The accessible chromatin landscape of lipopolysaccharide-induced systemic inflammatory response identifying epigenome signatures and transcription regulatory networks in chickens

Lipopolysaccharide (LPS) can induce systemic inflammatory response (SIR) in animals. Understanding the regulatory mechanism of SIR and therapies to ensure healthy growth is urgently needed. Chromatin remodeling plays a crucial role in the expression of genes involved in immune diseases. In the prese...

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Bibliographic Details
Published in:International journal of biological macromolecules 2024-05, Vol.266 (Pt 1), p.131136-131136, Article 131136
Main Authors: Lv, Zengpeng, Fan, Hao, Gao, Mingkun, Zhang, Xiaodan, Li, Guang, Fan, Yuyang, Ning, Zhonghua, Guo, Yuming
Format: Article
Language:English
Subjects:
Accessible chromatin landscape
Animals
Chickens
Chromatin - genetics
Chromatin - metabolism
Chromatin Assembly and Disassembly - drug effects
Cytokines - genetics
Cytokines - metabolism
Epigenesis, Genetic - drug effects
Epigenome
Gene Expression Regulation - drug effects
Gene Regulatory Networks - drug effects
Inflammation - chemically induced
Inflammation - genetics
Lipopolysaccharide
Lipopolysaccharides
Systemic inflammatory response
Transcription Factors - genetics
Transcription Factors - metabolism
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Summary:Lipopolysaccharide (LPS) can induce systemic inflammatory response (SIR) in animals. Understanding the regulatory mechanism of SIR and therapies to ensure healthy growth is urgently needed. Chromatin remodeling plays a crucial role in the expression of genes involved in immune diseases. In the present study, the ATAC-seq analysis revealed 3491 differential open chromatin sites in the spleen of chicks with SIR induced by LPS challenge, and we presented the motifs on these sites and the associated transcription factors. The regulatory network was presented by combining the differential open chromatin data with the mRNAs and exploded cytokines. Interestingly, the LPS challenge could regulate the mRNA expression of 202 genes through chromatin reprogramming, including critical genes such as TLE1 and JUN, which regulate signaling pathways such as I-κB kinase/NF-κB, Toll-like receptor, and downstream cytokine genes. Furthermore, dietary daidzein could inhibit DNA topoisomerase II, which reprograms the spatial conformation of chromatin in the inflammatory response and attenuates SIR. In conclusion, we successfully identified key genes directly regulated by chromatin reprogramming in SIR and demonstrated the chromatin epigenome signatures and transcriptional regulatory network, which provides an important reference for further research on avian epigenetics. There is great potential for alleviating SIR using dietary daidzein.
ISSN:0141-8130
1879-0003
DOI:10.1016/j.ijbiomac.2024.131136