-
1
-
-
11344269150
-
Replicative intermediates of tomato leaf curl virus and its satellite DNAs
-
Alberter, B., M. Ali Rezaian, and H. Jeske. 2005. Replicative intermediates of tomato leaf curl virus and its satellite DNAs. Virology 331:441-448.
-
(2005)
Virology
, vol.331
, pp. 441-448
-
-
Alberter, B.1
Ali Rezaian, M.2
Jeske, H.3
-
2
-
-
33947328866
-
Mobilisation into cotton and spread of a recombinant cotton leaf curl disease satellite
-
Amin, I., S. Mansoor, L. Amrao, M. Hussain, S. Irum, Y. Zafar, S. E. Bull, and R. W. Briddon. 2006. Mobilisation into cotton and spread of a recombinant cotton leaf curl disease satellite. Arch. Virol. 151:2055-2065.
-
(2006)
Arch. Virol
, vol.151
, pp. 2055-2065
-
-
Amin, I.1
Mansoor, S.2
Amrao, L.3
Hussain, M.4
Irum, S.5
Zafar, Y.6
Bull, S.E.7
Briddon, R.W.8
-
4
-
-
34250757252
-
An exact nonparametric method for inferring mosaic structure in sequence triplets
-
Boni, M. F., D. Posada, and M. W. Feldman. 2007. An exact nonparametric method for inferring mosaic structure in sequence triplets. Genetics 176: 1035-1047.
-
(2007)
Genetics
, vol.176
, pp. 1035-1047
-
-
Boni, M.F.1
Posada, D.2
Feldman, M.W.3
-
5
-
-
12344296268
-
Role of recombination in the evolution of natural populations of cucumber mosaic virus, a tripartite RNA plant virus
-
Bonnet, J., A. Fraile, S. Sacristan, J. M. Malpica, and F. Garcia-Arenal. 2005. Role of recombination in the evolution of natural populations of cucumber mosaic virus, a tripartite RNA plant virus. Virology 332:359-368.
-
(2005)
Virology
, vol.332
, pp. 359-368
-
-
Bonnet, J.1
Fraile, A.2
Sacristan, S.3
Malpica, J.M.4
Garcia-Arenal, F.5
-
6
-
-
43349104030
-
Recommendations for the classification and nomenclature of the DNA-beta satellites of begomoviruses
-
Briddon, R. W., J. K. Brown, E. Moriones, J. Stanley, M. Zerbini, X. Zhou, and C. M. Fauquet. 2008. Recommendations for the classification and nomenclature of the DNA-beta satellites of begomoviruses. Arch. Virol. 153: 763.
-
(2008)
Arch. Virol
, vol.153
, pp. 763
-
-
Briddon, R.W.1
Brown, J.K.2
Moriones, E.3
Stanley, J.4
Zerbini, M.5
Zhou, X.6
Fauquet, C.M.7
-
7
-
-
34548858708
-
Engineering by homologous recombination: Exploring sequence and function within a conserved fold
-
Carbone, M. N., and F. H. Arnold. 2007. Engineering by homologous recombination: exploring sequence and function within a conserved fold. Curr. Opin. Struct. Biol. 17:454-459.
-
(2007)
Curr. Opin. Struct. Biol
, vol.17
, pp. 454-459
-
-
Carbone, M.N.1
Arnold, F.H.2
-
8
-
-
33645972304
-
A phylogenetic survey of recombination frequency in plant RNA viruses
-
Chare, E. R., and E. C. Holmes. 2006. A phylogenetic survey of recombination frequency in plant RNA viruses. Arch. Virol. 151:933-946.
-
(2006)
Arch. Virol
, vol.151
, pp. 933-946
-
-
Chare, E.R.1
Holmes, E.C.2
-
9
-
-
4143061440
-
Palindrome regeneration by template strand-switching mechanism at the origin of DNA replication of porcine circovirus via the rolling-circle melting-pot replication model
-
Cheung, A. K. 2004. Palindrome regeneration by template strand-switching mechanism at the origin of DNA replication of porcine circovirus via the rolling-circle melting-pot replication model. J. Virol. 78:9016-9029.
-
(2004)
J. Virol
, vol.78
, pp. 9016-9029
-
-
Cheung, A.K.1
-
10
-
-
0035695023
-
Recombination at double-strand breaks and DNA ends: Conserved mechanisms from phage to humans
-
Cromie, G. A., J. C. Connelly, and D. R. Leach. 2001. Recombination at double-strand breaks and DNA ends: conserved mechanisms from phage to humans. Mol. Cell 8:1163-1174.
-
(2001)
Mol. Cell
, vol.8
, pp. 1163-1174
-
-
Cromie, G.A.1
Connelly, J.C.2
Leach, D.R.3
-
11
-
-
33645877066
-
Genetic characterization of type 2 porcine circoviruses detected in Hungarian wild boars
-
Csagola, A., S. Kecskemeti, G. Kardos, I. Kiss, and T. Tuboly. 2006. Genetic characterization of type 2 porcine circoviruses detected in Hungarian wild boars. Arch. Virol. 151:495-507.
-
(2006)
Arch. Virol
, vol.151
, pp. 495-507
-
-
Csagola, A.1
Kecskemeti, S.2
Kardos, G.3
Kiss, I.4
Tuboly, T.5
-
12
-
-
0035236996
-
Whiteflies: Vectors, and victims (?), of geminiviruses
-
Czosnek, H., M. Ghanim, S. Morin, G. Rubinstein, V. Fridman, and M. Zeidan. 2001. Whiteflies: vectors, and victims (?), of geminiviruses. Adv. Virus Res. 57:291-322.
-
(2001)
Adv. Virus Res
, vol.57
, pp. 291-322
-
-
Czosnek, H.1
Ghanim, M.2
Morin, S.3
Rubinstein, G.4
Fridman, V.5
Zeidan, M.6
-
13
-
-
49149083710
-
Replication properties of clade A/C chimeric feline immunodeficiency viruses and evaluation of infection kinetics in the domestic cat
-
de Rozieres, S., J. Thompson, M. Sundstrom, J. Gruber, D. S. Stump, A. P. de Parseval, S. VandeWoude, and J. H. Elder. 2008. Replication properties of clade A/C chimeric feline immunodeficiency viruses and evaluation of infection kinetics in the domestic cat. J. Virol. 82:7953-7963.
-
(2008)
J. Virol
, vol.82
, pp. 7953-7963
-
-
de Rozieres, S.1
Thompson, J.2
Sundstrom, M.3
Gruber, J.4
Stump, D.S.5
de Parseval, A.P.6
VandeWoude, S.7
Elder, J.H.8
-
14
-
-
17244380498
-
On the conservative nature of intragenic recombination
-
Drummond, D. A., J. J. Silberg, M. M. Meyer, C. O. Wilke, and F. H. Arnold. 2005. On the conservative nature of intragenic recombination. Proc. Natl. Acad. Sci. USA 102:5380-5385.
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 5380-5385
-
-
Drummond, D.A.1
Silberg, J.J.2
Meyer, M.M.3
Wilke, C.O.4
Arnold, F.H.5
-
15
-
-
40849097775
-
Rates of evolutionary change in viruses: Patterns and determinants
-
Duffy, S., L. A. Shackelton, and E. C. Holmes. 2008. Rates of evolutionary change in viruses: patterns and determinants. Nat. Rev. Genet. 9:267-276.
-
(2008)
Nat. Rev. Genet
, vol.9
, pp. 267-276
-
-
Duffy, S.1
Shackelton, L.A.2
Holmes, E.C.3
-
16
-
-
33846507059
-
Constraints to genetic exchange support gene coadaptation in a tripartite RNA virus
-
Escriu, F., A. Fraile, and F. Garcia-Arenal. 2007. Constraints to genetic exchange support gene coadaptation in a tripartite RNA virus. PLoS Pathog. 3:e8.
-
(2007)
PLoS Pathog
, vol.3
-
-
Escriu, F.1
Fraile, A.2
Garcia-Arenal, F.3
-
17
-
-
35448977189
-
The distribution of HIV-1 recombination breakpoints
-
Fan, J., M. Negroni, and D. L. Robertson. 2007. The distribution of HIV-1 recombination breakpoints. Infect. Genet. Evol. 7:717-723.
-
(2007)
Infect. Genet. Evol
, vol.7
, pp. 717-723
-
-
Fan, J.1
Negroni, M.2
Robertson, D.L.3
-
18
-
-
0016110957
-
The evolutionary advantage of recombination
-
Felsenstein, J. 1974. The evolutionary advantage of recombination. Genetics 78:737-756.
-
(1974)
Genetics
, vol.78
, pp. 737-756
-
-
Felsenstein, J.1
-
19
-
-
0037947557
-
Adeno-associ-ated viruses undergo substantial evolution in primates during natural infections
-
Gao, G., M. R. Alvira, S. Somanathan, Y. Lu, L. H. Vandenberghe, J. J. Rux, R. Calcedo, J. Sanmiguel, Z. Abbas, and J. M. Wilson. 2003. Adeno-associ-ated viruses undergo substantial evolution in primates during natural infections. Proc. Natl. Acad. Sci. USA 100:6081-6086.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 6081-6086
-
-
Gao, G.1
Alvira, M.R.2
Somanathan, S.3
Lu, Y.4
Vandenberghe, L.H.5
Rux, J.J.6
Calcedo, R.7
Sanmiguel, J.8
Abbas, Z.9
Wilson, J.M.10
-
20
-
-
34250175133
-
Frequent occurrence of recombinants in mixed infections of tomato yellow leaf curl disease-associated begomoviruses
-
Garcia-Andres, S., D. M. Tomas, S. Sanchez-Campos, J. Navas-Castillo, and E. Moriones. 2007. Frequent occurrence of recombinants in mixed infections of tomato yellow leaf curl disease-associated begomoviruses. Virology 365: 210-219.
-
(2007)
Virology
, vol.365
, pp. 210-219
-
-
Garcia-Andres, S.1
Tomas, D.M.2
Sanchez-Campos, S.3
Navas-Castillo, J.4
Moriones, E.5
-
21
-
-
0033753825
-
Sister-Scanning: A Monte Carlo procedure for assessing signals in recombinant sequences
-
Gibbs, M. J., J. S. Armstrong, and A. J. Gibbs. 2000. Sister-Scanning: a Monte Carlo procedure for assessing signals in recombinant sequences. Bioinformatics 16:573-582.
-
(2000)
Bioinformatics
, vol.16
, pp. 573-582
-
-
Gibbs, M.J.1
Armstrong, J.S.2
Gibbs, A.J.3
-
22
-
-
0033529321
-
Evidence that a plant virus switched hosts to infect a vertebrate and then recombined with a vertebrate-infecting virus
-
Gibbs, M. J., and G. F. Weiller. 1999. Evidence that a plant virus switched hosts to infect a vertebrate and then recombined with a vertebrate-infecting virus. Proc. Natl. Acad. Sci. USA 96:8022-8027.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 8022-8027
-
-
Gibbs, M.J.1
Weiller, G.F.2
-
23
-
-
1642452600
-
Nanoviruses: Genome organisation and protein function
-
Gronenborn, B. 2004. Nanoviruses: genome organisation and protein function. Vet. Microbiol. 98:103-109.
-
(2004)
Vet. Microbiol
, vol.98
, pp. 103-109
-
-
Gronenborn, B.1
-
24
-
-
0033569633
-
Geminivirus DNA replication
-
Gutierrez, C. 1999. Geminivirus DNA replication. Cell. Mol. Life Sci. 56: 313-329.
-
(1999)
Cell. Mol. Life Sci
, vol.56
, pp. 313-329
-
-
Gutierrez, C.1
-
25
-
-
0017710883
-
Origin and termination of adeno-associated virus DNA replication
-
Hauswirth, W. W., and K. I. Berns. 1977. Origin and termination of adeno-associated virus DNA replication. Virology 78:488-499.
-
(1977)
Virology
, vol.78
, pp. 488-499
-
-
Hauswirth, W.W.1
Berns, K.I.2
-
26
-
-
4143147435
-
Evidence of unique genotypes of beak and feather disease virus in southern Africa
-
Heath, L., D. P. Martin, L. Warburton, M. Perrin, W. Horsfleld, C. Kingsley, E. P. Rybicki, and A. L. Williamson. 2004. Evidence of unique genotypes of beak and feather disease virus in southern Africa. J. Virol. 78:9277-9284.
-
(2004)
J. Virol
, vol.78
, pp. 9277-9284
-
-
Heath, L.1
Martin, D.P.2
Warburton, L.3
Perrin, M.4
Horsfleld, W.5
Kingsley, C.6
Rybicki, E.P.7
Williamson, A.L.8
-
27
-
-
33751253784
-
Recombination patterns in aphthoviruses mirror those found in other picornaviruses
-
Heath, L., E. van der Walt, A. Varsani, and D. P. Martin. 2006. Recombination patterns in aphthoviruses mirror those found in other picornaviruses. J. Virol. 80:11827-11832.
-
(2006)
J. Virol
, vol.80
, pp. 11827-11832
-
-
Heath, L.1
van der Walt, E.2
Varsani, A.3
Martin, D.P.4
-
28
-
-
0027443475
-
The conserved nonanucleotide motif of the geminivirus stem-loop sequence promotes replicational release of virus molecules from redundant copies
-
Heyraud, F., V. Matzeit, S. Schaefer, J. Schell, and B. Gronenborn. 1993. The conserved nonanucleotide motif of the geminivirus stem-loop sequence promotes replicational release of virus molecules from redundant copies. Biochimie 75:605-615.
-
(1993)
Biochimie
, vol.75
, pp. 605-615
-
-
Heyraud, F.1
Matzeit, V.2
Schaefer, S.3
Schell, J.4
Gronenborn, B.5
-
29
-
-
0033021298
-
Phylogenetic evidence for recombination in dengue virus
-
Holmes, E. C., M. Worobey, and A. Rambaut. 1999. Phylogenetic evidence for recombination in dengue virus. Mol. Biol. Evol. 16:405-409.
-
(1999)
Mol. Biol. Evol
, vol.16
, pp. 405-409
-
-
Holmes, E.C.1
Worobey, M.2
Rambaut, A.3
-
30
-
-
0842331107
-
Birth-and-death evolution of protein-coding regions and concerted evolution of non-coding regions in the multi-component genomes of nanoviruses
-
Hughes, A. L. 2004. Birth-and-death evolution of protein-coding regions and concerted evolution of non-coding regions in the multi-component genomes of nanoviruses. Mol. Phylogenet. Evol. 30:287-294.
-
(2004)
Mol. Phylogenet. Evol
, vol.30
, pp. 287-294
-
-
Hughes, A.L.1
-
31
-
-
0026748738
-
Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria
-
Ilyina, T. V., and E. V. Koonin. 1992. Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria. Nucleic Acids Res. 20:3279-3285.
-
(1992)
Nucleic Acids Res
, vol.20
, pp. 3279-3285
-
-
Ilyina, T.V.1
Koonin, E.V.2
-
32
-
-
0033616714
-
Horizontal gene transfer among genomes: The complexity hypothesis
-
Jain, R., M. C. Rivera, and J. A. Lake. 1999. Horizontal gene transfer among genomes: the complexity hypothesis. Proc. Natl. Acad. Sci. USA 96:3801-3806.
-
(1999)
Proc. Natl. Acad. Sci. USA
, vol.96
, pp. 3801-3806
-
-
Jain, R.1
Rivera, M.C.2
Lake, J.A.3
-
33
-
-
0035503315
-
DNA forms indicate rolling circle and recombination-dependent replication of Abutilon mosaic virus
-
Jeske, H., M. Lutgemeier, and W. Preiss. 2001. DNA forms indicate rolling circle and recombination-dependent replication of Abutilon mosaic virus. EMBO J. 20:6158-6167.
-
(2001)
EMBO J
, vol.20
, pp. 6158-6167
-
-
Jeske, H.1
Lutgemeier, M.2
Preiss, W.3
-
34
-
-
0026047555
-
DNA replication of wheat dwarf virus, a geminivirus, requires two cis-acting signals
-
Kammann, M., H. J. Schalk, V. Matzeit, S. Schaefer, J. Schell, and B. Gronenborn. 1991. DNA replication of wheat dwarf virus, a geminivirus, requires two cis-acting signals. Virology 184:786-790.
-
(1991)
Virology
, vol.184
, pp. 786-790
-
-
Kammann, M.1
Schalk, H.J.2
Matzeit, V.3
Schaefer, S.4
Schell, J.5
Gronenborn, B.6
-
35
-
-
33748428600
-
Interference among deleterious mutations favours sex and recombination in finite populations
-
Keightley, P. D., and S. P. Otto. 2006. Interference among deleterious mutations favours sex and recombination in finite populations. Nature 443:89-92.
-
(2006)
Nature
, vol.443
, pp. 89-92
-
-
Keightley, P.D.1
Otto, S.P.2
-
36
-
-
0026333509
-
Diverse groups of plant RNA and DNA viruses share related movement proteins that may possess chaperone-like activity
-
Koonin, E. V., A. R. Mushegian, E. V. Ryabov, and V. V. Dolja. 1991. Diverse groups of plant RNA and DNA viruses share related movement proteins that may possess chaperone-like activity. J. Gen. Virol. 72:2895-2903.
-
(1991)
J. Gen. Virol
, vol.72
, pp. 2895-2903
-
-
Koonin, E.V.1
Mushegian, A.R.2
Ryabov, E.V.3
Dolja, V.V.4
-
37
-
-
0036203448
-
Multiple sequence alignment using partial order graphs
-
Lee, C., C. Grasso, and M. F. Sharlow. 2002. Multiple sequence alignment using partial order graphs. Bioinformatics 18:452-464.
-
(2002)
Bioinformatics
, vol.18
, pp. 452-464
-
-
Lee, C.1
Grasso, C.2
Sharlow, M.F.3
-
38
-
-
37349086780
-
Avoidance of protein fold disruption in natural virus recombinants
-
Lefeuvre, P., J. M. Lett, B. Reynaud, and D. P. Martin. 2007. Avoidance of protein fold disruption in natural virus recombinants. PLoS Pathog. 3:el81.
-
(2007)
PLoS Pathog
, vol.3
-
-
Lefeuvre, P.1
Lett, J.M.2
Reynaud, B.3
Martin, D.P.4
-
39
-
-
36749074393
-
Begomovirus 'melting pot' in the south-west Indian Ocean islands: Molecular diversity and evolution through recombination
-
Lefeuvre, P., D. P. Martin, M. Hoareau, F. Naze, H. Delatte, M. Thierry, A. Varsani, N. Becker, B. Reynaud, and J. M. Lett. 2007. Begomovirus 'melting pot' in the south-west Indian Ocean islands: molecular diversity and evolution through recombination. J. Gen. Virol. 88:3458-3468.
-
(2007)
J. Gen. Virol
, vol.88
, pp. 3458-3468
-
-
Lefeuvre, P.1
Martin, D.P.2
Hoareau, M.3
Naze, F.4
Delatte, H.5
Thierry, M.6
Varsani, A.7
Becker, N.8
Reynaud, B.9
Lett, J.M.10
-
40
-
-
34548146497
-
In vivo and in vitro intragenomic rearrangement of TT viruses
-
Leppik, L., K. Gunst, M. Lehtinen, J. Dillner, K. Streker, and E. M. de Villiers. 2007. In vivo and in vitro intragenomic rearrangement of TT viruses. J. Virol. 81:9346-9356.
-
(2007)
J. Virol
, vol.81
, pp. 9346-9356
-
-
Leppik, L.1
Gunst, K.2
Lehtinen, M.3
Dillner, J.4
Streker, K.5
de Villiers, E.M.6
-
41
-
-
41649116518
-
Evidence of frequent recombination among human adenoviruses
-
Lukashev, A. N., O. E. Ivanova, T. P. Eremeeva, and R. D. Iggo. 2008. Evidence of frequent recombination among human adenoviruses. J. Gen. Virol. 89:380-388.
-
(2008)
J. Gen. Virol
, vol.89
, pp. 380-388
-
-
Lukashev, A.N.1
Ivanova, O.E.2
Eremeeva, T.P.3
Iggo, R.D.4
-
42
-
-
28044464255
-
Recombination in circulating human en-terovirus B: Independent evolution of structural and non-structural genome regions
-
Lukashev, A. N., V. A. Lashkevich, O. E. Ivanova, G. A. Koroleva, A. E. Hinkkanen, and J. Ilonen. 2005. Recombination in circulating human en-terovirus B: independent evolution of structural and non-structural genome regions. J. Gen. Virol. 86:3281-3290.
-
(2005)
J. Gen. Virol
, vol.86
, pp. 3281-3290
-
-
Lukashev, A.N.1
Lashkevich, V.A.2
Ivanova, O.E.3
Koroleva, G.A.4
Hinkkanen, A.E.5
Ilonen, J.6
-
43
-
-
0035123879
-
Evolutionary relationships among parvoviruses: Virus-host coevolution among autonomous primate parvovi-ruses and links between adeno-associated and avian parvoviruses
-
Lukashov, V. V., and J. Goudsmit. 2001. Evolutionary relationships among parvoviruses: virus-host coevolution among autonomous primate parvovi-ruses and links between adeno-associated and avian parvoviruses. J. Virol. 75:2729-2740.
-
(2001)
J. Virol
, vol.75
, pp. 2729-2740
-
-
Lukashov, V.V.1
Goudsmit, J.2
-
44
-
-
34247619334
-
Analysing the evolutionary history of HCV: Puzzle of ancient phylogenetic discordance
-
Magiorkinis, G., F. Ntziora, D. Paraskevis, E. Magiorkinis, and A. Hatzakis. 2007. Analysing the evolutionary history of HCV: puzzle of ancient phylogenetic discordance. Infect. Genet. Evol. 7:354-360.
-
(2007)
Infect. Genet. Evol
, vol.7
, pp. 354-360
-
-
Magiorkinis, G.1
Ntziora, F.2
Paraskevis, D.3
Magiorkinis, E.4
Hatzakis, A.5
-
45
-
-
0031964179
-
Identification of a protein essential for replication of porcine circovirus
-
Mankertz, A., J. Mankertz, K. Wolf, and H. J. Buhk. 1998. Identification of a protein essential for replication of porcine circovirus. J. Gen. Virol. 79: 381-384.
-
(1998)
J. Gen. Virol
, vol.79
, pp. 381-384
-
-
Mankertz, A.1
Mankertz, J.2
Wolf, K.3
Buhk, H.J.4
-
46
-
-
0036841251
-
Detecting recombination in TT virus: A phylogenetic approach
-
Manni, F., A. Rotola, E. Caselli, G. Bertorelle, and D. Di Luca. 2002. Detecting recombination in TT virus: a phylogenetic approach. J. Mol. Evol. 55:563-572.
-
(2002)
J. Mol. Evol
, vol.55
, pp. 563-572
-
-
Manni, F.1
Rotola, A.2
Caselli, E.3
Bertorelle, G.4
Di Luca, D.5
-
47
-
-
0033587333
-
Identification of a novel circular single-stranded DNA associated with cotton leaf curl disease in Pakistan
-
Mansoor, S., S. H. Khan, A. Bashir, M. Saeed, Y. Zafar, K. A. Malik, R. Briddon, J. Stanley, and P. G. Markham. 1999. Identification of a novel circular single-stranded DNA associated with cotton leaf curl disease in Pakistan. Virology 259:190-199.
-
(1999)
Virology
, vol.259
, pp. 190-199
-
-
Mansoor, S.1
Khan, S.H.2
Bashir, A.3
Saeed, M.4
Zafar, Y.5
Malik, K.A.6
Briddon, R.7
Stanley, J.8
Markham, P.G.9
-
48
-
-
0033824415
-
RDP: Detection of recombination amongst aligned sequences
-
Martin, D., and E. Rybicki. 2000. RDP: detection of recombination amongst aligned sequences. Bioinformatics 16:562-563.
-
(2000)
Bioinformatics
, vol.16
, pp. 562-563
-
-
Martin, D.1
Rybicki, E.2
-
49
-
-
13144283628
-
A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints
-
Martin, D. P., D. Posada, K. A. Crandall, and C. Williamson. 2005. A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints. AIDS Res. Hum. Retrovir. 21: 98-102.
-
(2005)
AIDS Res. Hum. Retrovir
, vol.21
, pp. 98-102
-
-
Martin, D.P.1
Posada, D.2
Crandall, K.A.3
Williamson, C.4
-
50
-
-
0036392284
-
Investigation of maize streak virus pathogenicity determinants using chimaeric genomes
-
Martin, D. P., and E. P. Rybicki. 2002. Investigation of maize streak virus pathogenicity determinants using chimaeric genomes. Virology 300:180-188.
-
(2002)
Virology
, vol.300
, pp. 180-188
-
-
Martin, D.P.1
Rybicki, E.P.2
-
51
-
-
33747626399
-
The evolutionary value of recombination is constrained by genome modularity
-
Martin, D. P., E. van der Walt, D. Posada, and E. P. Rybicki. 2005. The evolutionary value of recombination is constrained by genome modularity. PLoS Genet. 1:e51.
-
(2005)
PLoS Genet
, vol.1
-
-
Martin, D.P.1
van der Walt, E.2
Posada, D.3
Rybicki, E.P.4
-
52
-
-
13444251528
-
RDP2: Recombination detection and analysis from sequence alignments
-
Martin, D. P., C. Williamson, and D. Posada. 2005. RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 21:260-262.
-
(2005)
Bioinformatics
, vol.21
, pp. 260-262
-
-
Martin, D.P.1
Williamson, C.2
Posada, D.3
-
53
-
-
33644746236
-
Selection for recombination in structured populations
-
Martin, G., S. P. Otto, and T. Lenormand. 2006. Selection for recombination in structured populations. Genetics 172:593-609.
-
(2006)
Genetics
, vol.172
, pp. 593-609
-
-
Martin, G.1
Otto, S.P.2
Lenormand, T.3
-
54
-
-
0026708873
-
Analyzing the mosaic structure of genes
-
Maynard, S. J. 1992. Analyzing the mosaic structure of genes. J. Mol. Evol. 34:126-129.
-
(1992)
J. Mol. Evol
, vol.34
, pp. 126-129
-
-
Maynard, S.J.1
-
55
-
-
0036199914
-
A coalescent-based method for detecting and estimating recombination from gene sequences
-
McVean, G., P. Awadalla, and P. Fearnhead. 2002. A coalescent-based method for detecting and estimating recombination from gene sequences. Genetics 160:1231-1241.
-
(2002)
Genetics
, vol.160
, pp. 1231-1241
-
-
McVean, G.1
Awadalla, P.2
Fearnhead, P.3
-
56
-
-
2142773942
-
The fine-scale structure of recombination rate variation in the human genome
-
McVean, G. A., S. R. Myers, S. Hunt, P. Deloukas, D. R. Bentley, and P. Donnelly. 2004. The fine-scale structure of recombination rate variation in the human genome. Science 304:581-584.
-
(2004)
Science
, vol.304
, pp. 581-584
-
-
McVean, G.A.1
Myers, S.R.2
Hunt, S.3
Deloukas, P.4
Bentley, D.R.5
Donnelly, P.6
-
57
-
-
0035902608
-
Rescue of arrested replication forks by homologous recombination
-
Michel, B., M. J. Flores, E. Viguera, G. Grompone, M. Seigneur, and V. Bidnenko. 2001. Rescue of arrested replication forks by homologous recombination. Proc. Natl. Acad. Sci. USA 98:8181-8188.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 8181-8188
-
-
Michel, B.1
Flores, M.J.2
Viguera, E.3
Grompone, G.4
Seigneur, M.5
Bidnenko, V.6
-
58
-
-
0036938933
-
A natural recombinant between the geminiviruses tomato yellow leaf curl Sardinia virus and tomato yellow leaf curl virus exhibits a novel pathogenic phenotype and is becoming prevalent in Spanish populations
-
Monci, F., S. Sanchez-Campos, J. Navas-Castillo, and E. Moriones. 2002. A natural recombinant between the geminiviruses tomato yellow leaf curl Sardinia virus and tomato yellow leaf curl virus exhibits a novel pathogenic phenotype and is becoming prevalent in Spanish populations. Virology 303:317-326.
-
(2002)
Virology
, vol.303
, pp. 317-326
-
-
Monci, F.1
Sanchez-Campos, S.2
Navas-Castillo, J.3
Moriones, E.4
-
59
-
-
0031739965
-
Contrasting lifestyles of rolling-circle phages and plas-mids
-
Novick, R. P. 1998. Contrasting lifestyles of rolling-circle phages and plas-mids. Trends Biochem. Sci. 23:434-438.
-
(1998)
Trends Biochem. Sci
, vol.23
, pp. 434-438
-
-
Novick, R.P.1
-
60
-
-
33751514317
-
Molecular evolution of porcine circovirus type 2 genomes: Phylogeny and clonality
-
Olvera, A., M. Cortey, and J. Segales. 2007. Molecular evolution of porcine circovirus type 2 genomes: phylogeny and clonality. Virology 357:175-185.
-
(2007)
Virology
, vol.357
, pp. 175-185
-
-
Olvera, A.1
Cortey, M.2
Segales, J.3
-
61
-
-
36248958745
-
Genetic analysis of maize streak virus isolates from Uganda reveals widespread distribution of a recombinant variant
-
Owor, B. E., D. P. Martin, D. N. Shepherd, R. Edema, A. L. Monjane, E. P. Rybicki, J. A. Thomson, and A. Varsani. 2007. Genetic analysis of maize streak virus isolates from Uganda reveals widespread distribution of a recombinant variant. J. Gen. Virol. 88:3154-3165.
-
(2007)
J. Gen. Virol
, vol.88
, pp. 3154-3165
-
-
Owor, B.E.1
Martin, D.P.2
Shepherd, D.N.3
Edema, R.4
Monjane, A.L.5
Rybicki, E.P.6
Thomson, J.A.7
Varsani, A.8
-
62
-
-
0033590220
-
Possible emergence of new geminiviruses by frequent recombination
-
Padidam, M., S. Sawyer, and C. M. Fauquet. 1999. Possible emergence of new geminiviruses by frequent recombination. Virology 265:218-225.
-
(1999)
Virology
, vol.265
, pp. 218-225
-
-
Padidam, M.1
Sawyer, S.2
Fauquet, C.M.3
-
63
-
-
35048903026
-
Biological properties and relative fitness of inter-subgroup cucumber mosaic virus RNA 3 recombinants produced in vitro
-
Pierrugues, O., L. Guilbaud, I. Fernandez-Delmond, F. Fabre, M. Tepfer, and M. Jacquemond. 2007. Biological properties and relative fitness of inter-subgroup cucumber mosaic virus RNA 3 recombinants produced in vitro. J. Gen. Virol. 88:2852-2861.
-
(2007)
J. Gen. Virol
, vol.88
, pp. 2852-2861
-
-
Pierrugues, O.1
Guilbaud, L.2
Fernandez-Delmond, I.3
Fabre, F.4
Tepfer, M.5
Jacquemond, M.6
-
64
-
-
0035923699
-
Evaluation of methods for detecting recombination from DNA sequences: Computer simulations
-
Posada, D., and K. A. Crandall. 2001. Evaluation of methods for detecting recombination from DNA sequences: computer simulations. Proc. Natl. Acad. Sci. USA 98:13757-13762.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 13757-13762
-
-
Posada, D.1
Crandall, K.A.2
-
65
-
-
0037370613
-
Multitasking in replication is common among geminiviruses
-
Preiss, W., and H. Jeske. 2003. Multitasking in replication is common among geminiviruses. J. Virol. 77:2972-2980.
-
(2003)
J. Virol
, vol.77
, pp. 2972-2980
-
-
Preiss, W.1
Jeske, H.2
-
66
-
-
31344453994
-
Horizontal gene transfer and the evolution of microvirid coliphage genomes
-
Rokyta, D. R., C. L. Burch, S. B. Caudle, and H. A. Wichman. 2006. Horizontal gene transfer and the evolution of microvirid coliphage genomes. J. Bacteriol. 188:1134-1142.
-
(2006)
J. Bacteriol
, vol.188
, pp. 1134-1142
-
-
Rokyta, D.R.1
Burch, C.L.2
Caudle, S.B.3
Wichman, H.A.4
-
67
-
-
0025847721
-
DNA forms of the geminivirus African cassava mosaic virus consistent with a rolling circle mechanism of replication
-
Saunders, K., A. Lucy, and J. Stanley. 1991. DNA forms of the geminivirus African cassava mosaic virus consistent with a rolling circle mechanism of replication. Nucleic Acids Res. 19:2325-2330.
-
(1991)
Nucleic Acids Res
, vol.19
, pp. 2325-2330
-
-
Saunders, K.1
Lucy, A.2
Stanley, J.3
-
68
-
-
0033544336
-
A nanovirus-like DNA component associated with yellow vein disease of Ageratum conyzoides: Evidence for interfamilial recombination between plant DNA viruses
-
Saunders, K., and J. Stanley. 1999. A nanovirus-like DNA component associated with yellow vein disease of Ageratum conyzoides: evidence for interfamilial recombination between plant DNA viruses. Virology 264:142-152.
-
(1999)
Virology
, vol.264
, pp. 142-152
-
-
Saunders, K.1
Stanley, J.2
-
69
-
-
0035193025
-
Forced recombination between distinct strains of maize streak virus
-
Schnippenkoetter, W. H., D. P. Martin, J. A. Willment, and E. P. Rybicki. 2001. Forced recombination between distinct strains of maize streak virus. J. Gen. Virol. 82:3081-3090.
-
(2001)
J. Gen. Virol
, vol.82
, pp. 3081-3090
-
-
Schnippenkoetter, W.H.1
Martin, D.P.2
Willment, J.A.3
Rybicki, E.P.4
-
70
-
-
36749025635
-
-
Shackelton, L. A. K. Hoelzer, C. R. Parrish, and E. C. Holmes. 2007. Comparative analysis reveals frequent recombination in the parvoviruses. J. Gen. Virol. 88:3294-3301.
-
Shackelton, L. A. K. Hoelzer, C. R. Parrish, and E. C. Holmes. 2007. Comparative analysis reveals frequent recombination in the parvoviruses. J. Gen. Virol. 88:3294-3301.
-
-
-
-
71
-
-
12244297403
-
High rate of viral evolution associated with the emergence of carnivore parvovirus
-
Shackelton, L. A., C. R. Parrish, U. Truyen, and E. C. Holmes. 2005. High rate of viral evolution associated with the emergence of carnivore parvovirus. Proc. Natl. Acad. Sci. USA 102:379-384.
-
(2005)
Proc. Natl. Acad. Sci. USA
, vol.102
, pp. 379-384
-
-
Shackelton, L.A.1
Parrish, C.R.2
Truyen, U.3
Holmes, E.C.4
-
72
-
-
33750742813
-
Recombination and selection in the evolution of picor-naviruses and other mammalian positive-stranded RNA viruses
-
Simmonds, P. 2006. Recombination and selection in the evolution of picor-naviruses and other mammalian positive-stranded RNA viruses. J. Virol. 80:11124-11140.
-
(2006)
J. Virol
, vol.80
, pp. 11124-11140
-
-
Simmonds, P.1
-
73
-
-
0028894260
-
Analysis of African cassava mosaic virus recombinants suggests strand nicking occurs within the conserved nonanucleotide motif during the initiation of rolling circle DNA replication
-
Stanley, J. 1995. Analysis of African cassava mosaic virus recombinants suggests strand nicking occurs within the conserved nonanucleotide motif during the initiation of rolling circle DNA replication. Virology 206:707-712.
-
(1995)
Virology
, vol.206
, pp. 707-712
-
-
Stanley, J.1
-
74
-
-
0025827364
-
Replicational release of geminivirus genomes from tandemly repeated copies: Evidence for rolling-circle replication of a plant viral DNA
-
Stenger, D. C., G. N. Revington, M. C. Stevenson, and D. M. Bisaro. 1991. Replicational release of geminivirus genomes from tandemly repeated copies: evidence for rolling-circle replication of a plant viral DNA. Proc. Natl. Acad. Sci. USA 88:8029-8033.
-
(1991)
Proc. Natl. Acad. Sci. USA
, vol.88
, pp. 8029-8033
-
-
Stenger, D.C.1
Revington, G.N.2
Stevenson, M.C.3
Bisaro, D.M.4
-
75
-
-
34547781750
-
-
Tamura, K, J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599
-
Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599.
-
-
-
-
76
-
-
0017167291
-
Rolling hairpin model for replication of parvovirus and linear chromosomal DNA
-
Tattersall, P., and D. C. Ward. 1976. Rolling hairpin model for replication of parvovirus and linear chromosomal DNA. Nature 263:106-109.
-
(1976)
Nature
, vol.263
, pp. 106-109
-
-
Tattersall, P.1
Ward, D.C.2
-
77
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
78
-
-
0029802651
-
Investigation of the transfection capability of cloned tandemly-repeated chicken anaemia virus DNA fragments
-
Todd, D., J. L. Creelan, B. M. Meehan, and M. S. McNulty. 1996. Investigation of the transfection capability of cloned tandemly-repeated chicken anaemia virus DNA fragments. Arch. Virol. 141:1523-1534.
-
(1996)
Arch. Virol
, vol.141
, pp. 1523-1534
-
-
Todd, D.1
Creelan, J.L.2
Meehan, B.M.3
McNulty, M.S.4
-
79
-
-
0019457162
-
Enzymatic properties of the bacteriophage phi X174 A protein on superhelical phi X174 DNA: A model for the termination of the rolling circle DNA replication
-
van der Ende, A., S. A. Langeveld, R. Teertstra, G. A. van Arkel, and P. J. Weisbeek. 1981. Enzymatic properties of the bacteriophage phi X174 A protein on superhelical phi X174 DNA: a model for the termination of the rolling circle DNA replication. Nucleic Acids Res. 9:2037-2053.
-
(1981)
Nucleic Acids Res
, vol.9
, pp. 2037-2053
-
-
van der Ende, A.1
Langeveld, S.A.2
Teertstra, R.3
van Arkel, G.A.4
Weisbeek, P.J.5
-
80
-
-
45249113964
-
-
van der Walt, E., K. E. Palmer, D. P. Martin, and E. P. Rybicki. 2008. Viable chimaeric viruses confirm the biological importance of sequence specific maize streak virus movement protein and coat protein interactions. Virol. J. 5:61.
-
van der Walt, E., K. E. Palmer, D. P. Martin, and E. P. Rybicki. 2008. Viable chimaeric viruses confirm the biological importance of sequence specific maize streak virus movement protein and coat protein interactions. Virol. J. 5:61.
-
-
-
-
81
-
-
52649089553
-
Recombination, decreased host specificity and increased mobility may have driven the emergence of maize streak virus as an agricultural pathogen
-
Varsani, A., D. N. Shepherd, A. L. Monjane, B. E. Owor, J. B. Erdmann, E. P. Rybicki, M. Peterschmitt, R. W. Briddon, P. G. Markham, S. Oluwafemi, O. P. Windram, P. Lefeuvre, J. M. Lett, and D. P. Martin. 2008. Recombination, decreased host specificity and increased mobility may have driven the emergence of maize streak virus as an agricultural pathogen. J. Gen. Virol. 89:2063-2074.
-
(2008)
J. Gen. Virol
, vol.89
, pp. 2063-2074
-
-
Varsani, A.1
Shepherd, D.N.2
Monjane, A.L.3
Owor, B.E.4
Erdmann, J.B.5
Rybicki, E.P.6
Peterschmitt, M.7
Briddon, R.W.8
Markham, P.G.9
Oluwafemi, S.10
Windram, O.P.11
Lefeuvre, P.12
Lett, J.M.13
Martin, D.P.14
-
82
-
-
33747370615
-
Evidence of ancient papillomavirus recombination
-
Varsani, A., E. van der Walt, L. Heath, E. P. Rybicki, A. L. Williamson, and D. P. Martin. 2006. Evidence of ancient papillomavirus recombination. J. Gen. Virol. 87:2527-2531.
-
(2006)
J. Gen. Virol
, vol.87
, pp. 2527-2531
-
-
Varsani, A.1
van der Walt, E.2
Heath, L.3
Rybicki, E.P.4
Williamson, A.L.5
Martin, D.P.6
-
83
-
-
0036289574
-
Protein building blocks preserved by recombination
-
Voigt, C. A., C. Martinez, Z. G. Wang, S. L. Mayo, and F. H. Arnold. 2002. Protein building blocks preserved by recombination. Nat. Struct. Biol. 9:553-558.
-
(2002)
Nat. Struct. Biol
, vol.9
, pp. 553-558
-
-
Voigt, C.A.1
Martinez, C.2
Wang, Z.G.3
Mayo, S.L.4
Arnold, F.H.5
-
84
-
-
0030862753
-
Evidence that DNA-A of a geminivirus associated with severe cassava mosaic disease in Uganda has arisen by interspecific recombination
-
Zhou, X., Y. Liu, L. Calvert, C. Munoz, G. W. Otim-Nape, D. J. Robinson, and B. D. Harrison. 1997. Evidence that DNA-A of a geminivirus associated with severe cassava mosaic disease in Uganda has arisen by interspecific recombination. J. Gen. Virol. 78:2101-2111.
-
(1997)
J. Gen. Virol
, vol.78
, pp. 2101-2111
-
-
Zhou, X.1
Liu, Y.2
Calvert, L.3
Munoz, C.4
Otim-Nape, G.W.5
Robinson, D.J.6
Harrison, B.D.7
-
85
-
-
34548539539
-
Bayesian estimates of the evolutionary rate and age of hepatitis B virus
-
Zhou, Y., and E. C. Holmes. 2007. Bayesian estimates of the evolutionary rate and age of hepatitis B virus. J. Mol. Evol. 65:197-205.
-
(2007)
J. Mol. Evol
, vol.65
, pp. 197-205
-
-
Zhou, Y.1
Holmes, E.C.2
|