Location of Repository

Viral Bacterial Artificial Chromosomes: Generation, Mutagenesis, and Removal of Mini-F Sequences

By B. Karsten Tischer and Benedikt B. Kaufer

Abstract

Maintenance and manipulation of large DNA and RNA virus genomes had presented an obstacle for virological research. BAC vectors provided a solution to both problems as they can harbor large DNA sequences and can efficiently be modified using well-established mutagenesis techniques in Escherichia coli. Numerous DNA virus genomes of herpesvirus and pox virus were cloned into mini-F vectors. In addition, several reverse genetic systems for RNA viruses such as members of Coronaviridae and Flaviviridae could be established based on BAC constructs. Transfection into susceptible eukaryotic cells of virus DNA cloned as a BAC allows reconstitution of recombinant viruses. In this paper, we provide an overview on the strategies that can be used for the generation of virus BAC vectors and also on systems that are currently available for various virus species. Furthermore, we address common mutagenesis techniques that allow modification of BACs from single-nucleotide substitutions to deletion of viral genes or insertion of foreign sequences. Finally, we review the reconstitution of viruses from BAC vectors and the removal of the bacterial sequences from the virus genome during this process

Topics: Review Article
Publisher: Hindawi Publishing Corporation
OAI identifier: oai:pubmedcentral.nih.gov:3303620
Provided by: PubMed Central
Download PDF:
Sorry, we are unable to provide the full text but you may find it at the following location(s):
  • http://www.pubmedcentral.nih.g... (external link)
  • Suggested articles

    Preview

    Citations

    1. (1993). a a s ,A .F .K a h r s ,D .F a c i u s ,H .A l l m e i e r ,R .S c h m i t t ,a n d
    2. (2001). A highly effi-cient Escherichia coli-based chromosome engineering system adapted for recombinogenic targeting and subcloning of
    3. (1998). A new logic for DNA engineering using recombination in Escherichia coli,”
    4. (2007). A plasmidbased reverse genetics system for animal double-stranded
    5. (2005). a r m i n g ,N .C o s t a n t i n o ,D .L .C o u r t ,N .A .J e n k i n s
    6. (1991). Allelic exchange in Escherichia coli using the Bacillus subtilis sacB gene and a temperature-sensitive pSC101 replicon,”
    7. (1993). An “in-out” strategy using gene targeting and FLP recombinase for the functional dissection of complex DNA regulatory elements: analysis of the β- globin locus control region,”
    8. (2005). An improved reverse genetics system for influenza A virus generation and its implications for vaccine production,”
    9. (1995). An improved TnMax mini-transposon system suitable for sequencing, shuttle mutagenesis and gene fusions,”
    10. (2008). An overlapping bacterial artificial chromosome system that generates vectorless progeny for channel catfish herpesvirus,”
    11. (1997). and U.H.Koszinowski,“Cloningandmutagenesisofaherpesvirus genome as an infectious bacterial artificial chromosome,”
    12. (2007). Arvin,andN.Osterrieder,“Aself-excisableinfectiousbacterial artificial chromosome clone of varicella-zoster virus allows analysis of the essential tegument protein encoded by ORF9,”
    13. (2011). B o e h m e ,M .I k i z l e r ,T .K o b a y a s h i ,a n dT .S .D e r m o d y , “Reverse genetics for mammalian reovirus,”
    14. (2000). B.Yount,K.M.Curtis,andR.S.Baric,“Strategyforsystematic assembly of large RNA and DNA genomes: transmissible gastroenteritis virus model,”
    15. (1981). Bacteriophage P1 site-specific recombination. I. Recombination between loxP sites,”
    16. (2000). Cloning and mutagenesis of the murine gammaherpesvirus 68 genome as an infectious bacterial artificial chromosome,”
    17. (2009). Cloning human herpes virus 6A genome into bacterial artificial chromosomes and study of DNA replication intermediates,”
    18. (2011). Cloning of the epstein-barr virus-related rhesus lymphocryptovirus as a bacterial artificial chromosome: a loss-of-function mutation of the rhBARF1 immune evasion gene,”
    19. (2003). Cloning of the full-length rhesus cytomegalovirus genome as an infectious and selfexcisable bacterial artificial chromosome for analysis of viral pathogenesis,”
    20. (2009). Cloning of the genome of equine herpesvirus 4 strain TH20p as an infectious bacterial artificialchromosome,”Archives of Virology,vol.154,no.5,pp. 833–842,
    21. (1999). Cloning of the human cytomegalovirus (HCMV) genome as an infectious bacterial artificial chromosome in Escherichia coli a new approach for construction of HCMV mutants,”
    22. (2008). Cloning of the koi herpesvirus genome as an infectious bacterial artificial chromosome demonstrates that disruption of the thymidine kinase locus induces partial attenuation in Cyprinus carpio koi,”
    23. (2004). Cloning of the varicellazoster virus genome as an infectious bacterial artificial chromosome
    24. (2011). Cloning the simian varicella virus genome in E. coli as an infectious bacterial artificial chromosome,”
    25. (2002). Cloning the vaccinia virus genome as a bacterial artificial chromosome in Escherichia coli and recovery of infectious virus in mammalian cells,”
    26. (1999). Construction and transposon mutagenesis in Escherichia coli of a full- length infectious clone of pseudorabies virus, an alphaherpesvirus,”
    27. Construction of a severe acute respiratory syndrome coronavirus infectious cDNA clone and a replicon to study coronavirus RNA synthesis,”
    28. (1999). Construction of mutant strains of Neisseria gonorrhoeae lacking new antibiotic resistance markers using a two gene cassette with positive and negative selection,”
    29. (2003). Development and application of a reverse genetics system for Japanese encephalitis virus,”
    30. (2000). Development of a cytomegalovirus vector for somatic gene therapy,”
    31. (2005). Development of bovine herpesvirus 4 as an expression vector using bacterial artificial chromosome cloning,”
    32. (2004). DNA immunization with a herpes simplex virus 2 bacterial artificial chromosome,”
    33. (2007). E s t e p ,M .F .P o w e r s ,B .K .Y e n ,H .L i ,a n dS .W .W o n g , “Construction of an infectious rhesus rhadinovirus bacterial artificial chromosome for the analysis of Kaposi’s sarcomaassociated herpesvirus-related disease development,”
    34. (2005). Efficient and seamless DNA recombineering using a thymidylate synthase A selection system in Escherichia coli,”
    35. (2010). En passant mutagenesis: a two step markerless red recombination system,”
    36. (2005). Engineering of a vaccinia virus bacterial artificial chromosome in Escherichia coli by bacteriophage λ-based recombination,”
    37. (2000). Engineering the largest RNA virus genome as an infectious bacterial artificial chromosome,”
    38. (2002). Equine herpesvirus type 1 devoid of gM and gp2 is severely impaired in virus egress but not direct cell-to-cell spread,”
    39. (1983). Expression of the phage λ recombination genes exo and bet under lacPO control on a multi-copy plasmid,”
    40. (2006). Felid herpesvirus 1 glycoprotein G is a structural protein that mediates
    41. (1991). Firefly luciferase as a marker for herpesvirus (pseudorabies virus) replication in vitro and in vivo,”
    42. (2011). Generation of an infectious clone of duck enteritis virus (DEV) and of a vectored DEV expressing hemagglutinin of H5N1 avian influenza virus,”
    43. (2010). Generation of recombinant pestiviruses using a full-genome amplification strategy,”
    44. (2003). Generationandprecisemodificationofaherpesvirussaimiribacterial artificial chromosome demonstrates that the terminal repeats are required for both virus production and episomal persistence,” J o u r n a lo fG e n e r a lV i r o l o g y ,
    45. (1998). Herpes simplex virus type 1 DNA amplified as bacterial artificial chromosome in Escherichiacoli:rescueofreplication-competent virusprogeny and packaging of amplicon vectors,”
    46. (2006). Herpesvirus of turkey reconstituted from bacterial artificial chromosome clones induces protection against Marek’s disease,”
    47. (1997). Homologous recombination based modification in Esherichia coli and germline transmission in transgenic mice of a bacterial artificial chromsome,”
    48. (1988). Homologous recombination in procaryotes,”
    49. (1993). Identification and characterization of the Escherichia coli RecT protein, a protein encoded by the recE region that promotes renaturation of homologous single-stranded
    50. (1986). Identification of the crossover site during FLP-mediated recombination
    51. (2010). Introduction of the six major genomic deletions of modified vaccinia virus Ankara (MVA) into the parental vaccinia virus is not sufficient to reproduce an MVA-like phenotype in cell culture and in mice,”
    52. (1974). Isolation of exonucleaseVIII:theenzymeassociatedwiththesbcAindirect suppressor,”
    53. (1993). Manipulation of transgenes by site-specific recombination: use of Cre recombinase,”
    54. (2001). Molecular cloning of the guinea pig cytomegalovirus (GPCMV) genome as an infectious bacterial artificial chromosome (BAC)
    55. (2003). Mutagenesis of a bovine herpesvirus type 1 genome cloned as an infectious bacterial artificial chromosome: analysis of glycoprotein E and G double deletion mutants,”
    56. (2002). Noninvasive bioluminescence imaging of herpes simplex virus type 1 infection and therapy in living mice,”
    57. (2000). One-step inactivation of chromosomal genes
    58. (1998). Propagation and recovery of intact, infectious Epstein-Barr virus from prokaryotic to human cells,”
    59. (1973). Purification and properties of the γ protein specified by bacteriophage λ: an inhibitor of the host RecBC recombination enzyme,”
    60. (2007). R o s a s ,B .K .T i s c h e r ,G .A .P e r k i n s ,B .W a g n e r
    61. (2007). R o s a s ,P .K ¨ o n i g ,M .B e e r ,E .J .D u b o v i ,B .K .T i s c h e r
    62. (2011). R o t h ,D .H o p e r ,M .B e e re ta l . ,“ R e c o v e r yo fi n f e c t i o u s virus from full-length cowpox virus (CPXV) DNA cloned as a bacterial artificial chromosome,”
    63. (2010). Rapid generation of markerless recombinant MVA vaccines by en passant recombineering of a self-excising bacterial artificial chromosome,”
    64. (1999). Rapid identification of essential and nonessential herpesvirus genes by direct transposon mutagenesis,”
    65. (2008). Recombination-mediated genetic engineering of a bacterial artificialchromosomecloneofmodifiedvacciniavirusAnkara
    66. (2008). Recombineering with tolC as a selectable/ counter-selectable marker: remodeling the rRNA operons of Escherichia coli,”
    67. (2000). Reconstitution of marek’s disease virus serotype 1 (MDV-1) from DNA cloned as a bacterial artificial chromosome and characterizationofaglycoproteinB-negativeMDV-1mutant,”
    68. (2006). Recovery of a neurovirulent human coronavirus OC43 from an infectious cDNA clone,”
    69. (2009). Red-mediated transposition and final release of the mini-f vector of a cloned infectious herpesvirus genome,”
    70. (2001). repair, and engineering of chromosomal DNA using single-stranded oligonucleotides,”
    71. (1989). Resolution of vaccinia virus DNA concatemer junctions requires late-gene expression,”
    72. (2010). Rijn, “Genetic modification of Bluetongue virus by uptake of “synthetic” genome segments,”
    73. (1967). Selective extraction of polyoma DNA from infected mouse cell cultures,”
    74. (2001). Spontaneous activation of the lytic cycle in cells infected with a recombinant Kaposi’s sarcoma-associated virus,”
    75. (1999). Systematicexcision ofvectorsequences fromtheBAC-cloned herpesvirus genome during virus reconstitution,”
    76. (2006). t r i v e ,C .M .H a r d y ,N .F r e n c h ,J .D .W r i g h t ,N .N a g a r a j a
    77. (1962). The effect of lysogenic induction on the deoxyribonucleases of Escherichia coli K12 lambda,”
    78. (2002). The equine herpesvirus 1 UL34 gene product is involved in an early step in virus egress and can be efficiently
    79. (1997). Toroidal structure of λ-exonuclease,”
    80. (2006). Two-step red-mediated recombination for versatile highefficiency markerless DNA manipulation in Escherichia coli,”
    81. (2006). u ,X .X i n g ,C .E .B o h l ,J .W .W i s l e r ,J .T .D a l t o n ,a n d
    82. (1998). Use of bacteriophage λ recombination functions to promote gene replacement in Escherichia coli,”
    83. (2000). W.Brune,M.Messerle,andU.H.Koszinowski,“Forwardwith BACs:newtoolsforherpesvirusgenomics,”Trends in Genetics,
    84. (2002). Young,“Constructionandmanipulationofaninfectiousclone of the bovine herpesvirus 1 genome maintained as a bacterial artificial chromosome,”
    85. (2008). Z.C.FanandR.C.Bird,“Animprovedreversegeneticssystem for generation of bovine viral diarrhea virus as a BAC cDNA,”
    86. (1981). β-protein of bacteriophage λ promotes renaturation of DNA,”

    To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.