Transcriptome-wide investigation of genomic imprinting in chicken.

TitleTranscriptome-wide investigation of genomic imprinting in chicken.
Publication TypeJournal Article
Year of Publication2014
AuthorsFrésard, L, Leroux, S, Servin, B, Gourichon, D, Dehais, P, San Cristobal, M, Marsaud, N, Plisson-Petit, F, Bed'hom, B, Coville, J-L, Hormozdiari, F, Beaumont, C, Zerjal, T, Vignal, A, Morisson, M, Lagarrigue, S, Pitel, F
JournalNucleic Acids Res
Volume42
Issue6
Pagination3768-82
Date Published2014 Apr
ISSN1362-4962
KeywordsAnimals, Chick Embryo, Chickens, Female, Gene Expression Profiling, Gene Expression Regulation, Developmental, Genomic Imprinting, High-Throughput Nucleotide Sequencing, Male, Mice, Mice, Inbred DBA, Polymorphism, Single Nucleotide, Sequence Analysis, RNA, Transcriptome
Abstract

Genomic imprinting is an epigenetic mechanism by which alleles of some specific genes are expressed in a parent-of-origin manner. It has been observed in mammals and marsupials, but not in birds. Until now, only a few genes orthologous to mammalian imprinted ones have been analyzed in chicken and did not demonstrate any evidence of imprinting in this species. However, several published observations such as imprinted-like QTL in poultry or reciprocal effects keep the question open. Our main objective was thus to screen the entire chicken genome for parental-allele-specific differential expression on whole embryonic transcriptomes, using high-throughput sequencing. To identify the parental origin of each observed haplotype, two chicken experimental populations were used, as inbred and as genetically distant as possible. Two families were produced from two reciprocal crosses. Transcripts from 20 embryos were sequenced using NGS technology, producing ∼200 Gb of sequences. This allowed the detection of 79 potentially imprinted SNPs, through an analysis method that we validated by detecting imprinting from mouse data already published. However, out of 23 candidates tested by pyrosequencing, none could be confirmed. These results come together, without a priori, with previous statements and phylogenetic considerations assessing the absence of genomic imprinting in chicken.

DOI10.1093/nar/gkt1390
Alternate JournalNucleic Acids Res.
PubMed ID24452801
PubMed Central IDPMC3973300