Correlation of Chi orientation with transcription indicates a fundamental relationship between recombination and transcription

Gene

Volumn 216, Issue 2, 1998, Pages 285-292

  Bell, S J ^a   Chow, Y C ^a   Ho, J Y K ^a   Forsdyke, D R ^a  

^a QUEEN S UNIVERSITY   (Canada)

Author keywords

Base composition; Chargaff's second parity rule; Recombination islands; Szybalski's transcription direction rule

Indexed keywords

MESSENGER RNA;

ARTICLE; DNA BASE COMPOSITION; DNA RECOMBINATION; DNA REPLICATION; DNA STRAND; DNA TRANSCRIPTION; ESCHERICHIA COLI; EUKARYOTE; GENE SEQUENCE; GENETIC RECOMBINATION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; PROKARYOTE;

BASE COMPOSITION; BASE SEQUENCE; CROSSING OVER, GENETIC; DNA, BACTERIAL; ESCHERICHIA COLI; HAEMOPHILUS INFLUENZAE; OPEN READING FRAMES; RECOMBINATION, GENETIC; TRANSCRIPTION, GENETIC;

ESCHERICHIA COLI; EUKARYOTA; HAEMOPHILUS INFLUENZAE; PROKARYOTA;

EID: 0032584913     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(98)00333-3     Document Type: Article

References (30)

1. Blattner F.R.et al. The complete genome sequence of Escherichia coli K-12. Science. 277:1997;1453-1474.
2. Brewer B.J. When polymerases collide: replication and the transcriptional organization of the Escherichia coli chromosome. Cell. 53:1988;679-686.
3. Burland V., Plunkett G., Daniels D.L., Blattner F.R. DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication. Genomics. 16:1993;551-561.
4. Chargaff E. Structure and function of nucleic acids as cell constituents. Fed. Proc. 10:1951;654-659.
5. Chargaff E. How genetics got a chemical education. Ann. NY Acad. Sci. 325:1979;345-360.
6. Cook P.R. The transcriptional basis of chromosome pairing. J. Cell Sci. 110:1997;1033-1040.
7. Cristillo, A.D., Lillicrap, T.P., Forsdyke, D.R., 1998. Purine loading of EBNA-1 mRNA avoids sense-antisense 'collisions'. FASEB. J. 12, A1453 (abstr. No. 828).
8. Dang K.D., Dutt P.B., Forsdyke D.R. Chargaff difference analysis of the bithorax complex of Drosophila melanogaster. Biochem. Cell Biol. 76:1998;129-137.
9. Faulds D., Dower N., Stahl M.M., Stahl F.W. Orientation-dependent recombination hotspot activity in bacteriophage λ J. Mol. Biol. 131:1979;681-695.
10. Fleischmann R.D.et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science. 269:1995;496-512.
11. Forsdyke D.R. Different biological species 'broadcast' their DNAs at different (C+G)% 'wavelengths'. J. Theor. Biol. 178:1996;405-417.
12. Forsdyke D.R. An alternative way of thinking about stem-loops in DNA. A case study of the G0S2 gene. J. Theor. Biol. 192:1998;489-504.
13. Forsdyke, D.R., Bell, S.J., 1997. Deviations from Chargaff's second rule correlate with direction of transcription and genome structure. Proc. Can. Fed. Biol. Soc. 40, 87 (abstr. No. 260).
14. Freeman J.M., Plasterer T.N., Smith T.F., Mohr S.C. Patterns of genome organization in bacteria. Science. 279:1998;1827.
15. Kleckner N. Meiosis: how could it work? Proc. Natl. Acad. Sci. USA. 93:1996;8167-8174.
16. Kodadek T. Mechanistic parallels between DNA replication, recombination and transcription. Trends Biochem. Sci. 23:1998;79-83.
17. Lobry J.R. Origin or replication of Mycoplasma genitalium. Science. 272:1996;745-746.
18. Meyer, R.K., Krueger, D.D., 1994. Minitab Computer Supplement. Macmillan College Publishing, New York, pp. 228-229.
19. Nicolas A. Relationship between transcription and initiation of meiotic recombination: towards chromatin accessibility. Proc. Natl. Acad. Sci. USA. 95:1998;87-89.
20. Rudner R., Karkas J.D., Chargaff E. Separation of B. subtilis DNA into complementary strands, III. Direct analysis. Proc. Natl. Acad. Sci. USA. 60:1968;921-922.
21. Smith, G.R., 1997. Chi sites and their consequences. In: Bruijn, F.J. de, Lipski, J.R., Weinstock, G.M. (Eds.), Bacterial Genomics. Thomson, New York, pp. 49-66.
22. Smith H.O., Tomb J.-F., Dougherty B.A., Fleischmann R.D., Venter J.C. Frequency and distribution of DNA uptake signal sequences in the Haemophilus influenzae Rd genome. Science. 269:1995;538-540.
23. Aγ fetal globin gene region. Cell. 26:1981;345-353.
24. Sourice S., Biaudet V., El Karoui M., Ehrlich S.D., Gruss A. Identification of the Chi site of Haemophilus influenzae as several sequences related to the Escherichia coli Chi site. Mol. Microbiol. 27:1998;1021-1029.
25. Stewart S.E., Roeder G.S. Transcription by RNA polymerase I stimulates mitotic recombination in Saccharomyces cerevisiae. Mol. Cell. Biol. 9:1989;3464-3472.
26. Szybalski W., Kubinski H., Sheldrick P. Pyrimidine clusters on the transcribing strand of DNA and their possible role in the initiation of RNA synthesis. Cold Spring. Harb. Symp. Quant. Biol. 31:1966;123-127.
27. Tartof K.D., Henikoff S. Trans-sensing effects from Drosophila to humans. Cell. 65:1991;201-203.
28. Tracy R.B., Baumohl J.K., Kowalczykowski S.C. The preference for GT-rich DNA by the yeast Rad51 protein defines a set of universal pairing sequences. Genes Dev. 11:1997;3423-3431.
29. Tracy R.B., Chedin F., Kowalczykowski S.C. The recombination hot spot Chi is embedded within islands of preferred DNA pairing sequences in the E. coli genome. Cell. 90:1997;205-205.
30. Wu C.-t. Transvection, nuclear structure, and chromatin proteins. J. Cell Biol. 120:1993;587-590.