Efficient markerless gene replacement in Corynebacterium glutamicum using a new temperature-sensitive plasmid

Journal of Microbiological Methods

Volumn 85, Issue 2, 2011, Pages 155-163

  Okibe, Naoko ^a   Suzuki, Nobuaki ^a   Inui, Masayuki ^a   Yukawa, Hideaki ^a  

^a RESEARCH INSTITUTE OF INNOVATIVE TECHNOLOGY FOR THE EARTH   (Japan)

Author keywords

Corynebacterium glutamicum; Markerless gene replacement; PCGR2; SacB; Temperature sensitive plasmid

Indexed keywords

BACTERIAL PROTEIN; HYDROXYLAMINE; MESSENGER RNA; PLASMID DNA; PROTEIN REPA; REPLICASE; SUCROSE; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; ARTICLE; BACILLUS SUBTILIS; BACTERIAL CHROMOSOME; BACTERIAL MUTATION; BACTERIAL STRAIN; BACTERIUM COLONY; COLONY FORMATION; CONTROLLED STUDY; CORYNEBACTERIUM GLUTAMICUM; ESCHERICHIA COLI; GENE DISRUPTION; GENETIC RECOMBINATION; GENETIC SELECTION; GENOMIC INSTABILITY; INCUBATION TEMPERATURE; INHIBITION KINETICS; MARKERLESS GENE REPLACEMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; PRIORITY JOURNAL; PROTEIN DOMAIN; RECOMBINANT GENE; REPLICON; SHUTTLE VECTOR; TEMPERATURE DEPENDENCE; TEMPERATURE SENSITIVE PLASMID; WILD TYPE;

CORYNEBACTERIUM GLUTAMICUM; GENE SILENCING; GENE TARGETING; GENETIC MARKERS; GENETIC VECTORS; PLASMIDS; TEMPERATURE;

BACILLUS SUBTILIS; BACTERIA (MICROORGANISMS); CORYNEBACTERIUM GLUTAMICUM; ESCHERICHIA COLI;

EID: 79953225830     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2011.02.012     Document Type: Article

References (43)

1. Bhowmik T., Fernandez L., Steele J.L. Gene replacement in Lactobacillus helveticus. J. Bacteriol. 1993, 175:6341-6344.
2. Blomfield I.C., Vaughn V., Rest R.F., Eisenstein B.I. Allelic exchange in Escherichia coli using the Bacillus subtilis sacB gene and a temperature-sensitive pSC101 replicon. Mol. Microbiol. 1991, 5:1447-1457.
3. Bonnassie S., Burini J.F., Oreglia J., Trautwetter A., Patte J.C., Sicard A.M. Transfer of plasmid DNA to Brevibacterium lactofermentum by electrotransformation. J. Gen. Microbiol. 1990, 136:2107-2112.
4. Hamilton C.M., Aldea M., Washburn B.K., Babitzke P., Kushner S.R. New method for generating deletions and gene replacements in Escherichia coli. J. Bacteriol. 1989, 171:4617-4622.
5. Hashimoto-Gotoh T., Yamaguchi M., Yasojima K., Tsujimura A., Wakabayashi Y., Watanabe Y. A set of temperature sensitive-replication/-segregation and temperature resistant plasmid vectors with different copy numbers and in an isogenic background (chloramphenicol, kanamycin, lacZ, repA, par, polA). Gene 2000, 241:185-191.
6. Ikeda M., Katsumata R. A novel system with positive selection for the chromosomal integration of replicative plasmid DNA in Corynebacterium glutamicum. Microbiology 1998, 144:1863-1868.
7. Inui M., Kawaguchi H., Murakami S., Vertès A.A., Yukawa H. Metabolic engineering of Corynebacterium glutamicum for fuel ethanol production under oxygen-deprivation conditions. J. Mol. Microbiol. Biotechnol. 2004, 8:243-254.
8. Inui M., Murakami S., Okino S., Kawaguchi H., Vertès A.A., Yukawa H. Metabolic analysis of Corynebacterium glutamicum during lactate and succinate productions under oxygen deprivation conditions. J. Mol. Microbiol. Biotechnol. 2004, 7:182-196.
9. Inui M., Suda M., Okino S., Nonaka H., Puskas L.G., Vertès A.A., et al. Transcriptional profiling of Corynebacterium glutamicum metabolism during organic acid production under oxygen deprivation conditions. Microbiology 2007, 153:2491-2504.
10. Irani V.R., Lee S.H., Eckstein T.M., Inamine J.M., Belisle J.T., Maslow J.N. Utilization of a ts-sacB selection system for the generation of a Mycobacterium avium serovar-8 specific glycopeptidolipid allelic exchange mutant. Ann. Clin. Microbiol. Antimicrob. 2004, 3:18.
11. Jäger W., Schäfer A., Kalinowski J., Pühler A. Isolation of insertion elements from gram-positive Brevibacterium, Corynebacterium and Rhodococcus strains using the Bacillus subtilis sacB gene as a positive selection marker. FEMS Microbiol. Lett. 1995, 126:1-6.
12. Jäger W., Schäfer S., Pühler A., Labes G., Wohlleben W. Expression of the Bacillus subtilis sacB gene leads to sucrose sensitivity in the gram-positive bacterium Corynebacterium glutamicum but not in Streptomyces lividans. J. Bacteriol. 1992, 174:5462-5465.
13. Kim J.M., Lee K.H., Lee S.Y. Development of a markerless gene knock-out system for Mannheimia succiniciproducens using a temperature-sensitive plasmid. FEMS Microbiol. Lett. 2008, 278:78-85.
14. Kinoshita S., Udaka S., Shimono M. Studies on the amino acid fermentation. Part I. Production of l-glutamic acid by various microorganisms. J. Gen. Microbiol. 1957, 3:193-205.
15. Kirchner O., Tauch A. Tools for genetic engineering in the amino acid-producing bacterium Corynebacterium glutamicum. J. Biotechnol. 2003, 104:287-299.
16. Krubasik P., Kobayashi M., Sandmann G. Expression and functional analysis of a gene cluster involved in the synthesis of decaprenoxanthin reveals the mechanisms for C50 carotenoid formation. Eur. J. Biochem. 2001, 268:3702-3708.
17. Labarre J., Reyes O., Guyonvarch A., Leblon G. Gene replacement, integration, and amplification at the gdhA locus of Corynebacterium glutamicum. J. Bacteriol. 1993, 175:1001-1007.
18. Maguin E., Duwat P., Hege T., Ehrlich D., Gruss A. New thermosensitive plasmid for gram-positive bacteria. J. Bacteriol. 1992, 174:5633-5638.
19. Marchler-Bauer A., Anderson J.B., Chitsaz F., Derbyshire M.K., DeWeese-Scott C., Fong J.H., et al. CDD: specific functional annotation with the Conserved Domain Database. Nucleic Acids Res. 2009, 37:D205-D210.
20. Nakamura J., Kanno S., Kimura E., Matsui K., Nakamatsu T., Wachi M. Temperature-sensitive cloning vector for Corynebacterium glutamicum. Plasmid 2006, 56:179-186.
21. Noirot P., Petit M.A., Ehrlich S.D. Plasmid replication stimulates DNA recombination in Bacillus subtilis. J. Mol. Biol. 1987, 196:39-48.
22. Okino S., Noburyu R., Suda M., Jojima T., Inui M., Yukawa H. An efficient succinic acid production process in a metabolically engineered Corynebacterium glutamicum strain. Appl. Microbiol. Biotechnol. 2008, 81:459-464.
23. Pelicic V., Jackson M., Reyrat J.M., Jacobs W.R., Gicquel B., Guilhot C. Efficient allelic exchange and transposon mutagenesis in Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. U. S. A. 1997, 94:10955-10960.
24. Quevillon E., Silventoinen V., Pillai S., Harte N., Mulder N., Apweiler R., et al. InterProScan: protein domains identifier. Nucleic Acids Res. 2005, 33:W116-W120.
25. Reyrat J.M., Pelicic V., Gicquel B., Rappuoli R. Counterselectable markers: untapped tools for bacterial genetics and pathogenesis. Infect. Immun. 1998, 66:4011-4017.
26. Sambrook J., Fritsch E.F., Maniatis T. Molecular Cloning: A Laboratory Manual 1989, Cold Spring Harbor, New York. second ed.
27. Sasaki M., Jojima T., Kawaguchi H., Inui M., Yukawa H. Engineering of pentose transport in Corynebacterium glutamicum to improve simultaneous utilization of mixed sugars. Appl. Microbiol. Biotechnol. 2009, 85:105-115.
28. Schäfer A., Tauch A., Jäger W., Kalinowski J., Thierbach G., Pühler A. Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum. Gene 1994, 145:69-73.
29. Schwarzer A., Pühler A. Manipulation of Corynebacterium glutamicum by gene disruption and replacement. Biotechnology (NY) 1991, 9:84-87.
30. Shatalin K.Y., Neyfakh A.A. Efficient gene inactivation in Bacillus anthracis. FEMS Microbiol. Lett. 2005, 245:315-319.
31. Silo-Suh L.A., Elmore B., Ohman D.E., Suh S.J. Isolation, characterization, and utilization of a temperature-sensitive allele of a Pseudomonas replicon. J. Microbiol. Meth. 2009, 78:319-324.
32. Stadthagen G., Sambou T., Guerin M., Barilone N., Boudou F., Kordulakova J., et al. Genetic basis for the biosynthesis of methylglucose lipopolysaccharides in Mycobacterium tuberculosis. J. Biol. Chem. 2007, 282:27270-27276.
33. Sugimoto M., Kojima H., Tanaka A., Matsui H., Sato K., Nakamatsu T. Temperature-sensitive plasmid. Jpn Kokai Tokkyo Koho 1993, JP07203977A.
34. Tauch A., Pühler A., Kalinowski J., Thierbach G. Plasmids in Corynebacterium glutamicum and their molecular classification by comparative genomics. J. Biotechnol. 2003, 104:27-40.
35. Tauch A. Native plasmids of amino acid-producing corynebacteria. Handbook of Corynebacterium glutamicum 2005, 57-80. CRC Press, Boca Raton. L. Eggeling, M. Bott (Eds.).
36. Toyoda K., Teramoto H., Inui M., Yukawa H. The ldhA gene, encoding fermentative l-lactate dehydrogenase of Corynebacterium glutamicum, is under the control of positive feedback regulation mediated by LldR. J. Bacteriol. 2009, 191:4251-4258.
37. Tsuchida Y., Kimura S., Suzuki N., Inui M., Yukawa H. Characterization of a new 2.4-kb plasmid of Corynebacterium casei and development of stable corynebacterial cloning vector. Appl. Microbiol. Biotechnol. 2009, 81:1107-1115.
38. Tsuchida Y., Kimura S., Suzuki N., Inui M., Yukawa H. Characterization of a 24-kb plasmid pCGR2 newly isolated from Corynebacterium glutamicum. Appl. Microbiol. Biotechnol. 2010, 87:1855-1866.
39. van der Rest M.E., Lange C., Molenaar D. A heat shock following electroporation induces highly efficient transformation of Corynebacterium glutamicum with xenogeneic plasmid DNA. Appl. Microbiol. Biotechnol. 1999, 52:541-545.
40. Vertès A., Hatakeyama K., Inui M., Kobayashi M., Kurusu Y., Yukawa H. Replacement recombination in coryneform bacteria: high efficiency integration requirement for non-methylated plasmid DNA. Biosci. Biotech. Biochem. 1993, 57:2036-2038.
41. Wehmeier L., Brockmann-Gretza O., Pisabarro A., Tauch A., Pühler A., Martin J.F., et al. A Corynebacterium glutamicum mutant with a defined deletion within the rplK gene is impaired in (p)ppGpp accumulation upon amino acid starvation. Microbiology 2001, 147:691-700.
42. Yukawa H., Omumasaba C.A., Nonaka H., Kós P., Okai N., Suzuki N., et al. Comparative analysis of the Corynebacterium glutamicum group and complete genome sequence of strain R. Microbiology 2007, 153:1042-1058.
43. Zdobnov E.M., Apweiler R. InterProScan-an integration platform for the signature-recognition methods in InterPro. Bioinformatics 2001, 17:847-848.