Limited DNase I Nicking As a Probe of Gene Conformation

Overview

Journal Proc Natl Acad Sci U S A

Specialty Science

Date 1980 Apr 1

PMID 6929527

Citations 9

Authors

M Zasloff

R D Camerini-Otero

Affiliations

Soon will be listed here.

Abstract

We have extended the use of pancreatic DNase I as a probe of chromatin structure by exploring the accessibility of an active gene to the introduction of the first single-stranded nick. We show by a target analysis that the beta-globin gene is about 25-fold more sensitive to single-site nicking than is an average sequence in the chicken erythrocyte nucleus or the nontranscribed albumin gene. The sites of initial DNase I nicking are shown to cluster within the transcribed sequence of the beta-globin gene.

Citing Articles

Insertion of the Mu1 transposable element into the first intron of maize Adh1 interferes with transcript elongation but does not disrupt chromatin structure.

Vayda M, Freeling M Plant Mol Biol. 2013; 6(6):441-54.

PMID: 24307421 DOI: 10.1007/BF00027136.

DNA rearrangements and antigenic variation in Trypanosoma equiperdum: multiple expression-linked sites in independent isolates of trypanosomes expressing the same antigen.

Longacre S, Hibner U, Raibaud A, Eisen H, Baltz T, Giroud C Mol Cell Biol. 1983; 3(3):399-409.

PMID: 6843549 PMC: 368548. DOI: 10.1128/mcb.3.3.399-409.1983.

Analysis of chromatin of skeletal muscle of developing rats using micrococcal nuclease and DNase I.

Pandey R, Kanungo M Mol Biol Rep. 1984; 9(4):245-51.

PMID: 6708951 DOI: 10.1007/BF00775356.

Interaction of oestrogen and progesterone receptors with specific subfractions of laying-hen oviduct chromatin.

Massol N, LEBEAU M, Baulieu E Biochem J. 1984; 217(1):309-16.

PMID: 6320802 PMC: 1153211. DOI: 10.1042/bj2170309.

Estrogen induces tissue specific changes in the chromatin conformation of the vitellogenin genes in Xenopus.

Felber B, Weber R, Ryffel G Nucleic Acids Res. 1981; 9(11):2475-94.

PMID: 6269051 PMC: 326865. DOI: 10.1093/nar/9.11.2475.

References

Sharp P, Sugden B, Sambrook J . Detection of two restriction endonuclease activities in Haemophilus parainfluenzae using analytical agarose--ethidium bromide electrophoresis. Biochemistry. 1973; 12(16):3055-63. DOI: 10.1021/bi00740a018. View

Brown J, Ingram V . Structural studies on chick embryonic hemoglobins. J Biol Chem. 1974; 249(12):3960-72. View

Maniatis T, Jeffrey A, Kleid D . Nucleotide sequence of the rightward operator of phage lambda. Proc Natl Acad Sci U S A. 1975; 72(3):1184-8. PMC: 432491. DOI: 10.1073/pnas.72.3.1184. View

Southern E . Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975; 98(3):503-17. DOI: 10.1016/s0022-2836(75)80083-0. View

Weintraub H, Groudine M . Chromosomal subunits in active genes have an altered conformation. Science. 1976; 193(4256):848-56. DOI: 10.1126/science.948749. View

Garel A, Axel R . Selective digestion of transcriptionally active ovalbumin genes from oviduct nuclei. Proc Natl Acad Sci U S A. 1976; 73(11):3966-70. PMC: 431285. DOI: 10.1073/pnas.73.11.3966. View

McDonell M, Simon M, Studier F . Analysis of restriction fragments of T7 DNA and determination of molecular weights by electrophoresis in neutral and alkaline gels. J Mol Biol. 1977; 110(1):119-46. DOI: 10.1016/s0022-2836(77)80102-2. View

Levy B, DIXON G . Renaturation kinetics of cDNA complementary to cytoplamic polyadenylated RNA from rainbow trout testis. Accessibility of transcribed genes to pancreatic DNase. Nucleic Acids Res. 1977; 4(4):883-98. PMC: 342492. DOI: 10.1093/nar/4.4.883. View

Panet A, Cedar H . Selective degradation of integrated murine leukemia proviral DNA by deoxyribonucleases. Cell. 1977; 11(4):933-40. DOI: 10.1016/0092-8674(77)90304-x. View

10.

Zasloff M, Felsenfeld G . Analysis of in vitro transcription of duck reticulocyte chromatin using mercury-substituted ribonucleoside triphosphates. Biochemistry. 1977; 16(23):5135-45. DOI: 10.1021/bi00642a029. View

11.

Jeffreys A, Flavell R . A physical map of the DNA regions flanking the rabbit beta-globin gene. Cell. 1977; 12(2):429-39. DOI: 10.1016/0092-8674(77)90119-2. View

12.

Flint S, Weintraub H . An altered subunit configuration associated with the actively transcribed DNA of integrated adenovirus genes. Cell. 1977; 12(3):783-94. DOI: 10.1016/0092-8674(77)90277-x. View

13.

Garel A, Zolan M, Axel R . Genes transcribed at diverse rates have a similar conformation in chromatin. Proc Natl Acad Sci U S A. 1977; 74(11):4867-71. PMC: 432057. DOI: 10.1073/pnas.74.11.4867. View

14.

Zasloff M, Ginder G, Felsenfeld G . A new method for the purification and identification of covalently closed circular DNA molcules. Nucleic Acids Res. 1978; 5(4):1139-52. PMC: 342066. DOI: 10.1093/nar/5.4.1139. View

15.

Palmiter R, Mulvihill E, McKnight G, Senear A . Regulation of gene expression in the chick oviduct by steroid hormones. Cold Spring Harb Symp Quant Biol. 1978; 42 Pt 2:639-47. DOI: 10.1101/sqb.1978.042.01.066. View

16.

Miller D, Turner P, Nienhuis A, Axelrod D, Gopalakrishnan T . Active conformation of the globin genes in uninduced and induced mouse erythroleukemia cells. Cell. 1978; 14(3):511-21. DOI: 10.1016/0092-8674(78)90237-4. View

17.

Groudine M, Das S, Neiman P, Weintraub H . Regulation of expression and chromosomal subunit conformation of avian retrovirus genomes. Cell. 1978; 14(4):865-78. DOI: 10.1016/0092-8674(78)90342-2. View

18.

Stalder J, Seebeck T, Braun R . Degradation of the ribosomal genes by DNAse I in Physarum polycephalum. Eur J Biochem. 1978; 90(2):391-5. DOI: 10.1111/j.1432-1033.1978.tb12616.x. View

19.

Engel J, Dodgson J . Analysis of the adult and embryonic chicken globin genes in chromosomal DNA. J Biol Chem. 1978; 253(22):8239-46. View

20.

Gordon J, Burns A, Christmann J, Deeley R . Cloning of a double-stranded cDNA that codes for a portion of chicken preproalbumin. A general method for isolating a specific DNA sequence from partially purified mRNA. J Biol Chem. 1978; 253(23):8629-39. View