Chemistry: molecular biology and microbiology – Micro-organism – tissue cell culture or enzyme using process... – Using bacteria
Reexamination Certificate
2006-10-24
2006-10-24
Nguyen, Dave Trong (Department: 1633)
Chemistry: molecular biology and microbiology
Micro-organism, tissue cell culture or enzyme using process...
Using bacteria
C435S069100, C435S440000, C435S441000, C435S233000, C435S234000, C435S252300, C435S183000, C435S173800, C435S195000, C435S479000, C435S481000, C435S482000, C435S471000
Reexamination Certificate
active
07125695
ABSTRACT:
The present invention provides methods for directing the evolution of microorganisms comprising the use of mutator genes and growth under conditions of selective pressure. The method discloses mutator genes which can be used in the methods of the present invention and provides ATCC deposits which exemplify the evolved microorganisms produced by the methods.
REFERENCES:
patent: 5716785 (1998-02-01), Van Gelder et al.
patent: 5807522 (1998-09-01), Brown et al.
patent: WO/95/35505 (1995-12-01), None
patent: WO 98/21340 (1998-05-01), None
Alexandre et al., “Relationship between ethanol tolerance, lipid composition and plasma membrane fluidity inSaccharomyces cerevisiaeandKloeckera apiculata,” FEMS Microbiol, Lett, vol. 124(1), pp. 17-22 (1994).
Aono et al., “Preparation of Organic Solvent-tolerant Mutants fromEscherichia coliK-12,”Agric. Biol. Chem. vol. 55(7), pp. 1935-1938 (1991).
Bennett et al., “Rapid evolution in response to high-temperature selection,”Nature, vol. 346, pp. 79-81 (1990).
Coia et al., “Use of Mutator Cells as a Means for Increasing Production Levels of a Recombinant Antibody Directed Against Hepatitis B,”Gene, vol. 201, pp. 203-209 (1997).
Cox et al., “Structure and coding properties of a dominantEscherichia colimutator gene, mutD,”Proc Natl. Acad Sci USA, vol. 80, pp. 2295-2299 (1983).
Cruden et al., “Physiological Properties of aPseudomonasStrain Which Grows withp-Xylene in a Two-Phase (Organic-Aqueous) Medium,”Appl. Environ. Microbiol, vol. 58(9): pp. 2723-2729) (1992).
de Bont, “Solvent-tolerant bacteria in biocatalysis,”Trends in Biotechnology, vol. 16: pp. 493-499 (1998).
de Visser et al, “Diminishing Returns from Mutation Supply Rate in Asexual Populations,”Science, vol. 283, pp. 404-406 (1999).
Degenen et al, “Conditional Mutator Gene inEscherichia coli: Is9lation, Mapping, and Effector Studies,”J. Bacteriol, vol. 117, No. 2, pp. 477-487, (1974).
DiFrancesco et al., “The Interaction of DNA Polymerase III and the Product of theEscherichia coliMutator Gene, mutD,”The Journal of Biological Chemistry, vol. 259 (9), pp. 5567-5573 (1984).
Dillon et al., “Spontaneous Mutation at themtrLocus in Neurospora: The Molecular Spectrum in Wild-Type and a Mutator Strain,”Genetics, vol. 138(1), pp. 61-74 (1994).
Eigen et al, “The Origin of Genetic Information: Viruses as Models,”Gene, vol. 135, pp. 37-47 (1993).
Ginetti, “Bacillus subtilis mutS mutLoperon : identification, nucleotide sequence and mutagenesis,”Microbiology, vol. 142 (Pt 8), pp. 2021-2029 (Aug. 1996).
Greener et al., “Strategies In Molecular Biology,” vol. 7, pp. 32-34, (1994).
Greener, et al., “An Efficient Random Mutagenesis Technique Using anE. coliMutator Strain,” Molecular Biotechnology (1997) vol. 7, pp. 189-195 (XP-000974365).
Hall et al., “Evolutionary Potential of theebgA Gene,”Mol. Biol. Evol., vol. 12, No. 3, pp. 514-517 (1995).
Harder et al., “A Review Microbial Selection in Continuous Culture,” vol. 43, pp. 1-24 (1977).
Heery et al., “Curing of a plasmid fromE. coli, using high-voltage electroporation,”Nucl. Acids. Res., E. coli, vol. 17, pp. 10131 (1989).
Horiuchi et al., “A New Conditional Lethal Mutator (dnaQ49) inEscherichla coliK12,”Mol. Gen. Genetics, vol. 163, pp. 277-283 (1978).
Inoue, “APseudomonasthrives in high concentrations of toluene,”Nature, vol. 338, pp. 264-266 (1989).
Irving et al., “Affinity Maturation of Recombinant Antibodies UsingE. coliMutator Cells,”Immunotechnology, vol. 2, pp. 127-143 (1996).
Isken et al, “ Bacteria tolerant to organic solvents,”Extremophiles, vol. 2 (3), pp. 229-238 (1998).
Kieboom et al., “Active Efflux of Organic Solvents byPseudomonas putidaS12 Is Induced by Solvents, ” J. Bacteriology, vol. 180(24), pp. 6769-6772 (1998).
MacDonald et al., “Microsatellite Instability and Loss of Heterozygosity at DNA Mismatch Repair Gene Loci occurs During Hepatic Carcinogenesis,”Heptology, vol. 28(1), pp. 90-97 (1998).
Maki et al., “Structure and expression of thednaQ mutator and the RNase H genes ofEscherichia coli: Overlap of the promoter regions,”Proc. Natl. Acad. Sci., U.S.A. vol. 80, pp. 7137-7141 (1983).
Mao et al., “Proliferation of Mutators in A Cell Population,”Journal of Bacteriology, V. 179 (2), pp. 417-422 (1997).
Maruyama et al., “A Dominant (mutD5) and a Recessive (dnaQ49) Mutator ofEscherichia coli.,” Journal of Molecular Biology, vol. 167, pp. 757-771 (1983).
Miller, J. H., “A Short Course in Bacterial Genetics,”Cold Spring Harbor Lab Press, pp. 110-113 (1992).
Miller, “Experiments in Molecular Genetics,” Episomes,E.Coli, AcridineOrange Molecular Genetics, p. 140 (1972).
Naki et al., “Selection of a subtillsin-hyperproducingBacillusin a highly structured environment,” Appl. Microbiol. Biotechnol. (1998) 49: pp. 290-294 (XP-000972404).
Pham et al, “The Base Substitution and Frameshift Fidelity ofEscherichia coliDNA Polymerase III Holoenzyme in Vitro,”J. of Biol. Chem., vol. 273(36) pp. 23575-23584 (1998).
Pinkart et al., “Phospholipid Biosynthesis and Solvent Tolerance inPseudomonas putidaStrains,”J. Bacteriol, vol. 179(13), pp. 4219-4226 (1997).
Priebe et al., “Nucleotide Sequence of thehexAGene for DNA Mismatch Repair inStreptococcus pneumoniaeand Homology ofhexAtomutSofEscherichia coliandSalmonella typhimurium,” J. Bacteriol, vol. 170(1), pp. 190-196 (1988).
Prudhomme et al., “Mismatch Repair Genes ofStreptococcus pneumoniae: HexA Confers a Mutator Phenotype inEscherichia coliby Negative Complementation,”J. Bacteriol.; vol. 173(22), (1991).
Prudhomme et al., “Nucleotide Sequence of theStreptococcus pneumoniaehexB Mismatch Repair Gene: Homology of HexB to MutL ofSalmonellatyphimurium and to PMS1 ofSaccharomyces cerevisiae,” J. Bacteriology, vol. 171 (10), pp. 5332-5338 (1989).
Ramos, et al., “Mechanisms for Solvent Tolerance in Bacteria,”J. Biol. Chem, vol. 272(7), pp. 3887-3890 (1997).
Roa, et al., “Changing the substrate specificity of penicillin G acylase fromKluyvera citrophilathrough selective pressure,” Biochem. J. (1994) 303, pp. 8*69-876 (XP-000972422).
Schaaper, “An Escherichia coli dnaE Mutation with Suppressor Activity toward Mutator mutD5,”Journal of Bacteriology, vol. 174(6), pp. 1974-1982 (1992).
Schaaper, “Mechanisms of Mutagenesis in theEscherichia colimutator mutD5: Role of DNA mismatch repair,”PNAS, vol. 85, pp. 8126-8130 (1988).
Schellenberger, “Directed evolution of subtillsin for improved surface proteolysis,” (1998) BTEC 73, vol. 216, No. 1-3 (XP000972454).
Sniegowski et al, “Evolution of high mutation rates in experimental populations ofE. coli,” Nature, vol. 387, pp. 703-705 (1997).
Snyder et al, “Molecular genetics of bacteria.”American Society for Microbiology, chap. 3: pp. 85-89 (1997).
Taddei et al, “Role of mutator alleles in adaptive evolution,”Nature, vol. 387, pp. 700-702 (1997).
Taft-Benz et al., “Mutational analysis of the 3′→5′proofreading exonuclease ofEscherichia coliDNA polymerase III,”Nucl. Acids Res., vol. 26(17), pp. 4005-4011 (1998).
Takano et al., “Structure and function ofdnaQ andmutD mutators ofEscherichia coli,” Mol. Gen. Genet., vol. 205(1), pp. 9-13 (1986).
Trobner et al, “Selection against hypermutability inEscherichia collduring long term evolution,”Mol. Gen Genet, vol. 198, pp. 177-178 (1984).
Weber et al., “Adaptation ofpseudomonas putidaS12 to High Concentrations of Styrene and Other Organic Solvents,”Appl. Environ. Microbiol, vol. 59(10), pp. 3502-3504) (1993).
Yamagishi et al., “Mutational analysis of structure
Liu Amy D.
Schellenberger Volker
Selifonova Olga V.
Genencor International Inc.
Genencor International Inc.
Marvich Maria
Nguyen Dave Trong
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