Tissue and Strain-specific Patterns of Endogenous Proviral Hypomethylation Analyzed by Two-dimensional Gel Electrophoresis

Overview

Journal Proc Natl Acad Sci U S A

Specialty Science

Date 1990 Mar 1

PMID 2107549

Citations 12

Authors

J A Mietz

E L Kuff

Affiliations

Soon will be listed here.

Abstract

Proviral sequences related to the intracisternal A particle (IAP) are amplified and dispersed in the mouse genome. Their expression is associated with hypomethylation at CpG sites in the 5' long terminal repeat. We have used two-dimensional agarose gel electrophoresis to examine patterns of IAP hypomethylation in mouse DNA. The method is sensitive to both the methylation status of a conserved Hae II site in the 5' long terminal repeat and the location of the closest BamHI site in the flanking DNA upstream of each hypomethylated long terminal repeat. The method also defects restriction fragments derived from IAP elements that are themselves methylated but have an unmethylated Hae II site in their 5' adjacent DNA. DNAs from each of four inbred mouse strains (BALB/c, C3H/He, C57BL/6, and DBA/2) gave distinctive two-dimensional patterns of BamHI/Hae II restriction fragments detected by hybridization with an IAP probe. This constitutive pattern was largely conserved among several tissues of each strain, but some tissue-specific variations were observed. The site-specific hypomethylations reflected in the two-dimensional patterns were heritable properties, since DNA from progeny of an interstrain cross contained both parental sets of fragments. IAP elements may be useful endogenous reporters of genomic methylation patterns.

Citing Articles

Epigenomic disruption: the effects of early developmental exposures.

Bernal A, Jirtle R Birth Defects Res A Clin Mol Teratol. 2010; 88(10):938-44.

PMID: 20568270 PMC: 2945443. DOI: 10.1002/bdra.20685.

Gene-environment interactions and epigenetic basis of human diseases.

Liu L, Li Y, Tollefsbol T Curr Issues Mol Biol. 2008; 10(1-2):25-36.

PMID: 18525104 PMC: 2434999.

Repetitive sequence environment distinguishes housekeeping genes.

Eller C, Regelson M, Merriman B, Nelson S, Horvath S, Marahrens Y Gene. 2006; 390(1-2):153-65.

PMID: 17141428 PMC: 1857324. DOI: 10.1016/j.gene.2006.09.018.

Epigenetic regulation of an IAP retrotransposon in the aging mouse: progressive demethylation and de-silencing of the element by its repetitive induction.

Barbot W, Dupressoir A, Lazar V, Heidmann T Nucleic Acids Res. 2002; 30(11):2365-73.

PMID: 12034823 PMC: 117196. DOI: 10.1093/nar/30.11.2365.

Molecular basis of the pleiotropic phenotype of mice carrying the hypervariable yellow (Ahvy) mutation at the agouti locus.

Argeson A, Nelson K, Siracusa L Genetics. 1996; 142(2):557-67.

PMID: 8852853 PMC: 1206988. DOI: 10.1093/genetics/142.2.557.

References

Ymer S, Tucker W, Campbell H, Young I . Nucleotide sequence of the intracisternal A-particle genome inserted 5' to the interleukin-3 gene of the leukemia cell line WEHI-3B. Nucleic Acids Res. 1986; 14(14):5901-18. PMC: 311599. DOI: 10.1093/nar/14.14.5901. View

Jahner D, Jaenisch R . Chromosomal position and specific demethylation in enhancer sequences of germ line-transmitted retroviral genomes during mouse development. Mol Cell Biol. 1985; 5(9):2212-20. PMC: 366946. DOI: 10.1128/mcb.5.9.2212-2220.1985. View

Kelley D, Pollok B, Atchison M, PERRY R . The coupling between enhancer activity and hypomethylation of kappa immunoglobulin genes is developmentally regulated. Mol Cell Biol. 1988; 8(2):930-7. PMC: 363225. DOI: 10.1128/mcb.8.2.930-937.1988. View

Stocking C, Loliger C, Kawai M, Suciu S, Gough N, Ostertag W . Identification of genes involved in growth autonomy of hematopoietic cells by analysis of factor-independent mutants. Cell. 1988; 53(6):869-79. DOI: 10.1016/s0092-8674(88)90329-7. View

Monk M . Genomic imprinting. Genes Dev. 1988; 2(8):921-5. DOI: 10.1101/gad.2.8.921. View

Kuff E, Lueders K . The intracisternal A-particle gene family: structure and functional aspects. Adv Cancer Res. 1988; 51:183-276. DOI: 10.1016/s0065-230x(08)60223-7. View

Lueders K, Segal S, Kuff E . RNA sequences specifically associated with mouse intracisternal A particles. Cell. 1977; 11(1):83-94. DOI: 10.1016/0092-8674(77)90319-1. View

Lueders K, Kuff E . Sequences associated with intracisternal A particles are reiterated in the mouse genome. Cell. 1977; 12(4):963-72. DOI: 10.1016/0092-8674(77)90161-1. View

Ono M, Cole M, White A, Huang R . Sequence organization of cloned intracisternal A particle genes. Cell. 1980; 21(2):465-73. DOI: 10.1016/0092-8674(80)90483-3. View

10.

Yee T, Inouye M . Two-dimensional DNA electrophoresis applied to the study of DNA methylation and the analysis of genome size in Myxococcus xanthus. J Mol Biol. 1982; 154(2):181-96. DOI: 10.1016/0022-2836(82)90059-6. View

11.

Cole M . Differing populations of intracisternal A-particle genes in myeloma tumors and mouse subspecies. J Virol. 1982; 42(2):411-21. PMC: 256867. DOI: 10.1128/JVI.42.2.411-421.1982. View

12.

Rechavi G, Givol D, Canaani E . Activation of a cellular oncogene by DNA rearrangement: possible involvement of an IS-like element. Nature. 1982; 300(5893):607-11. DOI: 10.1038/300607a0. View

13.

Hawley R, Shulman M, Murialdo H, Gibson D, Hozumi N . Mutant immunoglobulin genes have repetitive DNA elements inserted into their intervening sequences. Proc Natl Acad Sci U S A. 1982; 79(23):7425-9. PMC: 347352. DOI: 10.1073/pnas.79.23.7425. View

14.

Brown A, Huang R . Methylation and rearrangement of mouse intracisternal a particle genes in development, aging, and myeloma. Mol Cell Biol. 1983; 3(8):1371-80. PMC: 369983. DOI: 10.1128/mcb.3.8.1371-1380.1983. View

15.

STORB U, Arp B . Methylation patterns of immunoglobulin genes in lymphoid cells: correlation of expression and differentiation with undermethylation. Proc Natl Acad Sci U S A. 1983; 80(21):6642-6. PMC: 391226. DOI: 10.1073/pnas.80.21.6642. View

16.

Morgan R, Huang R . Correlation of undermethylation of intracisternal A-particle genes with expression in murine plasmacytomas but not in NIH/3T3 embryo fibroblasts. Cancer Res. 1984; 44(11):5234-41. View

17.

LASNERET J, Dianoux L, Canivet M, Peries J . Regulation of intracisternal A particles in mouse teratocarcinoma cells: involvement of DNA methylation in transcriptional control. Biol Cell. 1984; 52(3):199-204. DOI: 10.1111/j.1768-322x.1985.tb00337.x. View

18.

Kuff E, FEWELL J . Intracisternal A-particle gene expression in normal mouse thymus tissue: gene products and strain-related variability. Mol Cell Biol. 1985; 5(3):474-83. PMC: 366739. DOI: 10.1128/mcb.5.3.474-483.1985. View

19.

Fanning T, Hu W, Cardiff R . Analysis of tissue-specific methylation patterns of mouse mammary tumor virus DNA by two-dimensional Southern blotting. J Virol. 1985; 54(3):726-30. PMC: 254858. DOI: 10.1128/JVI.54.3.726-730.1985. View

20.

Leiter E, FEWELL J, Kuff E . Glucose induces intracisternal type A retroviral gene transcription and translation in pancreatic beta cells. J Exp Med. 1986; 163(1):87-100. PMC: 2188002. DOI: 10.1084/jem.163.1.87. View