Sequence periodicity in complete genomes of archaea suggests positive supercoiling

Journal of Biomolecular Structure and Dynamics

Volumn 16, Issue 2, 1998, Pages 341-345

  Herzel, Hanspeter ^a   Weiss, Olaf ^a   Trifonov, Edward N ^b  

^a HUMBOLDT UNIVERSITY   (Germany)

^b WEIZMANN INSTITUTE OF SCIENCE   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

ARCHAEBACTERIUM; ARTICLE; DNA CONFORMATION; DNA SEQUENCE; DNA STRUCTURE; DNA SUPERCOILING; GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; STRUCTURE ANALYSIS;

ARCHAEA; BACTERIA (MICROORGANISMS); PROKARYOTA; SULFOLOBUS;

EID: 0031757877     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.1998.10508251     Document Type: Article

References (34)

1. Trifonov, E. N., and Sussman, J. L., 1980. Proc. Natl. Acad. Sci. USA, 77:3816–3820.
2. van Holde, K. E., 1988. Chromatin Berlin:Springer.
3. Wang, J. C., 1996. Annu. Rev. Biochem., 65:635–692.
4. Zhurkin, V. B., Ulyanov, N. B., and Ivanov, V. I., 1988. “Structure & Expression, Vol. 3:DNA Bending and Curvature” Edited by:Olson, W. K., Sarma, M. H., and Sundaralingam, M., 169–190. Adenine Press.
5. Olson, W. K., and Zhurkin, V. B., 1996. “Biological Structure and Dynamics, Proceedings of the Ninth Conversation 1995′ Edited by:Sarma, R. H., and Sarma, M. H., 341–369. Adenine Press.
6. Marini, J. C., Levene, S. D., Crothers, D. M., and Englund, P. T., 1982. Proc. Natl. Acad. Sci. USA, 79:7664–7668.
7. Ioshikhes, I., Bolshoy, A., Derenshteyn, K., Borodovsky, M., and Trifonov, E. N., 1996. J. Mol. Biol., 262:129–139.
8. Widom, J., 1996. J. Mol. Biol., 259:579–588.
9. Herzel, H., Trifonov, E. N., Weiss, O., and Große, I., 1998. Physica A, 249:449–459.
10. Zhurkin, V. B., 1981. Nucl. Acids Res., 9:1963–1971.
11. Buldyrev, S. V., Goldberger, A. L., Havlin, S., Mantegna, R. N., Matsa, M. E., Peng, C.-K., Simons, M., and Stanley, E., 1995. Phys. Rev. E, 51:5084–5091.
12. Herzel, H., and Große, I., 1997. Phys. Rev. E, 55:800–810.
13. Crothers, D. M., Haran, T. E., and Nadeau, J., 1990. Biol. Chem., 265:7093–7096.
14. Shepherd, J. C. W., 1981. J. Mol. Evol., 17:94–102.
15. Gamier, J., Osguthorpe, D. J., and Robson, B., 1978. J. Mol. Biol., 120:95–120.
16. Kanehisa, M. I., and Tsong, T. Y., 1980. Biopolymers, 19:1617–1628.
17. Weiss, O., and Herzel, H., 1998. J. Theor. Biol., 190:341–353.
18. Woese, D. R., Dugre, D. H., Saxinger, W. C., and Dugre, S. A., 1966. Proc. Natl. Acad. Sci. USA, 55:966–974.
19. Trifonov, E. N., 1998. Physica A, 249:511–516.
20. Crick, F. H. C., 1976. Proc. Natl. Acad. Sci. USA, 73:2639–2643.
21. Vologodsky, A., 1992. Topology and Physics of Circular DNA Boca Raton:CRC Press.
22. Nadal, M., Mirambeau, G., Forterre, P., Reiter, W.-D., and Duguet, M., 1986. Nature, 321:256–258.
23. Kikuchi, A., and Asai, K., 1984. Nature, 309:677–681.
24. Slesarev, A. I., 1988. Eur. J. Bioch., 173:395–399.
25. Bouthier de la Tour, C., Portemer, C., Nadal, M., Stetter, K. O., Forterre, P., and Duguet, M., 1990. J. Bact., 172:6803–6808.
26. Borges, K. M., Bergerat, A., Bogert, A. M., DiRuggiero, J., Forterre, P., and Robb, F. T., 1997. J. Bact., 179:1721–1726.
27. Pereira, S. L., Grayling, R. A., Lurz, R., and Reeve, J. N., 1997. Proc. Natl. Acad. Sci. USA, 94:12633–12637.
28. Sandman, K. M., Krzycki, J. R., Dobrinski, B., Lurz, R., and Reeve, J. N., 1990. Proc. Natl. Acad. Sci. USA, 87:5788–5791.
29. Tobassum, R., Sandman, K. M., and Reeve, J. N., 1992. J. Bact., 174:7890–7895.
30. Howard, M. T., Sandman, K. M., Reeve, J. N., and Griffith, J. D., 1992. J. Bact., 174:7864–7867.
31. Musgrave, D. R., Sandman, K. M., and Reeve, J. N., 1991. Proc. Natl. Acad. Sci. USA, 88:10397–10401.
32. Woese, C. R., Kandier, O., and Wheelis, M. L., 1990. Proc. Natl. Acad. Sci. USA, 87:4576–4579.
33. Charbonnier, F., and Forterre, P., 1994. J. Bact., 176:1251–1259.
34. Lopez-Garcia, P., and Forterre, P., 1997. Mol. Microbiol., 23:1267–1279.