Intergenic transposable elements are not randomly distributed in bacteria

Genome Biology and Evolution

Volumn 2, Issue 1, 2010, Pages 584-590

  Plague, Gordon R ^a  

^a FORDHAM UNIVERSITY   (United States)

Author keywords

Insertion sequence; IS element; Natural selection

Indexed keywords

BACTERIAL DNA; SPACER DNA;

ARTICLE; BACTERIAL CHROMOSOME; BACTERIAL GENOME; BACTERIUM; BIOLOGICAL MODEL; COMPARATIVE STUDY; GENETIC SELECTION; GENETICS; SPECIES DIFFERENCE; TRANSPOSON;

BACTERIA; CHROMOSOMES, BACTERIAL; DNA TRANSPOSABLE ELEMENTS; DNA, BACTERIAL; DNA, INTERGENIC; GENOME, BACTERIAL; MODELS, GENETIC; SELECTION, GENETIC; SPECIES SPECIFICITY;

BACTERIA (MICROORGANISMS);

EID: 77958485910     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evq040     Document Type: Article

References (21)

1. Agresti A. 1996. An introduction to categorical data analysis. New York: John Wiley and Sons.
2. Campbell A. 2002. Eubacterial genomes. In: Craig NL, Craigie R, Gellert M, Lambowitz A, editors. Mobile DNA II. Washington (DC): ASM Press. pp. 1024-1039.
3. Chandler M, Mahillon J. 2002. Insertion sequences revisited. In: Craig NL, Craigie R, Gellert M, Lambowitz A, editors. Mobile DNA II. Washington (DC): ASM Press. p. 305-366.
4. 2 test. Biometrics. 10:417-451.
5. Cooper VS, Schneider D, Blot M, Lenski RE. 2001. Mechanisms causing rapid and parallel losses of ribose catabolism in evolving populations of Escherichia coli B. J. Bacteriol. 183:2834-2841.
6. Doolittle WF, Sapienza C. 1980. Selfish genes, the phenotype paradigm and genome evolution. Nature. 284:601-603.
7. Doran T, et al. 1997. IS900 targets translation initiation signals in Mycobacterium avium subsp. paratuberculosis to facilitate expression of its hed gene. Microbiology. 143:547-552.
8. Inglis NF, Stevenson K, Heaslip DG, Sharp JM. 2003. Characterisation of IS901 integration sites in the Mycobacterium avium genome. FEMS Microbiol Lett. 221:39-47.
9. Liu LF, Wang JC. 1987. Supercoiling of the DNA template during transcription. Proc Natl Acad Sci U S A. 84:7024-7027.
10. Lodge JK, Berg DE. 1990. Mutations that affect Tn5 insertion into pBR322: importance of local DNA supercoiling. J Bacteriol. 172:5956-5960.
11. Lynch M. 2006. Streamlining and simplification of microbial genome architecture. Annu Rev Microbiol. 60:327-349.
12. Moran MD. 2003. Arguments for rejecting the sequential Bonferroni in ecological studies. Oikos. 100:403-405.
13. Nuzhdin SV. 1999. Sure facts, speculations, and open questions about the evolution of transposable element copy number. Genetica. 107:129-137.
14. Orgel LE, Crick F H C. 1980. Selfish DNA: the ultimate parasite. Nature. 284:604-607.
15. Rice WR. 1989. Analyzing tables of statistical tests. Evolution. 43:223-225.
16. Safi H, et al. 2004. IS6110 functions as a mobile, monocyte-activated promoter in Mycobacterium tuberculosis. Mol Microbiol. 52:999-1012.
17. Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M. 2006. ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res. 34: D32-D36.
18. Tetu SG, Holmes AJ. 2008. A family of insertion sequences that impacts integrons by specific targeting of gene cassette recombination sites, the IS1111-attC group. J Bacteriol. 190:4959-4970.
19. Touchon M, Rocha E P C. 2007. Causes of insertion sequences abundance in prokaryotic genomes. Mol Biol Evol. 24:969-981.
20. Wagner A. 2006. Periodic extinctions of transposable elements in bacterial lineages: evidence from intragenomic variation in multiple genomes. Mol Biol Evol. 23:723-733.
21. Zaghloul L, et al. 2007. The distribution of insertion sequences in the genome of Shigella flexneri strain 2457T. FEMS Microbiol Lett. 277:197-204.