Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2006-03-28
2006-03-28
Nashed, Nashaat T. (Department: 1652)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S183000, C435S200000, C536S023200
Reexamination Certificate
active
07018793
ABSTRACT:
Provided is a method of screening gene libraries derived from a mixed population of organisms for a bioactivity or biomolecule of interest. The mixed population of organisms can be a cultured population or an uncultured population from, for example, the environment. Also provided are methods of screening isolates or enriched populations of organisms, which isolates include a population that is spatially, temporally, or hierarchical, for example, of a particular species, genus, family, or class of organisms. Identified clones containing a biomolecule or bioactivity of interest can be further variegated or the DNA contained in the clone can be variegated to create novel biomolecules or bioactivities of interest.
REFERENCES:
patent: 4683202 (1987-07-01), Mullis
patent: 4800159 (1989-01-01), Mullis et al.
patent: 4959312 (1990-09-01), Sirotkin
patent: 4965188 (1990-10-01), Mullis et al.
patent: 5096815 (1992-03-01), Ladner et al.
patent: 5176995 (1993-01-01), Sninsky et al.
patent: 5187083 (1993-02-01), Mullis
patent: 5198346 (1993-03-01), Ladner et al.
patent: 5223409 (1993-06-01), Ladner et al.
patent: 5234824 (1993-08-01), Mullis
patent: 5316935 (1994-05-01), Arnold et al.
patent: 5333675 (1994-08-01), Mullis et al.
patent: 5352778 (1994-10-01), Comb et al.
patent: 5354656 (1994-10-01), Sorge et al.
patent: 5389537 (1995-02-01), Raines et al.
patent: 5500363 (1996-03-01), Comb et al.
patent: 5605793 (1997-02-01), Stemmer
patent: 5645988 (1997-07-01), Vande Woude et al.
patent: 5723323 (1998-03-01), Kauffman et al.
patent: 5763192 (1998-06-01), Kauffman et al.
patent: 5789166 (1998-08-01), Bauer et al.
patent: 5811238 (1998-09-01), Stemmer et al.
patent: 5814476 (1998-09-01), Kauffman et al.
patent: 5817483 (1998-10-01), Kauffman et al.
patent: 5824485 (1998-10-01), Thompson et al.
patent: 5824514 (1998-10-01), Kauffman et al.
patent: 5830721 (1998-11-01), Stemmer et al.
patent: 5837458 (1998-11-01), Minshull et al.
patent: 5849491 (1998-12-01), Radomski et al.
patent: 5885577 (1999-03-01), Alvarez
patent: 5885827 (1999-03-01), Wabl et al.
patent: 5932419 (1999-08-01), Bauer et al.
patent: 5939250 (1999-08-01), Short
patent: 5945329 (1999-08-01), Breddam et al.
patent: 5965408 (1999-10-01), Short
patent: 5976862 (1999-11-01), Kauffman et al.
patent: 6004788 (1999-12-01), Short
patent: 6054267 (2000-04-01), Short
patent: 6057103 (2000-05-01), Short
patent: WO 90/ 02809 (1990-03-01), None
patent: WO 91/12341 (1991-08-01), None
patent: WO 91/16427 (1991-10-01), None
patent: WO 95 20039 (1995-07-01), None
patent: WO 95/22625 (1995-08-01), None
patent: WO 96/06188 (1996-02-01), None
patent: WO 96/09411 (1996-03-01), None
patent: WO 96/41865 (1996-12-01), None
patent: WO 97/20078 (1997-06-01), None
patent: WO 97/20950 (1997-06-01), None
patent: WO 97/35957 (1997-10-01), None
patent: WO 98/32845 (1998-07-01), None
patent: WO 98/38297 (1998-09-01), None
patent: WO 98/45331 (1998-10-01), None
patent: WO 98/48024 (1998-10-01), None
patent: WO 98/49286 (1998-11-01), None
patent: WO 98/58080 (1998-12-01), None
patent: WO 99/36553 (1999-07-01), None
Dube et al., “Artificial Mutants Generated by the Insertion of Random Oligonucleotides into the Putative Nucleoside Binding Site of the HSV-1 Thymidine Kinase Gene,”Biochemistry30:11760-11767 (1991).
Hennecke et al., “Concurrent evolution of nitrogenase genes and 16S rRNA in Rhizobium species and other nitrogen fixing bacteria,”Archives of Microbiology142:342-348 (1985).
Kirshtein et al., “Amplification, cloning, and sequencing of a niH segment from aquatic microorganisms and natural communities,”Applied and Environmental Microbiology56(9):2645-2650 (1991).
Osuna et al., “Combinatorial mutagenesis of three major groove-contacting residues of EcoRI: single and double amino acid replacements retaining methyltransferase-sensitive activities,”Gene106:7-12 (1991).
Stein and Felback, “Kinetic and physical properties of a recombinant RuBisCO from a chemoautotrophic endosymbiont,”Molecular Marine Biology and Biotechnology2(5):280-290 (1993).
Ueda et al., “Remarkable N2-fixing bacterial diversity detected in rice roots by molecular evolution analysis of nifH gene sequences,”Journal of Bacteriorology177(5):1414-1417 (1995).
Zhou et al., “Random mutagenesis of gene-sized DNA molecules by use of PCR with Taq DNA polymerase,”Nucleic Acid Research19(21):6052 (1991).
Arkin and Youvan, “Optimizing nucleotide mixtures to encode specific subsets of amino acids for semi-radom mutagenesis,”Bio-technology(NY) 10(3): 297-300 (Mar. 1992).
Burks et al., “In vitro scanning saturation mutagenesis of an antibody binding pocket,”Proc Natl Acad Sci USA94(2): 412-417 (Jan. 21, 1997).
Cadwell and Joyce, “Randomization of Genes by PCR Mutagenesis”, PCR Methods and Applications, 2:28-33 (1992).
Chen and Struhl, “Saturation mutagenesis of a yeast his3 “TATA element”: genetic evidence for a specific TATA-binding protein,”Proc. Natl Acad Sci USA85(8): 2691-2695 (Apr. 1988).
Chiang et al., “Mutagenic oligonucleotide-directed PCR amplification (Mod-PCR): an efficient method for generation random base substitution mutations in a DNS sequence element,”PCR Methods Appl2(3): 210-217 (Feb. 1993).
Christian et al, “Simplified methods for construction, assessment and rapid screening of peptide libraries in bacteriophage,”J Mol Biol227(3): 711-718 (Oct. 5, 1992).
Crameri et al., “Construction and evolution of antibody-phage libraries by DNA shuffling”, Nature Medicine 2:100-101 (1996).
Cunniff and Mrogan, “Analysis of heat shock element recognition by saturation mutagenesis of the human HSP70.1 gene promoter,”J Biol Chem268(11): 8317-8324 (Apr. 15, 1993).
Dennis and Lazarus, “Kunitz domain inhibitors of tissue factor-factor VIIa. I. Protent inhibitors selected from libraries by phage display,”J Biol Chem269(35): 22129-22136 (Sep. 2, 1994).
Derbyshire et al., “A simple and efficient procedure for saturation mutagenesis using mixed oligodeoxynucleotides,”Gene46(2-3): 145-152 (1986).
Goff et al., “Efficient saturation mutagenesis of a pentapeptide coding sequence using mixed oligonucleotides,”DNA6(4): 381-388 (Aug. 1987).
Hermes et al., “Searching sequence space by definably random mutagenesis: Improving the catalytic potency of an enzyme”, PNAS USA 87:696-700 (Jan. 1990).
Horwitz and DiMaio, “Saturation mutagenesis using mixed oligonucleotides and M13 templates containing uracil,”Methods Enzymol185: 599-611 (1990).
Ihara et al., Requirement of the Pro-Cys-His-Arg sequence for O6methylguanine DNA methylransferase activity revealed by saturation mutagenesis with negative and positive screening,Mol Gen Genet243(4): 379-389 (May 25, 1994).
Krishnan et al., “Direct and crossover PCR amplifications to facilitate Tn5supF-based sequencing of alpha phage clones”, Nucl. Acids Res. 19:6177-82 (1991).
J.W. Little, “Saturation mutagenesis of specific codons: elimination of molecule with stop codons from mixed pools of DNA,”Gene88(1): 113-115 (Mar. 30, 1990).
Marks et al., “Bypassing Immunization: Building High Affinity Human Antibodies by Chain Shuffling”, Biotechnology 10:779-783.
Meyerhans et al., “DNA recombination during PCR,” Nucelic Acids Res. 18:1687-91 (1990).
Moore et al., “Strategies for the in vitro Evolution of Protein Function: Enzyme Evolution by Random Recombination of Improved Sequences”, J. Mol. Biol. 272:336-347 (1997).
Morris and McIvor, “Saturation mutagenesis at dihydrofolate reductase codons 22 and 31. A variety of amino acid substitutions conferring methotrexate resistance,”Biochem Pharmacol47(7): 1207-1220 (Mar. 29, 1994).
Olesen and Kielland-Brandt, “Altering substrate preference of carboxypeptidase Y by a novel strategy of mutagenesis eliminating wild type backgroun,”Protein Eng6(4): 409-415 (Ju
Diversa Corporation
Nashed Nashaat T.
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