Genetic engineering of untransformable coagulase-negative staphylococcal pathogens

Nature Protocols

Volumn 11, Issue 5, 2016, Pages 949-959

  Winstel, Volker ^a,b,d   Kühner, Petra ^a,b   Rohde, Holger ^c   Peschel, Andreas ^a,b  

^a UNIVERSITY OF TÜBINGEN   (Germany)

^b German Center for Infection Research (DZIF)   (Germany)

^c UNIVERSITY MEDICAL CENTER HAMBURG EPPENDORF   (Germany)

^d UNIVERSITY OF CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PLASMID DNA; COAGULASE;

ARTICLE; BACTERIAL CELL; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIUM MUTANT; BACTERIUM TRANSFORMATION; COAGULASE NEGATIVE STAPHYLOCOCCUS; CONTROLLED STUDY; ELECTROPORATION; ESCHERICHIA COLI; GENE CONSTRUCT; GENETIC ENGINEERING; GENETIC TRANSDUCTION; HEAT SHOCK; INTERMETHOD COMPARISON; NONHUMAN; PLAQUE ASSAY; PLASMID; PRIORITY JOURNAL; STAPHYLOCOCCUS PHAGE; BACTERIOPHAGE; GENETICS; METABOLISM; MICROBIOLOGY; PATHOGENICITY; PROCEDURES; STAPHYLOCOCCUS AUREUS; STAPHYLOCOCCUS INFECTION; WORKFLOW;

BACTERIOPHAGES; COAGULASE; GENETIC ENGINEERING; PLASMIDS; STAPHYLOCOCCAL INFECTIONS; STAPHYLOCOCCUS AUREUS; TRANSDUCTION, GENETIC; WORKFLOW;

EID: 84983546624     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2016.058     Document Type: Article

References (36)

1. Schneewind, O. & Missiakas, D. Genetic manipulation of Staphylococcus aureus. Curr. Protoc. Microbiol. 32, 9C.3.1-9C.3.19 (2014).
2. Monk, I.R. & Foster, T.J. Genetic manipulation of staphylococci-breaking through the barrier. Front. Cell. Infect. Microbiol. 2, 49 (2012).
3. Prax, M., Lee, C.Y. & Bertram, R. An update on the molecular genetics toolbox for staphylococci. Microbiology 159, 421-435 (2013).
4. Seidman, C.E., Struhl, K., Sheen, J. & Jessen, T. Introduction of plasmid DNA into cells. Curr. Protoc. Mol. Biol. 37, 1.8.1-1.8.10 (2001).
5. Yoshida, N. & Sato, M. Plasmid uptake by bacteria: a comparison of methods and efficiencies. Appl. Microbiol. Biotechnol. 83, 791-798 (2009).
6. Wirth, R., An, F.Y. & Clewell, D.B. Highly efficient protoplast transformation system for Streptococcus faecalis and a new Escherichia coli-S. faecalis shuttle vector. J. Bacteriol. 165, 831-836 (1986).
7. Gotz, F., Ahrne, S. & Lindberg, M. Plasmid transfer and genetic recombination by protoplast fusion in staphylococci. J. Bacteriol. 145, 74-81 (1981).
8. Bouillaut, L., McBride, S.M. & Sorg, J.A. Genetic manipulation of Clostridium difficile. Curr. Protoc. Microbiol. 20, 9A.2.1-9A.2.17 (2011).
9. Thomason, L.C., Costantino, N. & Court, D.L. E. coli genome manipulation by P1 transduction. Curr. Protoc. Mol. Biol. 79, 1.17.1-1.17.8 (2007).
10. Winstel, V., Kuhner, P., Krismer, B., Peschel, A. & Rohde, H. Transfer of plasmid DNA to clinical coagulase-negative staphylococcal pathogens by using a unique bacteriophage. Appl. Environ. Microbiol. 81, 2481-2488 (2015).
11. Augustin, J. & Gotz, F. Transformation of Staphylococcus epidermidis and other staphylococcal species with plasmid DNA by electroporation. FEMS Microbiol. Lett. 54, 203-207 (1990).
12. Kraemer, G. & Iandolo, J. High-frequency transformation of Staphylococcus aureus by electroporation. Curr. Microbiol. 21, 373-376 (1990).
13. Schenk, S. & Laddaga, R.A. Improved method for electroporation of Staphylococcus aureus. FEMS Microbiol. Lett. 73, 133-138 (1992).
14. Lofblom, J., Kronqvist, N., Uhlen, M., Stahl, S. & Wernerus, H. Optimization of electroporation-mediated transformation: Staphylococcus carnosus as model organism. J. Appl. Microbiol. 102, 736-747 (2007).
15. Monk, I.R., Shah, I.M., Xu, M., Tan, M.W. & Foster, T.J. Transforming the untransformable: application of direct transformation to manipulate genetically Staphylococcus aureus and Staphylococcus epidermidis. MBio 3, e00277-00211 (2012).
16. Monk, I.R., Tree, J.J., Howden, B.P., Stinear, T.P. & Foster, T.J. Complete bypass of restriction systems for major Staphylococcus aureus lineages. MBio 6, e00308-00315 (2015).
17. Otto, M. Staphylococcus epidermidis-the 'accidental' pathogen. Nat. Rev. Microbiol. 7, 555-567 (2009).
18. von Eiff, C., Peters, G. & Heilmann, C. Pathogenesis of infections due to coagulase-negative staphylococci. Lancet Infect. Dis. 2, 677-685 (2002).
19. Marraffini, L.A. & Sontheimer, E.J. CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea. Nat. Rev. Genet. 11, 181-190 (2010).
20. Thomas, C.M. & Nielsen, K.M. Mechanisms of, and barriers to, horizontal gene transfer between bacteria. Nat. Rev. Microbiol. 3, 711-721 (2005).
21. Heilbronner, S., Hanses, F., Monk, I.R., Speziale, P. & Foster, T.J. Sortase A promotes virulence in experimental Staphylococcus lugdunensis endocarditis. Microbiology 159, 2141-2152 (2013).
22. Marraffini, L.A. & Sontheimer, E.J. CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science 322, 1843-1845 (2008).
23. Winstel, V. et al. Wall teichoic acid structure governs horizontal gene transfer between major bacterial pathogens. Nat. Commun. 4, 2345 (2013).
24. Bae, T. & Schneewind, O. Allelic replacement in Staphylococcus aureus with inducible counter-selection. Plasmid 55, 58-63 (2006).
25. Geiger, T. et al. The stringent response of Staphylococcus aureus and its impact on survival after phagocytosis through the induction of intracellular PSMs expression. PLoS Pathog. 8, e1003016 (2012).
26. Peschel, A., Ottenwalder, B. & Gotz, F. Inducible production and cellular location of the epidermin biosynthetic enzyme EpiB using an improved staphylococcal expression system. FEMS Microbiol. Lett. 137, 279-284 (1996).
27. Bruckner, R. A series of shuttle vectors for Bacillus subtilis and Escherichia coli. Gene 122, 187-192 (1992).
28. Li, M. et al. Staphylococcus aureus mutant screen reveals interaction of the human antimicrobial peptide dermcidin with membrane phospholipids. Antimicrob. Agents Chemother. 53, 4200-4210 (2009).
29. Maliszewski, K.L. & Nuxoll, A.S. Use of electroporation and conjugative mobilization for genetic manipulation of Staphylococcus epidermidis. Methods Mol. Biol. 1106, 125-134 (2014).
30. Murray, N.E. Type I restriction systems: sophisticated molecular machines (a legacy of Bertani and Weigle). Microbiol. Mol. Biol. Rev. 64, 412-434 (2000).
31. Waldron, D.E. & Lindsay, J.A. Sau1: a novel lineage-specific type I restriction-modification system that blocks horizontal gene transfer into Staphylococcus aureus and between S. aureus isolates of different lineages. J. Bacteriol. 188, 5578-5585 (2006).
32. Kwan, T., Liu, J., DuBow, M., Gros, P. & Pelletier, J. The complete genomes and proteomes of 27 Staphylococcus aureus bacteriophages. Proc. Natl. Acad. Sci. USA 102, 5174-5179 (2005).
33. Errington, J. & Pughe, N. Upper limit for DNA packaging by Bacillus subtilis bacteriophage phi 105: isolation of phage deletion mutants by induction of oversized prophages. Mol. Gen. Genet. 210, 347-351 (1987).
34. Feiss, M., Fisher, R.A., Crayton, M.A. & Egner, C. Packaging of the bacteriophage lambda chromosome: effect of chromosome length. Virology 77, 281-293 (1977).
35. Nurmemmedov, E., Castelnovo, M., Medina, E., Catalano, C.E. & Evilevitch, A. Challenging packaging limits and infectivity of phage lambda. J. Mol. Biol. 415, 263-273 (2012).
36. Lee, P.Y., Costumbrado, J., Hsu, C.Y. & Kim, Y.H. Agarose gel electrophoresis for the separation of DNA fragments. J. Vis. Exp. doi:10.3791/3923 (2012).