Efficient conditional knockout targeting vector construction using co-selection BAC recombineering (CoSBR)

Nucleic Acids Research

Volumn 43, Issue 19, 2015, Pages e124-

  Newman, Robert J ^a   Roose Girma, Merone ^a   Warming, Søren ^a  

^a GENENTECH INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; EXONUCLEASE; SINGLE STRANDED DNA; OLIGONUCLEOTIDE; SYNTHETIC DNA;

ANIMAL EXPERIMENT; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CONTROLLED STUDY; DNA MODIFICATION; DNA REPLICATION; DNA SYNTHESIS; ESCHERICHIA COLI; EXON; GENE SYNTHESIS; GENE TARGETING; HOMOLOGOUS RECOMBINATION; MOLECULAR CLONING; MOUSE; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; GENE INACTIVATION; GENETIC ENGINEERING; GENETIC RECOMBINATION; PROCEDURES;

CHROMOSOMES, ARTIFICIAL, BACTERIAL; GENE KNOCKOUT TECHNIQUES; GENES, SYNTHETIC; GENETIC ENGINEERING; OLIGONUCLEOTIDES; RECOMBINATION, GENETIC;

EID: 84959354717     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkv600     Document Type: Article

References (25)

1. Copeland,N.G., Jenkins,N.A. and Court,D.L. (2001) Recombineering: a powerful new tool for mouse functional genomics. Nat. Rev. Genet., 2, 769-779.
2. Zhang,Y., Muyrers,J.P., Testa,G. and Stewart,A.F. (2000) DNA cloning by homologous recombination in Escherichia coli. Nat. Biotechnol., 18, 1314-1317.
3. Zhang,Y., Buchholz,F., Muyrers,J.P. and Stewart,A.F. (1998) A new logic for DNA engineering using recombination in Escherichia coli. Nat. Genet., 20, 123-128.
4. Bouvier,J. and Cheng,J.-G. (2009) Recombineering-based procedure for creating Cre/loxP conditional knockouts in the mouse. Curr. Protoc. Mol. Biol., 85, 23.13.1-27.
5. Liu,P., Jenkins,N.A. and Copeland,N.G. (2003) A highly efficient recombineering-based method for generating conditional knockout mutations. Genome Res., 13, 476-484.
6. Yu,D., Ellis,H.M., Lee,E.C., Jenkins,N.A., Copeland,N.G. and Court,D.L. (2000) An efficient recombination system for chromosome engineering in Escherichia coli. Proc. Natl Acad. Sci. U.S.A., 97, 5978-5983.
7. Thomason,L.C., Costantino,N., Shaw,D.V. and Court,D.L. (2007) Multicopy plasmid modification with phage lambda Red recombineering. Plasmid, 58, 148-158.
8. Mosberg,J.A., Lajoie,M.J. and Church,G.M. (2010) Lambda red recombineering in Escherichia coli occurs through a fully single-stranded intermediate. Genetics, 186, 791-799.
9. Maresca,M., Erler,A., Fu,J., Friedrich,A., Zhang,Y. and Stewart,A.F. (2010) Single-stranded heteroduplex intermediates in lambda Red homologous recombination. BMC Mol. Biol., 11, 54.
10. Feiss,M., Siegele,D.A., Rudolph,C.F. and Frackman,S. (1982) Cosmid DNA packaging in vivo. Gene, 17, 123-130.
11. Chan,W., Costantino,N., Li,R., Lee,S.C., Su,Q., Melvin,D., Court,D.L. and Liu,P. (2007) A recombineering based approach for high-throughput conditional knockout targeting vector construction. Nucleic Acids Res., 35, e64-e64.
12. Wang,H.H., Kim,H., Cong,L., Jeong,J., Bang,D. and Church,G.M. (2012) Genome-scale promoter engineering by coselection MAGE. Nat. Methods, 9, 591-593.
13. Carr,P.A., Wang,H.H., Sterling,B., Isaacs,F.J., Lajoie,M.J., Xu,G., Church,G.M. and Jacobson,J.M. (2012) Enhanced multiplex genome engineering through co-operative oligonucleotide co-selection. Nucleic Acids Res., 40, e132.
14. van Kessel,J.C. and Hatfull,G.F. (2008) Efficient point mutagenesis in mycobacteria using single-stranded DNA recombineering: characterization of antimycobacterial drug targets. Mol. Microbiol., 67, 1094-1107.
15. Sawitzke,J.A., Costantino,N., Li,X.-T., Thomason,L.C., Bubunenko,M., Court,C. and Court,D.L. (2011) Probing cellular processes with oligo-mediated recombination and using the knowledge gained to optimize recombineering. J. Mol. Biol., 407, 45-59.
16. Kent,W.J., Sugnet,C.W., Furey,T.S., Roskin,K.M., Pringle,T.H., Zahler,A.M. and Haussler,D. (2002) The human genome browser at UCSC. Genome Res., 12, 996-1006.
17. Mouse Genome Sequencing Consortium, Waterston,R.H., Lindblad-Toh,K., Birney,E., Rogers,J., Abril,J.F., Agarwal,P., Agarwala,R., Ainscough,R., Alexandersson,M. et al. (2002) Initial sequencing and comparative analysis of the mouse genome. Nature, 420, 520-562.
18. Imber,R., Low,R.L. and Ray,D.S. (1983) Identification of a primosome assembly site in the region of the ori 2 replication origin of the Escherichia coli mini-F plasmid. Proc. Natl Acad. Sci. U.S.A., 80, 7132-7136.
19. Warming,S., Costantino,N., Court,D.L., Jenkins,N.A. and Copeland,N.G. (2005) Simple and highly efficient BAC recombineering using galK selection. Nucleic Acids Res., 33, e36.
20. Warming,S., Rachel,R.A., Jenkins,N.A. and Copeland,N.G. (2006) Zfp423 is required for normal cerebellar development. Mol. Cell. Biol., 26, 6913-6922.
21. Wang,H.H., Isaacs,F.J., Carr,P.A., Sun,Z.Z., Xu,G., Forest,C.R. and Church,G.M. (2009) Programming cells by multiplex genome engineering and accelerated evolution. Nature, 460, 894-898.
22. Yang,Y. and Sharan,S.K. (2003) A simple two-step, 'hit and fix' method to generate subtle mutations in BACs using short denatured PCR fragments. Nucleic Acids Res., 31, e80.
23. Swaminathan,S., Ellis,H.M., Waters,L.S., Yu,D., Lee,E.C., Court,D.L. and Sharan,S.K. (2001) Rapid engineering of bacterial artificial chromosomes using oligonucleotides. Genesis, 29, 14-21.
24. Wang,H., Yang,H., Shivalila,C.S., Dawlaty,M.M., Cheng,A.W., Zhang,F. and Jaenisch,R. (2013) One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering. Cell, 153, 910-918.
25. Yang,H., Wang,H., Shivalila,C.S., Cheng,A.W., Shi,L. and Jaenisch,R. (2013) One-step generation of mice carrying reporter and conditional alleles by CRISPR/Cas-mediated genome engineering. Cell, 154, 1370-1379.