Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response
Abstract Background Jasmonates (JAs) mediate trade-off between responses to both biotic and abiotic stress and growth in plants. The Arabidopsis thaliana HISTONE DEACETYLASE 6 is part of the CORONATINE INSENSITIVE1 receptor complex, co-repressing the HDA6/COI1-dependent acetic acid-JA pathway that c...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2022-04-01
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| Series: | BMC Biology |
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| Online Access: | https://doi.org/10.1186/s12915-022-01273-8 |
| _version_ | 1811302974724505600 |
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| author | Stacey A. Vincent Jong-Myong Kim Imma Pérez-Salamó Taiko Kim To Chieko Torii Junko Ishida Maho Tanaka Takaho A. Endo Prajwal Bhat Paul F. Devlin Motoaki Seki Alessandra Devoto |
| author_facet | Stacey A. Vincent Jong-Myong Kim Imma Pérez-Salamó Taiko Kim To Chieko Torii Junko Ishida Maho Tanaka Takaho A. Endo Prajwal Bhat Paul F. Devlin Motoaki Seki Alessandra Devoto |
| author_sort | Stacey A. Vincent |
| collection | DOAJ |
| description | Abstract Background Jasmonates (JAs) mediate trade-off between responses to both biotic and abiotic stress and growth in plants. The Arabidopsis thaliana HISTONE DEACETYLASE 6 is part of the CORONATINE INSENSITIVE1 receptor complex, co-repressing the HDA6/COI1-dependent acetic acid-JA pathway that confers plant drought tolerance. The decrease in HDA6 binding to target DNA mirrors histone H4 acetylation (H4Ac) changes during JA-mediated drought response, and mutations in HDA6 also cause depletion in the constitutive repressive marker H3 lysine 27 trimethylation (H3K27me3). However, the genome-wide effect of HDA6 on H4Ac and much of the impact of JAs on histone modifications and chromatin remodelling remain elusive. Results We performed high-throughput ChIP-Seq on the HDA6 mutant, axe1-5, and wild-type plants with or without methyl jasmonate (MeJA) treatment to assess changes in active H4ac and repressive H3K27me3 histone markers. Transcriptional regulation was investigated in parallel by microarray analysis in the same conditions. MeJA- and HDA6-dependent histone modifications on genes for specialized metabolism; linolenic acid and phenylpropanoid pathways; and abiotic and biotic stress responses were identified. H4ac and H3K27me3 enrichment also differentially affects JAs and HDA6-mediated genome integrity and gene regulatory networks, substantiating the role of HDA6 interacting with specific families of transposable elements in planta and highlighting further specificity of action as well as novel targets of HDA6 in the context of JA signalling for abiotic and biotic stress responses. Conclusions The findings demonstrate functional overlap for MeJA and HDA6 in tuning plant developmental plasticity and response to stress at the histone modification level. MeJA and HDA6, nonetheless, maintain distinct activities on histone modifications to modulate genetic variability and to allow adaptation to environmental challenges. |
| first_indexed | 2024-04-13T07:38:56Z |
| format | Article |
| id | doaj.art-2b3305515d574dc5a1cd44b46f8f5ad4 |
| institution | Directory Open Access Journal |
| issn | 1741-7007 |
| language | English |
| last_indexed | 2024-04-13T07:38:56Z |
| publishDate | 2022-04-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Biology |
| spelling | doaj.art-2b3305515d574dc5a1cd44b46f8f5ad42022-12-22T02:55:58ZengBMCBMC Biology1741-70072022-04-0120113010.1186/s12915-022-01273-8Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress responseStacey A. Vincent0Jong-Myong Kim1Imma Pérez-Salamó2Taiko Kim To3Chieko Torii4Junko Ishida5Maho Tanaka6Takaho A. Endo7Prajwal Bhat8Paul F. Devlin9Motoaki Seki10Alessandra Devoto11Plant Molecular Science and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of LondonCenter for Sustainable Resource Science, RIKENPlant Molecular Science and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of LondonCenter for Sustainable Resource Science, RIKENCenter for Sustainable Resource Science, RIKENCenter for Sustainable Resource Science, RIKENCenter for Sustainable Resource Science, RIKENBioinformatics and Systems Engineering Division, RIKENPlant Molecular Science and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of LondonPlant Molecular Science and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of LondonCenter for Sustainable Resource Science, RIKENPlant Molecular Science and Centre of Systems and Synthetic Biology, Department of Biological Sciences, Royal Holloway University of LondonAbstract Background Jasmonates (JAs) mediate trade-off between responses to both biotic and abiotic stress and growth in plants. The Arabidopsis thaliana HISTONE DEACETYLASE 6 is part of the CORONATINE INSENSITIVE1 receptor complex, co-repressing the HDA6/COI1-dependent acetic acid-JA pathway that confers plant drought tolerance. The decrease in HDA6 binding to target DNA mirrors histone H4 acetylation (H4Ac) changes during JA-mediated drought response, and mutations in HDA6 also cause depletion in the constitutive repressive marker H3 lysine 27 trimethylation (H3K27me3). However, the genome-wide effect of HDA6 on H4Ac and much of the impact of JAs on histone modifications and chromatin remodelling remain elusive. Results We performed high-throughput ChIP-Seq on the HDA6 mutant, axe1-5, and wild-type plants with or without methyl jasmonate (MeJA) treatment to assess changes in active H4ac and repressive H3K27me3 histone markers. Transcriptional regulation was investigated in parallel by microarray analysis in the same conditions. MeJA- and HDA6-dependent histone modifications on genes for specialized metabolism; linolenic acid and phenylpropanoid pathways; and abiotic and biotic stress responses were identified. H4ac and H3K27me3 enrichment also differentially affects JAs and HDA6-mediated genome integrity and gene regulatory networks, substantiating the role of HDA6 interacting with specific families of transposable elements in planta and highlighting further specificity of action as well as novel targets of HDA6 in the context of JA signalling for abiotic and biotic stress responses. Conclusions The findings demonstrate functional overlap for MeJA and HDA6 in tuning plant developmental plasticity and response to stress at the histone modification level. MeJA and HDA6, nonetheless, maintain distinct activities on histone modifications to modulate genetic variability and to allow adaptation to environmental challenges.https://doi.org/10.1186/s12915-022-01273-8ArabidopsisAbioticBioticChromatin remodellingHistone deacetylaseHistone modification |
| spellingShingle | Stacey A. Vincent Jong-Myong Kim Imma Pérez-Salamó Taiko Kim To Chieko Torii Junko Ishida Maho Tanaka Takaho A. Endo Prajwal Bhat Paul F. Devlin Motoaki Seki Alessandra Devoto Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response BMC Biology Arabidopsis Abiotic Biotic Chromatin remodelling Histone deacetylase Histone modification |
| title | Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response |
| title_full | Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response |
| title_fullStr | Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response |
| title_full_unstemmed | Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response |
| title_short | Jasmonates and Histone deacetylase 6 activate Arabidopsis genome-wide histone acetylation and methylation during the early acute stress response |
| title_sort | jasmonates and histone deacetylase 6 activate arabidopsis genome wide histone acetylation and methylation during the early acute stress response |
| topic | Arabidopsis Abiotic Biotic Chromatin remodelling Histone deacetylase Histone modification |
| url | https://doi.org/10.1186/s12915-022-01273-8 |
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