Multiplex Genome Editing by Natural Transformation (MuGENT) for Synthetic Biology in Vibrio natriegens

ACS Synthetic Biology

Volumn 6, Issue 9, 2017, Pages 1650-1655

  Dalia, Triana N ^a   Hayes, Chelsea A ^a   Stolyar, Sergey ^b   Marx, Christopher J ^b   McKinlay, James B ^a   Dalia, Ankur B ^a  

^a INDIANA UNIVERSITY   (United States)

^b UNIVERSITY OF IDAHO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

POLY(3 HYDROXYBUTYRIC ACID); BACTERIAL PROTEIN; RECOMBINANT PROTEIN;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATION; BIOSYNTHESIS; GENE EDITING; GENE EXPRESSION; GENETIC TRANSFORMATION; METABOLIC ENGINEERING; NONHUMAN; PRIORITY JOURNAL; SYNTHETIC BIOLOGY; VIBRIO; VIBRIO NATRIEGENS; BACTERIAL GENE; BACTERIUM TRANSFORMATION; GENE EXPRESSION REGULATION; GENETICS; PROCEDURES;

BACTERIAL PROTEINS; GENE EDITING; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; METABOLIC ENGINEERING; RECOMBINANT PROTEINS; SYNTHETIC BIOLOGY; TRANSFORMATION, BACTERIAL; VIBRIO;

EID: 85029539622     PISSN: None     EISSN: 21615063     Source Type: Journal    
DOI: 10.1021/acssynbio.7b00116     Document Type: Article

References (26)

1. Eagon, R. G. (1962) Pseudomonas natriegens, a marine bacterium with a generation time of less than 10 minutes J. Bacteriol. 83, 736-737
2. Payne, W. J., Eagon, R. G., and Williams, A. K. (1961) Some observations on the physiology of Pseudomonas natriegens nov. spec Antonie van Leeuwenhoek 27, 121-128 10.1007/BF02538432
3. Weinstock, M. T., Hesek, E. D., Wilson, C. M., and Gibson, D. G. (2016) Vibrio natriegens as a fast-growing host for molecular biology Nat. Methods 13, 849-851 10.1038/nmeth.3970
4. Lee, H. H., Ostrov, N., Wong, B. G., Gold, M. A., Khalil, A., and Church, G. M. (2016) Vibrio natriegens, a new genomic powerhouse bioRxiv 10.1101/058487
5. Meibom, K. L., Blokesch, M., Dolganov, N. A., Wu, C. Y., and Schoolnik, G. K. (2005) Chitin induces natural competence in Vibrio cholerae Science 310, 1824-1827 10.1126/science.1120096
6. Chen, Y., Dai, J., Morris, J. G., Jr., and Johnson, J. A. (2010) Genetic analysis of the capsule polysaccharide (K antigen) and exopolysaccharide genes in pandemic Vibrio parahaemolyticus O3:K6 BMC Microbiol. 10, 274 10.1186/1471-2180-10-274
7. Gulig, P. A., Tucker, M. S., Thiaville, P. C., Joseph, J. L., and Brown, R. N. (2009) USER friendly cloning coupled with chitin-based natural transformation enables rapid mutagenesis of Vibrio vulnificus Appl. Environ. Microbiol. 75, 4936-4949 10.1128/AEM.02564-08
8. Pollack-Berti, A., Wollenberg, M. S., and Ruby, E. G. (2010) Natural transformation of Vibrio fischeri requires tfoX and tfoY Environ. Microbiol. 12, 2302-2311 10.1111/j.1462-2920.2010.02250.x
9. Dalia, A. B., Lazinski, D. W., and Camilli, A. (2014) Identification of a membrane-bound transcriptional regulator that links chitin and natural competence in Vibrio cholerae mBio 5, e01028-01013 10.1128/mBio.01028-13
10. Yamamoto, S., Mitobe, J., Ishikawa, T., Wai, S. N., Ohnishi, M., Watanabe, H., and Izumiya, H. (2014) Regulation of natural competence by the orphan two-component system sensor kinase ChiS involves a non-canonical transmembrane regulator in Vibrio cholerae Mol. Microbiol. 91, 326-347 10.1111/mmi.12462
11. Lorenz, M. G. and Wackernagel, W. (1994) Bacterial gene transfer by natural genetic transformation in the environment Microbiol Rev. 58, 563-602
12. Dalia, A. B., McDonough, E., and Camilli, A. (2014) Multiplex genome editing by natural transformation Proc. Natl. Acad. Sci. U. S. A. 111, 8937-8942 10.1073/pnas.1406478111
13. Erickson, R. J. and Copeland, J. C. (1973) Congression of unlinked markers and genetic mapping in the transformation of Bacillus subtilis 168 Genetics 73, 13-21
14. Bik, E. M., Bunschoten, A. E., Willems, R. J., Chang, A. C., and Mooi, F. R. (1996) Genetic organization and functional analysis of the otn DNA essential for cell-wall polysaccharide synthesis in Vibrio cholerae O139 Mol. Microbiol. 20, 799-811 10.1111/j.1365-2958.1996.tb02518.x
15. Hayes, C. A., Dalia, T. N., and Dalia, A. B. (2017) Systematic genetic dissection of PTS in Vibrio cholerae uncovers a novel glucose transporter and a limited role for PTS during infection of a mammalian host Mol. Microbiol. 104, 568 10.1111/mmi.13646
16. Wang, H. H., Isaacs, F. J., Carr, P. A., Sun, Z. Z., Xu, G., Forest, C. R., and Church, G. M. (2009) Programming cells by multiplex genome engineering and accelerated evolution Nature 460, 894-898 10.1038/nature08187
17. Chien, C. C., Chen, C. C., Choi, M. H., Kung, S. S., and Wei, Y. H. (2007) Production of poly-beta-hydroxybutyrate (PHB) by Vibrio spp. isolated from marine environment J. Biotechnol. 132, 259-263 10.1016/j.jbiotec.2007.03.002
18. Centeno-Leija, S., Huerta-Beristain, G., Giles-Gomez, M., Bolivar, F., Gosset, G., and Martinez, A. (2014) Improving poly-3-hydroxybutyrate production in Escherichia coli by combining the increase in the NADPH pool and acetyl-CoA availability Antonie van Leeuwenhoek 105, 687-696 10.1007/s10482-014-0124-5
19. Spiekermann, P., Rehm, B. H., Kalscheuer, R., Baumeister, D., and Steinbuchel, A. (1999) A sensitive, viable-colony staining method using Nile red for direct screening of bacteria that accumulate polyhydroxyalkanoic acids and other lipid storage compounds Arch. Microbiol. 171, 73-80 10.1007/s002030050681
20. Kidwell, J., Valentin, H. E., and Dennis, D. (1995) Regulated expression of the Alcaligenes eutrophus pha biosynthesis genes in Escherichia coli Appl. Environ. Microbiol. 61, 1391-1398
21. Csorgo, B., Nyerges, A., Posfai, G., and Feher, T. (2016) System-level genome editing in microbes Curr. Opin. Microbiol. 33, 113-122 10.1016/j.mib.2016.07.005
22. Dalia, A. B., Lazinski, D. W., and Camilli, A. (2013) Characterization of undermethylated sites in Vibrio cholerae J. Bacteriol. 195, 2389-2399 10.1128/JB.02112-12
23. Mercaldi, M. P., Dams-Kozlowska, H., Panilaitis, B., Joyce, A. P., and Kaplan, D. L. (2008) Discovery of the dual polysaccharide composition of emulsan and the isolation of the emulsion stabilizing component Biomacromolecules 9, 1988-1996 10.1021/bm800239p
24. Lazinski, D. W. and Camilli, A. (2013) Homopolymer tail-mediated ligation PCR: a streamlined and highly efficient method for DNA cloning and library construction BioTechniques 54, 25-34 10.2144/000113981
25. Seed, K. D., Yen, M., Shapiro, B. J., Hilaire, I. J., Charles, R. C., Teng, J. E., Ivers, L. C., Boncy, J., Harris, J. B., and Camilli, A. (2014) Evolutionary consequences of intra-patient phage predation on microbial populations eLife 3, e03497 10.7554/eLife.03497
26. Karr, D. B., Waters, J. K., and Emerich, D. W. (1983) Analysis of Poly-beta-Hydroxybutyrate in Rhizobium japonicum Bacteroids by Ion-Exclusion High-Pressure Liquid Chromatography and UV Detection Appl. Environ. Microbiol. 46, 1339-1344