Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis
FVE/MSI4 is a homolog of the mammalian RbAp48 protein. We found that FVE regulates flowering time by repressing FLC through decreasing histone H3K4 trimethylation and H3 acetylation. Furthermore, FVE interacts with the histone deacetylase HDA6 and the histone demethylase FLD, suggesting that these p...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-04-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00555/full |
| _version_ | 1818133305145425920 |
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| author | Chun-Wei eYu Kao-Yuan eChang Keqiang eWu |
| author_facet | Chun-Wei eYu Kao-Yuan eChang Keqiang eWu |
| author_sort | Chun-Wei eYu |
| collection | DOAJ |
| description | FVE/MSI4 is a homolog of the mammalian RbAp48 protein. We found that FVE regulates flowering time by repressing FLC through decreasing histone H3K4 trimethylation and H3 acetylation. Furthermore, FVE interacts with the histone deacetylase HDA6 and the histone demethylase FLD, suggesting that these proteins may form a protein complex to regulate flowering time. To further investigate the function of the FVE-FLD-HDA6 complex, we compared the gene expression profiles of fve, fld and hda6 mutant plants by using RNA-seq analysis. Among the mis-regulated genes found in fve plants, 51.8% and 36.5% of them were also mis-regulated in fld and hda6 plants, respectively. These results suggested that FVE, HDA6, and FLD may regulate the gene expression in the same developmental processes in Arabidopsis. 383 genes were found to be co-regulated by FVE, HDA6, and FLD. Gene Ontology (GO) analysis reveals that 15.6% of these co-regulated genes are involved in transcription, 8.2% in RNA metabolic process, 7.7% in response to abiotic stress, and 6.3 % in hormone stimulus, indicating that HDA6, FVE, and FLD co-regulate the gene expression in multiple development processes and pathways. |
| first_indexed | 2024-12-11T08:50:36Z |
| format | Article |
| id | doaj.art-9df3f7bb4d274102b1ca3ec38304ff31 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-12-11T08:50:36Z |
| publishDate | 2016-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-9df3f7bb4d274102b1ca3ec38304ff312022-12-22T01:14:01ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-04-01710.3389/fpls.2016.00555184357Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in ArabidopsisChun-Wei eYu0Kao-Yuan eChang1Keqiang eWu2National Taiwan UniversityNational Taiwan UniversityNational Taiwan UniversityFVE/MSI4 is a homolog of the mammalian RbAp48 protein. We found that FVE regulates flowering time by repressing FLC through decreasing histone H3K4 trimethylation and H3 acetylation. Furthermore, FVE interacts with the histone deacetylase HDA6 and the histone demethylase FLD, suggesting that these proteins may form a protein complex to regulate flowering time. To further investigate the function of the FVE-FLD-HDA6 complex, we compared the gene expression profiles of fve, fld and hda6 mutant plants by using RNA-seq analysis. Among the mis-regulated genes found in fve plants, 51.8% and 36.5% of them were also mis-regulated in fld and hda6 plants, respectively. These results suggested that FVE, HDA6, and FLD may regulate the gene expression in the same developmental processes in Arabidopsis. 383 genes were found to be co-regulated by FVE, HDA6, and FLD. Gene Ontology (GO) analysis reveals that 15.6% of these co-regulated genes are involved in transcription, 8.2% in RNA metabolic process, 7.7% in response to abiotic stress, and 6.3 % in hormone stimulus, indicating that HDA6, FVE, and FLD co-regulate the gene expression in multiple development processes and pathways.http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00555/fullArabidopsisfloweringHistone deacetylaseMSILFVEHDA6 |
| spellingShingle | Chun-Wei eYu Kao-Yuan eChang Keqiang eWu Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis Frontiers in Plant Science Arabidopsis flowering Histone deacetylase MSIL FVE HDA6 |
| title | Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis |
| title_full | Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis |
| title_fullStr | Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis |
| title_full_unstemmed | Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis |
| title_short | Genome-wide analysis of gene regulatory networks of the FVE-HDA6-FLD complex in Arabidopsis |
| title_sort | genome wide analysis of gene regulatory networks of the fve hda6 fld complex in arabidopsis |
| topic | Arabidopsis flowering Histone deacetylase MSIL FVE HDA6 |
| url | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00555/full |
| work_keys_str_mv | AT chunweieyu genomewideanalysisofgeneregulatorynetworksofthefvehda6fldcomplexinarabidopsis AT kaoyuanechang genomewideanalysisofgeneregulatorynetworksofthefvehda6fldcomplexinarabidopsis AT keqiangewu genomewideanalysisofgeneregulatorynetworksofthefvehda6fldcomplexinarabidopsis |