Chemistry: molecular biology and microbiology – Process of mutation – cell fusion – or genetic modification
Reexamination Certificate
2007-09-11
2007-09-11
Fredman, Jeffrey (Department: 1637)
Chemistry: molecular biology and microbiology
Process of mutation, cell fusion, or genetic modification
C435S462000
Reexamination Certificate
active
10699512
ABSTRACT:
A method of assembling large DNA fragments in a chromosome using site specific recombinases and alternating excisionases. The method may be performed in vitro or in vivo, but larger assemblies are possible when the assembly is performed in vivo. For an in vivo assembly, the cell must be engineered to contain the desired recombinases, each in an inducible construct so that the desired recombinase can be expressed at the correct time with the correct choice of inducing agent.
REFERENCES:
patent: 5888732 (1999-03-01), Hartley et al.
patent: 2002/0007051 (2002-01-01), Cheo et al.
patent: WO 01/11058 (2001-02-01), None
Martinez-Morales, F., et al., Chromosomal integration of heterologous DNA inEscherichia coliwith precise removal of markers and replicons used during construction. J Bacteriol, 1999. 181(22): p. 7143-8.
Koob, M.D., et al., Minimizing the genome ofEscherichia coll. Motivation and strategy. Ann N Y Acad Sci, 1994. 745: p. 1-3.
Peredelchuk, M.Y. and G.N. Bennett, A method for construction ofE. colistrains with multiple DNA insertions in the chromosome. Gene, 1997. 187(2): p. 231-8.
Lorbach, E., et al., Site-specific recombination in human cells catalyzed by phage lambda integrase mutants. J. Mol Biol, 2000. 296(5): p. 1175-81.
Cherepanov, P. P. and W. Wackernagel, Gene disruption inEscherichia coli: TcR and KmR cassettes with the option of Flp-catalyzed excision of the antibiotic-resistance determinant.Gene, 1995. 158(1): p. 9-14.
Chiang, S.L. and J.J. Mekalanos, Construction of aVibrio choleraevaccine candidate using transposon delivery and FLP recombinase-mediated excision. Infect Immun, 2000. 69(11): p. 6391-7.
Tsuda, M., Use of a transposon-encoded site-specific resolution system for construction of large and defined deletion mutations in bacterial chromosome. Gene, 1998. 207(1): p. 33-41.
Dale, E.C. and D.W. Ow, Gene transfer with subsequent removal of selection gene from the host genome. Proc Natl Acad Sci U S A, 1991. 88(23): p. 10558-62.
Delneri, D., et al., Exploring redundancy in the yeast genome: an improved strategy for use of the cre-loxP system. Gene, 2000. 252(1-2): p. 127-35.
Palmeros, B., et al., A family of removable cassettes designed to obtain antiobiotic- resistance-free genomic modifications ofEscherichia coliand other bacteria. Gene, 2000. 247(1-2): p. 255-64.
Mao, X., Y. Fujiwara, and S.H. Orkin, Improved reporter strain for monitoring Cre recombinase-mediated DNA excisions in mice. Proc Natl Acad Sci U S A, 1999. 96(9): p. 5037 42.
Caparon, M.G. and J.R. Scott, Excision and insertion of the conjugative transposon Tn916 involves a novel recombination mechanism. Cell, 1989. 59(6): p. 1027-34.
Storrs, M. J., et al., Conjugative transposition of Tn916 requires the excisive and integrative activities of the transposon-encoded integrase. J Bacteriol, 1991, 173(14): p. 4347-52.
Manganelli, R., S. Ricci, and G. Pozzi, Conjugative transposon Tn916: evidence for excision with formation of 5′-protruding termini. J Bacteriol, 1996. 178(19): p. 5813-6.
Rudy, C., et al., Excision of a conjugative transposon in vitro by the Int and Xis proteins of Tn916. Nucleic Acids Res, 1997. 25(20): p. 4061-6.
Connolly, K.M., M. Iwahara, and R.T. Clubb, Xis protein binding to the left arm stimulates excision of conjugative transposon Tn916. J Bacteriol, 2002. 184(8): p. 2088-99.
Platt, R., et al., Genetic system for reversible integration of DNA constructs and lacZ gene fusions into theEscherichia colichromosome. Plasmid, 2000. 43(1): p. 12-23.
Kim, S.Y., et al., Modification of bacterial artificial chromosome clones using Cre recombinase: introduction of selectable markers for expression in eukaryotic cells. Genome Res, 1998. 8(4): p. 404-12.
Golic, M.M., et al., FLP-mediated DNA mobilization to specific target sites inDrosophila chromosomes. Nucleic Acids Res, 1997. 25(18): p. 3665-71.
Christ, N., T. Corona, and P. Droge, Site-specific recombination in eukaryotic cells mediated by mutant lambda intergrases: implications for synaptic complex formation and the reactivity of episomal DNA segments. J Mol Biol, 2002. 319(2): p. 305-14.
Call, L.M., et al. A cre-lox recombination system for the targeted integration of circular yeast artificial chromosomes into embryonic stem cells. Hum Mol Genet, 2000. 9(12): p. 1745-51.
Feng, Y.Q., et al., Site-specific chromosomal integration in mammalian cells: highly efficient CRE recombinase-mediated cassette exchange. J Mol Biol, 1999. 292(4): p. 779-85.
Thyagarajan, B., et al., Mammalian genomes contain active recombinase recognition sites. Gene, 2000. 244(1-2): p. 47-54.
Diaz, V., et al., The prokaryotic beta-recombinase catalyzes site-specific recombination in mammalian cells. J Biol Chem, 1999. 274(10): p. 6634-40.
Olivares, E.C., R.P. Hollis, and M.P. Calos, Phage R4 integrase mediates site-specific integration in human cells. Gene, 2001. 278(1-2): p. 167-76.
Moskowitz, I.P., K.A. Heichman, and R.C. Johnson, Alignment of recombination sites in Hin-mediated site-specific DNA recombination. Genes Dev, 1991. 5(9): p. 1635-45.
Haykinson, M.J., et al., The Hin dimer interface is critical for Fis-mediated activation of the catalytic steps of site-specific DNA inversion. Curr Biol, 1996. 6(2): p. 163-77.
Merickel, S.K., M.J. Haykinson, and R.C. Johnson, Communication between Hin recombinase and Fis regulatory subunits during coordinate activation of Hin-catalyzed site-specific DNA inversion. Genes Dev, 1998. 12(17): p. 2803-16.
Stark, W.M., M.R. Boocock, and D.J. Sherratt, Site-specific recombination by Tn3 resolvase. Trends Genet, 1989. 5(9): p. 304-9.
Arnold, P.H., et al., Mutants of Tn3 resolvase which do not require accessory binding sites for recombination activity. Embo J, 1999. 18(5): p. 1407-14.
Canosa, I., et al., Site-specific recombination by the beta protein from the streptococcal plasmid pSM19035: minimal recombination sequences and crossing over site. Nucleic acids Res, 1996. 24(14): p. 2712-7.
Canosa, I., et al., beta Recombinase catalyzes inversion and resolution between two inversely oriented six sites on a supercoiled DNA substrate and only inversion on relaxed or linear substrates. J Biol Chem, 1998. 273(22): p. 13886-91.
Muyrers, J.P., et al., Point mutation of bacterial artificial chromosomes by ET recombination. EMBO Rep, 2000. 1(3): p. 239-43.
Muyrers, J.P., et al., Rapid modification of bacterial artificial chromosomes by ET-recombination. Nucleic Acids Res, 1999. 27(6): p. 1555-7.
Yoon, Y.G., J.H. Cho, and S.C. Kim, Cre/loxP-mediated excision and amplification of large segments of theEsherichia coligenome. Genet Anal, 1998. 14(3): p. 89-95.
Cheng, T.H., et al., Controlling gene expression in yeast by inducible site-specific recombination. Nucleic Acid Res, 2000. 38(24): p. E108.
Choi, S., et al., A new approach for the identification and cloning of genes: the pBACwich system using Cre/lox site-specific recombination. Nucleic acids Res, 2000. 28(7): p. E19.
Sclimenti, C.R., B. Thyagarajan, and M.P. Calos, Directed evolution of a recombinase for improved genomic integration at a native human sequence. Nucleic Acids Res, 2001. 29(24): p. 5044-51.
Johnson, R.C., Bacterial Site-Specific DNA Inversion Systems, in Mobile DNA II, N.L. Craig, Craigie, R., Gellert, M., Lambowitz. A. M., Editor. 2002, ASM Press: Washington, D.C. p. 230-271.
Grindley, N.D.F., The Movement of Tn3-Like Elements: Transposition and Cointegrate Resolution, in Mobile DNA II, N.L. Craig, Craigie, R., Gellert, M., Lambowitz. A.M., Editor. 2002. p. 272-302.
Posfai, G., et al., In vivo excision and amplification of large segments of theEscherichia coligenome. Nucleic Acids Res, 1994. 22(12): p. 2392-8.
Buchholz, F., P.O. Angrand, and A.F. Stewart, Improved properties ofFLP recombinase evolved by cycling mutagenesis. Nat Biotechnol, 1998. 16(7): p. 657-62.
Scott, J.R., et al., Conjugative transposition of Tn916: preferred targets and evidence for conjugative transfer of a single strand and for a double-stranded circular intermediate. Mol Microbiol, 1994. 11(6): p. 1099-108.
Poyart-Salmeron, C., et al., The integration-excision system of the conjug
Baker & McKenzie LLP
Fredman Jeffrey
Rice University
LandOfFree
Recombination assembly of large DNA fragments does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Recombination assembly of large DNA fragments, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Recombination assembly of large DNA fragments will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-3732034