m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation
Hepatic inflammation is always accompanied with abnormal lipid metabolism. Whether N6-methyladenosine (m6A) mRNA methylation affects irregular inflammatory lipid level is unclear. Here, the m6A modification patterns in chicken liver at the acute stage of LPS-stimulated inflammation and at the normal...
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Frontiers Media S.A.
2022-02-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2022.818357/full |
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| author | Feng Guo Feng Guo Yanhong Zhang Jinyou Ma Yan Yu Qiuxia Wang Pei Gao Li Wang Zhiyong Xu Xiaobing Wei Mengna Jing |
| author_facet | Feng Guo Feng Guo Yanhong Zhang Jinyou Ma Yan Yu Qiuxia Wang Pei Gao Li Wang Zhiyong Xu Xiaobing Wei Mengna Jing |
| author_sort | Feng Guo |
| collection | DOAJ |
| description | Hepatic inflammation is always accompanied with abnormal lipid metabolism. Whether N6-methyladenosine (m6A) mRNA methylation affects irregular inflammatory lipid level is unclear. Here, the m6A modification patterns in chicken liver at the acute stage of LPS-stimulated inflammation and at the normal state were explored via m6A and RNA sequencing and bioinformatics analysis. A total of 7,815 m6A peaks distributed in 5,066 genes were identified in the normal chicken liver and were mostly located in the CDS, 3′UTR region, and around the stop codon. At 2 h after the LPS intraperitoneal injection, the m6A modification pattern changed and showed 1,200 different m6A peaks. The hyper- and hypo-m6A peaks were differentially located, with the former mostly located in the CDS region and the latter in the 3′UTR and in the region near the stop codon. The hyper- or hypo-methylated genes were enriched in different GO ontology and pathways. Co-analysis revealed a significantly positive relationship between the fold change of m6A methylation level and the relative fold change of mRNA expression. Moreover, computational prediction of protein–protein interaction (PPI) showed that genes with altered m6A methylation and mRNA expression levels were clustered in processes involved in lipid metabolism, immune response, DNA replication, and protein ubiquitination. CD18 and SREBP-1 were the two hub genes clustered in the immune process and lipid metabolism, respectively. Hub gene AGPAT2 was suggested to link the immune response and lipid metabolism clusters in the PPI network. This study presented the first m6A map of broiler chicken liver at the acute stage of LPS induced inflammation. The findings may shed lights on the possible mechanisms of m6A-mediated lipid metabolism disorder in inflammation. |
| first_indexed | 2024-12-20T17:02:47Z |
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| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-20T17:02:47Z |
| publishDate | 2022-02-01 |
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| series | Frontiers in Genetics |
| spelling | doaj.art-5661576678a84198ac4dc80eb345282e2022-12-21T19:32:27ZengFrontiers Media S.A.Frontiers in Genetics1664-80212022-02-011310.3389/fgene.2022.818357818357m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide StimulationFeng Guo0Feng Guo1Yanhong Zhang2Jinyou Ma3Yan Yu4Qiuxia Wang5Pei Gao6Li Wang7Zhiyong Xu8Xiaobing Wei9Mengna Jing10College of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaPostdoctoral Research and Development Base, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaCollege of Animal Science and Veterinary Medicine, Henan Institute of Science and Technology, Xinxiang, ChinaHepatic inflammation is always accompanied with abnormal lipid metabolism. Whether N6-methyladenosine (m6A) mRNA methylation affects irregular inflammatory lipid level is unclear. Here, the m6A modification patterns in chicken liver at the acute stage of LPS-stimulated inflammation and at the normal state were explored via m6A and RNA sequencing and bioinformatics analysis. A total of 7,815 m6A peaks distributed in 5,066 genes were identified in the normal chicken liver and were mostly located in the CDS, 3′UTR region, and around the stop codon. At 2 h after the LPS intraperitoneal injection, the m6A modification pattern changed and showed 1,200 different m6A peaks. The hyper- and hypo-m6A peaks were differentially located, with the former mostly located in the CDS region and the latter in the 3′UTR and in the region near the stop codon. The hyper- or hypo-methylated genes were enriched in different GO ontology and pathways. Co-analysis revealed a significantly positive relationship between the fold change of m6A methylation level and the relative fold change of mRNA expression. Moreover, computational prediction of protein–protein interaction (PPI) showed that genes with altered m6A methylation and mRNA expression levels were clustered in processes involved in lipid metabolism, immune response, DNA replication, and protein ubiquitination. CD18 and SREBP-1 were the two hub genes clustered in the immune process and lipid metabolism, respectively. Hub gene AGPAT2 was suggested to link the immune response and lipid metabolism clusters in the PPI network. This study presented the first m6A map of broiler chicken liver at the acute stage of LPS induced inflammation. The findings may shed lights on the possible mechanisms of m6A-mediated lipid metabolism disorder in inflammation.https://www.frontiersin.org/articles/10.3389/fgene.2022.818357/fullm6A-sequencingchickenliverinflammationlipid metabolismm6A-sequencing |
| spellingShingle | Feng Guo Feng Guo Yanhong Zhang Jinyou Ma Yan Yu Qiuxia Wang Pei Gao Li Wang Zhiyong Xu Xiaobing Wei Mengna Jing m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation Frontiers in Genetics m6A-sequencing chicken liver inflammation lipid metabolism m6A-sequencing |
| title | m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation |
| title_full | m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation |
| title_fullStr | m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation |
| title_full_unstemmed | m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation |
| title_short | m6A mRNA Methylation Was Associated With Gene Expression and Lipid Metabolism in Liver of Broilers Under Lipopolysaccharide Stimulation |
| title_sort | m6a mrna methylation was associated with gene expression and lipid metabolism in liver of broilers under lipopolysaccharide stimulation |
| topic | m6A-sequencing chicken liver inflammation lipid metabolism m6A-sequencing |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2022.818357/full |
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