Use of lambda Red-mediated recombineering and Cre/lox for generation of markerless chromosomal deletions in avian pathogenic Escherichia coli

FEMS Microbiology Letters

Volumn 325, Issue 2, 2011, Pages 140-147

  Tuntufye, Huruma N ^a,b   Goddeeris, Bruno M ^a  

^a UNIVERSITY OF LEUVEN   (Belgium)

^b SOKOINE UNIVERSITY OF AGRICULTURE   (Tanzania)

Author keywords

Avian pathogenic Escherichia coli mutants; Counter selection; Cre recombinase; Fiu; LoxP cassette; RpsL

Indexed keywords

AMPICILLIN; KANAMYCIN; NEOMYCIN; STREPTOMYCIN; TETRACYCLINE;

ANTIBIOTIC RESISTANCE; ANTIBIOTIC SENSITIVITY; ARTICLE; AVIAN PATHOGENIC ESCHERICHIA COLI; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL GROWTH; BACTERIAL STRAIN; CHROMOSOME DELETION; CONTROLLED STUDY; CRE LOX SYSTEM; FIU GENE; GENE AMPLIFICATION; GENETIC PROCEDURES; GENETIC RECOMBINATION; LAMBDA RED MEDIATED RECOMBINEERING; LOXP SITE; NEO GENE; NONHUMAN; PLASMID; PRIORITY JOURNAL; RPSL GENE;

ANIMALS; BACTERIOPHAGE LAMBDA; CELL PROLIFERATION; CHICKENS; CLONING, MOLECULAR; ESCHERICHIA COLI; ESCHERICHIA COLI INFECTIONS; GENE DELETION; GENETIC ENGINEERING; INTEGRASES; MUTATION; OPERON; POLYMERASE CHAIN REACTION; POULTRY DISEASES; RECOMBINATION, GENETIC; REPRODUCIBILITY OF RESULTS; VIRAL PROTEINS;

EID: 81855166264     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2011.02421.x     Document Type: Article

References (41)

1. Abremski K & Hoess R (1985) Phage P1 Cre-loxP site-specific recombination. Effects of DNA supercoiling on catenation and knotting of recombinant products. J Mol Biol 184: 211-220.
2. Abremski K, Wierzbicki A, Frommer B & Hoess R (1986) Bacteriophage P1 Cre-loxP site-specific recombination. Site-specific DNA topoisomerase activity of the Cre recombination protein. J Biol Chem 261: 391-396.
3. Anastassiadis K, Fu J, Patsch C et al. (2009) Dre recombinase, like Cre, is a highly efficient site-specific recombinase in E. coli, mammalian cells and mice. Dis Model Mech 2: 508-515.
4. Banerjee A & Biswas I (2008) Markerless multiple-gene-deletion system for Streptococcus mutans. Appl Environ Microbiol 74: 2037-2042.
5. Campo N, Daveran-Mingot M, Leenhouts K, Ritzenthaler P & Le Bourgeois P (2002) Cre-loxP recombination system for large genome rearrangements in Lactococcus lactis. Appl Environ Microbiol 68: 2359-2367.
6. Curtis N, Eisenstadt R, East S, Cornford R, Walker L & White A (1988) Iron-regulated outer membrane proteins of Escherichia coli K-12 and mechanism of action of catechol-substituted cephalosporins. Antimicrob Agents Chemother 32: 1879-1886.
7. Datsenko K & Wanner B (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. P Natl Acad Sci USA 97: 6640-6645.
8. Dho-Moulin M & Fairbrother JM (1999) Avian pathogenic Escherichia coli (APEC). Vet Res 30: 299-316.
9. Dziva F & Stevens M (2008) Colibacillosis in poultry: unravelling the molecular basis of virulence of avian pathogenic Escherichia coli in their natural hosts. Avian Pathol 37: 355-366.
10. Fukiya S, Mizoguchi H & Mori H (2004) An improved method for deleting large regions of Escherichia coli K-12 chromosome using a combination of Cre/loxP and lambda Red. FEMS Microbiol Lett 234: 325-331.
11. Gerlach R, Jäckel D, Hölzer S & Hensel M (2009) Rapid oligonucleotide-based recombineering of the chromosome of Salmonella enterica. Appl Environ Microbiol 75: 1575-1580.
12. Gill A & Amyes S (2004) The contribution of a novel ribosomal S12 mutation to aminoglycoside resistance of Escherichia coli mutants. J Chemother 16: 347-349.
13. Hantke K, Nicholson G, Rabsch W & Winkelmann G (2003) Salmochelins, siderophores of Salmonella enterica and uropathogenic Escherichia coli strains, are recognized by the outer membrane receptor IroN. P Natl Acad Sci USA 100: 3677-3682.
14. Heermann R, Zeppenfeld T & Jung K (2008) Simple generation of site-directed point mutations in the Escherichia coli chromosome using Red(R)/ET(R) Recombination. Microb Cell Fact 7: 14.
15. Johnson T, Kariyawasam S, Wannemuehler Y et al. (2007) The genome sequence of avian pathogenic Escherichia coli strain O1:K1:H7 shares strong similarities with human extraintestinal pathogenic E. coli genomes. J Bacteriol 189: 3228-3236.
16. Karimi R & Ehrenberg M (1994) Dissociation rate of cognate peptidyl-tRNA from the A-site of hyper-accurate and error-prone ribosomes. Eur J Biochem 226: 355-360.
17. Karimi R & Ehrenberg M (1996) Dissociation rates of peptidyl-tRNA from the P-site of E.coli ribosomes. EMBO J 15: 1149-1154.
18. Lambert J, Bongers R & Kleerebezem M (2007) Cre-lox-based system for multiple gene deletions and selectable-marker removal in Lactobacillus plantarum. Appl Environ Microbiol 73: 1126-1135.
19. Lee D, Bingle L, Heurlier K, Pallen M, Penn C, Busby S & Hobman J (2009) Gene doctoring: a method for recombineering in laboratory and pathogenic Escherichia coli strains. BMC Microbiol 9: 252.
20. Murphy K & Campellone K (2003) Lambda Red-mediated recombinogenic engineering of enterohemorrhagic and enteropathogenic E. coli. BMC Mol Biol 4: 11.
21. Muyrers J, Zhang Y, Benes V, Testa G, Ansorge W & Stewart A (2000) Point mutation of bacterial artificial chromosomes by ET recombination. EMBO Rep 1: 239-243.
22. Nagy A (2000) Cre recombinase: the universal reagent for genome tailoring. Genesis 26: 99-109.
23. Newman D & Shapiro J (1999) Differential fiu-lacZ fusion regulation linked to Escherichia coli colony development. Mol Microbiol 33: 18-32.
24. Nikaido H & Rosenberg EY (1990) Cir and Fiu proteins in the outer membrane of Escherichia coli catalyze transport of monomeric catechols: study with beta-lactam antibiotics containing catechol and analogous groups. J Bacteriol 172: 1361-1367.
25. Ons E, Bleyen N, Tuntufye H, Vandemaele F & Goddeeris B (2007) High prevalence iron receptor genes of avian pathogenic Escherichia coli. Avian Pathol 36: 411-414.
26. Pelicic V, Reyrat J & Gicquel B (1996) Expression of the Bacillus subtilis sacB gene confers sucrose sensitivity on mycobacteria. J Bacteriol 178: 1197-1199.
27. Rabsch W, Methner U, Voigt W, Tschäpe H, Reissbrodt R & Williams PH (2003) Role of receptor proteins for enterobactin and 2, 3-dihydroxybenzoylserine in virulence of Salmonella enterica. Infect Immun 71: 6953-6961.
28. Reyrat J, Pelicic V, Gicquel B & Rappuoli R (1998) Counterselectable markers: untapped tools for bacterial genetics and pathogenesis. Infect Immun 66: 4011-4017.
29. Rivero-Müller A, Lajić S & Huhtaniemi I (2007) Assisted large fragment insertion by Red/ET-recombination (ALFIRE)-an alternative and enhanced method for large fragment recombineering. Nucleic Acids Res 35: e78.
30. Sambrook J, Fritsch E & Maniatis T (1989) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
31. Suzuki N, Tsuge Y, Inui M & Yukawa H (2005) Cre/loxP-mediated deletion system for large genome rearrangements in Corynebacterium glutamicum. Appl Microbiol Biotechnol 67: 225-233.
32. Thomson J, Rucker EB III & Piedrahita J (2003) Mutational analysis of loxP sites for efficient Cre-mediated insertion into genomic DNA. Genesis 36: 162-167.
33. Vandemaele F, Mugasa J, Vandekerchove D & Goddeeris B (2003) Predominance of the papGII allele with high sequence homology to that of human isolates among avian pathogenic Escherichia coli (APEC). Vet Microbiol 97: 245-257.
34. Warming S, Costantino N, Court D, Jenkins N & Copeland N (2005) Simple and highly efficient BAC recombineering using galK selection. Nucleic Acids Res 33: e36.
35. Wookey P & Rosenberg H (1978) Involvement of inner and outer membrane components in the transport of iron and in colicin B action in Escherichia coli. J Bacteriol 133: 661-666.
36. Yoon Y, Cho J & Kim S (1998) Cre/loxP-mediated excision and amplification of large segments of the Escherichia coli genome. Genet Anal 14: 89-95.
37. Yu D, Ellis H, Lee E, Jenkins N, Copeland N & Court D (2000) An efficient recombination system for chromosome engineering in Escherichia coli. P Natl Acad Sci USA 97: 5978-5983.
38. Yu B, Sung B, Koob M et al. (2002) Minimization of the Escherichia coli genome using a Tn5-targeted Cre/loxP excision system. Nat Biotechnol 20: 1018-1023.
39. Zhang Y, Buchholz F, Muyrers J & Stewart A (1998) A new logic for DNA engineering using recombination in Escherichia coli. Nat Genet 20: 123-128.
40. Zhang Y, Muyrers J, Rientjes J & Stewart A (2003) Phage annealing proteins promote oligonucleotide-directed mutagenesis in Escherichia coli and mouse ES cells. BMC Mol Biol 4: 1.
41. Zhu M, Valdebenito M, Winkelmann G & Hantke K (2005) Functions of the siderophore esterases IroD and IroE in iron-salmochelin utilization. Microbiology 151: 2363-2372.