-
1
-
-
0037255551
-
Structural studies of bacteriophage α3 assembly
-
Bernal RA, Hafenstein S, Olson NH, Bowman VD, Chipman PR, Baker TS, Fane BA, Rossmann MG. 2003. Structural studies of bacteriophage α3 assembly. J Mol Biol. 325:11-24.
-
(2003)
J Mol Biol
, vol.325
, pp. 11-24
-
-
Bernal, R.A.1
Hafenstein, S.2
Olson, N.H.3
Bowman, V.D.4
Chipman, P.R.5
Baker, T.S.6
Fane, B.A.7
Rossmann, M.G.8
-
2
-
-
0037090059
-
Human immunodeficiency virus superinfection and recombination: Current state of knowledge and potential clinical consequences
-
Blackard JT, Cohen DE, Mayer KH. 2002. Human immunodeficiency virus superinfection and recombination: Current state of knowledge and potential clinical consequences. Clin Infect Dis. 34:1108-1114.
-
(2002)
Clin Infect Dis
, vol.34
, pp. 1108-1114
-
-
Blackard, J.T.1
Cohen, D.E.2
Mayer, K.H.3
-
3
-
-
0041331688
-
Experimental evolution yields hundreds of mutations in a functional viral genome
-
Bull JJ, Badgett MR, Rokyta D, Molineux IJ. 2003. Experimental evolution yields hundreds of mutations in a functional viral genome. J Mol Evol. 57:241-248.
-
(2003)
J Mol Evol
, vol.57
, pp. 241-248
-
-
Bull, J.J.1
Badgett, M.R.2
Rokyta, D.3
Molineux, I.J.4
-
4
-
-
0034630932
-
Efficient complementation by chimeric Microviridae internal scaffolding proteins is a function of the COOH-terminus of the encoded protein
-
Burch AD, Fane BA. 2000. Efficient complementation by chimeric Microviridae internal scaffolding proteins is a function of the COOH-terminus of the encoded protein. Virology 270:286-290.
-
(2000)
Virology
, vol.270
, pp. 286-290
-
-
Burch, A.D.1
Fane, B.A.2
-
5
-
-
0033548237
-
Cross-functional analysis of the Microviridae internal scaffolding protein
-
Burch AD, Ta J, Fane BA. 1999. Cross-functional analysis of the Microviridae internal scaffolding protein. J Mol Biol. 286:95-104.
-
(1999)
J Mol Biol
, vol.286
, pp. 95-104
-
-
Burch, A.D.1
Ta, J.2
Fane, B.A.3
-
6
-
-
33144487829
-
Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients
-
Charpentier C, Nora T, Tenaillon O, Clavel F, Hance AJ. 2006. Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients. J Virol. 80:2472-2482.
-
(2006)
J Virol
, vol.80
, pp. 2472-2482
-
-
Charpentier, C.1
Nora, T.2
Tenaillon, O.3
Clavel, F.4
Hance, A.J.5
-
7
-
-
34548828824
-
Eliminating the requirement of an essential gene product in an already very small virus: Scaffolding protein B-free φx174, B-free
-
Chen M, Uchiyama A, Fane BA. 2007. Eliminating the requirement of an essential gene product in an already very small virus: scaffolding protein B-free φX174, B-free. J Mol Biol. 373:308-314.
-
(2007)
J Mol Biol
, vol.373
, pp. 308-314
-
-
Chen, M.1
Uchiyama, A.2
Fane, B.A.3
-
8
-
-
44949095617
-
Scaffolding proteins altered in the ability to perform a conformational switch confer dominant lethal assembly defects
-
Cherwa JE Jr, Uchiyama A, Fane BA. 2008. Scaffolding proteins altered in the ability to perform a conformational switch confer dominant lethal assembly defects. J Virol. 82:5774-5780.
-
(2008)
J Virol
, vol.82
, pp. 5774-5780
-
-
Jr C.Je1
Uchiyama, A.2
Fane, B.A.3
-
9
-
-
1642503756
-
Evidence of intratypic recombination in natural populations of hepatitis C virus
-
Colina R, Casane D, Vasquez S, Garćia-Aguirre L, Chunga A, Romero H, Khan B, Cristina J. 2004. Evidence of intratypic recombination in natural populations of hepatitis C virus. J Gen Virol. 85:31-37.
-
(2004)
J Gen Virol
, vol.85
, pp. 31-37
-
-
Colina, R.1
Casane, D.2
Vasquez, S.3
Garćia-Aguirre, L.4
Chunga, A.5
Romero, H.6
Khan, B.7
Cristina, J.8
-
10
-
-
3042750437
-
-
Sunderland (MA): Sinauer Associates
-
Coyne JA, Orr HA. 2004. Speciation. Sunderland (MA): Sinauer Associates.
-
(2004)
Speciation
-
-
Coyne, J.A.1
Orr, H.A.2
-
11
-
-
0033978271
-
Evolutionary reversals during viral adaptation to alternating hosts
-
Crill WD, Wichman HA, Bull JJ. 2000. Evolutionary reversals during viral adaptation to alternating hosts. Genetics 154: 27-37.
-
(2000)
Genetics
, vol.154
, pp. 27-37
-
-
Crill, W.D.1
Wichman, H.A.2
Bull, J.J.3
-
12
-
-
0034163439
-
Horizontal gene transfer and the origin of species: Lessons from bacteria
-
de la Cruz F, Davies J. 2000. Horizontal gene transfer and the origin of species: lessons from bacteria. Trends Microbiol. 8:128-133.
-
(2000)
Trends Microbiol
, vol.8
, pp. 128-133
-
-
De La Cruz, F.1
Davies, J.2
-
13
-
-
0001232092
-
Studies on hybrid sterility. II. Localization of sterility factors in Drosophila pseudoobscura hybrids
-
Dobzhansky T. 1936. Studies on hybrid sterility. II. Localization of sterility factors in Drosophila pseudoobscura hybrids. Genetics 21:113-135.
-
(1936)
Genetics
, vol.21
, pp. 113-135
-
-
Dobzhansky, T.1
-
14
-
-
0032967636
-
The role of scaffolding proteins in the assembly of the small, single-stranded DNA virus φx174
-
Dokland T, Bernal RA, Burch A, Pletnev S, Fane BA, Rossmann MG. 1999. The role of scaffolding proteins in the assembly of the small, single-stranded DNA virus φX174. J Mol Biol. 288:595-608.
-
(1999)
J Mol Biol
, vol.288
, pp. 595-608
-
-
Dokland, T.1
Bernal, R.A.2
Burch, A.3
Pletnev, S.4
Fane, B.A.5
Rossmann, M.G.6
-
15
-
-
0030963813
-
Structure of a viral procapsid with molecular scaffolding
-
Dokland T, McKenna R, Ilag LL, Bowman BR, Incardona NL, Fane BA, Rossmann MG. 1997. Structure of a viral procapsid with molecular scaffolding. Nature 389:308-313.
-
(1997)
Nature
, vol.389
, pp. 308-313
-
-
Dokland, T.1
McKenna, R.2
Ilag, L.L.3
Bowman, B.R.4
Incardona, N.L.5
Fane, B.A.6
Rossmann, M.G.7
-
16
-
-
0028978185
-
Host and φx174 mutations affecting the morphogenesis or stabilization of the 50S complex, a single-stranded DNA synthesizing intermediate
-
Ekechukwu MC, Oberste DJ, Fane BA. 1995. Host and φX174 mutations affecting the morphogenesis or stabilization of the 50S complex, a single-stranded DNA synthesizing intermediate. Genetics 140:1167-1174.
-
(1995)
Genetics
, vol.140
, pp. 1167-1174
-
-
Ekechukwu, M.C.1
Oberste, D.J.2
Fane, B.A.3
-
17
-
-
2542583245
-
The fate of competing beneficial mutations in an asexual population
-
Gerrish PJ, Lenski RE. 1998. The fate of competing beneficial mutations in an asexual population. Genetica 102/103: 127-144.
-
(1998)
Genetica 102/103
, pp. 127-144
-
-
Gerrish, P.J.1
Lenski, R.E.2
-
18
-
-
37749038315
-
Asymmetry and polymorphism of hybrid male sterility during the early stages of speciation in house mice
-
Good JM, Handel MA, Nachman MW. 2007. Asymmetry and polymorphism of hybrid male sterility during the early stages of speciation in house mice. Evolution 62:50-65.
-
(2007)
Evolution
, vol.62
, pp. 50-65
-
-
Good, J.M.1
Handel, M.A.2
Nachman, M.W.3
-
19
-
-
0002410957
-
Biology of the bacteriophageφX174
-
Calendar R, editor
-
Hayashi M, Aoyama A, Richardson DL, Hayashi MN. 1988. Biology of the bacteriophageφX174. In: Calendar R, editor. The bacteriophages. Vol.2. New York: Plenum Press. p. 1-71.
-
(1988)
The Bacteriophages. Vol 2. New York: Plenum Press
, pp. 1-71
-
-
Hayashi, M.1
Aoyama, A.2
Richardson, D.L.3
Hayashi, M.N.4
-
20
-
-
0033021298
-
Phylogenetic evidence for recombination in dengue virus
-
Holmes EC, Worobey M, Rambaut A. 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
-
22
-
-
0023647382
-
Towards a general theory of adaptive walks on rugged landscapes
-
Kauffman S, Levin S. 1987. Towards a general theory of adaptive walks on rugged landscapes. J Theor Biol. 128:11-45.
-
(1987)
J Theor Biol
, vol.128
, pp. 11-45
-
-
Kauffman, S.1
Levin, S.2
-
23
-
-
0035695235
-
Profiles of adaptation in two similar viruses
-
Kichler Holder K, Bull JJ. 2001. Profiles of adaptation in two similar viruses. Genetics 159:1393-1404.
-
(2001)
Genetics
, vol.159
, pp. 1393-1404
-
-
Kichler Holder, K.1
Bull, J.J.2
-
25
-
-
0029063822
-
Biological and molecular characterization of subtype D, G, and A/D recombinant HIV-1 transmissions in Sweden
-
Leitner T, Escanilla D, Marquina S, Wahlberg J, Broström C, Hansson HB, Uhlén M, Albert J. 1995. Biological and molecular characterization of subtype D, G, and A/D recombinant HIV-1 transmissions in Sweden. Virology 209:136-146.
-
(1995)
Virology
, vol.209
, pp. 136-146
-
-
Leitner, T.1
Escanilla, D.2
Marquina, S.3
Wahlberg, J.4
Broström, C.5
Hansson, H.B.6
Uhlén, M.7
Albert, J.8
-
26
-
-
0031930791
-
The effect of mismatch repair and heteroduplex formation on sexual isolation in Bacillus
-
Majewski J, Cohan FM. 1998. The effect of mismatch repair and heteroduplex formation on sexual isolation in Bacillus. Genetics 148:13-18.
-
(1998)
Genetics
, vol.148
, pp. 13-18
-
-
Majewski, J.1
Cohan, F.M.2
-
27
-
-
0032709783
-
DNA sequence similarity requirements for interspecific recombination in Bacillus
-
Majewski J, Cohan FM. 1999. DNA sequence similarity requirements for interspecific recombination in Bacillus. Genetics 153:1525-1533.
-
(1999)
Genetics
, vol.153
, pp. 1525-1533
-
-
Majewski, J.1
Cohan, F.M.2
-
28
-
-
0029870234
-
Atomic structure of the degraded procapsid particle of the bacteriophage G4: Induced structural changes in the presence of calcium ions and functional implications
-
McKenna R, Bowman BR, Ilag LL, Rossmann MG, Fane BA. 1996. Atomic structure of the degraded procapsid particle of the bacteriophage G4: induced structural changes in the presence of calcium ions and functional implications. J Mol Biol. 256:736-750.
-
(1996)
J Mol Biol
, vol.256
, pp. 736-750
-
-
McKenna, R.1
Bowman, B.R.2
Ilag, L.L.3
Rossmann, M.G.4
Fane, B.A.5
-
29
-
-
0028361964
-
Analysis of the single-stranded DNA bacteriophage φx174, refined at a resolution of 3.0 A°
-
McKenna R, Ilag LL, Rossmann MG. 1994. Analysis of the single-stranded DNA bacteriophage φX174, refined at a resolution of 3.0 A°. J Mol Biol. 237:517-543.
-
(1994)
J Mol Biol
, vol.237
, pp. 517-543
-
-
McKenna, R.1
Ilag, L.L.2
Rossmann, M.G.3
-
30
-
-
0026544322
-
Atomic structure of single-stranded DNA bacteriophage φx174 and its functional implications
-
McKenna R, Xia D, Willingmann P, Ilag LL, Krishnaswamy S, Rossmann MG, Olson NH, Baker TS, Incardona NL. 1992. Atomic structure of single-stranded DNA bacteriophage φX174 and its functional implications. Nature 355:137-143.
-
(1992)
Nature
, vol.355
, pp. 137-143
-
-
McKenna, R.1
Xia, D.2
Willingmann, P.3
Ilag, L.L.4
Krishnaswamy, S.5
Rossmann, M.G.6
Olson, N.H.7
Baker, T.S.8
Incardona, N.L.9
-
31
-
-
84979134212
-
Reversibility in evolution considered from the standpoint of genetics
-
Muller HJ. 1939. Reversibility in evolution considered from the standpoint of genetics. Biol Rev Camb Philos Soc. 14:261-280.
-
(1939)
Biol Rev Camb Philos Soc
, vol.14
, pp. 261-280
-
-
Muller, H.J.1
-
32
-
-
0344255643
-
The functions of the N terminus of the φx174 internal scaffolding protein, a protein encoded in an overlapping reading frame in a two scaffolding protein system
-
Novak CR, Fane BA. 2004. The functions of the N terminus of the φX174 internal scaffolding protein, a protein encoded in an overlapping reading frame in a two scaffolding protein system. J Mol Biol. 335:383-390.
-
(2004)
J Mol Biol
, vol.335
, pp. 383-390
-
-
Novak, C.R.1
Fane, B.A.2
-
33
-
-
0028942011
-
The population genetics of speciation: The evolution of hybrid incompatibilities
-
Orr HA. 1995. The population genetics of speciation: the evolution of hybrid incompatibilities. Genetics 139:1805-1813.
-
(1995)
Genetics
, vol.139
, pp. 1805-1813
-
-
Orr, H.A.1
-
34
-
-
0031714655
-
The population genetics of adaptation: The distribution of factors fixed during adaptive evolution
-
Orr HA. 1998. The population genetics of adaptation: the distribution of factors fixed during adaptive evolution. Evolution 52:935-949.
-
(1998)
Evolution
, vol.52
, pp. 935-949
-
-
Orr, H.A.1
-
35
-
-
33748537738
-
The population genetics of adaptation on correlated fitness landscapes: The block model
-
Orr HA. 2006. The population genetics of adaptation on correlated fitness landscapes: the block model. Evolution 60: 1113-1124.
-
(2006)
Evolution
, vol.60
, pp. 1113-1124
-
-
Orr, H.A.1
-
36
-
-
0031127243
-
Deleterious mutations, variable epistatic interactions, and the evolution of recombination
-
Otto SP, Feldman MW. 1997. Deleterious mutations, variable epistatic interactions, and the evolution of recombination. Theor Popul Biol. 51:134-147.
-
(1997)
Theor Popul Biol
, vol.51
, pp. 134-147
-
-
Otto, S.P.1
Feldman, M.W.2
-
37
-
-
33646174628
-
Variable pleiotropic effects from mutations at the same locus hamper prediction of fitness from a fitness component
-
Pepin KM, Samuel MA, Wichman HA. 2006. Variable pleiotropic effects from mutations at the same locus hamper prediction of fitness from a fitness component. Genetics 172:2047-2056.
-
(2006)
Genetics
, vol.172
, pp. 2047-2056
-
-
Pepin, K.M.1
Samuel, M.A.2
Wichman, H.A.3
-
38
-
-
0028785881
-
Protein evolution on partially correlated landscapes
-
Perelson AS, Macken CA. 1995. Protein evolution on partially correlated landscapes. Proc Natl Acad Sci USA. 92:9657-9661.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, pp. 9657-9661
-
-
Perelson, A.S.1
MacKen, C.A.2
-
39
-
-
21044438202
-
The rate of compensatory mutation in the DNA bacteriophage φx174
-
Poon A, Chao L. 2005. The rate of compensatory mutation in the DNA bacteriophage φX174. Genetics 170:989-999.
-
(2005)
Genetics
, vol.170
, pp. 989-999
-
-
Poon, A.1
Chao, L.2
-
40
-
-
21044440015
-
The coupon collector and the suppressor mutation: Estimating the number of compensatory mutations by maximum likelihood
-
Poon A, Davis BH, Chao L. 2005. The coupon collector and the suppressor mutation: Estimating the number of compensatory mutations by maximum likelihood. Genetics 170:1323-1332.
-
(2005)
Genetics
, vol.170
, pp. 1323-1332
-
-
Poon, A.1
Davis, B.H.2
Chao, L.3
-
41
-
-
0033677913
-
Compensating for our load of mutations: Freezing the meltdown of small populations
-
Poon A, Otto SP. 2000. Compensating for our load of mutations: freezing the meltdown of small populations. Evolution 54:1467-1479.
-
(2000)
Evolution
, vol.54
, pp. 1467-1479
-
-
Poon, A.1
Otto, S.P.2
-
42
-
-
33748324384
-
-
Vienna (Austria): R Foundation for Statistical Computing
-
R Development Core Team. 2006. R: a language and environment for statistical computing. Vienna (Austria): R Foundation for Statistical Computing.
-
(2006)
R: A Language and Environment for Statistical Computing
-
-
-
43
-
-
0027278850
-
The effect of DNA sequence divergence on sexual isolation in Bacillus
-
Roberts MS, Cohan FM. 1993. The effect of DNA sequence divergence on sexual isolation in Bacillus. Genetics 134: 401-408.
-
(1993)
Genetics
, vol.134
, pp. 401-408
-
-
Roberts, M.S.1
Cohan, F.M.2
-
45
-
-
70450254544
-
Forthcoming. the genetics of adaptation for eight ssDNA bacteriophages
-
Rokyta DR, Abdo Z, Wichman HA. Forthcoming. The genetics of adaptation for eight ssDNA bacteriophages. J Mol Evol.
-
J Mol Evol
-
-
Rokyta, D.R.1
Abdo, Z.2
Wichman, H.A.3
-
46
-
-
0036190698
-
Experimental genomic evolution: Extensive compensation for loss of DNA ligase activity in a virus
-
Rokyta D, Badgett MR, Molineux IJ, Bull JJ. 2002. Experimental genomic evolution: extensive compensation for loss of DNA ligase activity in a virus. Mol Biol Evol. 19:230-238.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 230-238
-
-
Rokyta, D.1
Badgett, M.R.2
Molineux, I.J.3
Bull, J.J.4
-
47
-
-
31344453994
-
Horizontal gene transfer and the evolution of microvirid coliphage genomes
-
Rokyta DR, Burch CL, Caudle SB, Wichman HA. 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
-
48
-
-
16844369125
-
An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus
-
Rokyta DR, Joyce P, Caudle SB, Wichman HA. 2005. An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus. Nature Genet. 37:441-444.
-
(2005)
Nature Genet
, vol.37
, pp. 441-444
-
-
Rokyta, D.R.1
Joyce, P.2
Caudle, S.B.3
Wichman, H.A.4
-
49
-
-
0028100982
-
Identification of human immunodeficiency virus type 1 envelope genes recombinant between subtypes B and F in two epidemiologically linked individuals from Brazil
-
Sabino EC, Shpaer EG, Morgado MG, Korber BTM, Diaz RS, Bongertz V, Cavalcante S, Galvao-Castro B, Mullins JI, Mayer A. 1994. Identification of human immunodeficiency virus type 1 envelope genes recombinant between subtypes B and F in two epidemiologically linked individuals from Brazil. J Virol. 68:6340-6346.
-
(1994)
J Virol
, vol.68
, pp. 6340-6346
-
-
Sabino, E.C.1
Shpaer, E.G.2
Morgado, M.G.3
Korber, B.T.M.4
Diaz, R.S.5
Bongertz, V.6
Cavalcante, S.7
Galvao-Castro, B.8
Mullins, J.I.9
Mayer, A.10
-
50
-
-
52449096112
-
Evidence of recombination in intrapatient populations of hepatitis C virus
-
Sentandreu V, Jiménez-Hernández N, Torres-Puente M, Gosalbes MJ, Ortega E, Moya A, González-Candelas F, Bracho MA, Valero A. 2008. Evidence of recombination in intrapatient populations of hepatitis C virus. PLoS One 3:e3239.
-
(2008)
PLoS One
, vol.3
-
-
Sentandreu, V.1
Jiménez-Hernández, N.2
Torres-Puente, M.3
Gosalbes, M.J.4
Ortega, E.5
Moya, A.6
González-Candelas, F.7
Bracho, M.A.8
Valero, A.9
-
51
-
-
0017139938
-
- mutations that block development of small DNA bacteriophages late in infection
-
Tessman ES, Peterson PK. 1976. Bacterial rep-mutations that block development of small DNA bacteriophages late in infection. J Virol. 20:400-412.
-
(1976)
J Virol
, vol.20
, pp. 400-412
-
-
Tessman, E.S.1
Peterson, P.K.2
-
52
-
-
62749084467
-
N-terminal deletions of the φx174 external scaffolding protein affect the timing and fidelity of assembly
-
Uchiyama A, Heiman P, Fane BA. 2009. N-terminal deletions of the φX174 external scaffolding protein affect the timing and fidelity of assembly. Virology 386:303-309.
-
(2009)
Virology
, vol.386
, pp. 303-309
-
-
Uchiyama, A.1
Heiman, P.2
Fane, B.A.3
-
53
-
-
0030924545
-
Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria
-
Vulić M, Dionisio F, Taddei F, Radman M. 1997. Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria. Proc Natl Acad Sci USA. 94:9763-9767.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 9763-9767
-
-
Vulić, M.1
Dionisio, F.2
Taddei, F.3
Radman, M.4
-
54
-
-
21044435697
-
Sign epistasis and genetic constraint on evolutionary trajectories
-
Weinreich DM, Watson RA, Chao L. 2005. Sign epistasis and genetic constraint on evolutionary trajectories. Evolution 59:1165-1174.
-
(2005)
Evolution
, vol.59
, pp. 1165-1174
-
-
Weinreich, D.M.1
Watson, R.A.2
Chao, L.3
-
55
-
-
0029785616
-
Discrepancy of hepatitis C virus genotypes as determined by phylogenetic analysis of partial NS5 and core sequences
-
Yun Z, Lara C, Johansson B, de Rivera IL, Sönnerborg A. 1996. Discrepancy of hepatitis C virus genotypes as determined by phylogenetic analysis of partial NS5 and core sequences. J Med Virol. 49:155-160.
-
(1996)
J Med Virol
, vol.49
, pp. 155-160
-
-
Yun, Z.1
Lara, C.2
Johansson, B.3
De Rivera, I.L.4
Sönnerborg, A.5
-
56
-
-
0029038657
-
The log-linear relationship between sexual isolation and sequence divergence in Bacillus transformation is robust
-
Zawadzki P, Roberts MS, Cohan FM. 1995. The log-linear relationship between sexual isolation and sequence divergence in Bacillus transformation is robust. Genetics 140:917-932.
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(1995)
Genetics
, vol.140
, pp. 917-932
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Zawadzki, P.1
Roberts, M.S.2
Cohan, F.M.3
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