A Resource for the Allele-Specific Analysis of DNA Methylation at Multiple Genomically Imprinted Loci in Mice

• Type of Material: Article
• Authors: Jadiel A. Wasson, Harvard University; Onur Birol, Emory University; David J Katz, Emory University
• Language: English
• Date: 2018-01-01
• Publisher: Genetics Society of America: G3
• Publication Version: Final Published Version
• Copyright Statement: © 2018 Wasson et al.
• License: Creative Commons Attribution 4.0 International
• Final Published Version (URL): http://dx.doi.org/10.1534/g3.117.300417
• Title of Journal or Parent Work: G3
• ISSN: 2160-1836
• Volume: 8
• Issue: 1
• Start Page: 91
• End Page: 103
• Grant/Funding Information: The work was supported by a grant to D.J.K. from the National Science Foundation (IOS1354998).; J.A.W. was supported by the Biochemistry, Cell and Molecular Biology Training Grant (5T32GM008367).
• Keywords: ENDOCRINE DISRUPTORS; DATABASE; PROTEINS; mouse; ESTABLISHMENT; Science & Technology; Genetics & Heredity; DNA methylation; DEMETHYLASE; GENE; imprinting; EXPRESSION; Life Sciences & Biomedicine; PRADER-WILLI-SYNDROME; bisulfite analysis; single nucleotide polymorphism; DBSNP; GENOME
• Research Categories: Biology, Cell; Biology, Molecular

Abstract

Genomically imprinted loci are expressed mono-allelically, dependent upon the parent of origin. Their regulation not only illuminates how chromatin regulates gene expression but also how chromatin can be reprogrammed every generation. Because of their distinct parent-of-origin regulation, analysis of imprinted loci can be difficult. Single nucleotide polymorphisms (SNPs) are required to accurately assess these elements allele specifically. However, publicly available SNP databases lack robust verification, making analysis of imprinting difficult. In addition, the allele-specific imprinting assays that have been developed employ different mouse strains, making it difficult to systemically analyze these loci. Here, we have generated a resource that will allow the allele-specific analysis of many significant imprinted loci in a single hybrid strain of Mus musculus. This resource includes verification of SNPs present within 10 of the most widely used imprinting control regions and allele-specific DNA methylation assays for each gene in a C57BL/6J and CAST/EiJ hybrid strain background.