SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses
Abstract Accumulating evidence suggests that endogenous retroviruses (ERVs) play an important role in the host response to infection and the development of disease. By analyzing ChIP-sequencing data sets, we show that SARS-CoV-2 infection induces H3K27 acetylation of several loci within the LTR69 su...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-09-01
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| Series: | Mobile DNA |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13100-023-00299-1 |
| _version_ | 1827633991825489920 |
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| author | Ankit Arora Jan Eric Kolberg Smitha Srinivasachar Badarinarayan Natalia Savytska Daksha Munot Martin Müller Veronika Krchlíková Daniel Sauter Vikas Bansal |
| author_facet | Ankit Arora Jan Eric Kolberg Smitha Srinivasachar Badarinarayan Natalia Savytska Daksha Munot Martin Müller Veronika Krchlíková Daniel Sauter Vikas Bansal |
| author_sort | Ankit Arora |
| collection | DOAJ |
| description | Abstract Accumulating evidence suggests that endogenous retroviruses (ERVs) play an important role in the host response to infection and the development of disease. By analyzing ChIP-sequencing data sets, we show that SARS-CoV-2 infection induces H3K27 acetylation of several loci within the LTR69 subfamily of ERVs. Using functional assays, we identified one SARS-CoV-2-activated LTR69 locus, termed Dup69, which exhibits regulatory activity and is responsive to the transcription factors IRF3 and p65/RELA. LTR69_Dup69 is located about 500 bp upstream of a long non-coding RNA gene (ENSG00000289418) and within the PTPRN2 gene encoding a diabetes-associated autoantigen. Both ENSG00000289418 and PTPRN2 showed a significant increase in expression upon SARS-CoV-2 infection. Thus, our study sheds light on the interplay of exogenous with endogenous viruses and helps to understand how ERVs regulate gene expression during infection. |
| first_indexed | 2024-03-09T15:08:08Z |
| format | Article |
| id | doaj.art-aff53066252f42388af9d90424d398eb |
| institution | Directory Open Access Journal |
| issn | 1759-8753 |
| language | English |
| last_indexed | 2024-03-09T15:08:08Z |
| publishDate | 2023-09-01 |
| publisher | BMC |
| record_format | Article |
| series | Mobile DNA |
| spelling | doaj.art-aff53066252f42388af9d90424d398eb2023-11-26T13:34:30ZengBMCMobile DNA1759-87532023-09-011411910.1186/s13100-023-00299-1SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retrovirusesAnkit Arora0Jan Eric Kolberg1Smitha Srinivasachar Badarinarayan2Natalia Savytska3Daksha Munot4Martin Müller5Veronika Krchlíková6Daniel Sauter7Vikas Bansal8Institute for Stem Cell Science and Regenerative MedicineInstitute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenInstitute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenGerman Center for Neurodegenerative Diseases (DZNE)Institute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenInstitute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenInstitute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenInstitute for Medical Virology and Epidemiology of Viral Diseases, University Hospital TübingenGerman Center for Neurodegenerative Diseases (DZNE)Abstract Accumulating evidence suggests that endogenous retroviruses (ERVs) play an important role in the host response to infection and the development of disease. By analyzing ChIP-sequencing data sets, we show that SARS-CoV-2 infection induces H3K27 acetylation of several loci within the LTR69 subfamily of ERVs. Using functional assays, we identified one SARS-CoV-2-activated LTR69 locus, termed Dup69, which exhibits regulatory activity and is responsive to the transcription factors IRF3 and p65/RELA. LTR69_Dup69 is located about 500 bp upstream of a long non-coding RNA gene (ENSG00000289418) and within the PTPRN2 gene encoding a diabetes-associated autoantigen. Both ENSG00000289418 and PTPRN2 showed a significant increase in expression upon SARS-CoV-2 infection. Thus, our study sheds light on the interplay of exogenous with endogenous viruses and helps to understand how ERVs regulate gene expression during infection.https://doi.org/10.1186/s13100-023-00299-1SARS-CoV-2Transposable elementsEndogenous retrovirusesSolo-LTRsLTR69 |
| spellingShingle | Ankit Arora Jan Eric Kolberg Smitha Srinivasachar Badarinarayan Natalia Savytska Daksha Munot Martin Müller Veronika Krchlíková Daniel Sauter Vikas Bansal SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses Mobile DNA SARS-CoV-2 Transposable elements Endogenous retroviruses Solo-LTRs LTR69 |
| title | SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses |
| title_full | SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses |
| title_fullStr | SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses |
| title_full_unstemmed | SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses |
| title_short | SARS-CoV-2 infection induces epigenetic changes in the LTR69 subfamily of endogenous retroviruses |
| title_sort | sars cov 2 infection induces epigenetic changes in the ltr69 subfamily of endogenous retroviruses |
| topic | SARS-CoV-2 Transposable elements Endogenous retroviruses Solo-LTRs LTR69 |
| url | https://doi.org/10.1186/s13100-023-00299-1 |
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