Increased egg shell temperature during incubation leads to changes in transcriptional and epigenetic profiles in chicken lungs

These RDS files contain DESeqDataSet objects subsets per broiler age and treatment. These objects are the result of DESeq2::DESeq( … ,betaPrior=FALSE).The .txt-objects contain the normalized sequencing counts per broiler age and treatment group. These objects are the result of DESeq2::counts( … , normalized=TRUE). Data was generated using STAR v2.7.10a and DESeq2 v1.36. Metadata is included as Excel file.

Sequencing data is deposited at NCBI-SRA under BioProject: PRJNA949139.     

Study abstract

D. Schokker, J. de Vos, P.B. Stege, O. Madsen, H.J. Wijnen, S.K. Kar, and J.M.J. Rebel

Health and resilience against respiratory diseases are important features for broiler chicken. In this study, epigenetic and transcriptomic changes in the lungs of broiler chickens of different ages during rearing that were either exposed to elevated egg shell temperature (HIGH) of 38.9°C during mid-incubation or normal egg shell temperature (control; CON). The objective was to better understand how environmental challenges, such as heat stress during egg incubation, affect the development of the immune system and health of broiler chicken at later age. To this end we generated both epigenetic and transcriptomic data of lung tissue of elevated HIGH and CON chicken, furthermore these chicken were challenged by introducing either an infectious E. coli or an IBV vaccination to monitor the respiratory response. Thousands of differential methylated sites were observed at days 15 and 33, when comparing HIGH vs. CON. Pathway enrichment analysis of HIGH vs. CON showed that differentially expressed genes were mainly involved in cilium, cytoskeleton, and immune processes. These findings provide insight into the underlying biological mechanisms of early life conditions, like elevated EST, and their potential role in health of broilers.