|
|
| (7 intermediate revisions by 5 users not shown) |
| Line 1: |
Line 1: |
| | | | |
| − | The OsPIL11 gene is a member of the rice Phytochrome‐interacting factors (PIFs) family, in regulating seedling growth.
| + | ''OsPIL11'', with accession number Os12g0610200, is one of six putative phytochrome-interacting factors(PIFs). |
| | | | |
| | ==Annotated Information== | | ==Annotated Information== |
| | + | ===Constitution=== |
| | + | ''OsPIL11'' contain a conserved sequence motif at their N-terminal regions, designated as the active phytochrome-binding (APB) motif (active phytochrome-binding protein, also named as PIL motif). Four invariant amino acid residues(ELxxxxGQ) are critical determinants of the APB motif. This motif is necessary for binding to the biologically active Pfr form of phyB <ref name="ref1" />. |
| | + | |
| | ===Function=== | | ===Function=== |
| | + | ''OsPIL11'' is a member of the rice phytochrome-interacting factors (PIFs) family. Nakamura et al identified six candidate genes encoding PIFs, designated ''OsPIL11'' to ''OsPIL16'', via homologous analysis in rice genome. ''OsPIL11'' contain APB motif at their N-termini, suggesting the possible interaction between PIF and phytochromes in rice . |
| | | | |
| − | Nakamura et al. (2007) identified six phytochrome‐interacting factor‐like (PIL) homologs in rice, designated as OsPIL11 through OsPIL16. OsPIL11 contains six introns and encodes a predicted protein of 637 amino acids. Alignment using the amino acid sequence of the bHLH DNA domain revealed that OsPIL11 is highly similar to Arabidopsis PIF3 [ 1 ].
| + | PIFs, as a small subset of the basic helix-loop-helix (bHLH) transcription factor superfamily, have been found to bind to the G-box motif in the promoter region of light-regulated genes. Thus, PIFs constitute a signal transfer pathway from photoactivated phytochromes to the light-regulation of gene expression that controls photomorphogenesis in plants. Among phytochrome associated proteins, phytochrome-interacting factors (PIFs) are central player in phytochrome-mediated signal transduction. |
| − | OsPIL11 encodes a basic helix‐loop‐helix factor localized in the nucleus. OsPIL11‐OX seedlings exhibit an exaggerated shorter aboveground part and undeveloped root system relative to wild‐type seedling. OsPIL11 represses a set of genes involved in auxin pathways and cell wall organization or biogenesis. Exposure to red light or far‐red light relieved growth retardation and promoted seedling elongation in the OsPIL11‐OX lines. The results suggest that light regulation of OsPIL11 expression is probably involved in photomorphogenesis in rice [ 2 ].
| + | In addition, ''OsPIL11'' plays important roles in light signal transduction in rice leaves and its development, and it may also involve in the regulation of plant hormones. |
| − | In addition, OsPIL13 and OsPIL11 colocalize with OsPRR1, an ortholog of the Arabidopsis APRR1 gene that controls photoperiodic flowering response through clock function. Overexpression of OsLF might repress expression of OsGI and Hd1 by competing with OsPRR1 in interacting with OsPIL13 and OsPIL11 and thus induce late flowering [ 3 ]. | |
| − | | |
| | | | |
| | ===Expression=== | | ===Expression=== |
| | + | ''OsPIF11'' gene is widely expressed in rice roots, stems, new leaves and old leaves. The ''OsPIFs11'' transcription factor expression level in the leaves is significantly higher than in the roots and stems, and the expression is the lowest in roots. |
| | | | |
| − | OsPIF11 gene in leaf, root, stem, old and young ear, ear and embryo widely expressed in organization, and the expression level in the blade is significantly higher than other groups, especially in flag leaf, explain OsPIL11 gene expression is regulated by the development, and closely related to the gene expression and phyB.Semi-quantitative rt-pcr test showed that the gene expression is also affected by photoperiod and biological clock.
| + | The expression of ''OsPIL11'' also is organ-specific and is regulated by leaf development, abscisic acid (ABA), jasmonic acid (JA) and salicylic acid (SA). ''OsPIL11'' is involved in red light-induced de-etiolation, but not in far-red lignt-induced de-etiolation in transgenic tobacco. ''OsPIL11'' expressed higher in the new leaves than in the old leaves. Therefore, the expression of ''OsPIL11'' gene was regulated by hormones in rice. |
| − | OsPIF11 gene is widely expressed in leaves, roots, stems, young spike, spike, old embryos and other tissues. The expression level in the leaves is significantly higher than other tissues, especially in the flag leaf. The xpression of OsPIF11 gene is regulated by development and is closely related to phyB.
| |
| − | | |
| − | ===Evolution===
| |
| − | | |
| − | The OsPIL11‐OX lines: To construct the OsPIL11‐overexpression vector, the ORF region of OsPIL11 was amplified by PCR from its full length cDNA clone J033088H. The primer pair used for the amplification and introduction of the restriction sites was 5’‐AAACTAGTATGTCCGACGGCAACGAC‐3’ (SpeI site underlined) and 5’
| |
| − | ‐ATGGTCACCTTATGTTTCAGCCCCATCTC‐3’ (BstEII site underlined). The resulting PCR product was digested with SpeI and BstEII and subcloned into the p1390‐Ubi vector between the maize ubiquitin promoter and the nos terminator. The plasmid was introduced into Agrobacterium
| |
| − | tumefaciens strain EHA105 [4] by electroporation. [2].
| |
| − | You can also add sub-section(s) at will.
| |
| | | | |
| | ==Labs working on this gene== | | ==Labs working on this gene== |
| | + | * High-Tech Research Center, Shandong Academy of Agricultural Sciences, Ji’nan 250100, China |
| | | | |
| − | Shandong Rice Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China·
| + | * College of Life Science, Henan Normal University, Xinxiang 453007, China |
| − | Laboratory of Molecular Microbiology, School of Agriculture, Nagoya University, Chikusa-ku, Nagoya 464-8601, Japan
| |
| − | National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
| |
| | | | |
| − | ==References==
| + | * College of Life Sciences, Shandong Normal University, Jinan 250014, China |
| | | | |
| − | [ 1 ] Nakamura Y, Kato Y, Yamashino Y, Murakami M, Mizuno T (2007) Characterization of a set of phytochrome‐interacting‐factor‐like bHLH proteins in Oryza sativa. Biosci Biotech Biochem 71: 1183–1191
| + | * Laboratory of Molecular Microbiology, School of Agriculture, Nagoya University, Chikusa-ku, Nagoya 464-8601, Japan |
| − | [ 2 ] Zhou J, Liu Q, Zhang F, Wang Y, Zhang S, Cheng H, Yan L, Li L,Chen F, Xie X Overexpression of OsPIL11, a phytochromeinteracting factor‐like protein gene, represses etiolated seedling growth in rice. Journal Of Integrative Plant Biology 56: 373-387
| |
| − | [ 3 ] Zhao, Xiao-Ling; Shi, Zhen-Ying; Peng, Ling-Tao (2011) An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL11. New Biotechnology 28: 788-797
| |
| − | [ 4 ] Hood E, Gelvin S, Melchers L, Hoekema A (1993) New Agrobacterium helper plasmids for gene transfer to plants. Transgenic Res 2: 208–218
| |
| | | | |
| | + | * National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China |
| | | | |
| − | {{JaponicaGene|
| + | ==References== |
| − | GeneName = Os12g0610200|
| + | <references> |
| − | Description = Similar to Phytochrome-interacting factor 3 (Phytochrome-associated protein 3) (Basic helix-loop-helix protein 8) (bHLH8) (AtbHLH008)|
| + | * <ref name="ref1"> |
| − | Version = NM_001073778.1 GI:115489517 GeneID:4352761|
| + | Nakamura Y, Kato T, Yamashino T, Murakami M, Mizuno T. Characterization of a |
| − | Length = 4245 bp|
| + | set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa. Biosci |
| − | Definition = Oryza sativa Japonica Group Os12g0610200, complete gene.|
| + | Biotechnol Biochem. 2007 May;71(5):1183-91. PubMed PMID: 17485859. |
| − | Source = Oryza sativa Japonica Group
| + | </ref> |
| | + | </references> |
| | | | |
| − | ORGANISM Oryza sativa Japonica Group
| |
| − | Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
| |
| − | Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
| |
| − | clade; Ehrhartoideae; Oryzeae; Oryza.
| |
| − | |
| |
| − | Chromosome = [[:category:Japonica Chromosome 12|Chromosome 12]]|
| |
| − | AP = Chromosome 12:25995255..25999499|
| |
| − | CDS = 25996330..25996391,25996490..25997264,25997440..25997505,25997637..25997702,25997789..25998031<br>,25998268..25998393|
| |
| − | GCID = <gbrowseImage1>
| |
| − | name=NC_008405:25995255..25999499
| |
| − | source=RiceChromosome12
| |
| − | preset=GeneLocation
| |
| − | </gbrowseImage1>|
| |
| − | GSID = <gbrowseImage2>
| |
| − | name=NC_008405:25995255..25999499
| |
| − | source=RiceChromosome12
| |
| − | preset=GeneLocation
| |
| − | </gbrowseImage2>|
| |
| − | CDNA = <cdnaseq>atgaaccagttcgtccctgattggaacaccaccagcatgggcgacggctttgcgccattaggcgaagacgacgggctcgtcgagctgctatggtgcaatggccacgtcgtcatgcagagccaggcgccgcggaagccgccgaggccggagaagacgacggcggcggcggcggcggcgatggcggaggatgagtcggcgtcgtggtttcagtacccggtcgacgacgtgcttgagaaggacctgttcaccgagctgttcggcgaaatgacggcggccggcggcggcggcggcgacgtccgcagggcggcgtgcaaggaggagcgcggcgcggtcgccgcgttccagagcaggatgatgccgccgccgtggccggcgagggggaaggcggagttcggtgacgtcgacgacgtgtgcggcgtctcggaggtcgtcatggcgaagatggacggggcggcggcggcggagacggtcggcgagtcatcgatgctgacaatcgggtcgagcatctgcgggagcaaccacgtccagacgccgccggtggggaacgggaaggccggcgccggcaccgccggcgccgccagaagggcgcacgacacggcgacggtggcgtcgtcgtcgatgaggtcgaggtcctgcaccgccaaggccgagccgcgcgacgtcgcagccgccggcgtcggcggcaagcggaagcagcgcggcggcgccgccatggagtccgggagccccagcgaggacgtggagttcgagtccgccgccgcaacgtgctcgccggcgcagaagacgacgacggcgaagcggcggcgcgccgccgaggtgcacaacctctccgagaggaggagaagagataggatcaatgagaagatgaaagcattacaggagctcatacctcactgcaacaaaacggacaaagcatcgatgctggatgaagcgatcgagtatctcaagtcactgcagctccagctacagatgatgtggatgggcggcggaatggcgccgccggcggtgatgttcccggcggccggcgtgcaccagtacatgcagcggatgggcgccgtcgggatgggcccaccacacatggcgtccctgccgaggatgccgccgttcatggcgccgccgcccgccgccgtgcagagctcgccggtggtcagcatggccgacccctacgcccgctgcctcgccgtcgaccacctccagccaccgcctccgatgcattacctgcaggggatgagcttctaccagctcgccgcggccaagaaccttcagcagcagcagaacacggcggaggcgccgccaccgccaccggccggaggcaaccgcgcagccgctgactcctga</cdnaseq>|
| |
| − | AA = <aaseq>MNQFVPDWNTTSMGDGFAPLGEDDGLVELLWCNGHVVMQSQAPR KPPRPEKTTAAAAAAMAEDESASWFQYPVDDVLEKDLFTELFGEMTAAGGGGGDVRRA ACKEERGAVAAFQSRMMPPPWPARGKAEFGDVDDVCGVSEVVMAKMDGAAAAETVGES SMLTIGSSICGSNHVQTPPVGNGKAGAGTAGAARRAHDTATVASSSMRSRSCTAKAEP RDVAAAGVGGKRKQRGGAAMESGSPSEDVEFESAAATCSPAQKTTTAKRRRAAEVHNL SERRRRDRINEKMKALQELIPHCNKTDKASMLDEAIEYLKSLQLQLQMMWMGGGMAPP AVMFPAAGVHQYMQRMGAVGMGPPHMASLPRMPPFMAPPPAAVQSSPVVSMADPYARC LAVDHLQPPPPMHYLQGMSFYQLAAAKNLQQQQNTAEAPPPPPAGGNRAAADS</aaseq>|
| |
| − | DNA = <dnaseqindica>1076..1137#1236..2010#2186..2251#2383..2448#2535..2777#3014..3139#gctctccggcgagtcctcttcctgccctgccctgccctgccctgcattctttctttctccaccaggggaatccagttcacccccagtgctgcttctgctgctgcttctgcatcatcttgccctgttaaaaagacacagtgcccttgttctttcgcagttgcaactagcatctcctcctctacttgtactcacttcacacctcagctcagctcagctcatctcctgtcatctcagctcaaagagaaagagctgaaggtgtaagctgatcaccaggaagcagaggctttttttcagattacagttatctgaaacaaccaacttcagaatcaatcagcaaaggtagagggagtttcttgtttcttttgtgtactactacatgactatatccatatctcctttttcttctacttctttttcttttgtttggttgtgagtgttgttgctgtgtgtttcaacaagtcaactggatagatagattcatagatatgatagtttttatctgaggttggaggtttcccctctcatccaccacacacattttggcaccccaatcctgaatttactgttcaattctcttctttttattcttcctctgttgattgatcatccatgcatgcatactggtatatagtactagtgctcaagtgctcatccttcctgatggtgaatctcttttgagaaaagaaaagaaaaagatctctctcatcttggctttttttcctgttgatctgagcactgctcttctccaggttgtttcattctgcaggtctacagcttttgtcatcaaagtggtagggtttgtactttgtagtagattgcagtgatggcccttctctgcttttttttcattctctgtttgttcttgttgctcttattctgtttcattctactttttttaaacaaatccatccttagagttcagttttcccttaaaatttttccaaacctacaaattttgttctctgtgaattcatttttgcatgattcttgcagaatctgaaatgatcattggctttgcaggtagaaacaagacagagctgctgtgcttctgtgattaattagggttgttaatgccatgaaccagttcgtccctgattggaacaccaccagcatgggcgacggctttgcgccattagggttcgtgcgattcttggatcgaagcttgagatctttccatcgattggaggcgatcggatgagtgattctttggtttcttgttcttcttgttgttgcagcgaagacgacgggctcgtcgagctgctatggtgcaatggccacgtcgtcatgcagagccaggcgccgcggaagccgccgaggccggagaagacgacggcggcggcggcggcggcgatggcggaggatgagtcggcgtcgtggtttcagtacccggtcgacgacgtgcttgagaaggacctgttcaccgagctgttcggcgaaatgacggcggccggcggcggcggcggcgacgtccgcagggcggcgtgcaaggaggagcgcggcgcggtcgccgcgttccagagcaggatgatgccgccgccgtggccggcgagggggaaggcggagttcggtgacgtcgacgacgtgtgcggcgtctcggaggtcgtcatggcgaagatggacggggcggcggcggcggagacggtcggcgagtcatcgatgctgacaatcgggtcgagcatctgcgggagcaaccacgtccagacgccgccggtggggaacgggaaggccggcgccggcaccgccggcgccgccagaagggcgcacgacacggcgacggtggcgtcgtcgtcgatgaggtcgaggtcctgcaccgccaaggccgagccgcgcgacgtcgcagccgccggcgtcggcggcaagcggaagcagcgcggcggcgccgccatggagtccgggagccccagcgaggacgtggagttcgagtccgccgccgcaacgtgctcgccggcgcagaagacgacgacggcgaagcggcggcgcgccgccgaggtgcacaacctctccgagagggtacgtgtcatgcacgctcacattttgttcttcttgctttgacttttctctcttattattattattattattattattattattattattattattattattattattattattattattattattattattgctgctgctgctaataaaaaatgttaaattgattgtgatgcagaggagaagagataggatcaatgagaagatgaaagcattacaggagctcatacctcactgcaacaaagtaaactactctaaatttaatctgcaagcgccattacataattacaactagcaacattgctatacatctcattaaaatttaaatcgaatttatttgaaaatggtgacctcattcttgtttcatattttcagacggacaaagcatcgatgctggatgaagcgatcgagtatctcaagtcactgcagctccagctacaggtttgtactacgtaaaatgaatgtaactcaatactaaaattgattaacgataatccgacgatgatgatgtgaatggcgtggttcagatgatgtggatgggcggcggaatggcgccgccggcggtgatgttcccggcggccggcgtgcaccagtacatgcagcggatgggcgccgtcgggatgggcccaccacacatggcgtccctgccgaggatgccgccgttcatggcgccgccgcccgccgccgtgcagagctcgccggtggtcagcatggccgacccctacgcccgctgcctcgccgtcgaccacctccagccaccgcctccgatggtaagtaaagcacgtgcctgtacagtcaccatgcatcgatcagtaattcagtagctgccatgaaatgtattttcagtttcgacgcgaatactagggaaggaactaatatcaaataatagaaggggtgagccttcgaatcgagatcgtctagcccaccaccttatagagctagccggaaggccctcgagcgtttctcatattttcagtttcctaagagtttttttttttgtcagcagcattacctgcaggggatgagcttctaccagctcgccgcggccaagaaccttcagcagcagcagaacacggcggaggcgccgccaccgccaccggccggaggcaaccgcgcagccgctgactcctgacgacattctgcacaaaaaatacggtgtgtaagtactatctactccacatttcagtgtcaatgtacatgaaacaaaaatgaaaatcagtgatctgctactagtctactagtagtactagtatcgtaccacaaagaatgcttcaaggcctgaaatttcgacccaaatacccgaaatttccgggttccgatcctcgtacaagtactacatatgtcctaaaatataacaacttttacctatgaatctagccaagtgcatgtctagattcgtagtcaaaagttaatgtattttaggatggatgaattatgaaatttcggaacgaaatacctgagaattcgggggtattgatcctccagtagtactatatgttggaaaagaaaaatcagacagaataaatatatgcattttttcgcttgaaattttatttgaaattgccctgtaaaatgagccagaaaagtctaaggaatttaaagatgaataaaatctgagggtgtgaacacaggtttgctttcagcaaagacaatgtgatctggttagctcaagaacctgtcattgtcatgcactgtaggctagagtttactttgctgatttcactcggctacatgcactgcatccatcggtgtcaaattcacggactagttgatcatttatctcttgtagatccgtggatagctgcatcacagaaactctgaatttctctgttcttaaatgcaactgtttgttcatctctgacttgacttatcactcacatatctgtctcttttttgtccctgaaatattgcagacaactgtagtaagtctgagagcaagggtggcaccagttgattgccgtcaatctgaagatatgtatataaggctctgatgcaattgagttgagaggctggatcatgatggctacctaatcattaaggggaatttaagatcatcccttttactgacgtctaaattcggtaggcagtgtagatcgatcagcggttaagagttaacaagtcgtgaattcttttttgctatgtatgtagtactattttttcccctttggggagacattggttatgtatcagttgttgatgtacctgttcaaatttatgccaaccagagcaaattgtatt</dnaseqindica>|
| |
| − | Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001073778.1 RefSeq:Os12g0610200]|
| |
| − | }}
| |
| | [[Category:Genes]] | | [[Category:Genes]] |
| | [[Category:Japonica mRNA]] | | [[Category:Japonica mRNA]] |
| Line 73: |
Line 43: |
| | [[Category:Japonica Chromosome 12]] | | [[Category:Japonica Chromosome 12]] |
| | [[Category:Chromosome 12]] | | [[Category:Chromosome 12]] |
| | + | |
| | + | ==Structured Information== |
OsPIL11, with accession number Os12g0610200, is one of six putative phytochrome-interacting factors(PIFs).
Annotated Information
Constitution
OsPIL11 contain a conserved sequence motif at their N-terminal regions, designated as the active phytochrome-binding (APB) motif (active phytochrome-binding protein, also named as PIL motif). Four invariant amino acid residues(ELxxxxGQ) are critical determinants of the APB motif. This motif is necessary for binding to the biologically active Pfr form of phyB [1].
Function
OsPIL11 is a member of the rice phytochrome-interacting factors (PIFs) family. Nakamura et al identified six candidate genes encoding PIFs, designated OsPIL11 to OsPIL16, via homologous analysis in rice genome. OsPIL11 contain APB motif at their N-termini, suggesting the possible interaction between PIF and phytochromes in rice .
PIFs, as a small subset of the basic helix-loop-helix (bHLH) transcription factor superfamily, have been found to bind to the G-box motif in the promoter region of light-regulated genes. Thus, PIFs constitute a signal transfer pathway from photoactivated phytochromes to the light-regulation of gene expression that controls photomorphogenesis in plants. Among phytochrome associated proteins, phytochrome-interacting factors (PIFs) are central player in phytochrome-mediated signal transduction.
In addition, OsPIL11 plays important roles in light signal transduction in rice leaves and its development, and it may also involve in the regulation of plant hormones.
Expression
OsPIF11 gene is widely expressed in rice roots, stems, new leaves and old leaves. The OsPIFs11 transcription factor expression level in the leaves is significantly higher than in the roots and stems, and the expression is the lowest in roots.
The expression of OsPIL11 also is organ-specific and is regulated by leaf development, abscisic acid (ABA), jasmonic acid (JA) and salicylic acid (SA). OsPIL11 is involved in red light-induced de-etiolation, but not in far-red lignt-induced de-etiolation in transgenic tobacco. OsPIL11 expressed higher in the new leaves than in the old leaves. Therefore, the expression of OsPIL11 gene was regulated by hormones in rice.
Labs working on this gene
- High-Tech Research Center, Shandong Academy of Agricultural Sciences, Ji’nan 250100, China
- College of Life Science, Henan Normal University, Xinxiang 453007, China
- College of Life Sciences, Shandong Normal University, Jinan 250014, China
- Laboratory of Molecular Microbiology, School of Agriculture, Nagoya University, Chikusa-ku, Nagoya 464-8601, Japan
- National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China
References
- ↑
Nakamura Y, Kato T, Yamashino T, Murakami M, Mizuno T. Characterization of a
set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa. Biosci
Biotechnol Biochem. 2007 May;71(5):1183-91. PubMed PMID: 17485859.
Structured Information
