Recombination in large RNA viruses: Coronaviruses

Seminars in Virology

Volumn 7, Issue 6, 1996, Pages 381-388

  Lai, Michael M C ^a  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

Defective interfering RNA; Mouse hepatitis virus; RNA evolution; RNA recombination

Indexed keywords

MESSENGER RNA; RECOMBINANT RNA; RNA POLYMERASE; VIRUS RNA;

CORONAVIRUS; NONHUMAN; REVIEW; RNA SYNTHESIS; RNA TRANSCRIPTION; RNA VIRUS; VIRUS GENOME; VIRUS RECOMBINATION;

EID: 0030440990     PISSN: 10445773     EISSN: None     Source Type: Journal    
DOI: 10.1006/smvy.1996.0046     Document Type: Review

References (51)

1. 1. Lai MMC, Baric RS, Makino S, Keck JG, Egbert J, Leibowitz JL, Stohlman SA (1985) Recombination between nonsegmented RNA genomes of murine coronaviruses. J Virol 56:449-456
2. 2. Lai MMC (1990) Coronavirus: organization, replication and expression of genome. Annu Rev Microb 44:303-333
3. 3. Jeong YS, Makino S (1994) Evidence for coronavirus discontinuous transcription. J Virol 68:2615-2623
4. 4. Zhang X, Liao C-L, Lai MMC (1994) Coronavirus leader RNA regulates and initiates subgenomic mRNA transcription, both in trans and in cis. J Virol 68:4738-4746
5. 5. Keck JG, Stohlman SA, Soe LH, Makino S, Lai MMC (1987) Multiple recombination sites at the 5′-end of murine coronavirus RNA. Virology 156:331-341
6. 6. Keck JG, Matsushima GK, Makino S, Fleming JO, Vannier DM, Stohlman SA, Lai MMC (1988) In vivo RNA-RNA recombination of coronavirus in mouse brain. J Virol 62:1810-1813
7. 7. Keck JG, Soe LH, Makino S, Stohlman SA, Lai MMC (1988) RNA recombination of murine coronaviruses: Recombination between fusion-positive MHV-A59 and fusion negative MHV-2. J Virol 62:1989-1998
8. 8. Makino S, Keck JG, Stohlman SA, Lai MMC (1986) High-frequency RNA recombination of murine coronaviruses. J Virol 57:729-737
9. 9. Makino S, Fleming JO, Keck JG, Stohlman SA, Lai MMC (1987) RNA recombination of coronaviruses: Localization of neutralizing epitopes and neuropathogenic determinants on the carboxyl terminus of peplomers. Proc Natl Acad Sci USA 84:6567-6571
10. 10. Weiss BG, Schlesinger S (1991) Recombination between Sindbis virus RNA. J Virol 65:4017-4025
11. 11. Bujarski JJ, Dzianott AM (1991) Generation and analysis of nonhomologous RNA-RNA recombinants in brome mosaic virus: Sequence complementarities at crossover sites. J Virol 65:4153-4259
12. 12. Cascone PJ, Carpenter CD, Li XH, Simon AE (1990) Recombination between satellite RNAs of turnip crinkle virus. EMBO J 9:1709-1715
13. 13. Lai MMC (1992) RNA recombination in animal and plant viruses. Microbiol Rev 56:61-79
14. 14. Baric RS, Fu K, Schaad MC, Stohlman SA (1990) Establishing a genetic recombination map for murine coronavirus strain A59 complementation groups. Virology 177:646-656
15. 15. Cooper PD (1977) Genetics of picronaviruses, in Comprehensive Virology (Fraenkel-Conrat H, Wagner RR, eds), pp. 133-208. Plenum Press, New York
16. 16. Fu K, Baric RS (1992) Evidence for variable rates of recombination in the MHV genome. Virology 189:88-102
17. 17. Fu K, Baric RS (1994) Map locations of mouse hepatitis virus temperature-sensitive mutants: Confirmation of variable rates of recombination. J Virol 68:7458-7466
18. 18. Kusters JG, Niesters HGM, Lenstra JA, Horzinek MC, Van der Zeijst BAM (1989) Phylogeny of antigenic variants of avian coronavirus IBV. Virology 169:217-221
19. 19. Cavanagh D, Davis PJ (1992) Sequence analysis of strains of avian infectious bronchitis coronavirus isolated during the 1960s in the UK. Arch Virol 130:471-472
20. 20. Wang L, Junker D, Collison EW (1993) Evidence of natural recombination within the S1 gene of the infectious bronchitis virus. Virology 192:710-716
21. 21. Wang L, Junker D, Hock L, Ebiary E, Collisson EW (1994) Evolutionary implications of genetic variations in the S1 gene of infectious bronchitis virus. Virus Res 34:327-338
22. 22. Jia W, Karaca K, Parrish CR, Naqi SA (1995) A novel variant of avian infectious bronchitis virus resulting from recombination among three different strains. Arch Virol 140:259-271
23. 23. Kotier SA, Cavanagh D, Britton P (1995) Experimental evidence of recombination in coronavirus infectious bronchitis virus. Virology 213:569-580
24. 24. Makino S, Fujioka N, Fujiwara K (1985) Structure of the intracellular defective viral RNAs of defective interfering particles of mouse hepatitis virus. J Virol 54:329-336
25. 25. Furuya T, Macnaughton TB, La Monica N, Lai MMC (1993) Natural evolution of coronavirus defective-interfering RNA involves RNA recombination. Virology 194:408-413
26. 26. van der Most RG, Luytjes W, Rutjes S, Spaan WJM (1995) Translation but not the encoded sequence is essential for the efficient propagation of the defective interfering RNAs of the coronavirus mouse hepatitis virus. J Virol 69:3744-3751
27. 27. Liao CL, Lai MMC (1995) A cis-acting viral protein is not required for the replication of a coronavirus defective-interfering RNA. Virology 209:428-436
28. 28. de Groot RJ, van der Most RG, Spaan WJM (1992) The fitness of defective interfering murine coronavirus DI-a and its derivatives is decreased by nonsense and frameshift mutations. J Virol 66:5898-5905
29. 29. Kim Y-N, Lai MMC, Makino S (1993) Generation and selection of coronavirus defective interfering RNA with large open reading frame by RNA recombination and possible editing. Virology 194:244-253
30. 30. Makino S, Lai MMC (1989) High-frequency leader sequence switching during coronavirus defective interfering RNA replication. J Virol 63:5285-5292
31. 31. Chang RX Krishnan R, Brian DA (1996) The UCUAAAC promoter motif is not required for high-frequency leader recombination in bovine coronavirus defective interfering RNA. J Virol 70:2720-2729
32. 32. Koetzner CA, Parker MM, Ricard CS, Sturman LS, Masters PS (1992) Repair and mutagenesis of the genome of a deletion mutant of the coronavirus mouse hepatitis virus by targeted RNA recombination. J Virol 66:1841-1848
33. 33. Liao C-L, Lai MMC (1992) RNA recombination in a coronavirus: Recombination between viral genomic RNA and transfected RNA fragments. J Virol 66:6117-6124
34. 34. van der Most RG, Heijnen L, Spaan WJM, de Groot RJ (1992) Homologous RNA recombination allows efficient introduction of site-specific mutations into the genome of coronavirus MHV-A59 via synthetic co-replicating RNAs. Nucl Acids Res 20:3375-3381
35. 35. Masters PS, Koetzner CA, Kerr CA, Heo Y (1994) Optimization of targeted RNA recombination and mapping of a novel nucleocapsid gene mutation in the coronavirus mouse hepatitis virus. J Virol 68:328-337
36. 36. Peng D, Koetzner CA, Masters PS (1995) Analysis of second-site revertants of a murine coronavirus nucleocapsid protein deletion mutant and construction of nucleocapsid protein mutants by targeted RNA recombination. J Virol 69:3449-3457
37. 37. Lin Y-J, Lai MMC (1993) Deletion mapping of a mouse hepatitis virus defective-interfering RNA reveals the requirement of an internal and discontiguous sequence for replication. J Virol 67:6110-6118
38. 38. Kim Y-N, Jeong YS, Makino S (1993) Analysis of cis-acting sequences essential for coronavirus defective interfering RNA replication. Virology 197:53-63
39. 39. Peng D, Koetzner CA, McMahon T, Zhu Y, Masters PS (1995) Construction of murine coronavirus mutants containing interspecies chimeric nucleocapsid proteins. J Virol 69:5475-5484
40. 40. Kusters JG, Jager EJ, Niesters HG, van der Zeijst BA (1991) Sequence evidence for RNA recombination in field isolates of avian coronavirus infectious bronchitis virus. Vaccine 8:605-608
41. 41. Luytjes W, Bredenbeek PJ, Noten AFH, Horzinek MC, Spaan WJM (1988) Sequence of mouse hepatitis virus A59 mRNA 2: Indications for RNA-recombination between coronavirus and influenza C virus. Virology 166:415-422
42. 42. Snijder EJ, den Boon JA, Horzinek MC, Spaan WJM (1991) Comparison of the genome organization of toro-and coronaviruses: evidence for two nonhomologous RNA recombination events during Berne virus evolution. Virology 180:448-452
43. 43. Baric RS, Shieh C-K, Stohlman SA, Lai MMC (1987) Analysis of intracellular small RNAs of mouse hepatitis virus: Evidence for discontinuous transcription. Virology 156:342-354
44. 44. Mills DR, Dobkin C, Kramer FR (1978) Template-determined, variable rate of RNA chain elongation. Cell 15:541-550
45. 45. Banner LR, Keck JG, Lai MM-C (1990) A clustering of RNA recombination sites adjacent to a hypervariable region of the peplomer gene of murine coronavirus. Virology 175:548-555
46. 46. Banner LR, Lai MMC (1991) Random nature of coronavirus RNA recombination in the absence of selection pressure. Virology 185:441-445
47. 47. Kirkegaard K, Baltimore D (1986) The mechanism of RNA recombination in poliovirus. Cell 47:433-443
48. 48. Wang D, Hawley DK (1993) Identification of a 3′→5′ exonuclease activity associated with human RNA polymerase II. Proc Natl Acad Sci USA 90:843-847
49. 49. Altmann CR, Solow-Cordero DE, Chamberlin MJ (1994) RNA cleavage and chain elongation by Escherichia coli DNA-dependent RNA polymerase in a binary enzyme-RNA complex. Proc Natl Acad Sci USA 91:3784-3788
50. 50. Cascone PJ, Haydar TF, Simon AE (1993) Sequences and structures required for recombination between virus-associated RNAs. Science 260:801-805
51. 51. White KA, Morris TJ (1995) RNA determinants of junction site selection in RNA virus recombinants and defective interfering RNAs. RNA 1:1029-1040