Difference between revisions of "Os05g0597100"
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===Expression=== | ===Expression=== | ||
| − | OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods . | + | OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1]. |
| − | OsHDT1 over-expression affects the flowering time of hybrid rice; | + | OsHDT1 over-expression affects the flowering time of hybrid rice[1]; |
increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background. | increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background. | ||
| − | OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice; | + | OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1]; |
increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering. | increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering. | ||
| − | Impact of altered OsHDT1 levels on gene expression in rice hybrid; | + | Impact of altered OsHDT1 levels on gene expression in rice hybrid[1]; |
OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds. | OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds. | ||
Revision as of 11:58, 11 May 2014
OsHDT1(Os05g0597100)，is a histone deacetylase gene, that is involed in flowering time control and innate immunity in rice.
Contents
Annotated Information
Function
OsHDT1 function in histone deacetylation[1]: OsHDT1 may be involved in histone deacetylation on a subset of genes, as over-expression of OsHDT1 led to decreases of histone acetylation on flowering repressor genes in both parent and hybrid backgrounds. Increased OsHDT1 promoted deacetylation that correlated with the repression of OsGI and Hd1 and early flowering in the hybrid. The effect of OsHDT1 seemed to occur at a higher acetylation phase of target genes, suggesting that OsHDT1 might be involved in circadian oscillation of histone acetylation and gene expression.
OsHDT1 function as a trans-acting regulator of hybrid differential gene expression[1]: The nonadditive up-regulation (or overdominance) of OsGI and Hd1 observed in the hybrid likely contributed to the below mid-parent expression of Ehd1, RFT1 and Hd3a under long day conditions. Reduction of the nonadditive increase of Hd1 and OsGI by OsHDT1 over-expression and the early flowering phenotype indicates that the “late flowering overdominance” in SY63 can be suppressed by elevated OsHDT1. These observations together with the effects of altered OsHDT1 expression on other nonadditive genes provide direct evidence of regulation of nonadditive or differential gene expression in hybrid by a trans-acting factor.
OsHDT1 level was important for a subset of differentially expressed genes including flowering time genes in the hybrid, suggesting that OsHDT1 may have a function in parental genome interaction for gene expression in the hybrid[1].
Expression
OsHDT1 expression displays a circadian rhythm: OsHDT1 expression exhibited also a circadian oscillation and was sensitive to photoperiods[1].
OsHDT1 over-expression affects the flowering time of hybrid rice[1]; increased OsHDT1 level may alter flowering time-related gene expression in the hybrid, while without a clear effect in the parent background.
OsHDT1 over-expression suppresses overdominance expression of flowering time genes in hybrid rice[1]; increased OsHDT1 expression suppressed the overdominance expression of OsGI and Hd1 in the hybrid under long day conditions, which led to early flowering.
Impact of altered OsHDT1 levels on gene expression in rice hybrid[1]; OsHDT1 over-expression had a negative impact on histone H4 acetylation on these genes in both parent and hybrid backgrounds.
Evolution
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Labs working on this gene
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References
[1] Li C, Huang L, Xu C, Zhao Y, Zhou DX (2011) Altered levels of histone deacetylase OsHDT1 affect differential gene expression patterns in hybrid rice. PLoS ONE 6:e21789
Structured Information
| Gene Name |
Os05g0597100 |
|---|---|
| Description |
Similar to Nucleolar histone deacetylase HD2-p39 |
| Version |
NM_001063058.1 GI:115465846 GeneID:4339823 |
| Length |
2800 bp |
| Definition |
Oryza sativa Japonica Group Os05g0597100, complete gene. |
| Source |
Oryza sativa Japonica Group ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
| Chromosome | |
| Location |
Chromosome 5:29835095..29837894 |
| Sequence Coding Region |
29835401..29835461,29835543..29835675,29835762..29835858,29835978..29836046,29836126..29836283 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008398:29835095..29837894 source=RiceChromosome05 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008398:29835095..29837894 source=RiceChromosome05 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>atggagttctggggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaaatggattttgattctgaagaagttgaagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtga</cdnaseq> |
| Protein Sequence |
<aaseq>MEFWGLEVKPGQTVKCEPEDERFLHLSQAALGESKKGSDNAVMY VKTDDQKLVIGTLSADKFPQIQFDLVFDKEFELSHTSKTASVFFSGYKVSQPAEEDEM DFDSEEVEDEEEEEKIIPAPRANGKVEGKENEQKKQGKTDSSASKSKAAVNDDDDDDD SDEDDSEDEDLSPEDDDDDSSEDDSSEDDEDESDEEDTPKKPETGKRKVAEIVLKTPS SDKKAKIATPSGQKTGDKKGVHVATPHPAKQASKTPVNDKSKEKSPKSGGGSISCKSC SKTFNSEMALQSHSKAKHPAK</aaseq> |
| Gene Sequence |
<dnaseqindica>2434..2494#2220..2352#2037..2133#1849..1917#1612..1769#1463..1507#1365..1392#1016..1234#845..915#84..96#agccttaaaccctagctccgcctcccacctcccttttcttttctagggttcttccgccgccgccgccgccgccgccgattccgatggagttctggggtaatctcctcctctacctctctctcttcccctccctctctccatccatctatattgcgcagtttcggtttttgtttgatttgatttggacgcgattcgtttgatacggtgtttggttcgtgcgcttctcttcgttacggattagacgcgattcgtttcaccatcgagtgttttgggttcgcgcggaatcgcggccatggctcttccctgtcttcgttagggattaattagggattttagttttcatgggccgcgactatttccatcatacatgcgtaaccgcattggttgccgcctttatgtttgcgagaatcatcattttgttcattctgtttctgtttcagttaacacattctgattatcttcagtctcatagttgttatcatatattactacagtacttaccttgcttcggccccatcgtttggcatatttacgaacgaaaaataatttgtgaataaaacttagcgatctaaaagaaaaggctgaaaaataaacttctgaaaacctccaaaatcaactccaaatttaagattgaaaattcaaattttggctgataagcataagcggaaagataaggtcgcttgtttctatgggccatcctcgttaatttactatgctagttgcttttcaactttactagctaaaggcaaatatgaactgtagtatactgtttcattcatgccttcttggaagggaaggactactctatacatgtgtttttcgctgattagtcaaagttgtgcaggtcttgaagtcaagcctggacagactgtcaaatgtgagcctgaagatgaacgctttttgcacctttctcaggtttattatgttcctcttctgtcctcctttttttgaacagtgaggcttttgtgttctcattgtgtacttaatcttttgttattcaacaattgcttggtaggctgctcttggggaatcaaagaaaggatctgacaatgcagtaatgtatgttaaaactgatgatcaaaagctagtcattggaaccctctcagctgacaagttccctcaaatccagtttgatttggtctttgacaaagagtttgagctgtcacacacttcaaagactgctagtgtgttcttttctggctacaaagtttcccagccggctgaggaagatgaatatcctttgtaatgttttaccatgtttggtcaatatatgtaatgcatataatgtcatactctattttattttcattaaggtatgtattacaatattgttttccttgacctgccttttttgttgttccacaatggattttgattctgaagaagttgaaggtatgattgctactagtgcttgtgttctgcctagagagaatttaacgagcctgtttataatttatttcagatgaagaggaggaagaaaagatcattccagctcccagggcaaatggtaccatagtttctcctttctgattatgattggaatcacagaatccttttgcacctctctttaaaactttataaggaagtacttatgactaaaacttttctaaggcaaagttgaagggaaggaaaatgagcagaaaaaacaaggcaagacagattcttcagcttcaaaatcaaaggctgcagtgaatgacgatgatgatgatgatgacagtgatgaggatgattctgaggacgaagatctttctcctgaggatgatgatgatgtgagtaatttatgggtactgttgtgtattattgtggaggattgttccatactaacagtggtgcaatggcctgttataggattcttctgaggatgattccagcgaagatgatgaggatgagagtgacgaggaagatactcccaagaaggtatgtgtatgtgtttgaaggatatagtctgcttgtttctgtgcacttatatgtgtttgaaggatacagttagtttgtttgttctgtactcttaccataaacaatgtgatgacttgcagccagagactggaaagaggaaagtagctgaaattgtgttgaagacaccttcgtctgataagaaagcaaagattgctacaccgtcaggccagaagacaggttagtagctgtgaagctgcgcctgcgatgaataaattggcactggaagtagtgatgaatttgtatcatttggtcctcctgagcaggtgacaagaagggtgtccatgtagcaactccacatccggcaaagcaggctagcaagacccccgtgaatgacaagtcaaaggagaagtccccaaaatccggtggtgggtcaatttcttgcaagtcatgcagcaagtaagtttagatgcgctgtcttcttgttttggagtattacgtaaggaaatgattcaaagtttgcatgaatgcattgtttaggacgttcaacagtgaaatggctctgcaatctcactcgaaggccaagcaccccgccaagtgaagaatgagacaacggatgctgagctgagaaatattggtgtcgtttgagttggttatctgaaatgaaatgaaatgctgcaaactatttggtgttatgagtagtgtcgtgacggtttatgtggtgcaaactatttagtctagaaaaaaaaaatctgtggtgcgaactgagctacaattttattcggtcaaggtcagtggagtgattggtttattttggatggaattattgttcttccctgttattcggttaattcccacgagaaaggattgataacaccacactgaattgactagctgaacaaagtcg</dnaseqindica> |
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