PMID: 9655245Jul 9, 1998Paper

Identification of scaffold/matrix attachment region in recurrent site of woodchuck hepatitis virus integration

DNA and Cell Biology
E D'UgoM Rapicetta

Abstract

Scaffold or matrix attachment regions (S/MARs) are noncoding genomic DNA sequences displaying in vitro selective binding affinity for nuclear scaffold. They have been reported to be involved in the physical attachment of genomic DNA to the nuclear scaffold, and thus in the organization of the chromatin in functional loops or domains, and in the regulation of gene expression. In this work, we report the identification of an S/MAR in a woodchuck chromosomal locus, named b3n, previously described as a recurrent site of woodchuck hepatitis virus (WHV) DNA integration in woodchuck hepatocellular carcinoma (HCC). The 4.3-kb sequence of this locus contains several Alu-like repeats and a gag-like coding region with frameshift mutations. Computer analysis revealed the presence of a region with unusually high AT content, typical of most S/MARs, and of specific motifs (A boxes, T boxes, topoisomerase II sites, and unwinding elements) overlapping or in proximity to the region with high AT content, predicting that b3n might contain an S/MAR. Fragments of the b3n locus were isolated by conventional and inverse PCR techniques. In in vitro binding experiments with both heterologous and autologous scaffold preparations, a 592-bp fragment spanni...Continue Reading

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Citations

Jul 13, 2002·Journal of Medical Virology·Maria RapicettaMassimo Levrero
May 14, 2004·Nucleic Acids Research·Giulia MeariniFrank O Fackelmayer
Jan 25, 2006·Biochemical and Biophysical Research Communications·Bingbing DaiGuanxiang Qian
Sep 7, 2006·Cytogenetic and Genome Research·C J YeH H Q Heng
Nov 23, 2017·Frontiers in Oncology·Martino Marco Gabra, Leonardo Salmena
Jul 3, 2019·Nucleic Acids Research·Nitin NarwadeAbhijeet Kulkarni

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