-
2
-
-
0036147047
-
Rates of molecular evolution in RNA viruses: A quantitative phylogenetic analysis
-
Jenkins GM, Rambaut A, Pybus OG, Holmes EC, (2002) Rates of molecular evolution in RNA viruses: A quantitative phylogenetic analysis. J Mol Evol 54: 156-165.
-
(2002)
J Mol Evol
, vol.54
, pp. 156-165
-
-
Jenkins, G.M.1
Rambaut, A.2
Pybus, O.G.3
Holmes, E.C.4
-
3
-
-
77956826336
-
Viral Mutation Rates
-
Sanjuan R, Nebot MR, Chirico N, Mansky LM, Belshaw R, (2010) Viral Mutation Rates. J Virol 84: 9733-9748.
-
(2010)
J Virol
, vol.84
, pp. 9733-9748
-
-
Sanjuan, R.1
Nebot, M.R.2
Chirico, N.3
Mansky, L.M.4
Belshaw, R.5
-
4
-
-
33645093947
-
Nidovirales: Evolving the largest RNA virus genome
-
Gorbalenya AE, Enjuanes L, Ziebuhr J, Snijder EJ, (2006) Nidovirales: Evolving the largest RNA virus genome. Virus Res 117: 17-37.
-
(2006)
Virus Res
, vol.117
, pp. 17-37
-
-
Gorbalenya, A.E.1
Enjuanes, L.2
Ziebuhr, J.3
Snijder, E.J.4
-
5
-
-
33746317830
-
The molecular biology of coronaviruses
-
Masters PS, (2006) The molecular biology of coronaviruses. Adv Virus Res 66: 193-292.
-
(2006)
Adv Virus Res
, vol.66
, pp. 193-292
-
-
Masters, P.S.1
-
7
-
-
0029091681
-
Ribosomal frameshifting viral RNAs
-
Brierley I, (1995) Ribosomal frameshifting viral RNAs. J Gen Virol 76: 1885-1892.
-
(1995)
J Gen Virol
, vol.76
, pp. 1885-1892
-
-
Brierley, I.1
-
8
-
-
22744450786
-
A three-stemmed mRNA pseudoknot in the SARS coronavirus frameshift signal
-
Plant EP, Perez-Alvarado GC, Jacobs JL, Mukhopadhyay B, Hennig M, et al. (2005) A three-stemmed mRNA pseudoknot in the SARS coronavirus frameshift signal. PLoS Biol 3: 1012-1023.
-
(2005)
PLoS Biol
, vol.3
, pp. 1012-1023
-
-
Plant, E.P.1
Perez-Alvarado, G.C.2
Jacobs, J.L.3
Mukhopadhyay, B.4
Hennig, M.5
-
9
-
-
0034072633
-
Virus-encoded proteinases and proteolytic processing in the Nidovirales
-
Ziebuhr J, Snijder EJ, Gorbalenya AE, (2000) Virus-encoded proteinases and proteolytic processing in the Nidovirales. J Gen Virol 81: 853-879.
-
(2000)
J Gen Virol
, vol.81
, pp. 853-879
-
-
Ziebuhr, J.1
Snijder, E.J.2
Gorbalenya, A.E.3
-
12
-
-
33750333638
-
Biochemical aspects of coronavirus replication and virus-host interaction
-
Enjuanes L, Almazan F, Sola I, Zuniga S, (2006) Biochemical aspects of coronavirus replication and virus-host interaction. Ann Rev Microbiol 60: 211-230.
-
(2006)
Ann Rev Microbiol
, vol.60
, pp. 211-230
-
-
Enjuanes, L.1
Almazan, F.2
Sola, I.3
Zuniga, S.4
-
13
-
-
33845750075
-
A contemporary view of coronavirus transcription
-
Sawicki SG, Sawicki DL, Siddell SG, (2007) A contemporary view of coronavirus transcription. J Virol 81: 20-29.
-
(2007)
J Virol
, vol.81
, pp. 20-29
-
-
Sawicki, S.G.1
Sawicki, D.L.2
Siddell, S.G.3
-
14
-
-
0035701786
-
Big nidovirus genome - When count and order of domains matter
-
Gorbalenya AE, (2001) Big nidovirus genome- When count and order of domains matter. Adv Exp Med Biol 494: 1-17.
-
(2001)
Adv Exp Med Biol
, vol.494
, pp. 1-17
-
-
Gorbalenya, A.E.1
-
15
-
-
0042164218
-
Unique and conserved features of genome and proteome of SARS-coronavirus, an early split-off from the coronavirus group 2 lineage
-
Snijder EJ, Bredenbeek PJ, Dobbe JC, Thiel V, Ziebuhr J, et al. (2003) Unique and conserved features of genome and proteome of SARS-coronavirus, an early split-off from the coronavirus group 2 lineage. J Mol Biol 331: 991-1004.
-
(2003)
J Mol Biol
, vol.331
, pp. 991-1004
-
-
Snijder, E.J.1
Bredenbeek, P.J.2
Dobbe, J.C.3
Thiel, V.4
Ziebuhr, J.5
-
16
-
-
33645518839
-
Discovery of an RNA virus 3′→5′ exoribonuclease that is critically involved in coronavirus RNA synthesis
-
Minskaia E, Hertzig T, Gorbalenya AE, Campanacci V, Cambillau C, et al. (2006) Discovery of an RNA virus 3′→5′ exoribonuclease that is critically involved in coronavirus RNA synthesis. Proc Natl Acad Sci U S A 103: 5108-5113.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 5108-5113
-
-
Minskaia, E.1
Hertzig, T.2
Gorbalenya, A.E.3
Campanacci, V.4
Cambillau, C.5
-
17
-
-
35348869237
-
Biochemical characterization of exoribonuclease encoded by SARS coronavirus
-
Chen P, Jiang M, Hu T, Liu QZ, Chen XSJ, et al. (2007) Biochemical characterization of exoribonuclease encoded by SARS coronavirus. J Biochem Mol Biol 40: 649-655.
-
(2007)
J Biochem Mol Biol
, vol.40
, pp. 649-655
-
-
Chen, P.1
Jiang, M.2
Hu, T.3
Liu, Q.Z.4
Chen, X.S.J.5
-
18
-
-
36048969246
-
High fidelity of murine hepatitis virus replication is decreased in nsp14 exoribonuclease mutants
-
Eckerle LD, Lu X, Sperry SM, Choi L, Denison MR, (2007) High fidelity of murine hepatitis virus replication is decreased in nsp14 exoribonuclease mutants. J Virol 81: 12135-12144.
-
(2007)
J Virol
, vol.81
, pp. 12135-12144
-
-
Eckerle, L.D.1
Lu, X.2
Sperry, S.M.3
Choi, L.4
Denison, M.R.5
-
19
-
-
77954055072
-
Infidelity of SARS-CoV Nsp14-Exonuclease Mutant Virus Replication Is Revealed by Complete Genome Sequencing
-
Eckerle LD, Becker MM, Halpin RA, Li K, Venter E, et al. (2010) Infidelity of SARS-CoV Nsp14-Exonuclease Mutant Virus Replication Is Revealed by Complete Genome Sequencing. PLoS Pathog 6: e1000896.
-
(2010)
PLoS Pathog
, vol.6
-
-
Eckerle, L.D.1
Becker, M.M.2
Halpin, R.A.3
Li, K.4
Venter, E.5
-
20
-
-
79954525912
-
Coronaviruses An RNA proofreading machine regulates replication fidelity and diversity
-
Denison MR, Graham RL, Donaldson EF, Eckerle LD, Baric RS, (2011) Coronaviruses An RNA proofreading machine regulates replication fidelity and diversity. RNA Biol 8: 270-279.
-
(2011)
RNA Biol
, vol.8
, pp. 270-279
-
-
Denison, M.R.1
Graham, R.L.2
Donaldson, E.F.3
Eckerle, L.D.4
Baric, R.S.5
-
22
-
-
0023264833
-
Completion of the sequence of the genome of the coronavirus avian infectious bronchitis virus
-
Boursnell MEG, Brown TDK, Foulds IJ, Green PF, Tomley FM, et al. (1987) Completion of the sequence of the genome of the coronavirus avian infectious bronchitis virus. J Gen Virol 68: 57-77.
-
(1987)
J Gen Virol
, vol.68
, pp. 57-77
-
-
Boursnell, M.E.G.1
Brown, T.D.K.2
Foulds, I.J.3
Green, P.F.4
Tomley, F.M.5
-
23
-
-
0026040484
-
Equine arteritis virus is not a togavirus but belongs to the coronaviruslike superfamily
-
den Boon JA, Snijder EJ, Chirnside ED, de Vries AA, Horzinek MC, et al. (1991) Equine arteritis virus is not a togavirus but belongs to the coronaviruslike superfamily. J Virol 65: 2910-2920.
-
(1991)
J Virol
, vol.65
, pp. 2910-2920
-
-
den Boon, J.A.1
Snijder, E.J.2
Chirnside, E.D.3
de Vries, A.A.4
Horzinek, M.C.5
-
25
-
-
80053445017
-
Surveillance of Japanese encephalitis in Vietnam (2000-2001)
-
Nga PT, KieuAnh NT, Cuong VD, Nam VS, Hang PTM, et al. (2002) Surveillance of Japanese encephalitis in Vietnam (2000-2001). J Hyg Epidemiol XII: 5-11.
-
(2002)
J Hyg Epidemiol
, vol.XII
, pp. 5-11
-
-
Nga, P.T.1
KieuAnh, N.T.2
Cuong, V.D.3
Nam, V.S.4
Hang, P.T.M.5
-
26
-
-
34548254069
-
A novel virus isolated from the aphid Brevicoryne brassicae with similarity to Hymenoptera picorna-like viruses
-
Ryabov EV, (2007) A novel virus isolated from the aphid Brevicoryne brassicae with similarity to Hymenoptera picorna-like viruses. J Gen Virol 88: 2590-2595.
-
(2007)
J Gen Virol
, vol.88
, pp. 2590-2595
-
-
Ryabov, E.V.1
-
27
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res pp. 3389-3402.
-
(1997)
Nucleic Acids Res
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
-
28
-
-
0034093105
-
Gill-associated virus of Penaeus monodon prawns: an invertebrate virus with ORF1a and ORF1b genes related to arteri- and coronaviruses
-
Cowley JA, Dimmock CM, Spann KM, Walker PJ, (2000) Gill-associated virus of Penaeus monodon prawns: an invertebrate virus with ORF1a and ORF1b genes related to arteri- and coronaviruses. J Gen Virol 81: 1473-1484.
-
(2000)
J Gen Virol
, vol.81
, pp. 1473-1484
-
-
Cowley, J.A.1
Dimmock, C.M.2
Spann, K.M.3
Walker, P.J.4
-
29
-
-
0042121256
-
Mfold web server for nucleic acid folding and hybridization prediction
-
Zuker M, (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31: 3406-3415.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
-
30
-
-
34547564982
-
pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows
-
Reeder J, Steffen P, Giegerich R, (2007) pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows. Nucleic Acids Res 35: W320-W324.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Reeder, J.1
Steffen, P.2
Giegerich, R.3
-
31
-
-
0028299647
-
Identification and Analysis of the Site of -1 Ribosomal Frameshifting in Red-Clover Necrotic Mosaic-Virus
-
Kim KH, Lommel SA, (1994) Identification and Analysis of the Site of -1 Ribosomal Frameshifting in Red-Clover Necrotic Mosaic-Virus. Virology 200: 574-582.
-
(1994)
Virology
, vol.200
, pp. 574-582
-
-
Kim, K.H.1
Lommel, S.A.2
-
32
-
-
0032505541
-
Sequence element required for efficient -1 ribosomal frameshifting in red clover necrotic mosaic dianthovirus
-
Kim KH, Lommel SA, (1998) Sequence element required for efficient -1 ribosomal frameshifting in red clover necrotic mosaic dianthovirus. Virology 250: 50-59.
-
(1998)
Virology
, vol.250
, pp. 50-59
-
-
Kim, K.H.1
Lommel, S.A.2
-
34
-
-
38549146894
-
The Pfam protein families database
-
Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, et al. (2008) The Pfam protein families database. Nucleic Acids Res 36: D281-D288.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Finn, R.D.1
Tate, J.2
Mistry, J.3
Coggill, P.C.4
Sammut, S.J.5
-
35
-
-
0024398958
-
Coronavirus genome: prediction of putative functional domains in the non-structural polyprotein by comparative amino acid sequence analysis
-
Gorbalenya AE, Koonin EV, Donchenko AP, Blinov VM, (1989) Coronavirus genome: prediction of putative functional domains in the non-structural polyprotein by comparative amino acid sequence analysis. Nucleic Acids Res 17: 4847-4861.
-
(1989)
Nucleic Acids Res
, vol.17
, pp. 4847-4861
-
-
Gorbalenya, A.E.1
Koonin, E.V.2
Donchenko, A.P.3
Blinov, V.M.4
-
36
-
-
0033591345
-
A human RNA viral cysteine proteinase that depends upon a unique Zn2+-binding finger connecting the two domains of a papain-like fold [published erratum appears in J Biol Chem 1999 Jul 23;274(30):21490]
-
Herold J, Siddell SG, Gorbalenya AE, (1999) A human RNA viral cysteine proteinase that depends upon a unique Zn2+-binding finger connecting the two domains of a papain-like fold [published erratum appears in J Biol Chem 1999 Jul 23;274(30):21490]. J Biol Chem 274: 14918-14925.
-
(1999)
J Biol Chem
, vol.274
, pp. 14918-14925
-
-
Herold, J.1
Siddell, S.G.2
Gorbalenya, A.E.3
-
37
-
-
33750218147
-
A second, non-canonical RNA-dependent RNA polymerase in SARS coronavirus
-
Imbert I, Guillemot JC, Bourhis JM, Bussetta C, Coutard B, et al. (2006) A second, non-canonical RNA-dependent RNA polymerase in SARS coronavirus. EMBO J 25: 4933-4942.
-
(2006)
EMBO J
, vol.25
, pp. 4933-4942
-
-
Imbert, I.1
Guillemot, J.C.2
Bourhis, J.M.3
Bussetta, C.4
Coutard, B.5
-
38
-
-
0036646055
-
Structure of coronavirus main proteinase reveals combination of a chymotrypsin fold with an extra alpha-helical domain
-
Anand K, Palm GJ, Mesters JR, Siddell SG, Ziebuhr J, et al. (2002) Structure of coronavirus main proteinase reveals combination of a chymotrypsin fold with an extra alpha-helical domain. EMBO J 21: 3213-3224.
-
(2002)
EMBO J
, vol.21
, pp. 3213-3224
-
-
Anand, K.1
Palm, G.J.2
Mesters, J.R.3
Siddell, S.G.4
Ziebuhr, J.5
-
39
-
-
75649133168
-
The RNA polymerase activity of SARS-coronavirus nsp12 is primer dependent
-
Velthuis AJWT, Arnold JJ, Cameron CE, van den Worm SHE, Snijder EJ, (2010) The RNA polymerase activity of SARS-coronavirus nsp12 is primer dependent. Nucleic Acids Res 38: 203-214.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 203-214
-
-
Velthuis, A.J.W.T.1
Arnold, J.J.2
Cameron, C.E.3
van den Worm, S.H.E.4
Snijder, E.J.5
-
40
-
-
11144243100
-
A complex zinc finger controls the enzymatic activities of nidovirus helicases
-
Seybert A, Posthuma CC, van Dinten LC, Snijder EJ, Gorbalenya AE, et al. (2005) A complex zinc finger controls the enzymatic activities of nidovirus helicases. J Virol 79: 696-704.
-
(2005)
J Virol
, vol.79
, pp. 696-704
-
-
Seybert, A.1
Posthuma, C.C.2
van Dinten, L.C.3
Snijder, E.J.4
Gorbalenya, A.E.5
-
42
-
-
47749138964
-
Coronavirus nonstructural protein 16 is a cap-0 binding enzyme possessing (nucleoside-2′O)-methyltransferase activity
-
Decroly E, Imbert I, Coutard B, Bouvet ML, Selisko B, et al. (2008) Coronavirus nonstructural protein 16 is a cap-0 binding enzyme possessing (nucleoside-2′O)-methyltransferase activity. J Virol 82: 8071-8084.
-
(2008)
J Virol
, vol.82
, pp. 8071-8084
-
-
Decroly, E.1
Imbert, I.2
Coutard, B.3
Bouvet, M.L.4
Selisko, B.5
-
43
-
-
77954053731
-
In Vitro Reconstitution of SARS-Coronavirus mRNA Cap Methylation
-
Bouvet M, Debarnot C, Imbert I, Selisko B, Snijder EJ, et al. (2010) In Vitro Reconstitution of SARS-Coronavirus mRNA Cap Methylation. PLoS Pathog 6: e1000863.
-
(2010)
PLoS Pathog
, vol.6
-
-
Bouvet, M.1
Debarnot, C.2
Imbert, I.3
Selisko, B.4
Snijder, E.J.5
-
44
-
-
4344592314
-
Major genetic marker of nidoviruses encodes a replicative endoribonuclease
-
Ivanov KA, Hertzig T, Rozanov M, Bayer S, Thiel V, et al. (2004) Major genetic marker of nidoviruses encodes a replicative endoribonuclease. Proc Natl Acad Sci U S A 101: 12694-12699.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 12694-12699
-
-
Ivanov, K.A.1
Hertzig, T.2
Rozanov, M.3
Bayer, S.4
Thiel, V.5
-
45
-
-
33747035873
-
Crystal structure and mechanistic determinants of SARS coronavirus nonstructural protein 15 define an endoribonuclease family
-
Ricagno S, Egloff MP, Ulferts R, Coutard B, Nurizzo D, et al. (2006) Crystal structure and mechanistic determinants of SARS coronavirus nonstructural protein 15 define an endoribonuclease family. Proc Natl Acad Sci U S A 103: 11892-11897.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 11892-11897
-
-
Ricagno, S.1
Egloff, M.P.2
Ulferts, R.3
Coutard, B.4
Nurizzo, D.5
-
46
-
-
41249083050
-
Structural and functional analyses of the severe acute respiratory syndrome coronavirus endoribonuclease Nsp15
-
Bhardwaj K, Palaninathan S, Alcantara JMO, Yi LL, Guarino L, et al. (2008) Structural and functional analyses of the severe acute respiratory syndrome coronavirus endoribonuclease Nsp15. J Biol Chem 283: 3655-3664.
-
(2008)
J Biol Chem
, vol.283
, pp. 3655-3664
-
-
Bhardwaj, K.1
Palaninathan, S.2
Alcantara, J.M.O.3
Yi, L.L.4
Guarino, L.5
-
47
-
-
66149091584
-
Biochemical Characterization of Arterivirus Nonstructural Protein 11 Reveals the Nidovirus-Wide Conservation of a Replicative Endoribonuclease
-
Nedialkova DD, Ulferts R, van den Born E, Lauber C, Gorbalenya AE, et al. (2009) Biochemical Characterization of Arterivirus Nonstructural Protein 11 Reveals the Nidovirus-Wide Conservation of a Replicative Endoribonuclease. J Virol 83: 5671-5682.
-
(2009)
J Virol
, vol.83
, pp. 5671-5682
-
-
Nedialkova, D.D.1
Ulferts, R.2
van den Born, E.3
Lauber, C.4
Gorbalenya, A.E.5
-
48
-
-
33751213109
-
Characterization of White bream virus reveals a novel genetic cluster of nidoviruses
-
Schutze H, Ulferts R, Schelle B, Bayer S, Granzow H, et al. (2006) Characterization of White bream virus reveals a novel genetic cluster of nidoviruses. J Virol 80: 11598-11609.
-
(2006)
J Virol
, vol.80
, pp. 11598-11609
-
-
Schutze, H.1
Ulferts, R.2
Schelle, B.3
Bayer, S.4
Granzow, H.5
-
49
-
-
62549159638
-
Functional screen reveals SARS coronavirus nonstructural protein nsp14 as a novel cap N7 methyltransferase
-
Chen Y, Cai H, Pan J, Xiang N, Tien P, et al. (2009) Functional screen reveals SARS coronavirus nonstructural protein nsp14 as a novel cap N7 methyltransferase. Proc Natl Acad Sci U S A 106: 3484-3489.
-
(2009)
Proc Natl Acad Sci U S A
, vol.106
, pp. 3484-3489
-
-
Chen, Y.1
Cai, H.2
Pan, J.3
Xiang, N.4
Tien, P.5
-
50
-
-
0344304518
-
A comparative sequence analysis to revise the current taxonomy of the family Coronaviridae
-
González JM, Gomez-Puertas P, Cavanagh D, Gorbalenya AE, Enjuanes L, (2003) A comparative sequence analysis to revise the current taxonomy of the family Coronaviridae. Arch Virol 148: 2207-2235.
-
(2003)
Arch Virol
, vol.148
, pp. 2207-2235
-
-
González, J.M.1
Gomez-Puertas, P.2
Cavanagh, D.3
Gorbalenya, A.E.4
Enjuanes, L.5
-
51
-
-
54249170223
-
Genomics and Evolution of the Nidovirales
-
In: Perlman S, Gallagher T, Snijder EJ, editors, Washington, ASM Press
-
Gorbalenya AE, (2008) Genomics and Evolution of the Nidovirales. In: Perlman S, Gallagher T, Snijder EJ, editors. Nidoviruses Washington ASM Press pp. 15-28.
-
(2008)
Nidoviruses
, pp. 15-28
-
-
Gorbalenya, A.E.1
-
52
-
-
0001868907
-
Comparative analysis of the amino acid sequences of the key enzymes of the replication and expression of positive-strand RNA viruses. Validity of the approach and functional and evolutionary implications
-
Gorbalenya AE, Koonin EV, (1993) Comparative analysis of the amino acid sequences of the key enzymes of the replication and expression of positive-strand RNA viruses. Validity of the approach and functional and evolutionary implications. Sov Sci Rev D Physicochem Biol 11: 1-84.
-
(1993)
Sov Sci Rev D Physicochem Biol
, vol.11
, pp. 1-84
-
-
Gorbalenya, A.E.1
Koonin, E.V.2
-
53
-
-
0036434498
-
The palm subdomain-based active site is internally permuted in viral RNA-dependent RNA polymerases of an ancient lineage
-
Gorbalenya AE, Pringle FM, Zeddam JL, Luke BT, Cameron CE, et al. (2002) The palm subdomain-based active site is internally permuted in viral RNA-dependent RNA polymerases of an ancient lineage. J Mol Biol 324: 47-62.
-
(2002)
J Mol Biol
, vol.324
, pp. 47-62
-
-
Gorbalenya, A.E.1
Pringle, F.M.2
Zeddam, J.L.3
Luke, B.T.4
Cameron, C.E.5
-
54
-
-
77954913577
-
Practical application of bioinformatics by the multidisciplinary VIZIER consortium
-
Gorbalenya AE, Lieutaud P, Harris MR, Coutard B, Canard B, et al. (2010) Practical application of bioinformatics by the multidisciplinary VIZIER consortium. Antiviral Res 87: 95-110.
-
(2010)
Antiviral Res
, vol.87
, pp. 95-110
-
-
Gorbalenya, A.E.1
Lieutaud, P.2
Harris, M.R.3
Coutard, B.4
Canard, B.5
-
55
-
-
34249940526
-
Crystal structure of a monomeric form of severe acute respiratory syndrome coronavirus endonuclease nsp15 suggests a role for hexamerization as an allosteric switch
-
Joseph JS, Saikatendu KS, Subramanian V, Neuman BW, Buchmeier MJ, et al. (2007) Crystal structure of a monomeric form of severe acute respiratory syndrome coronavirus endonuclease nsp15 suggests a role for hexamerization as an allosteric switch. J Virol 81: 6700-6708.
-
(2007)
J Virol
, vol.81
, pp. 6700-6708
-
-
Joseph, J.S.1
Saikatendu, K.S.2
Subramanian, V.3
Neuman, B.W.4
Buchmeier, M.J.5
-
56
-
-
32444450251
-
Site-directed mutagenesis of the nidovirus replicative endoribonuclease NendoU exerts pleiotropic effects on the arterivirus life cycle
-
Posthuma CC, Nedialkova DD, Zevenhoven-Dobbe JC, Blokhuis JH, Gorbalenya AE, et al. (2006) Site-directed mutagenesis of the nidovirus replicative endoribonuclease NendoU exerts pleiotropic effects on the arterivirus life cycle. J Virol 80: 1653-1661.
-
(2006)
J Virol
, vol.80
, pp. 1653-1661
-
-
Posthuma, C.C.1
Nedialkova, D.D.2
Zevenhoven-Dobbe, J.C.3
Blokhuis, J.H.4
Gorbalenya, A.E.5
-
57
-
-
7644238616
-
The severe acute respiratory syndrome coronavirus Nsp15 protein is an endoribonuclease that prefers manganese as a cofactor
-
Bhardwaj K, Guarino L, Kao CC, (2004) The severe acute respiratory syndrome coronavirus Nsp15 protein is an endoribonuclease that prefers manganese as a cofactor. J Virol 78: 12218-12224.
-
(2004)
J Virol
, vol.78
, pp. 12218-12224
-
-
Bhardwaj, K.1
Guarino, L.2
Kao, C.C.3
-
58
-
-
33746253979
-
RNA recognition and cleavage by the SARS coronavirus endoribonuclease
-
Bhardwaj K, Sun JC, Holzenburg A, Guarino LA, Kao CC, (2006) RNA recognition and cleavage by the SARS coronavirus endoribonuclease. J Mol Biol 361: 243-256.
-
(2006)
J Mol Biol
, vol.361
, pp. 243-256
-
-
Bhardwaj, K.1
Sun, J.C.2
Holzenburg, A.3
Guarino, L.A.4
Kao, C.C.5
-
59
-
-
27144474958
-
Mutational analysis of the SARS virus Nsp15 endoribonuclease: Identification of residues affecting hexamer formation
-
Guarino LA, Bhardwaj K, Dong W, Sun JC, Holzenburg A, et al. (2005) Mutational analysis of the SARS virus Nsp15 endoribonuclease: Identification of residues affecting hexamer formation. J Mol Biol 353: 1106-1117.
-
(2005)
J Mol Biol
, vol.353
, pp. 1106-1117
-
-
Guarino, L.A.1
Bhardwaj, K.2
Dong, W.3
Sun, J.C.4
Holzenburg, A.5
-
60
-
-
37049028812
-
Biochemical and genetic analyses of murine hepatitis virus nsp15 endoribonuclease
-
Kang H, Bhardwaj K, Li Y, Palaninathan S, Sacchettini J, et al. (2007) Biochemical and genetic analyses of murine hepatitis virus nsp15 endoribonuclease. J Virol 81: 13587-13597.
-
(2007)
J Virol
, vol.81
, pp. 13587-13597
-
-
Kang, H.1
Bhardwaj, K.2
Li, Y.3
Palaninathan, S.4
Sacchettini, J.5
-
61
-
-
0037013858
-
An RNA cap (nucleoside-2 ′-O-)-methyltransferase in the flavivirus RNA polymerase NS5: crystal structure and functional characterization
-
Egloff MP, Benarroch D, Selisko B, Romette JL, Canard B, (2002) An RNA cap (nucleoside-2 ′-O-)-methyltransferase in the flavivirus RNA polymerase NS5: crystal structure and functional characterization. EMBO J 21: 2757-2768.
-
(2002)
EMBO J
, vol.21
, pp. 2757-2768
-
-
Egloff, M.P.1
Benarroch, D.2
Selisko, B.3
Romette, J.L.4
Canard, B.5
-
62
-
-
0024328925
-
Association of the Sindbis virus RNA methytransferase activity with the nonstructural protein nsP1
-
Mi S, Durbin R, Huang HV, Rice CM, Stollar V, (1989) Association of the Sindbis virus RNA methytransferase activity with the nonstructural protein nsP1. Virology 170: 385-391.
-
(1989)
Virology
, vol.170
, pp. 385-391
-
-
Mi, S.1
Durbin, R.2
Huang, H.V.3
Rice, C.M.4
Stollar, V.5
-
63
-
-
0026793857
-
Conservation of the putative methyltransferase domain: a hallmark of the 'Sindbis-like' supergroup of positive-strand RNA viruses
-
Rozanov MN, Koonin EV, Gorbalenya AE, (1992) Conservation of the putative methyltransferase domain: a hallmark of the 'Sindbis-like' supergroup of positive-strand RNA viruses. J Gen Virol 73: 2129-2134.
-
(1992)
J Gen Virol
, vol.73
, pp. 2129-2134
-
-
Rozanov, M.N.1
Koonin, E.V.2
Gorbalenya, A.E.3
-
64
-
-
0031060112
-
Critical residues of Semliki Forest virus RNA capping enzyme involved in methyltransferase and guanylyltransferase-like activities
-
Ahola T, Laakkonen P, Vihinen H, Kaariainen L, (1997) Critical residues of Semliki Forest virus RNA capping enzyme involved in methyltransferase and guanylyltransferase-like activities. J Virol 71: 392-397.
-
(1997)
J Virol
, vol.71
, pp. 392-397
-
-
Ahola, T.1
Laakkonen, P.2
Vihinen, H.3
Kaariainen, L.4
-
65
-
-
78751637122
-
Ribose 2 ′-O-methylation provides a molecular signature for the distinction of self and non-self mRNA dependent on the RNA sensor Mda5
-
Zust R, Cervantes-Barragan L, Habjan M, Maier R, Neuman BW, et al. (2011) Ribose 2 ′-O-methylation provides a molecular signature for the distinction of self and non-self mRNA dependent on the RNA sensor Mda5. Nat Immunol 12: 137-143.
-
(2011)
Nat Immunol
, vol.12
, pp. 137-143
-
-
Zust, R.1
Cervantes-Barragan, L.2
Habjan, M.3
Maier, R.4
Neuman, B.W.5
-
66
-
-
78549284909
-
2 ′-O methylation of the viral mRNA cap evades host restriction by IFIT family members
-
Daffis S, Szretter KJ, Schriewer J, Li JQ, Youn S, et al. (2010) 2 ′-O methylation of the viral mRNA cap evades host restriction by IFIT family members. Nature 468: 452-456.
-
(2010)
Nature
, vol.468
, pp. 452-456
-
-
Daffis, S.1
Szretter, K.J.2
Schriewer, J.3
Li, J.Q.4
Youn, S.5
-
67
-
-
33645077204
-
Comparative and functional genomics of closteroviruses
-
Dolja VV, Kreuze JF, Valkonen JPT, (2006) Comparative and functional genomics of closteroviruses. Virus Res 117: 38-51.
-
(2006)
Virus Res
, vol.117
, pp. 38-51
-
-
Dolja, V.V.1
Kreuze, J.F.2
Valkonen, J.P.T.3
-
68
-
-
0015133749
-
Selforganization of Matter and Evolution of Biological Macromolecules
-
Eigen M, (1971) Selforganization of Matter and Evolution of Biological Macromolecules. Naturwissenschaften 58: 465-523.
-
(1971)
Naturwissenschaften
, vol.58
, pp. 465-523
-
-
Eigen, M.1
-
69
-
-
40749085180
-
Pacing a small cage: mutation and RNA viruses
-
Belshaw R, Gardner A, RarnbaUt A, Pybus OG, (2008) Pacing a small cage: mutation and RNA viruses. Trends Ecol Evol 23: 188-193.
-
(2008)
Trends Ecol Evol
, vol.23
, pp. 188-193
-
-
Belshaw, R.1
Gardner, A.2
RarnbaUt, A.3
Pybus, O.G.4
-
70
-
-
77951692453
-
The Evolutionary Genetics of Emerging Viruses
-
Holmes EC, (2009) The Evolutionary Genetics of Emerging Viruses. Ann Rev Ecol Evol Syst 40: 353-372.
-
(2009)
Ann Rev Ecol Evol Syst
, vol.40
, pp. 353-372
-
-
Holmes, E.C.1
-
71
-
-
0030162644
-
On the nature of virus quasispecies
-
Eigen M, (1996) On the nature of virus quasispecies. Trends Microbiol 4: 216-218.
-
(1996)
Trends Microbiol
, vol.4
, pp. 216-218
-
-
Eigen, M.1
-
72
-
-
38349178145
-
Virus Evolution
-
In: Knipe DM, Howley PM, Griffin DE, Lamb RA, Martin MA, editors, Philadelphia, Wolters Kluwer, Lippincott Williams & Wilkins
-
Domingo E, (2007) Virus Evolution. In: Knipe DM, Howley PM, Griffin DE, Lamb RA, Martin MA, editors. Fields Virology Philadelphia Wolters Kluwer, Lippincott Williams & Wilkins pp. 389-421.
-
(2007)
Fields Virology
, pp. 389-421
-
-
Domingo, E.1
-
73
-
-
77957658175
-
Quasispecies Theory and the Behavior of RNA Viruses
-
Lauring AS, Andino R, (2010) Quasispecies Theory and the Behavior of RNA Viruses. PLoS Pathog 6: e1001005.
-
(2010)
PLoS Pathog
, vol.6
-
-
Lauring, A.S.1
Andino, R.2
-
74
-
-
78650132935
-
Cap binding and immune evasion revealed by Lassa nucleoprotein structure
-
Qi XX, Lan SY, Wang WJ, Schelde LM, Dong HH, et al. (2010) Cap binding and immune evasion revealed by Lassa nucleoprotein structure. Nature 468: 779-783.
-
(2010)
Nature
, vol.468
, pp. 779-783
-
-
Qi, X.X.1
Lan, S.Y.2
Wang, W.J.3
Schelde, L.M.4
Dong, H.H.5
-
75
-
-
79952303123
-
Structure of the Lassa virus nucleoprotein reveals a dsRNA-specific 3′ to 5′ exonuclease activity essential for immune suppression
-
Hastie KM, Kimberlin CR, Zandonatti MA, MacRae IJ, Saphire EO, (2011) Structure of the Lassa virus nucleoprotein reveals a dsRNA-specific 3′ to 5′ exonuclease activity essential for immune suppression. Proc Natl Acad Sci U S A 108: 2396-2401.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 2396-2401
-
-
Hastie, K.M.1
Kimberlin, C.R.2
Zandonatti, M.A.3
MacRae, I.J.4
Saphire, E.O.5
-
76
-
-
77951024885
-
Examining Landscape Factors Influencing Relative Distribution of Mosquito Genera and Frequency of Virus Infection
-
Junglen S, Kurth A, Kuehl H, Quan PL, Ellerbrok H, et al. (2009) Examining Landscape Factors Influencing Relative Distribution of Mosquito Genera and Frequency of Virus Infection. Ecohealth 6: 239-249.
-
(2009)
Ecohealth
, vol.6
, pp. 239-249
-
-
Junglen, S.1
Kurth, A.2
Kuehl, H.3
Quan, P.L.4
Ellerbrok, H.5
-
77
-
-
0018160953
-
Isolation of a Singh's Aedes albopictus cell clone sensitive to Dengue and Chikungunya viruses
-
Igarashi A, (1978) Isolation of a Singh's Aedes albopictus cell clone sensitive to Dengue and Chikungunya viruses. J Gen Virol 40: 531-544.
-
(1978)
J Gen Virol
, vol.40
, pp. 531-544
-
-
Igarashi, A.1
-
78
-
-
0025633560
-
Fingerprinting Genomes Using Pcr with Arbitrary Primers
-
Welsh J, McClelland M, (1990) Fingerprinting Genomes Using Pcr with Arbitrary Primers. Nucleic Acids Res 18: 7213-7218.
-
(1990)
Nucleic Acids Res
, vol.18
, pp. 7213-7218
-
-
Welsh, J.1
McClelland, M.2
-
79
-
-
0037341428
-
Electron microscopy for rapid diagnosis of infectious agents in emergent situations
-
Hazelton PR, Gelderblom HR, (2003) Electron microscopy for rapid diagnosis of infectious agents in emergent situations. Emerg Infect Dis 9: 294-303.
-
(2003)
Emerg Infect Dis
, vol.9
, pp. 294-303
-
-
Hazelton, P.R.1
Gelderblom, H.R.2
-
80
-
-
3142738149
-
National Center for Biotechnology Information Viral Genomes Project
-
Bao YM, Federhen S, Leipe D, Pham V, Resenchuk S, et al. (2004) National Center for Biotechnology Information Viral Genomes Project. J Virol 78: 7291-7298.
-
(2004)
J Virol
, vol.78
, pp. 7291-7298
-
-
Bao, Y.M.1
Federhen, S.2
Leipe, D.3
Pham, V.4
Resenchuk, S.5
-
81
-
-
38549164691
-
GenBank
-
Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL, (2008) GenBank. Nucleic Acids Res 36: D25-D30.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Benson, D.A.1
Karsch-Mizrachi, I.2
Lipman, D.J.3
Ostell, J.4
Wheeler, D.L.5
-
82
-
-
0028961335
-
SCOP: a structural classification of proteins database for the investigation of sequences and structures
-
Murzin AG, Brenner SE, Hubbard T, Chothia C, (1995) SCOP: a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol 247: 536-540.
-
(1995)
J Mol Biol
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
83
-
-
0031743421
-
Profile hidden Markov models
-
Eddy SR, (1998) Profile hidden Markov models. Bioinformatics 14: 755-763.
-
(1998)
Bioinformatics
, vol.14
, pp. 755-763
-
-
Eddy, S.R.1
-
84
-
-
0000207681
-
TMbase - A database of membrane spanning proteins segments
-
Hofmann K, Stoffel W, (1993) TMbase- A database of membrane spanning proteins segments. Biol Chem Hoppe-Seyler 373: 166.
-
(1993)
Biol Chem Hoppe-Seyler
, vol.373
, pp. 166
-
-
Hofmann, K.1
Stoffel, W.2
-
85
-
-
16344373015
-
Protein homology detection by HMM-HMM comparison
-
Soding J, (2005) Protein homology detection by HMM-HMM comparison. Bioinformatics 21: 951-960.
-
(2005)
Bioinformatics
, vol.21
, pp. 951-960
-
-
Soding, J.1
-
86
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
Jones DT, (1999) Protein secondary structure prediction based on position-specific scoring matrices. J Mol Biol 292: 195-202.
-
(1999)
J Mol Biol
, vol.292
, pp. 195-202
-
-
Jones, D.T.1
-
87
-
-
13244255415
-
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
-
Edgar RC, (2004) MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 5: 113.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 113
-
-
Edgar, R.C.1
-
88
-
-
0034043778
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
-
Castresana J, (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17: 540-552.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 540-552
-
-
Castresana, J.1
-
89
-
-
84872157797
-
BAGG - Blocks Accepting Gaps Generator, version
-
Available:
-
Antonov IV, Leontovich AM, Gorbalenya AE, (2008) BAGG- Blocks Accepting Gaps Generator, version. Available:http://www.genebee.msu.su/~antonov/bagg/cgi/bagg.cgi.
-
(2008)
-
-
Antonov, I.V.1
Leontovich, A.M.2
Gorbalenya, A.E.3
-
90
-
-
65449188232
-
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
-
Waterhouse AM, Procter JB, Martin DMA, Clamp M, Barton GJ, (2009) Jalview Version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics 25: 1189-1191.
-
(2009)
Bioinformatics
, vol.25
, pp. 1189-1191
-
-
Waterhouse, A.M.1
Procter, J.B.2
Martin, D.M.A.3
Clamp, M.4
Barton, G.J.5
-
91
-
-
70149113077
-
R: A Language and Environment for Statistical Computing
-
R Development Core Team, Available:
-
R Development Core Team (2009) R: A Language and Environment for Statistical Computing. Available:http://www.r-project.org.
-
(2009)
-
-
-
92
-
-
29144455282
-
De novo identification of repeat families in large genomes
-
Price AL, Jones NC, Pevzner PA, (2005) De novo identification of repeat families in large genomes. Bioinformatics 21: I351-I358.
-
(2005)
Bioinformatics
, vol.21
-
-
Price, A.L.1
Jones, N.C.2
Pevzner, P.A.3
-
93
-
-
0028181441
-
Hidden Markov-Models in Computational Biology - Applications to Protein Modeling
-
Krogh A, Brown M, Mian IS, Sjolander K, Haussler D, (1994) Hidden Markov-Models in Computational Biology- Applications to Protein Modeling. J Mol Biol 235: 1501-1531.
-
(1994)
J Mol Biol
, vol.235
, pp. 1501-1531
-
-
Krogh, A.1
Brown, M.2
Mian, I.S.3
Sjolander, K.4
Haussler, D.5
-
94
-
-
74249111882
-
Euprosterna elaeasa virus genome sequence and evolution of the Tetraviridae family: Emergence of bipartite genomes and conservation of the VPg signal with the dsRNA Birnaviridae family
-
Zeddam JL, Gordon KHJ, Lauber C, Alves CAF, Luke BT, et al. (2010) Euprosterna elaeasa virus genome sequence and evolution of the Tetraviridae family: Emergence of bipartite genomes and conservation of the VPg signal with the dsRNA Birnaviridae family. Virology 397: 145-154.
-
(2010)
Virology
, vol.397
, pp. 145-154
-
-
Zeddam, J.L.1
Gordon, K.H.J.2
Lauber, C.3
Alves, C.A.F.4
Luke, B.T.5
-
95
-
-
38649110663
-
BEAST: Bayesian evolutionary analysis by sampling trees
-
Drummond AJ, Rambaut A, (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7: 214.
-
(2007)
BMC Evol Biol
, vol.7
, pp. 214
-
-
Drummond, A.J.1
Rambaut, A.2
-
96
-
-
0035031966
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
-
Whelan S, Goldman N, (2001) A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 18: 691-699.
-
(2001)
Mol Biol Evol
, vol.18
, pp. 691-699
-
-
Whelan, S.1
Goldman, N.2
-
97
-
-
84859990055
-
Tracer v1.4, version
-
Available:
-
Rambaut A, Drummond AJ, (2007) Tracer v1.4, version. Available:http://beast.bio.ed.ac.uk/Tracer.
-
(2007)
-
-
Rambaut, A.1
Drummond, A.J.2
-
98
-
-
33344465800
-
Relaxed phylogenetics and dating with confidence
-
Drummond AJ, Ho SYW, Phillips MJ, Rambaut A, (2006) Relaxed phylogenetics and dating with confidence. PLoS Biol 4: 699-710.
-
(2006)
PLoS Biol
, vol.4
, pp. 699-710
-
-
Drummond, A.J.1
Ho, S.Y.W.2
Phillips, M.J.3
Rambaut, A.4
-
99
-
-
0033564152
-
Toward evidence-based medical statistics. 2: The Bayes factor
-
Goodman SN, (1999) Toward evidence-based medical statistics. 2: The Bayes factor. Ann Internal Med 130: 1005-1013.
-
(1999)
Ann Internal Med
, vol.130
, pp. 1005-1013
-
-
Goodman, S.N.1
-
100
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon S, Gascuel O, (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52: 696-704.
-
(2003)
Syst Biol
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
|