DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge
Abstract Background Epigenetic changes such as cytosine (CpG) DNA methylations regulate gene expression patterns in response to environmental cues including infections. Microbial infections induce DNA methylations that play a potential role in modulating host-immune response. In the present study, w...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2019-07-01
|
| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12864-019-5976-7 |
| _version_ | 1818526334922522624 |
|---|---|
| author | Basavaraj Sajjanar Nares Trakooljul Klaus Wimmers Siriluck Ponsuksili |
| author_facet | Basavaraj Sajjanar Nares Trakooljul Klaus Wimmers Siriluck Ponsuksili |
| author_sort | Basavaraj Sajjanar |
| collection | DOAJ |
| description | Abstract Background Epigenetic changes such as cytosine (CpG) DNA methylations regulate gene expression patterns in response to environmental cues including infections. Microbial infections induce DNA methylations that play a potential role in modulating host-immune response. In the present study, we sought to determine DNA methylation changes induced by the mastitis causing Escherichia coli (E. coli) in porcine mammary epithelial cells (PMEC). Two time points (3 h and 24 h) were selected based on specific transcriptomic changes during the early and late immune responses, respectively. Results DNA methylation analysis revealed 561 and 898 significant (P < 0.01) differentially methylated CpG sites at 3 h and 24 h after E. coli challenge in PMEC respectively. These CpG sites mapped to genes that have functional roles in innate and adaptive immune responses. Significantly, hypomethylated CpG sites were found in the promoter regions of immune response genes such as SDF4, SRXN1, CSF1 and CXCL14. The quantitative transcript estimation indicated higher expression associated with the DNA CpG methylation observed in these immune response genes. Further, E. coli challenge significantly reduced the expression levels of DNMT3a, a subtype of de novo DNA methylation enzyme, in PMEC indicating the probable reason for the hypomethylation observed in the immune response genes. Conclusions Our study revealed E. coli infection induced DNA methylation loci in the porcine genome. The differentially methylated CpGs were identified in the regulatory regions of genes that play important role in immune response. These results will help to understand epigenetic mechanisms for immune regulation during coliform mastitis in pigs. |
| first_indexed | 2024-12-11T06:21:34Z |
| format | Article |
| id | doaj.art-cd29db358a744f539843a3fffcacd7b9 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-11T06:21:34Z |
| publishDate | 2019-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-cd29db358a744f539843a3fffcacd7b92022-12-22T01:17:48ZengBMCBMC Genomics1471-21642019-07-0120111510.1186/s12864-019-5976-7DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challengeBasavaraj Sajjanar0Nares Trakooljul1Klaus Wimmers2Siriluck Ponsuksili3Leibniz Institute for Farm Animal Biology (FBN), Institute for Genome Biology, Functional Genome Analysis Research UnitLeibniz Institute for Farm Animal Biology (FBN), Institute for Genome Biology, Genomics Research UnitLeibniz Institute for Farm Animal Biology (FBN), Institute for Genome Biology, Genomics Research UnitLeibniz Institute for Farm Animal Biology (FBN), Institute for Genome Biology, Functional Genome Analysis Research UnitAbstract Background Epigenetic changes such as cytosine (CpG) DNA methylations regulate gene expression patterns in response to environmental cues including infections. Microbial infections induce DNA methylations that play a potential role in modulating host-immune response. In the present study, we sought to determine DNA methylation changes induced by the mastitis causing Escherichia coli (E. coli) in porcine mammary epithelial cells (PMEC). Two time points (3 h and 24 h) were selected based on specific transcriptomic changes during the early and late immune responses, respectively. Results DNA methylation analysis revealed 561 and 898 significant (P < 0.01) differentially methylated CpG sites at 3 h and 24 h after E. coli challenge in PMEC respectively. These CpG sites mapped to genes that have functional roles in innate and adaptive immune responses. Significantly, hypomethylated CpG sites were found in the promoter regions of immune response genes such as SDF4, SRXN1, CSF1 and CXCL14. The quantitative transcript estimation indicated higher expression associated with the DNA CpG methylation observed in these immune response genes. Further, E. coli challenge significantly reduced the expression levels of DNMT3a, a subtype of de novo DNA methylation enzyme, in PMEC indicating the probable reason for the hypomethylation observed in the immune response genes. Conclusions Our study revealed E. coli infection induced DNA methylation loci in the porcine genome. The differentially methylated CpGs were identified in the regulatory regions of genes that play important role in immune response. These results will help to understand epigenetic mechanisms for immune regulation during coliform mastitis in pigs.http://link.springer.com/article/10.1186/s12864-019-5976-7DNA methylationsColiform mastitisImmune responseCpG islands |
| spellingShingle | Basavaraj Sajjanar Nares Trakooljul Klaus Wimmers Siriluck Ponsuksili DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge BMC Genomics DNA methylations Coliform mastitis Immune response CpG islands |
| title | DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge |
| title_full | DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge |
| title_fullStr | DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge |
| title_full_unstemmed | DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge |
| title_short | DNA methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against Escherichia coli challenge |
| title_sort | dna methylation analysis of porcine mammary epithelial cells reveals differentially methylated loci associated with immune response against escherichia coli challenge |
| topic | DNA methylations Coliform mastitis Immune response CpG islands |
| url | http://link.springer.com/article/10.1186/s12864-019-5976-7 |
| work_keys_str_mv | AT basavarajsajjanar dnamethylationanalysisofporcinemammaryepithelialcellsrevealsdifferentiallymethylatedlociassociatedwithimmuneresponseagainstescherichiacolichallenge AT narestrakooljul dnamethylationanalysisofporcinemammaryepithelialcellsrevealsdifferentiallymethylatedlociassociatedwithimmuneresponseagainstescherichiacolichallenge AT klauswimmers dnamethylationanalysisofporcinemammaryepithelialcellsrevealsdifferentiallymethylatedlociassociatedwithimmuneresponseagainstescherichiacolichallenge AT siriluckponsuksili dnamethylationanalysisofporcinemammaryepithelialcellsrevealsdifferentiallymethylatedlociassociatedwithimmuneresponseagainstescherichiacolichallenge |