# Candidate imprinting control regions in dog genome

## TL;DR

This study identifies candidate imprinting control regions in the dog genome, focusing on regions similar to those in mice and humans.

## Contribution

The paper introduces a bioinformatics method to discover candidate ICRs in the dog genome using CpG-rich motif clusters and density plots.

## Key findings

- Candidate ICRs in the Boxer dog genome were identified using density plots of CpG-rich motifs.
- Several candidate ICRs in the dog genome align with known ICR positions in mouse and human DNA.
- The study highlights potential roles of these ICRs in regulating imprinted genes important for development and physiology.

## Abstract

In mammals, genomic imprinting restricts the expression of a subset of genes from one of the two parental alleles. The process is regulated by imprinting control regions (ICRs) dispersed across autosomal chromosomal DNA. An unresolved question is how to discover candidate ICRs across the entire canine genome. Previously, bioinformatics analyses found a significant fraction of well-known ICRs in mouse, human, and Bos taurus. Analyses were based on finding the genomic positions of clusters of several CpG-rich motifs known as ZFBS-morph overlaps. These motifs are composite DNA elements. For this report, we performed similar studies to pinpoint candidate ICRs in the dog genome. A key feature of the bioinformatics approach is creating density plots to mark cluster positions as peaks. In genome-wide analyses, peaks in plots effectively discovered candidate ICRs along chromosomal DNA sequences of the Canis familiaris breed Boxer. With respect to Non-Dog RefSeq Genes, several candidate ICRs are in regions analogous to ICR positions in mouse DNA, in human DNA, or both. In the Boxer genome, examples include candidate ICRs for parent-of-origin-specific expression of the MEST isoform PEG1, INPP5F_V2, the PLAGL1 isoform ZAC1, IGF2R, PEG3, and GNAS loci. In mouse, imprinted genes in these loci play important roles in developmental and physiological processes.