Identification of the sequences required for chromosomal replicator function in Kluyveromyces lactis

Molecular Microbiology

Volumn 51, Issue 5, 2004, Pages 1413-1423

  Irene, Carmela ^a   Maciariello, Clelia ^a   Cioci, Francesco ^a   Camilloni, Giorgio ^a   Newlon, Carol S ^b   Fabiani, Lucia ^a  

^a SAPIENZA UNIVERSITY OF ROME   (Italy)

^b RUTGERS NEW JERSEY MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; DODECANE; FUNGAL PROTEIN; NUCLEOTIDE;

AMINO ACID SEQUENCE; ARTICLE; CHROMOSOME REPLICATION; CONTROLLED STUDY; DNA FOOTPRINTING; DNA REPLICATION ORIGIN; GENE ACTIVATION; GENE DELETION; GENETIC CONSERVATION; IN VITRO STUDY; KLUYVEROMYCES; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROTEIN DETERMINATION; PROTEIN DNA BINDING; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES COMPARISON;

ADENOSINE TRIPHOSPHATE; BASE SEQUENCE; CHROMOSOMES, FUNGAL; DNA FOOTPRINTING; DNA REPLICATION; KLUYVEROMYCES; MACROMOLECULAR SUBSTANCES; MOLECULAR SEQUENCE DATA; MUTATION; PLASMIDS; REPLICATION ORIGIN; SACCHAROMYCES CEREVISIAE;

KLUYVEROMYCES; KLUYVEROMYCES LACTIS; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 1542407104     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.2003.03914.x     Document Type: Article

References (45)

1. Aladjem, M.I., Rodewald, L.W., Kolman, J.L., and Wahl, G.M. (1998) Genetic dissection of a mammalian replicator in the human β-globin. Science 281: 1005-1009.
2. Austin, R.J., Orr-Weaver, T.L., and Bell, S.P. (1999) Drosophila ORC specifically binds to ACE3, an origin of DNA replication control element. Genes Dev 13: 2639-2649.
3. Becker, D.M., and Guarente, L. (1991) High-efficiency transformation of yeast by electroporation. Methods Enzymol 194: 182-187.
4. Bell, S.P., and Dutta, A. (2002) DNA replication in eukaryotic cells. Annu Rev Biochem 71: 333-374.
5. Bénard, M., Lagnel, C., Pallotta, D., and Pierron, G. (1996) Mapping of a replication origin within the promoter region of two unlinked, abundantly transcribed actin genes of Physarum polycephalum. Mol Cell Biol 16: 968-976.
6. Berben, G., Dumont, J., Gilliquet, V., Bolle, P.A., and Hilger, F. (1991) The YDp plasmids: a uniform set of vectors bearing versatile gene disruption cassettes for Saccharomyces cerevisiae. Yeast 7: 475-477.
7. Bielinsky, A.K., Blitzblau, H., Beall, E.L., Ezrokhi, M., Smith, M.S., Botchan, M.R., and Gerbi, S.A. (2001) Origin replication complex binding to a metazoan replication origin. Curr Biol 11: 1427-1431.
8. Bogan, J.A., Natale, D.A., and DePamphilis, M.L. (2000) Initiation of eukaryotic DNA replication: conservative or liberal?. J Cell Phys 184: 139-150.
9. Boyer, H.W., and Roulland-Dussoix, D. (1969) A complementation analysis of the restriction and modification of DNA in Escherichia coli. J Mol Biol 41: 459-472.
10. Brewer, B.J., and Fangman, W.L. (1987) The localization of replication origins on ARS plasmids in S. cerevisiae. Cell 51: 463-471.
11. Chen, X.J., Saliola, M., Falcone, C., Bianchi, M.M., and Fukuhara, H. (1986) Sequence organization of the circular plasmid pKD1 from the yeast Kluyveromyces drosophilarum. Nucleic Acids Res 14: 4471-4481.
12. DePamphilis, M.L. (1999) Replication origins in metazoan chromosomes: fact or fiction? Bioessays 21: 5-16.
13. Dubey, D.D., Kim, S.M., Todorov, I.T., and Huberman, J.A. (1996) Large, complex modular structure of a fission yeast DNA replication origin. Curr Biol 6: 467-473.
14. Fabiani, L., Aragona, M., and Frontali, L. (1990) Isolation and sequence analysis of a K. lactis chromosomal element able to autonomously replicate in S. cerevisiae and K. lactis. Yeast 6: 69-76.
15. Fabiani, L., Frontali, L., and Newlon, C.S. (1996) Identification of an essential core element and stimulatory sequence in a Kluyveromyces lactis ARS element KARS101. Mol Microbiol 19: 757-766.
16. Fabiani, L., Irene, C., Aragona, M., and Newlon, C.S. (2001) A DNA replication origin and a replication fork barrier used in vivo in the circular plasmid pKD1. Mol Genet Genomics 266: 326-335.
17. Gavin, K.A., Hidaka, M., and Stillman, B. (1995) Conserved initiator proteins in eucaryotes. Science 270: 1667-1671.
18. Greenfeder, S.A., and Newlon, C.S. (1992) A replication map of a 61 kb circular derivative of Saccharomyces cerevisiae chromosome III. Mol Biol Cell 3: 473-481.
19. Heus, J.J., Zonneveld, B.J., de Steensma, H.Y., and van den Berg, J.A. (1993) The consensus sequence of Kluyveromyces lactis centromeres shows homology to functional centromeric DNA from Saccharomyces cerevisiae. Mol Gen Genet 236: 355-362.
20. Huberman, J.A., Spotila, L.D., Nawotka, K.A., El-Assouli, S.M., and Davis, R.L. (1987) The in vivo replication origin of the yeast 2μ plasmid. Cell 51: 473-481.
21. Kim, S.M., and Huberman, J.A. (1998) Multiple orientation-dependent, synergistically interacting, similar domains in the ribosomal DNA replication origin of the fission yeast, Schizosaccharomyces pombe. Mol Cell Biol 18: 7294-7303.
22. Kim, S.M., and Huberman, J.A. (1999) Influence of a replication enhancer on the hierarchy of origin efficiencies within a cluster of DNA replication origins. J Mol Biol 288: 867-882.
23. Kong, D., and DePamphilis, M.L. (2001) Site-specific DNA binding of the Schizosaccharomyces pombe origin recognition complex is determined by the Orc4 subunit. Mol Cell Biol 21: 8095-8103.
24. Kong, D., and DePamphilis, M.L. (2002) Site-specific ORC binding, pre-replication complex assembly and DNA synthesis at Schizosaccharomyces pombe replication origins. EMBO J 21: 5567-5576.
25. Lee, D.G., and Bell, S.P. (1997) Architecture of the yeast origin recognition complex bound to origins of DNA replication. Mol Cell Biol 17: 7159-7168.
26. Lee, J.K., Moon, K.Y., Jiang, Y., and Hurwitz, J. (2001) The Schizosaccharomyces pombe origin recognition complex interacts with multiple AT-rich regions of the replication origin DNA by means of the AT-hook domains of the spOrc4 protein. Proc Natl Acad Sci USA 98: 13589-13594.
27. Lin, S., and Kowalski, D. (1997) Functional equivalency and diversity of cis-acting elements among yeast replication origins. Mol Cell Biol 17: 5473-5484.
28. McCarrol, R.M., and Fangman, W.L. (1988) Time of replication of yeast centromeres and telomeres. Cell 54: 505-513.
29. Newlon, C.S. (1996) DNA replication in yeast. In DNA Replication in Eucaryotic Cells. De Pamphilis, M.L. (ed.). Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 873-914.
30. Newlon, C.S., and Theis, J.F. (1993) The structure and function of yeast ARS elements. Curr Opin Genet Dev 3: 752-758.
31. Novac, O., Alvarez, D., Pearson, C.E., Price, G.B., and Zannis-Hadjopoulos, M. (2002) The human cruciform-binding protein, CBP, is involved in DNA replication and associates in vivo with mammalian replication origin. J Biol Chem 277: 11174-11183.
32. Okuno, Y., Satoh, H., Sekiguchi, M., and Masukata, H. (1999) Clustered adenine/thymine stretches are essential for function of a fission yeast replication origin. Mol Cell Biol 19: 6699-6709.
33. Pearson, C.E., Zorbas, H., Price, G.B., and Zannis-Hadjopoulos, M. (1996) Inverted repeats, stem-loops and cruciforms: significance for initiation of DNA replication. J Cell Biochem 63: 1-22.
34. Rao, H., and Stillman, B. (1995) The origin recognition complex interacts with a bipartite DNA binding site within yeast replicators. Proc Natl Acad Sci USA 92: 2224-2228.
35. Sambrook, J., Fritsch, E.F., and Maniatis, T. (1989) Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
36. Schneider, R., Gander, I., Mueller, U., Mertz, R., and Winnacker, E.L. (1986) A sensitive and rapid gel retention assay for nuclear factor and other DNA-binding proteins in crude nuclear extracts. Nucleic Acids Res 14: 1303-1317.
37. Sikorski, R.S., and Hieter, P. (1989) A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122: 19-27.
38. Singh, H., Sen, R., Baltimore, D., and Sharp, A. (1986) A nuclear factor that binds to a conserved sequence motif in transcriptional control elements of immunoglobulin genes. Nature 319: 154-158.
39. Smith, G.E., and Summers, M.D. (1980) The bidirectional transfer of DNA and RNA to nitrocellulose or diazobenzyloxymethyl-paper. Anal Biochem 109: 123-129.
40. Sor, F., and Fukuhara, H. (1989) Analysis of chromosomal DNA patterns of the genus Kluyveromyces. Yeast 5: 1-10.
41. Takahashi, T., and Masukata, H. (2001) Interaction of fission yeast ORC with essential adenine/thymine stretches in replication origins. Genes Cells 6: 837-849.
42. Takahashi, T, Ohara, E., Nishitani H., and Masukata, H. (2003) Multiple ORC-binding sites are required for efficient MCM loading and origin firing in fission yeast. EMBO J 22: 964-974.
43. Theis, J.F., and Newlon, C.S. (2001) Two compound replication origins in Saccharomyces cerevisiae contain redundant origin recognition complex binding sites. Mol Cell Biol 21: 2790-2801.
44. Vernis, L., Chasles, M., Pasero, P., Lepingle, A., Gaillardin, C., and Fournier, P. (1999) Short DNA fragments without sequence similarity are sites for replication in the chromosome of the yeast Yarrowia lipolytica. Mol Biol Cell 10: 757-769.
45. Wilmes, G.M., and Bell, S.P. (2002) The B2 element of the Saccharomyces cerevisiae ARS1 origin of replication requires specific sequences to facilitate pre-RC formation. Proc Natl Acad Sci USA 99: 101-106.