Correlation between alterations in nucleosomal organization of LINEs in the promoter of cytochrome P450 2B1/2 gene and induction of CYP 2B1/2B2 mRNA expression by phenobarbitone in rat liver

DNA and Cell Biology

Volumn 24, Issue 6, 2005, Pages 359-370

  Dey, Indranil ^a   Rath, Pramod C ^a  

^a JAWAHARLAL NEHRU UNIVERSITY   (India)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOCHROME P450 2B1; CYTOCHROME P450 2B2; MESSENGER RNA; PHENOBARBITAL; PRIMER DNA; XENOBIOTIC AGENT;

ARTICLE; CHROMATIN STRUCTURE; CORRELATION ANALYSIS; DRUG METABOLISM; ENZYME INDUCTION; GENE EXPRESSION; GENE FUNCTION; GENE SEQUENCE; GENOME; LONG INTERSPERSED REPEAT; NONHUMAN; NUCLEOSOME; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION; RAT; SEQUENCE ANALYSIS; XENOBIOTIC METABOLISM;

ANIMALS; ARYL HYDROCARBON HYDROXYLASES; BASE SEQUENCE; BLOTTING, SOUTHERN; BRAIN; CYTOCHROME P-450 CYP2B1; CYTOCHROME P-450 ENZYME SYSTEM; DNA; GENE EXPRESSION; LIVER; LONG INTERSPERSED NUCLEOTIDE ELEMENTS; MICROCOCCAL NUCLEASE; NUCLEOSOMES; PHENOBARBITAL; POLYMERASE CHAIN REACTION; PROMOTER REGIONS (GENETICS); RATS; RNA, MESSENGER; SEQUENCE HOMOLOGY, NUCLEIC ACID; STEROID HYDROXYLASES;

MAMMALIA;

EID: 20544461707     PISSN: 10445498     EISSN: None     Source Type: Journal    
DOI: 10.1089/dna.2005.24.359     Document Type: Article

References (26)

1. AL-TAIE, O.H., SEUFERT, J., MORK, H., TREIS, H., MENTRUP, B., THALHEIMER, A., STAROSTIK, P., ABEL, J., SCHEURLEH, M., KOHRLE, J., et al. (2002). A complex DNA-repeat structure within the Selenoprotein P promoter contains a functionally relevant polymorphism and is genetically unstable under conditions of mismatch repair deficiency. Eur. J. Hum. Genet. 10, 499-504.
2. ANDO, S., YANG, H., NOZAKI, N., OKAZAKI, T., and K. YODA. (2002). CENP-A, -B, and -C chromatin complex that contains the I-type alpha-satellite array constitutes the prekinetochore in HeLa cells. Mol. Cell. Biol. 22, 2229-2241.
3. AUFFRAY, C., and ROUGEON, F. (1980). Purification of mouse immunoblobulin heavy chain messenger RNAs from total myeloma tumor RNA. Eur. J. Biochem. 107, 303-314.
4. BOWEN, N.J., JORDAN, I.K., EPSTEIN, J.A., WOOD, V., and LEVIN, H.L. (2003). Retrotransposons and their recognition of pol II promoters: A comprehensive survey of the transposable elements from the complete genome sequence of Schizosaccharomyces pombe. Genome Res. 13, 1984-1997.
5. BROUHA, B., SCHUSTAK, J., BADGE, R.M., LUTZ-PRIGGE, S., FARLEY, A.H., MORAN, J.V., and KAZAZIAN, H.H., JR. (2003). Hot L1s account for the bulk of retrotransposition in the human population. Proc. Natl. Acad. Sci. USA. 100, 5280-5285.
6. CHATURVEDI, M.M., and KANUNGO, M.S. (1985). Analysis of chromatin of the brain of young and old rats by micrococcal nuclease and DNase I. Biochem. Int. 6, 357-363.
7. CHURCH, G.M., and GILBERT, W. (1984). Genomic sequencing. Proc. Natl. Acad. Sci. USA 81, 1991-1995.
8. CONTE, C, DASTUGUE, B., and VAURY, C. (2002). Promoter competition as a mechanism of transcriptional interference mediated by retrotransposons. EMBO J. 21, 3908-3916.
9. DEININGER, P.L., MORAN, J.V., BATZER, M.A., and KAZAZIAN, H.H., JR. (2003). Mobile elements and mammalian genome evolution. Curr. Opin. Genet. Dev. 13, 651-658.
10. DEY, I. (2000). A study of chromatin structure and transcription using LINE DNA and simple repeat DNA probes. Ph.D. thesis, Jawaharlal Nehru University, New Delhi.
11. GOODIER, J.L., OSTERTAG, E.M., ENGLEKA, K.A., SELEME, M.C., and KAZAZIAN, H.H. (2004). A potential role for the nucleolus in L1 retrotransposition. Hum. Mol. Genet. 13, 1041-1048.
12. HEWISH, D.R., and BURGOYNE, L.A. (1973). Chromatin sub-structure. The digestion of chromatin DNA at regularly spaced sites by a nuclear deoxyribonuclease. Biochem. Biophys. Res. Commun. 52, 504-510.
13. HON, L.S., and JAIN, A.N. (2003). Compositional structure of repetitive elements is quantitatively related to co-expression of gene pairs. J. Mol. Biol. 332, 305-310.
14. HORNG, J.T., HUANG, H.D., HUANG, S.L., YAN, U.C., and CHANG, Y.C. (2002). Mining putative regulatory elements in promoter regions of Saccharomyces cerevisiae. In Silico Biol. 2, 263-273.
15. JORDAN, I.K., ROGOZIN, I.E., GLAZKO, G.V., and KOONIN, E.V. (2003). Origin of a substantial fraction of human regulatory sequences from transposable elements. Trends Genet. 19, 68-72.
16. KAZAZlAN, H.H., JR. (2004). Mobile elements: drivers of genome evolution. Science 303, 1626-1632.
17. KIRKPATRICK, D.T., WANG, Y.H., DOMINSKA, M., GRIFFITH, J.D., and PETES, T.D. (1999). Control of meiotic recombination and gene expression in yeast by a simple repetitive DNA sequence that excludes nucleosomes. Mol. Cell. Biol. 19, 7661-7671.
18. LANDER, E.S., LINTON, L.M., BIRREN, B., NUSBAUM, C., ZODY, M.C., BALDWIN, J., DEVON, K., DEWAR, K., DOYLE, M., FITZHUGH, W., et al. (2001). Initial sequencing and analysis of the human genome. Nature 409, 860-921.
19. MORAN, J.V., DEBERARDINIS, R.J., and KAZAZIAN, H.H., JR. (1999). Exon shuffling by L1 retrotransposition. Science 283, 1530-1534.
20. NEGRI, R., BUTTINELLI, M., PANETTA, G., DE ARCANGELIS, V., DI MAURO, E., and TRAVERS, A. (2001). Sequence dependence of translational positioning of core nucleosomes. J. Mol. Biol. 307, 987-999.
21. RANGARAJAN, P.N., RAVISHANKAR, H., and PADMANABAN, G. (1987). Isolation of a cytochrome P-450 gene variant and characterization of its 5′ flanking sequences. Biochem. Biophys. Res. Commun. 144, 258-263.
22. ROSSETTI, L., CACCHIONE, S., FUA, M., and SAVING, M. (1998). Nucleosome assembly on telomeric sequences. Biochemistry 37, 6727-6737.
23. SAMBROOK, J., FRITSCH, E.F., and MANIATIS, T. (1989). Molecular Cloning, A Laboratory Manual. (Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY).
24. SHAW, P.M., EDIGKAUFER, M., DOEHMER, J., and ADESNIK, M. (1996). Sequence of the rat PB-inducible CYP2B1 promoter. Biochem. Biophys. Acta 1305, 54-58.
25. VENTER, J.C., ADAMS, M.D., MYERS, E.W., LI, P.W., MURAL, R.J., SUTTON, G.G., SMITH, H.O., YANDELL, M., EVANS, C.A., HOLT, R.A., et al. (2001). The sequence of the human genome. Science 291, 1304-1351.
26. YOSHIMURA, A., URA, K., ASAKURA, H., KOMINAMI, R., and MISHIMA, Y. (2002). Mononucleosomes assembled on a DNA fragment containing (GGA/TCC)(n) repeats can form a DNA-DNA complex. Biochem. Biophys. Res. Commun. 290, 16-22.