The subunit structure of chromatin from Physarum polycephalum (original) (raw)

Abstract

Nucleosome DNA repeat lengths in Physarum chromatin, determined by nuclease digestion experiments, are shorter than those observed in most mammalian chromatin and longer than those reported for chromatin of certain other lower eukaryotes. After digestion with staphylococcal nuclease for short periods of time an average repeat length of 190 base pairs is measured. After more extensive digestion an average repeat length of 172 base pairs is measured. Upon prolonged digestion DNA is degraded to an average monomer subunit length of 160 base pairs, with only a small amount of DNA found in lengths of 130 base pairs or smaller. Mathematical analysis of the data suggests that the Physarum nucleosome DNA repeat comprises a protected DNA segment of about 159 base pairs with a nuclease-accessible interconnecting segment which ranges from 13 to 31 base pairs. The spacing data are compatible with measurements from electron micrographs of Physarum chromatin.

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Selected References

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  1. Axel R., Melchior W., Jr, Sollner-Webb B., Felsenfeld G. Specific sites of interaction between histones and DNA in chromatin. Proc Natl Acad Sci U S A. 1974 Oct;71(10):4101–4105. doi: 10.1073/pnas.71.10.4101. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Baldwin J. P., Boseley P. G., Bradbury E. M., Ibel K. The subunit structure of the eukaryotic chromosome. Nature. 1975 Jan 24;253(5489):245–249. doi: 10.1038/253245a0. [DOI] [PubMed] [Google Scholar]
  3. Bradbury E. M., Molgaard H. V., Stephens R. M., Bolund L. A., Johns E. W. X-ray studies of nucleoproteins depleted of lysine-rich histone. Eur J Biochem. 1972 Dec 18;31(3):474–482. doi: 10.1111/j.1432-1033.1972.tb02555.x. [DOI] [PubMed] [Google Scholar]
  4. Finch J. T., Noll M., Kornberg R. D. Electron microscopy of defined lengths of chromatin. Proc Natl Acad Sci U S A. 1975 Sep;72(9):3320–3322. doi: 10.1073/pnas.72.9.3320. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Gorovsky M. A., Keevert J. B. Subunit structure of a naturally occurring chromatin lacking histones F1 and F3. Proc Natl Acad Sci U S A. 1975 Sep;72(9):3536–3540. doi: 10.1073/pnas.72.9.3536. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Griffin B. E., Fried M., Cowie A. Polyoma DNA: a physical map. Proc Natl Acad Sci U S A. 1974 May;71(5):2077–2081. doi: 10.1073/pnas.71.5.2077. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Hewish D. R., Burgoyne L. A. Chromatin sub-structure. The digestion of chromatin DNA at regularly spaced sites by a nuclear deoxyribonuclease. Biochem Biophys Res Commun. 1973 May 15;52(2):504–510. doi: 10.1016/0006-291x(73)90740-7. [DOI] [PubMed] [Google Scholar]
  8. Kornberg R. D. Chromatin structure: a repeating unit of histones and DNA. Science. 1974 May 24;184(4139):868–871. doi: 10.1126/science.184.4139.868. [DOI] [PubMed] [Google Scholar]
  9. Lohr D., Van Holde K. E. Yeast chromatin subunit structure. Science. 1975 Apr 11;188(4184):165–166. doi: 10.1126/science.1090006. [DOI] [PubMed] [Google Scholar]
  10. Maniatis T., Jeffrey A., van deSande H. Chain length determination of small double- and single-stranded DNA molecules by polyacrylamide gel electrophoresis. Biochemistry. 1975 Aug 26;14(17):3787–3794. doi: 10.1021/bi00688a010. [DOI] [PubMed] [Google Scholar]
  11. Miller O. L., Jr, Bakken A. H. Morphological studies of transcription. Acta Endocrinol Suppl (Copenh) 1972;168:155–177. doi: 10.1530/acta.0.071s155. [DOI] [PubMed] [Google Scholar]
  12. Molgaard H. V., Matthews H. R., Bradbury E. M. Organisation of genes for ribosomal RNA in Physarum polycephalum. Eur J Biochem. 1976 Sep 15;68(2):541–549. doi: 10.1111/j.1432-1033.1976.tb10842.x. [DOI] [PubMed] [Google Scholar]
  13. Morris N. R. Nucleosome structure in Aspergillus nidulans. Cell. 1976 Jul;8(3):357–363. doi: 10.1016/0092-8674(76)90147-1. [DOI] [PubMed] [Google Scholar]
  14. Noll M. Differences and similarities in chromatin structure of Neurospora crassa and higher eucaryotes. Cell. 1976 Jul;8(3):349–355. doi: 10.1016/0092-8674(76)90146-x. [DOI] [PubMed] [Google Scholar]
  15. Noll M. Subunit structure of chromatin. Nature. 1974 Sep 20;251(5472):249–251. doi: 10.1038/251249a0. [DOI] [PubMed] [Google Scholar]
  16. Oudet P., Gross-Bellard M., Chambon P. Electron microscopic and biochemical evidence that chromatin structure is a repeating unit. Cell. 1975 Apr;4(4):281–300. doi: 10.1016/0092-8674(75)90149-x. [DOI] [PubMed] [Google Scholar]
  17. Pardon J. F., Wilkins M. H., Richards B. M. Super-helical model for nucleohistone. Nature. 1967 Jul 29;215(5100):508–509. doi: 10.1038/215508a0. [DOI] [PubMed] [Google Scholar]
  18. Pardon J. F., Worcester D. L., Wooley J. C., Tatchell K., Van Holde K. E., Richards B. M. Low-angle neutron scattering from chromatin subunit particles. Nucleic Acids Res. 1975 Nov;2(11):2163–2176. doi: 10.1093/nar/2.11.2163. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Rill R. L., Oosterhof D. K., Hozier J. C., Nelson D. A. Heterogeneity of chromatin fragments produced by micrococcal nuclease action. Nucleic Acids Res. 1975 Sep;2(9):1525–1538. doi: 10.1093/nar/2.9.1525. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Shaw B. R., Herman T. M., Kovacic R. T., Beaudreau G. S., Van Holde K. E. Analysis of subunit organization in chicken erythrocyte chromatin. Proc Natl Acad Sci U S A. 1976 Feb;73(2):505–509. doi: 10.1073/pnas.73.2.505. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Sollner-Webb B., Felsenfeld G. A comparison of the digestion of nuclei and chromatin by staphylococcal nuclease. Biochemistry. 1975 Jul;14(13):2915–2920. doi: 10.1021/bi00684a019. [DOI] [PubMed] [Google Scholar]
  22. Vogt V. M., Braun R. Repeated structure of chromatin in metaphase nuclei of Physarum. FEBS Lett. 1976 Apr 15;64(1):190–192. doi: 10.1016/0014-5793(76)80280-3. [DOI] [PubMed] [Google Scholar]
  23. Woodcock C. L., Safer J. P., Stanchfield J. E. Structural repeating units in chromatin. I. Evidence for their general occurrence. Exp Cell Res. 1976 Jan;97:101–110. doi: 10.1016/0014-4827(76)90659-5. [DOI] [PubMed] [Google Scholar]