MPE-seq
Methidiumpropyl Ethylenediaminetetraacetic Acid (EDTA) Sequencing
MPE-seq is a method for the genome-wide characterization of chromatin that involves the treatment of nuclei with a complex of methidiumpropyl-EDTA (MPE) and ferrous iron. The MPE-Fe(II) complex binds to DNA via intercalation of the methidium moiety and then generates single- and double-stranded DNA breaks in the presence of oxygen Hertzberg et al., 1982).
MPE-Fe(II) preferentially cleaves the linker DNA between nucleosomes with little sequence bias, unlike MNase. For example, DNA sequences at RNA splice sites are hypersensitive to digestion by MNase but not by MPE-Fe(II). The combined use of MPE-seq and MNase-Seq should allow the identification of noncanonical chromatin structures (Ishii et al., 2015).
Advantages:
- Very little sequence bias
Disadvantages:
- Not replicated in other laboratories
Reagents:
Illumina Library prep and Array Kit Selector
Reviews:
None available yet
References:
Ishii H., Kadonaga J. T. and Ren B. MPE-seq, a new method for the genome-wide analysis of chromatin structure. Proc Natl Acad Sci U S A. 2015;112:E3457-3465