Two Alleles of a Developmentally Regulated α-Tubulin Locus in Physarum Polycephalum Replicate on Different Schedules

REFERENCES

• Aelen, J. Μ. A., and F. Wanka. 1984. Newly-initiated DNA isolated from Physarum in early S-phase consists of nascent- nascent duplexes. Exp. Cell Res. 154:394–401.
   PubMedGoogle Scholar
• Bell, L., and B. Byers. 1983. Separation of branched from linear DNA by two-dimensional gel electrophoresis. Anal. Biochem. 130:527–535.
   PubMedGoogle Scholar
• Bello, L.J. 1983. Differential transcription of early and late- replicating DNA in human cells. Exp. Cell Res. 146:79–86.
   PubMedGoogle Scholar
• Braun, R., C. Mittermayer, and H. P. Rusch. 1965. Sequential temporal replication of DNA in Physarum polycephalum. Proc. Natl. Acad. Sci. USA 53:924–931.
   PubMed Web of Science ®Google Scholar
• Brewer, B. J., and W. L. Fangman. 1987. The localization of replication origins on ARS plasmids in S. cerevisiae. Cell 51:463–471.
   PubMed Web of Science ®Google Scholar
• Brewer, E. N., T. E. Evans, and H. H. Evans. 1974. Studies on the mechanism of DNA replication in Physarum polycephalum. J. Mol. Biol. 90:335–342.
   PubMed Web of Science ®Google Scholar
• Buckler-White, A. J., and V. Pigiet. 1982. Isolation and characterization of replication forks from discrete regions of the polyoma genome. J. Virol. 44:499–508.
   PubMedGoogle Scholar
• Burland, T. G., K. Gull, T. Schedl, R. S. Boston, and W. F. Dove. 1983. Cell type-dependent expression of tubulins in Physarum. J. Cell Biol. 97:1852–1859.
   PubMedGoogle Scholar
• Burland, T. G., L. Solnica-Krezel, J. Bailey, D. B. Cunningham, and W. F. Dove. Patterns of inheritance, development and the mitotic cycle in the protist Physarum. Adv. Microb. Physiol., in press.
   Google Scholar
• Campbell, J. L., and C. S. Newton. 1991. Chromosomal DNA replication, p. 41–146. In J. R. Broach, E. W. Jones, and J. R. Pringle (ed.), The molecular and cellular biology of the yeast Saccharomyces: genome dynamics, protein synthesis and energetics, vol. 1. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
   Google Scholar
• Cooke, D. J., and J. Dee. 1975. Methods for the isolation and analysis of plasmodial mutants in Physarum polycephalum. Genet. Res. 24:175–187.
   Google Scholar
• Cunningham, D. B., G. L. Buchschacher, Jr., T. G. Burland, W. F. Dove, D. Kessler, and E. C. A. Paul. Cloning and characterization of the altA α-tubulin gene of Physarum. J. Gen. Microbiol., in press.
   Google Scholar
• Daniel, J. W., and H. H. Baldwin. 1964. Methods of culture for plasmodial myxomycètes, p. 9–41. In D. Μ. Prescott (ed.), Methods in cell physiology, vol. 1. Academic Press, New York.
   Google Scholar
• Dhar, V., A. I. Skoultchi, and C. L. Schildkraut. 1989. Activation and repression of a β-globin gene in cell hybrids is accompanied by a shift in its temporal replication. Mol. Cell. Biol. 9:3524–3532.
   PubMedGoogle Scholar
• Dijkwel, P. A., J. P. Vaughn, and J. L. Hamlin. 1991. Mapping of replication initiation sites in mammalian genomes by twodimensional gel analysis: stabilization and enrichment of replication intermediates by isolation on the nuclear matrix. Mol. Cell. Biol. 11:3850–3859.
   PubMedGoogle Scholar
• Epner, E., R. A. Rifkind, and P. A. Marks. 1981. Replication of alpha and beta globin DNA sequences occurs during early S-phase in murine erythroleukemia cells. Proc. Natl. Acad. Sci. USA 78:3058–3062.
   PubMedGoogle Scholar
• Evans, H. H., and T. E. Evans. 1970. Methylation of the deoxyribonucleic acid of Physarum pofycephalum at various periods during the mitotic cycle. J. Biol. Chem. 245:6436–6441.
   PubMedGoogle Scholar
• Fangman, W. L., and B. J. Brewer. 1991. Activation of replication origins within yeast chromosomes. Annu. Rev. Cell Biol. 7:375–402.
   PubMedGoogle Scholar
• Ferguson, B. Μ., B. J. Brewer, A. E. Reynolds, and W. L. Fangman. 1991. A yeast origin of replication is activated late in S-phase. Cell 65:507–515.
   PubMed Web of Science ®Google Scholar
• Ferguson, B. Μ., and W. L. Fangman. 1992. A position effect on the time of replication origin activation in yeast. Cell 68:333–339.
   PubMed Web of Science ®Google Scholar
• Funderud, S., R. Andreassen, and F. Haugli. 1978. DNA replication in Physarum polycephalum: bidirectional replication of DNA within replicons. Nucleic Acids Res. 5:713–721.
   PubMedGoogle Scholar
• Funderud, S., R. Andreassen, and F. Haugli. 1979. DNA replication in Physarum polycephalum: electron microscopic and autoradiographic analysis of replicating DNA from defined stages of the S-period. Nucleic Acids Res. 6:1417–1431.
   PubMedGoogle Scholar
• Gilbert, D. M., and S. N. Cohen. 1990. Position effects on the timing of replication of Chromosomally integrated simian virus 40 molecules in Chinese hamster cells. Mol. Cell. Biol. 10:4345–4355.
   PubMedGoogle Scholar
• Goldman, Μ. A., G. P. Holmquist, Μ. C. Gray, L. A. Caston, and A. Nag. 1984. Replication timing of genes and middle repetitive sequences. Science 224:686–692.
   PubMedGoogle Scholar
• Grant, S. G., and V. Μ. Chapman. 1988. Mechanisms of X-chromosome regulation. Annu. Rev. Genet. 22:199–233.
   PubMedGoogle Scholar
• Green, L. L. 1987. Regulation of tubulin gene expression through the life and cell cycle of Physarum polycephalum. Ph.D. thesis. University of Wisconsin, Madison.
   Google Scholar
• Green, L. L., and W. F. Dove. 1988. Correlation between tubulin mRNA stability and poly(A) length over the cell cycle of Physarum polycephalum. J. Mol. Biol. 200:321–328.
   PubMedGoogle Scholar
• Green, L. L., Μ. Μ. Schroeder, Μ. A. Diggins, and W. F. Dove. 1987. Developmental regulation and identification of an isotype encoded by altB, an alpha-tubulin locus in Physarum polycephalum. Mol. Cell. Biol. 7:3337–3340.
   PubMedGoogle Scholar
• Guinta, D. R., J. Y. Tso, S. Narayanswami, B. A. Hamkalo, and L. J. Korn. 1986. Early replication and expression of oocytetype 5S RNA genes in a Xenopus somatic cell line carrying a translocation. Proc. Natl. Acad. Sci. USA 83:5150–5154.
   PubMedGoogle Scholar
• Guttes, E., and S. Guttes. 1964. Mitotic synchrony in the plasmodia of Physarum polycephalum and mitotic synchronization by coalescence of microplasmodia, p. 43–54. In D. Μ. Prescott (ed.), Methods in cell physiology, vol. 1. Academic Press, New York.
   Google Scholar
• Hamlin, J. L., J. P. Vaughn, P. A. Dijkwel, T.-H. Leu, and C. Ma. 1991. Origins of replication: timing and chromosomal position. Curr. Opin. Cell Biol. 3:414–421.
   PubMedGoogle Scholar
• Hatton, K. S., V. Dhar, E. H. Brown, Μ. A. Iqbal, S. Stuart, V. T. Didamo, and C. L. Schildkraut. 1988. Replication program of active and inactive multigene families in mammalian cells. Mol. Cell. Biol. 8:2149–2158.
   PubMed Web of Science ®Google Scholar
• Held, P. G., and N. H. Heintz. 1992. Eukaryotic replication origins. Biochim. Biophys. Acta 1130:235–246.
   PubMedGoogle Scholar
• Housman, D., and J. A. Huberman. 1975. Changes in the rate of DNA replication fork movement during S phase in mammalian cells. J. Mol. Biol. 94:173–181.
   PubMedGoogle Scholar
• Hoy, C. A., E. D. Lewis, and R. T. Schimke. 1990. Perturbation of DNA replication and cell cycle progression by commonly used [3H]thymidine labeling protocols. Mol. Cell. Biol. 10:1584–1592.
   PubMed Web of Science ®Google Scholar
• Hoy, C. A., G. C. Rice, Μ. Kovacs, and R. T. Schimke. 1987. Over-replication of DNA in S phase Chinese hamster ovary cells after DNA synthesis inhibition. J. Biol. Chem. 262:11927–11934.
   PubMed Web of Science ®Google Scholar
• Izumikawa, Y., K. Naritomi, and K. Hirayama. 1991. Replication asynchrony between homologs 15q11.2: cytogenetic evidence for genomic imprinting. Hum. Genet. 87:1–5.
   PubMedGoogle Scholar
• James, C. D., and Μ. Leffak. 1986. Polarity of DNA replication through the avian alpha-globin locus. Mol. Cell. Biol. 6:976–984.
   PubMedGoogle Scholar
• Kessler, D. 1967. Nucleic acid synthesis during and after mitosis in the slime mold, Physarum polycephalum. Exp. Cell Res. 45:676–680.
   PubMedGoogle Scholar
• Krammer, G., Μ. Singhofer-Wowra, K. Seedorf, Μ. Little, and T. Schedi. 1985. A plasmodial α-tubulin cDNA from Physarum polycephalum. Nucleotide sequence and comparative analysis. J. Mol. Biol. 183:633–638.
   PubMedGoogle Scholar
• Kubbies, M., and G. Pierron. 1983. Mitotic cell cycle control in Physarum. Exp. Cell Res. 149:57–67.
   PubMedGoogle Scholar
• Kunzler, P., U. Pauli, and R. Braun. 1984. Regions in the ribosomal mini-chromosome of Physarum polycephalum are protected from restriction endonucleases; protection is insensitive to high salt in the G-phase and sensitive in the M-phase of the cell cycle. J. Mol. Biol. 179:651–666.
   PubMedGoogle Scholar
• Laskey, R. A., and A. D. Mills. 1977. Enhanced autoradiographic detection of 32P and 125I using intensifying screens and hypersensitized film. FEBS Lett. 82:314–316.
   PubMed Web of Science ®Google Scholar
• Linskins, Μ. H. K., and J. A. Huberman. 1988. Organization of replication of ribosomal DNA in Saccharomyces cerevisiae. Mol. Cell. Biol. 8:4927–4935.
   PubMedGoogle Scholar
• Maurer-Schultze, B., Μ. Siebert, and I. D. Bassukas. 1988. An in vivo study on the synchronizing effect of hydroxyurea. Exp. Cell Res. 174:230–243.
   PubMed Web of Science ®Google Scholar
• McCormick, J. J., and R. Μ. Nardone. 1970. The effect of nitrogen mustard on the nuclear cycle and DNA synthesis in Physarum polycephalum. Exp. Cell Res. 60:247–256.
   PubMedGoogle Scholar
• Mohberg, J., and H. P. Rusch. 1969. Growth of large plasmodia of the myxomycete Physarum polycephalum. J. Bacteriol. 97:1411–1418.
   PubMed Web of Science ®Google Scholar
• Mohberg, J., and H. P. Rusch. 1971. Isolation and DNA content of nuclei of Physarum polycephalum. Exp. Cell Res. 66:305–316.
   PubMedGoogle Scholar
• Monteiro, Μ. J., and R. A. Cox. 1987. Primary structure of an α-tubulin gene of Physarum polycephalum. J. Mol. Biol. 193:427–438.
   PubMedGoogle Scholar
• Nawotka, K. A,, and J. A. Huberman. 1988. Two-dimensional gel electrophoretic method for mapping DNA replicons. Mol. Cell. Biol. 8:1408–1413.
   PubMedGoogle Scholar
• Nilson, T., and C. Baglioni. 1979. Unusual base-pairing of newly synthesized DNA in HeLa Cells. J. Mol. Biol. 133:319–338.
   PubMedGoogle Scholar
• Ockey, C. H., and R. Saffhill. 1976. The comparative effects of short-term DNA inhibition on replicon synthesis in mammalian cells. Exp. Cell Res. 103:361–373.
   PubMedGoogle Scholar
• Pierron, G., Μ. Benard, E. Puvion, R. Flanagan, H. W. Sauer, and D. Pallotta. 1989. Replication timing of 10 developmentally regulated genes in Physarum polycephalum. Nucleic Acids Res. 17:553–566.
   PubMedGoogle Scholar
• Pierron, G., D. S. Durica, and H. W. Sauer. 1984. Invariant temporal order of replication of the four actin gene loci during the naturally synchronous mitotic cycles of Physarum polycephalum. Proc. Natl. Acad. Sci. USA 81:6393–6397.
   PubMedGoogle Scholar
• Rigby, P. W. J., Μ. Dieckmann, C. Rhodes, and P. Berg. 1977. Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I. J. Mol. Biol. 113:237–251.
   PubMed Web of Science ®Google Scholar
• Riggs, A. D., and G. P. Pfeifer. 1992. X-chromosome inactivation and cell memory. Trends Genet. 8:169–174.
   PubMedGoogle Scholar
• Schedl, T. 1984. Genetic organization and the expression of actin and α- and β-tubulin gene families in Physarum polycephalum. Ph.D. thesis. University of Wisconsin, Madison.
   Google Scholar
• Schedl, T., T. G. Burland, K. Gull, and W. F. Dove. 1984. Cell cycle regulation of tubulin RNA level, tubulin protein synthesis, and assembly of microtubules in Physarum. J. Cell Biol. 99:155–165.
   PubMedGoogle Scholar
• Schedl, T., J. Owens, W. F. Dove, and T. G. Burland. 1984. Genetics of the tubulin gene families of Physarum. Genetics 108:143–164.
   PubMedGoogle Scholar
• Schempp, W. 1980. Asynchrony in late replication between homologous autosomes in primary cultures of Chinese hamster fibroblasts. Chromosoma 79:199–206.
   PubMedGoogle Scholar
• Schimke, R. T., S. W. Sherwood, A. B. Hill, and R. N. Johnston. 1986. Overreplication and recombination of DNA in higher eukaryotes: potential consequences and biological implications. Proc. Natl. Acad. Sci. USA 83:2157–2161.
   PubMed Web of Science ®Google Scholar
• Selig, S., K. Okumura, D. C. Ward, and H. Cedar. 1992. Delineation of DNA replication time zones by fluorescence in situ hybridization. EMBO J. 11:1217–1225.
   PubMed Web of Science ®Google Scholar
• Southern, E. Μ. 1975. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J. Mol. Biol. 98:503–517.
   PubMed Web of Science ®Google Scholar
• Spradling, A. C., D. V. de Cicco, B. T. Wakimoto, J. F. Levine, L. J. Kalfayan, and L. Cooley. 1987. Amplification of the X-Iinked Drosophila chorion gene cluster requires a region upstream from the s38 chorion gene. EMBO J. 6:1045–1053.
   PubMed Web of Science ®Google Scholar
• Tatsumi, K., and B. Strauss. 1978. Production of DNA bifilarly substituted with bromodeoxyuridine in the first round of synthesis: branch migration during isolation of cellular DNA. Nucleic Acids Res. 5:331–347.
   PubMedGoogle Scholar
• Taylor, J. H. 1977. Increase in DNA replication sites in cells held at the beginning of S phase. Chromosoma 62:291–300.
   PubMed Web of Science ®Google Scholar
• Turnock, G., S. R. Morris, and J. Dee. 1981. A comparison of the proteins of the amoebal and plasmodial phases of the slime mould, Physarum polycephalum. Eur. J. Biochem. 115:533–538.
   PubMedGoogle Scholar
• Umek, R. Μ., Μ. H. K Linskins, D. Kowalski, and J. A. Huberman. 1989. New beginnings in studies of eukaryotic DNA replication origins. Biochim. Biophys. Acta 1007:1–14.
   PubMedGoogle Scholar
• Vanyushin, B. F., A. L. Mazin, V. K. Vasilyev, and V. K. Belokersky. 1973. The content of 5-methylcytosine in animal DNA: the species and tissue specificity. Biochim. Biophys. Acta 299:397–403.
   PubMed Web of Science ®Google Scholar
• Wahl, G. Μ., Μ. Stern, and G. R. Stark. 1979. Efficient transfer of large DNA fragments from agarose gels to diazobenzyloxymethyl-paper and rapid hybridization by using dextran sulfate. Proc. Natl. Acad. Sci. USA 76:3683–3687.
   PubMed Web of Science ®Google Scholar
• Walden, P. D., A. B. Blindt, C. R. Birkett, R. A. Cox, and K. Gull. 1989. Recognition of specific Physarum α-tubulin isotypes by a monoclonal antibody. Eur. J. Biochem. 185:383–389.
   PubMedGoogle Scholar
• Walden, P. D., Μ. J. Monteiro, K. Gull, and R. A. Cox. 1989b. Structure and expression of an α-tubulin gene of Physarum polycephalum. Eur. J. Biochem. 181:583–592.
   PubMedGoogle Scholar
• Zannis-Hadjopoulos, Μ., Μ. Persico, and R. G. Martin. 1981. The remarkable instability of replication loops provides a general method for the isolation of origins of DNA replication. Cell 27:155–163.
   PubMedGoogle Scholar