.L.2
  • 3
    • 84904906709 scopus 로고    scopus 로고
    • Discovery and evolution of bunyavirids in arctic phantom midges and ancient bunyavirid-like sequences in insect genomes
    • Ballinger MJ, Bruenn JA, Hay J, Czechowski D, Taylor DJ. 2014. Discovery and evolution of bunyavirids in arctic phantom midges and ancient bunyavirid-like sequences in insect genomes. Journal of Virology 88:8783-8794 DOI 10.1128/JVI.00531-14.
    • (2014) Journal of Virology , vol.88 , pp. 8783-8794
    • Ballinger, M.J.1    Bruenn, J.A.2    Hay, J.3    Czechowski, D.4    Taylor, D.J.5
  • 5
    • 77957660360 scopus 로고    scopus 로고
    • Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes
    • Belyi VA, Levine AJ, Skalka AM. 2010. Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes. PLoS Pathogens 6:e1001030 DOI 10.1371/journal.ppat.1001030.
    • (2010) PLoS Pathogens , vol.6
    • Belyi, V.A.1    Levine, A.J.2    Skalka, A.M.3
  • 7
    • 84901423577 scopus 로고    scopus 로고
    • TCS: a new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree reconstruction
    • Chang J-M, Di Tommaso P, Notredame C. 2014. TCS: a new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree reconstruction. Molecular Biology and Evolution 31:1625-1637 DOI 10.1093/molbev/msu117.
    • (2014) Molecular Biology and Evolution , vol.31 , pp. 1625-1637
    • Chang, J.-M.1    Di Tommaso, P.2    Notredame, C.3
  • 9
    • 77956193448 scopus 로고    scopus 로고
    • progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement
    • Darling AE, Mau B, Perna NT. 2010. progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. PLoS ONE 5:e11147 DOI 10.1371/journal.pone.0011147.
    • (2010) PLoS ONE , vol.5
    • Darling, A.E.1    Mau, B.2    Perna, N.T.3
  • 10
    • 77957233168 scopus 로고    scopus 로고
    • Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology
    • Delport W, Poon AF, Frost SD, Pond SLK. 2010. Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology. Bioinformatics 26:2455-2457 DOI 10.1093/bioinformatics/btq429.
    • (2010) Bioinformatics , vol.26 , pp. 2455-2457
    • Delport, W.1    Poon, A.F.2    Frost, S.D.3    Pond, S.L.K.4
  • 11
    • 84902668596 scopus 로고    scopus 로고
    • Analyses of evolutionary dynamics in viruses are hindered by a time-dependent bias in rate estimates
    • Duchêne S, Holmes EC, Ho SY. 2014. Analyses of evolutionary dynamics in viruses are hindered by a time-dependent bias in rate estimates. Proceedings of the Royal Society B: Biological Sciences 281:20140732 DOI 10.1098/rspb.2014.0732.
    • (2014) Proceedings of the Royal Society B: Biological Sciences , vol.281 , pp. 20140732
    • Duchêne, S.1    Holmes, E.C.2    Ho, S.Y.3
  • 13
    • 84862178988 scopus 로고    scopus 로고
    • A glimpse on the pattern of rodent diversification: a phylogenetic approach
    • Fabre PH, Hautier L, Dimitrov D, Douzery EJ. 2012. A glimpse on the pattern of rodent diversification: a phylogenetic approach. BMC Evolutionary Biology 12:88 DOI 10.1186/1471-2148-12-88.
    • (2012) BMC Evolutionary Biology , vol.12 , pp. 88
    • Fabre, P.H.1    Hautier, L.2    Dimitrov, D.3    Douzery, E.J.4
  • 14
    • 77957921403 scopus 로고    scopus 로고
    • Genomic fossils calibrate the long-term evolution of hepadnaviruses
    • Gilbert C, Feschotte C. 2010. Genomic fossils calibrate the long-term evolution of hepadnaviruses. PLoS Biology 8:e1000495 DOI 10.1371/journal.pbio.1000495.
    • (2010) PLoS Biology , vol.8
    • Gilbert, C.1    Feschotte, C.2
  • 15
    • 74549125386 scopus 로고    scopus 로고
    • SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
    • Gouy M, Guindon S, Gascuel O. 2010. SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Molecular Biology and Evolution 27:221-224 DOI 10.1093/molbev/msp259.
    • (2010) Molecular Biology and Evolution , vol.27 , pp. 221-224
    • Gouy, M.1    Guindon, S.2    Gascuel, O.3
  • 17
    • 40149109042 scopus 로고    scopus 로고
    • Inhibition of IRF-3 activation by VP35 is critical for the high level of virulence of Ebola virus
    • Hartman AL, Bird BH, Towner JS, Antoniadou Z-A, Zaki SR, Nichol ST. 2008. Inhibition of IRF-3 activation by VP35 is critical for the high level of virulence of Ebola virus. Journal of Virology 82:2699-2704 DOI 10.1128/JVI.02344-07.
    • (2008) Journal of Virology , vol.82 , pp. 2699-2704
    • Hartman, A.L.1    Bird, B.H.2    Towner, J.S.3    Antoniadou, Z.-A.4    Zaki, S.R.5    Nichol, S.T.6
  • 18
    • 5344258197 scopus 로고    scopus 로고
    • A C-terminal basic amino acid motif of Zaire ebolavirus VP35 is essential for type I interferon antagonism and displays high identity with the RNA-binding domain of another interferon antagonist, the NS1 protein of influenza A virus
    • Hartman AL, Towner JS, Nichol ST. 2004. A C-terminal basic amino acid motif of Zaire ebolavirus VP35 is essential for type I interferon antagonism and displays high identity with the RNA-binding domain of another interferon antagonist, the NS1 protein of influenza A virus. Virology 328:177-184 DOI 10.1016/j.virol.2004.07.006.
    • (2004) Virology , vol.328 , pp. 177-184
    • Hartman, A.L.1    Towner, J.S.2    Nichol, S.T.3
  • 19
    • 0022376704 scopus 로고
    • Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa M, Kishino H, Yano T-A. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22:160-174 DOI 10.1007/BF02101694.
    • (1985) Journal of Molecular Evolution , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.-A.3
  • 20
    • 84893817555 scopus 로고    scopus 로고
    • Cell tropism predicts long-term nucleotide substitution rates of mammalian RNA viruses
    • Hicks AL, Duffy S. 2014. Cell tropism predicts long-term nucleotide substitution rates of mammalian RNA viruses. PLoS Pathogens 10:e1003838 DOI 10.1371/journal.ppat.1003838.
    • (2014) PLoS Pathogens , vol.10
    • Hicks, A.L.1    Duffy, S.2
  • 21
    • 0037377762 scopus 로고    scopus 로고
    • Molecular clocks and the puzzle of RNA virus origins
    • Holmes EC. 2003. Molecular clocks and the puzzle of RNA virus origins. Journal of Virology 77:3893-3897 DOI 10.1128/JVI.77.7.3893-3897.2003.
    • (2003) Journal of Virology , vol.77 , pp. 3893-3897
    • Holmes, E.C.1
  • 23
    • 79551593039 scopus 로고    scopus 로고
    • Mitochondrial genomes reveal slow rates of molecular evolution and the timing of speciation in beavers (Castor), one of the largest rodent species
    • Horn S, Durka W, Wolf R, Ermala A, Stubbe A, Stubbe M, Hofreiter M. 2011. Mitochondrial genomes reveal slow rates of molecular evolution and the timing of speciation in beavers (Castor), one of the largest rodent species. PLoS ONE 6:e14622 DOI 10.1371/journal.pone.0014622.
    • (2011) PLoS ONE , vol.6
    • Horn, S.1    Durka, W.2    Wolf, R.3    Ermala, A.4    Stubbe, A.5    Stubbe, M.6    Hofreiter, M.7
  • 24
    • 33644601043 scopus 로고    scopus 로고
    • The pattern and timing of diversification of Philippine endemic rodents: evidence from mitochondrial and nuclear gene sequences
    • Jansa SA, Barker FK, Heaney LR. 2006. The pattern and timing of diversification of Philippine endemic rodents: evidence from mitochondrial and nuclear gene sequences. Systematic Biology 55:73-88 DOI 10.1080/10635150500431254.
    • (2006) Systematic Biology , vol.55 , pp. 73-88
    • Jansa, S.A.1    Barker, F.K.2    Heaney, L.R.3
  • 25
    • 78649705750 scopus 로고    scopus 로고
    • Endless forms most viral
    • Johnson WE. 2010. Endless forms most viral. PLoS Genetics 6:e1001210 DOI 10.1371/journal.pgen.1001210.
    • (2010) PLoS Genetics , vol.6
    • Johnson, W.E.1
  • 26
    • 84934440243 scopus 로고    scopus 로고
    • MAFFT: iterative refinement and additional methods
    • Katoh K, Standley DM. 2014. MAFFT: iterative refinement and additional methods. Methods in Molecular Biology 1079:131-146 DOI 10.1007/978-1-62703-646-7 8.
    • (2014) Methods in Molecular Biology , vol.1079 , pp. 131-146
    • Katoh, K.1    Standley, D.M.2
  • 27
    • 78649718268 scopus 로고    scopus 로고
    • Endogenous viral elements in animal genomes
    • Katzourakis A, Gifford RJ. 2010. Endogenous viral elements in animal genomes. PLoS Genetics 6:e1001191 DOI 10.1371/journal.pgen.1001191.
    • (2010) PLoS Genetics , vol.6
    • Katzourakis, A.1    Gifford, R.J.2
  • 30
    • 84861380450 scopus 로고    scopus 로고
    • PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses
    • Lanfear R, Calcott B, Ho SY, Guindon S. 2012. PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Molecular Biology and Evolution 29:1695-1701 DOI 10.1093/molbev/mss020.
    • (2012) Molecular Biology and Evolution , vol.29 , pp. 1695-1701
    • Lanfear, R.1    Calcott, B.2    Ho, S.Y.3    Guindon, S.4
  • 31
    • 78049512653 scopus 로고    scopus 로고
    • Widespread horizontal gene transfer from double-stranded RNA viruses to eukaryotic nuclear genomes
    • Liu H, Fu Y, Jiang D, Li G, Xie J, Cheng J, Peng Y, Ghabrial SA, Yi X. 2010. Widespread horizontal gene transfer from double-stranded RNA viruses to eukaryotic nuclear genomes. Journal of Virology 84:11876-11887 DOI 10.1128/JVI.00955-10.
    • (2010) Journal of Virology , vol.84 , pp. 11876-11887
    • Liu, H.1    Fu, Y.2    Jiang, D.3    Li, G.4    Xie, J.5    Cheng, J.6    Peng, Y.7    Ghabrial, S.A.8    Yi, X.9
  • 35
    • 0035207848 scopus 로고    scopus 로고
    • Rate acceleration and long-branch attraction in a conserved gene of cryptic daphniid (Crustacea) species
    • Omilian AR, Taylor DJ. 2001. Rate acceleration and long-branch attraction in a conserved gene of cryptic daphniid (Crustacea) species. Molecular Biology and Evolution 18:2201-2212 DOI 10.1093/oxfordjournals.molbev.a003767.
    • (2001) Molecular Biology and Evolution , vol.18 , pp. 2201-2212
    • Omilian, A.R.1    Taylor, D.J.2
  • 36
    • 84873182617 scopus 로고    scopus 로고
    • Dating an impressive Neotropical radiation: molecular time estimates for the Sigmodontinae (Rodentia) provide insights into its historical biogeography
    • Parada A, Pardiñas UF, Salazar-Bravo J, Delía G, Palma RE. 2013. Dating an impressive Neotropical radiation: molecular time estimates for the Sigmodontinae (Rodentia) provide insights into its historical biogeography. Molecular Phylogenetics and Evolution 66:960-968 DOI 10.1016/j.ympev.2012.12.001.
    • (2013) Molecular Phylogenetics and Evolution , vol.66 , pp. 960-968
    • Parada, A.1    Pardiñas, U.F.2    Salazar-Bravo, J.3    Delía, G.4    Palma, R.E.5
  • 37
    • 77952060367 scopus 로고    scopus 로고
    • TAX1BP1 and A20 inhibit antiviral signaling by targeting TBK1-IKKi kinases
    • Parvatiyar K, Barber GN, Harhaj EW. 2010. TAX1BP1 and A20 inhibit antiviral signaling by targeting TBK1-IKKi kinases. Journal of Biological Chemistry 285:14999-15009 DOI 10.1074/jbc. M110.109819.
    • (2010) Journal of Biological Chemistry , vol.285 , pp. 14999-15009
    • Parvatiyar, K.1    Barber, G.N.2    Harhaj, E.W.3
  • 38
    • 80053377900 scopus 로고    scopus 로고
    • Paleovirology-ghosts and gifts of viruses past
    • Patel MR, Emerman M, Malik HS. 2011. Paleovirology-ghosts and gifts of viruses past. Current Opinion in Virology 1:304-309 DOI 10.1016/j.coviro.2011.06.007.
    • (2011) Current Opinion in Virology , vol.1 , pp. 304-309
    • Patel, M.R.1    Emerman, M.2    Malik, H.S.3
  • 39
    • 43349098110 scopus 로고    scopus 로고
    • Finding protein and nucleotide similarities with FASTA
    • Pearson W. 2004. Finding protein and nucleotide similarities with FASTA. Current Protocols in Bioinformatics 3.9.1-3.9.23 DOI 10.1002/0471250953.bi0309s04.
    • (2004) Current Protocols in Bioinformatics , pp. 3.9.1-3.9.23
    • Pearson, W.1
  • 41
    • 84877778167 scopus 로고    scopus 로고
    • University of Edinburgh, Edinburgh, UK.
    • Rambaut A. 2012. FigTree v1. 4. University of Edinburgh, Edinburgh, UK. Available at http://tree bio ed ac uk/software/figtree.
    • (2012) FigTree , vol.4
    • Rambaut, A.1
  • 43
    • 0034069504 scopus 로고    scopus 로고
    • Error, bias, and long-branch attraction in data for two chloroplast photosystem genes in seed plants
    • Sanderson MJ, Wojciechowski MF, Hu J-M, Khan TS, Brady SG. 2000. Error, bias, and long-branch attraction in data for two chloroplast photosystem genes in seed plants. Molecular Biology and Evolution 17:782-797 DOI 10.1093/oxfordjournals.molbev.a026357.
    • (2000) Molecular Biology and Evolution , vol.17 , pp. 782-797
    • Sanderson, M.J.1    Wojciechowski, M.F.2    Hu, J.-M.3    Khan, T.S.4    Brady, S.G.5
  • 44
    • 81755165762 scopus 로고    scopus 로고
    • Evaluating the evidence for virus/host co-evolution
    • Sharp PM, Simmonds P. 2011. Evaluating the evidence for virus/host co-evolution. Current Opinion in Virology 1:436-441 DOI 10.1016/j.coviro.2011.10.018.
    • (2011) Current Opinion in Virology , vol.1 , pp. 436-441
    • Sharp, P.M.1    Simmonds, P.2
  • 45
    • 4344665270 scopus 로고    scopus 로고
    • Phylogeny and divergence-date estimates of rapid radiations in muroid rodents based on multiple nuclear genes
    • Steppan SJ, Adkins RM, Anderson J. 2004. Phylogeny and divergence-date estimates of rapid radiations in muroid rodents based on multiple nuclear genes. Systematic Biology 53:533-553 DOI 10.1080/10635150490468701.
    • (2004) Systematic Biology , vol.53 , pp. 533-553
    • Steppan, S.J.1    Adkins, R.M.2    Anderson, J.3
  • 46
    • 0030877537 scopus 로고    scopus 로고
    • The origin and evolution of Ebola and Marburg viruses
    • Suzuki Y, Gojobori T. 1997. The origin and evolution of Ebola and Marburg viruses. Molecular Biology and Evolution 14:800-806 DOI 10.1093/oxfordjournals.molbev.a025820.
    • (1997) Molecular Biology and Evolution , vol.14 , pp. 800-806
    • Suzuki, Y.1    Gojobori, T.2
  • 47
    • 13144252211 scopus 로고    scopus 로고
    • Occurrence of a DNA sequence of a non-retro RNA virus in a host plant genome and its expression: evidence for recombination between viral and host RNAs
    • Tanne E, Sela I. 2005. Occurrence of a DNA sequence of a non-retro RNA virus in a host plant genome and its expression: evidence for recombination between viral and host RNAs. Virology 332:614-622 DOI 10.1016/j.virol.2004.11.007.
    • (2005) Virology , vol.332 , pp. 614-622
    • Tanne, E.1    Sela, I.2
  • 48
    • 84877153523 scopus 로고    scopus 로고
    • Virus-host co-evolution under a modified nuclear genetic code
    • Taylor DJ, Ballinger MJ, Bowman SM, Bruenn JA. 2013. Virus-host co-evolution under a modified nuclear genetic code. PeerJ 1:e50 DOI 10.7717/peerj.50.
    • (2013) PeerJ , vol.1
    • Taylor, D.J.1    Ballinger, M.J.2    Bowman, S.M.3    Bruenn, J.A.4
  • 49
    • 84903786201 scopus 로고    scopus 로고
    • The evolution of novel fungal genes from non-retroviral RNA viruses
    • Taylor DJ, Bruenn J. 2009. The evolution of novel fungal genes from non-retroviral RNA viruses. BMC Biology 7:88 DOI 10.1186/1741-7007-7-88.
    • (2009) BMC Biology , vol.7 , pp. 88
    • Taylor, D.J.1    Bruenn, J.2
  • 51
    • 77953665114 scopus 로고    scopus 로고
    • Filovirids are ancient and integrated into mammalian genomes
    • Taylor DJ, Leach RW, Bruenn J. 2010. Filovirids are ancient and integrated into mammalian genomes. BMC Evolutionary Biology 10:193 DOI 10.1186/1471-2148-10-193.
    • (2010) BMC Evolutionary Biology , vol.10 , pp. 193
    • Taylor, D.J.1    Leach, R.W.2    Bruenn, J.3
  • 52
    • 3242795999 scopus 로고    scopus 로고
    • An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data
    • Taylor DJ, Piel WH. 2004. An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data. Molecular Biology and Evolution 21:1534-1537 DOI 10.1093/molbev/msh156.
    • (2004) Molecular Biology and Evolution , vol.21 , pp. 1534-1537
    • Taylor, D.J.1    Piel, W.H.2
  • 53
    • 79959913347 scopus 로고    scopus 로고
    • TAX1BP1, a ubiquitin-binding adaptor protein in innate immunity and beyond
    • Verstrepen L, Verhelst K, Carpentier I, Beyaert R. 2011. TAX1BP1, a ubiquitin-binding adaptor protein in innate immunity and beyond. Trends in Biochemical Sciences 36:347-354 DOI 10.1016/j.tibs.2011.03.004.
    • (2011) Trends in Biochemical Sciences , vol.36 , pp. 347-354
    • Verstrepen, L.1    Verhelst, K.2    Carpentier, I.3    Beyaert, R.4
  • 54
    • 84871856367 scopus 로고    scopus 로고
    • Use of the Syrian hamster as a new model of ebola virus disease and other viral hemorrhagic fevers
    • Wahl-Jensen V, Bollinger L, Safronetz D, de Kok-Mercado F, Scott DP, Ebihara H. 2012. Use of the Syrian hamster as a new model of ebola virus disease and other viral hemorrhagic fevers. Viruses 4:3754-3784 DOI 10.3390/v4123754.
    • (2012) Viruses , vol.4 , pp. 3754-3784
    • Wahl-Jensen, V.1    Bollinger, L.2    Safronetz, D.3    de Kok-Mercado, F.4    Scott, D.P.5    Ebihara, H.6
  • 55
    • 80054941662 scopus 로고    scopus 로고
    • Purifying selection can obscure the ancient age of viral lineages
    • Wertheim JO, Kosakovsky Pond SL. 2011. Purifying selection can obscure the ancient age of viral lineages. Molecular Biology and Evolution 28:3355-3365 DOI 10.1093/molbev/msr170.
    • (2011) Molecular Biology and Evolution , vol.28 , pp. 3355-3365
    • Wertheim, J.O.1    Kosakovsky Pond, S.L.2


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