Asymmetry of nucleotide composition of prokaryotic chromosomes

Journal of Applied Genetics

Volumn 40, Issue 1, 1999, Pages 1-14

  Mackiéwicz, Paweł ^a   Gierlik, Agnieszka ^a   Kowalczuk, Maria ^a   Dudek, Mirosław R ^a   Cebrat, Stanisław ^a  

^a UNIVERSITY OF WROC AW   (Poland)

Author keywords

Asymmetrical replication; Bacillus subtilis; Borellia burgdorferii; DNA asymmetry; DNA walks; Escherichia coli; Treponema pallidum

Indexed keywords

EID: 0002464085     PISSN: 12341983     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (23)

1. BELETSKII A., BHAGWAT A.S. (1996). Transcription-induced mutations: increase in C to T mutations in the nontranscribed strand during transcription in Escherichia coli. Proc. Natl. Acad. Sci. USA 93: 13919-13924.
2. BERTHELSEN Ch.L., GLAZIER J.A., SKOLNICK M.H. (1992). Global fractal dimension of human DNA sequences treated as pseudorandom walks. Phys. Rev. A45: 8902-8913.
3. BLATTNER F.R., PLUNKETT III G., BLOCH C.A., PERNA N.T., BURLAND V., RILEY M., COLLADO-VIDES J., GLASNER J.D., RODE Ch.K., MAYHEW G.F., GREGOR J., DAVIS N.W., KIRKPATRICK H.A., GOEDEN M.A., ROSE D.J., MAU B., SHAO Y. (1997). The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1462.
4. th Joint EPS-APS Int. Conference on Physics Computing '96 (Borchards P., Bubak M., Maksymowicz A., eds.). Academic Computer Center, CYFRONET-KRAKÓW: 371-374.
5. CEBRAT S., DUDEK M.R., MACKIEWICZ P., KOWALCZUK M., FITA M. (1997). Asymmetry of coding versus non-coding strands in coding sequences of different genomes. Microbial & Comparative Genomics 2(4): 259-268.
6. CEBRAT S., DUDEK M.R. (1998). The effect of DNA phase structure on DNA walks. Euro. Phys. J. B 3: 271-276.
7. FIJALKOWSKA I.J., JONCZYK P., MALISZEWSKA-TKACZYK M., BIALOSKORSKA M., SCHAAPER R.M. (1998). Unequal fidelity of leading strand and lagging strand DNA replication on the Escherichia coli chromosome. Proc. Natl. Acad. Sci. USA 95: 10020-10025.
8. FRANCINO M.P., CHAO L., RILEY M.A., OCHMAN H. (1996). Asymmetries generated by transcription-coupled repair in enterobacterial genes. Science 272: 107-109.
9. FRANCINO M.P., OCHMAN H. (1997). Strand asymmetries in DNA evolution. Trends Genet. 13(6): 240-245.
10. FREEMAN J.M., PLASTERER T.N., SMITH T.F., MOHR S.C. (1998). Patterns of genome organization in bacteria. Science 279: 1827.
11. GRIGORIEV A. (1998). Analyzing genomes with cumulative skew diagrams. Nucleic Acids Res. 26(10): 2286-2290.
12. IKEMURA T. (1982). Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. J. Mol. Biol. 158: 573-597.
13. KORNBERG A., BAKER T.A. (1992). DNA Replication. Freeman, New York.
14. KUNKEL T.A. (1992). Biological asymmetries and the fidelity of eukaryotic DNA replication. Bioessays 14: 303-308.
15. LOBRY J.R. (1996a). Asymmetric substitution patterns in the two DNA strands of bacteria. Mol. Biol. Evol. 13(5): 660-665.
16. LOBRY J.R. (1996b). Origin of replication of Mycoplasma genitalium. Science 272: 745-746.
17. MRÁZEK J., KARLIN S. (1998). Strand compositional asymmetry in bacterial and large viral genomes. Proc. Natl. Acad. Sci. USA 95: 3720-3725.
18. OKAZAKI R., OKAZAKI T., SAKABE K., SUGIMOTO K., SUGINO A. (1968). Mechanism of DNA chain growth. I. Possible discontinuity and unusual secondary structure of newly synthesized chains. Proc. Natl. Acad. Sci. U.S.A. 59(2): 598-605.
19. SHARP P.M., STENICO M., PEDE J.F., LLOYD A.T. (1993). Codon usage: mutational bias, translational selection or both? Biochem. Soc. Trans. 21: 835-841.
20. WAGA S., STILLMAN B. (1994). Anatomy of a DNA replication fork revealed by reconstitution of SV40 DNA replication in vitro. Nature 369: 207-212.
21. WANG T.C., CHEN S.H. (1992). Similar-sized daughter-strand gaps are produced in the leading and lagging strands of DNA in UV-irradiated E. coli uvrA cells. Biochem. Biophys. Res. Commun. 184(3): 1496-1503.
22. WANG T.C., CHEN S.H. (1994). DNA fragments contain equal amounts of lagging-strand and leading-strand sequences. Biochem. Biophys. Res. Commun. 198(3): 844-849.
23. WILKINS B. M. 1988. Organization and plasticity of enterobacterial genomes. Soc. Appl. Bacteriol. Symp. Ser. 17: 51-69.