Generation of mutation hotspots in ageing bacterial colonies

Scientific Reports

Volumn 6, Issue 1, 2016, Pages

  Sekowska, Agnieszka ^a   Wendel, Sofie ^b   Fischer, Emil C ^b   Nørholm, Morten H H ^b   Danchin, Antoine ^a  

^a PITIÉ SALPÊTRIÈRE HOSPITAL   (France)

^b Chalmers University of Technology   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

AGING; BACTERIUM COLONY; MUTATION; ADAPTATION; ANALOGS AND DERIVATIVES; BACTERIAL GENE; BACTERIAL GENOME; ESCHERICHIA COLI; GENETICS; METABOLISM; MUTAGENESIS; TIME FACTOR;

8-HYDROXYGUANOSINE; GUANOSINE; MALTOSE;

ADAPTATION, BIOLOGICAL; ESCHERICHIA COLI; GENES, BACTERIAL; GENOME, BACTERIAL; GUANOSINE; MALTOSE; MUTAGENESIS; MUTATION; TIME FACTORS;

EID: 85018999640     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/s41598-016-0005-4     Document Type: Article

References (32)

1. Bridges, B. A. mutY directs mutation? Nature 375, 741 (1995).
2. Doetsch, P. W. Translesion synthesis by RNA polymerases: occurrence and biological implications for transcriptional mutagenesis. Mutat. Res. 510, 131-140 (2002).
3. Morreall, J. et al. Evidence for Retromutagenesis as a Mechanism for Adaptive Mutation in Escherichia coli. Plos Genet 11, 1-12 (2015).
4. You, C. et al. Coordination of bacterial proteome with metabolism by cyclic AMP signalling. Nature 500, 301-306 (2013).
5. Hill, C. W., Gray, J. A. & Brody, H. Use of the isocitrate dehydrogenase structural gene for attachment of e14 in Escherichia coli K-12. J Bacteriol 171, 4083-4084 (1989).
6. Casjens, S. Prophages and bacterial genomics: What have we learned so far? Mol. Microbiol. 49, 277-300 (2003).
7. Sabourin, D. & Beckwith, J. Deletion of the Escherichia coli crp gene. J Bacteriol 122, 338-340 (1975).
8. Saxer, G. et al. Mutations in global regulators lead to metabolic selection during adaptation to complex environments. Plos Genet 10, e1004872 (2014).
9. Bleibtreu, A. et al. The rpoS gene is predominantly inactivated during laboratory storage and undergoes source-sink evolution in Escherichia coli species. J Bacteriol 196, 4276-4284 (2014).
10. Nyström, T. The free-radical hypothesis of aging goes prokaryotic. Cell. Mol. Life Sci. 60, 1333-1341 (2003).
11. Hall, B. G. Spectrum of mutations that occur under selective and non-selective conditions in E. coli. Genetica 84, 73-76 (1991).
12. Bridges, B. A. Mutation in resting cells: The role of endogenous DNA damage. Cancer Surv 28, 155-167 (1996).
13. Brégeon, D., Doddridge, Z. A., You, H. J., Weiss, B. & Doetsch, P. W. Transcriptional mutagenesis induced by uracil and 8-oxoguanine in Escherichia coli. Mol. Cell 12, 959-970 (2003).
14. Davis, B. D. Transcriptional bias: A non-Lamarckian mechanism for substrate-induced mutations. Proc Natl Acad Sci USA 86, 5005-5009 (1989).
15. Maisnier-Patin, S. & Roth, J. R. The origin of mutants under selection: How natural selection mimics mutability (adaptive mutation). Cold Spring Harb Perspect Biol 2015;7:a018176 (2015).
16. Lennen, R. M. et al. Transient overexpression of DNA adenine methylase enables efficient and mobile genome engineering with reduced off-Target effects. Nucleic Acids Res, doi:gkv1090[pii]10.1093/nar/gkv1090 (2015).
17. Jin, D. J. & Gross, C. A. Mapping and sequencing of mutations in the Escherichia coli rpoB gene that lead to rifampicin resistance. J. Mol. Biol. 202, 45-58 (1988).
18. Taddei, F., Halliday, J. A., Matic, I. & Radman, M. Genetic analysis of mutagenesis in aging Escherichia coli colonies. Mol Gen Genet 256, 277-281 (1997).
19. Lombardo, M.-J., Aponyi, I. & Rosenberg, S. M. General stress response regulator RpoS in adaptive mutation and amplification in Escherichia coli. Genetics 166, 669-680 (2004).
20. Kinnersley, M. A., Holben, W. E. & Rosenzweig, F. E unibus plurum: Genomic analysis of an experimentally evolved polymorphism in Escherichia coli. PLoS Genet. 5 (2009).
21. Adams, J. & Rosenzweig, F. Experimental microbial evolution: history and conceptual underpinnings. Genomics 104, 393-398 (2014).
22. Zhang, Q. et al. You cannot tell a book by looking at the cover: Cryptic complexity in bacterial evolution. Biomicrofluidics 8, 52004 (2014).
23. Fricke, J., Neuhard, J., Kelln, R. A. & Pedersen, S. The cmk gene encoding cytidine monophosphate kinase is located in the rpsA operon and is required for normal replication rate in Escherichia coli. J Bacteriol 177, 517-523 (1995).
24. Nitschke, P. et al. Indigo: A World-Wide-Web review of genomes and gene functions. FEMS Microbiol Rev 22, 207-227 (1998).
25. Danchin, A. Comparison between the Escherichia coli and Bacillus subtilis genomes suggests that a major function of polynucleotide phosphorylase is to synthesize CDP. DNA Res 4, 9-18 (1997).
26. Weiss, B. & Wang, L. De novo synthesis of thymidylate via deoxycytidine in dcd (dCTP deaminase) mutants of Escherichia coli. J Bacteriol 176, 2194-2199 (1994).
27. Yamanaka, K., Ogura, T., Koonin, E. V., Niki, H. & Hiraga, S. Multicopy suppressors, mssA and mssB, of an smbA mutation of Escherichia coli. Mol Gen Genet 243, 9-16 (1994).
28. Soupene, E. et al. Physiological studies of Escherichia coli strain MG1655: growth defects and apparent cross-regulation of gene expression. J Bacteriol 185, 5611-5626 (2003).
29. Datta, S., Costantino, N. & Court, D. L. A set of recombineering plasmids for gram-negative bacteria. Gene 379, 109-115 (2006).
30. Baba, T. et al. Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: The Keio collection. Mol Syst Biol 2, 2006 0008 (2006).
31. MacConkey, A. Lactose-fermenting bacteria in feces. J Hyg 5, 333-378 (1905).
32. Sandberg, T. E. et al. Evolution of Escherichia coli to 42 °C and subsequent genetic engineering reveals adaptive mechanisms and novel mutations. Mol. Biol. Evol. 31, 2647-2662 (2014).