The Complete Nucleotide-sequence Of Bovine Liver Cytochrome-b5 Messenger-rna
Biochemistry & Molecular Biology
Cristiano R J; Steggles A W
Nucleic Acids Research
1989
1989-01
Journal Article or Conference Abstract Publication
<a href="http://doi.org/10.1093/nar/17.2.799" target="_blank" rel="noreferrer noopener">10.1093/nar/17.2.799</a>
Genome-wide interrogation of hepatic FXR reveals an asymmetric IR-1 motif and synergy with LRH-1
liver; orphan nuclear receptor; Biochemistry & Molecular Biology; binding; farnesoid X receptor; bile-acid; dna; activated receptor; fatty-acid synthase; ppar-gamma-rxr; target genes
We used mouse hepatic chromatin enriched with an FXR antibody and chromatin immunoprecipitation-sequencing (ChIP-seq) to evaluate FXR binding on a genome-wide scale. This identified 1656 FXR-binding sites and 10% were located within 2 kb of a transcription start site which is much higher than predicted by random occurrence. A motif search uncovered a canonical nuclear receptor IR-1 site, consistent with in vitro DNA-binding studies reported previously. A separate nuclear receptor half-site for monomeric receptors such as LRH-1 was co-enriched and FXR activation of four newly identified promoters was significantly augmented by an LRH-1 expression vector in a co-transfection assay. There were 1038 genes located within 20 kb of a peak and a gene set enrichment analysis showed that genes identified by our ChIP-seq analysis are highly correlated with genes activated by an FXR-VP16 adenovirus in primary mouse hepatocytes providing functional relevance to the genome-wide binding study. Gene Ontology analysis showed FXR-binding sites close to many genes in lipid, fatty acid and steroid metabolism. Other broad gene clusters related to metabolism, transport, signaling and glycolysis were also significantly enriched. Thus, FXR may have a much wider role in cellular metabolism than previously appreciated.
Chong H K; Infante A M; Seo Y K; Jeon T I; Zhang Y Q; Edwards P A; Xie X H; Osborne T F
Nucleic Acids Research
2010
2010-10
Journal Article or Conference Abstract Publication
<a href="http://doi.org/10.1093/nar/gkq397" target="_blank" rel="noreferrer noopener">10.1093/nar/gkq397</a>
Oxidative damage of DNA by chromium(V) complexes: relative importance of base versus sugar oxidation
Biochemistry & Molecular Biology; in-vitro; nucleic-acids; abstraction; aqueous-solution; carcinogen chromium(vi); hydrogen; molecular-oxygen; radical formation; redox potentials; singlet oxygen; strand breaks
Chromium(V)-mediated oxidative damage of deoxyribonucleic acids was investigated at neutral pH in aqueous solution by utilizing bis(2-ethyl-2-hydroxybutanato)oxochromate(V) (I) and bis(hydroxyethyl)amino-tris(hydroxymethyl)methane)oxochromate(V) (II). Single-stranded and double-stranded (ds) calf thymus and human placenta DNA, as well as two oligomers, 5'-GATCTAGTAGGAGGACAAATAGTGTPTG-3' and 5'-GATCCAAGCAAACACTATTTGTCCTCCTACTA-3', were reacted with the chromium(V) complexes. Most products were separated and characterized by chromatographic and spectroscopic methods, Polyacrylamide gel electrophoresis experiments reveal more damage at G sites in comparison to other bases. Three primary oxidation products, 5-methylene-2-furanone (5-MF), furfural and 8-oxo-2'-deoxyguanosine, were characterized, A minor product, which appears to be thymine propenal, was also observed. The dsDNA produces more furfural than furanone, The formation of these two products resulted from hydrogen abstraction dr hydride transfer from C1' and C5' positions of the ribose to the oxo-chromium(V) center. Since no enhancements of these products (except propenal) were observed in the presence of oxygen, mechanisms pertaining to the participation of activated oxygen species may be ruled out. The oxidation of the G base is most likely associated with an oxygen atom transfer from the oxo-metallates to the double bond between C8 and N7 of the purine ring. The formation of the propenal may be associated with an oxygen-activated species, since a marginal enhancement of this product was observed in the presence of oxygen, The formation of furfural in higher abundance over 5-MF for dsDNA was attributed to the ease of hydrogen abstraction (or hydride transfer) from the C5' compared to C1' position of the ribose within a Cr(V)-DNA intermediate in which the metal center is bound to the phosphate diester moiety.
Bose R N; Moghaddas S; Mazzer P A; Dudones L P; Joudah L; Stroup D
Nucleic Acids Research
1999
1999-05
Journal Article or Conference Abstract Publication
<a href="http://doi.org/10.1093/nar/27.10.2219" target="_blank" rel="noreferrer noopener">10.1093/nar/27.10.2219</a>
The complete nucleotide sequence of bovine liver cytochrome b5 mRNA.
Animals; Amino Acid Sequence; Base Sequence; Molecular Sequence Data; Liver/*enzymology; Cattle; Cytochromes b5; Cytochrome b Group/*genetics/isolation & purification; RNA; Messenger/*isolation & purification
Cristiano R J; Steggles A W
Nucleic acids research
1989
1989-01
Article information provided for research and reference use only. All rights are retained by the journal listed under publisher and/or the creator(s).
<a href="http://doi.org/10.1093/nar/17.2.799" target="_blank" rel="noreferrer noopener">10.1093/nar/17.2.799</a>