Difference between revisions of "Os04g0350700"
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qRT-PCR analysis showed that An-1 expression of young panicles was increased twofold in NIL-An-1(a near-isogenic line that contained only a 120-kb W1943 genomic fragment of the An-1 locus in GLA4 and exhibited a stable and similar awn length and awn rate) compared with that in GLA4 (Guangluai4). For complementary plants, An-1 expression increased nearly 40- to 45-fold in CPL-1(An-1 complementation plants) and CPL-2 plants compared with that in Nipponbare .In RNAi plants(An-1 suppression plants), the expression of endogenous An-1gene decreased. The extent of An-1 downregulation was highly correlated with panicle phenotypes in RNAi plants.The qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle.qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle. | qRT-PCR analysis showed that An-1 expression of young panicles was increased twofold in NIL-An-1(a near-isogenic line that contained only a 120-kb W1943 genomic fragment of the An-1 locus in GLA4 and exhibited a stable and similar awn length and awn rate) compared with that in GLA4 (Guangluai4). For complementary plants, An-1 expression increased nearly 40- to 45-fold in CPL-1(An-1 complementation plants) and CPL-2 plants compared with that in Nipponbare .In RNAi plants(An-1 suppression plants), the expression of endogenous An-1gene decreased. The extent of An-1 downregulation was highly correlated with panicle phenotypes in RNAi plants.The qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle.qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle. | ||
| − | + | '''Evolution''' | |
| − | phylogenetic analysis of multiple An-1 sequences by Luo et al. 2013 showed that nearly all of the cultivars grouped together tightly, which revealed that these cultivars might have originated from a common progenitor in a single domestication event. | + | phylogenetic analysis of multiple An-1 sequences by Luo et al. 2013 showed that nearly all of the cultivars grouped together tightly, which revealed that these cultivars might have originated from a common progenitor in a single domestication event.[[File:Example.jpg]] |
==Labs working on this gene== | ==Labs working on this gene== | ||
Revision as of 12:54, 21 May 2014
Please input one-sentence summary here.
Annotated Information
Function
An-1 that encodes a basic helix-loop-helix (bHLH) protein and regulates the long-awn trait in wild rice.An-1 is intensely expressed at the apex of the lemma primordia, specifically causing continuous cell division to form a long awn. Upregulation of An-1 expression could induce long awns and grain elongation as well as reduce grain number per panicle in awnless cultivated rice.population genetic analysis of wild and cultivated rice showed a significant reduction in nucleotide diversity of the An-1 locus and revealed that the An-1 locus was a major target for artificial selection.
Expression
Expression pattern of An-1
During spikelet development, An-1 transcripts were first detected at the two rudimentary glume primordia and two empty glume primordia, next at the lemma and palea primordia, and then at the stamen and carpel primordia .An-1 expression increased gradually at the apices of lemma primordia.Then, An-1 expression strongly increased in awn primordia of Sp6, was maintained until Sp8e, and gradually faded during the Sp8l stage.
An-1 expression level changes underlying the panicle phenotypes
qRT-PCR analysis showed that An-1 expression of young panicles was increased twofold in NIL-An-1(a near-isogenic line that contained only a 120-kb W1943 genomic fragment of the An-1 locus in GLA4 and exhibited a stable and similar awn length and awn rate) compared with that in GLA4 (Guangluai4). For complementary plants, An-1 expression increased nearly 40- to 45-fold in CPL-1(An-1 complementation plants) and CPL-2 plants compared with that in Nipponbare .In RNAi plants(An-1 suppression plants), the expression of endogenous An-1gene decreased. The extent of An-1 downregulation was highly correlated with panicle phenotypes in RNAi plants.The qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle.qRT-PCR results and panicle phenotypes suggested An-1 expression level was directly proportional to awn length and grain length but inversely proportional to grain number per panicle.
Evolution
phylogenetic analysis of multiple An-1 sequences by Luo et al. 2013 showed that nearly all of the cultivars grouped together tightly, which revealed that these cultivars might have originated from a common progenitor in a single domestication event.
Labs working on this gene
Please input related labs here.
References
Please input cited references here.
Structured Information
| Gene Name |
Os04g0350700 |
|---|---|
| Description |
Similar to Phytochrome-interacting factor 4 (Basic helix-loop-helix protein 9) (bHLH9) (AtbHLH009) (Short under red-light 2) |
| Version |
NM_001059067.2 GI:297602518 GeneID:4335553 |
| Length |
3599 bp |
| Definition |
Oryza sativa Japonica Group Os04g0350700, 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 4:16752716..16756314 |
| Sequence Coding Region |
16753371..16753423,16753641..16753881,16754006..16754077,16754255..16754323,16755156..16755221 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008397:16752716..16756314 source=RiceChromosome04 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008397:16752716..16756314 source=RiceChromosome04 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>atgaaccccaccaccgccgccgccgccgaccaaccatccaagccctccgccgccgccgccgcccggaagcgcaagtcgtcggcgaagcccaaggcctcgtcctcatccttacccacggccacggcgacgacgaacgcgagcccgaagcggtccaaggtcgccgccggcgccggagacgacggcgacgccgacgccgacgcggcggaggagaagccggagccagccaaagactacatccatgtgagggcgaggcgggggcaagccaccgatagccatagcctcgccgagagggtgaggagggagaggataagcgagaggatgaagcttctgcagtcgctcgtgccaggctgcaacaagatcaccggcaaggctctcatgctggacgagatcatcaactatgtgcagtcgctgcagcgtcaggtcgagtttttgtccatgaagttggcgaccatgaatcctcagctggactttgacagccattacatgccttccaaagatatgagccatatgccagtacccgcatacccgtcaagcgatccgaccaccaccaccgcgttctcctacaccggctcacccgccactgctgatccattcaccgtctacaactgctgggagctcgacctccacaccgctatgcaaatgggagccaccaccggactcagccaagacggtccaatcgcaacgatggcaccctctccctcgccattgccgcaccatcctcctcttcacggcttctacggggggcagcagcagcaggggacgacagtaaaccacatgaaggccgagccataa</cdnaseq> |
| Protein Sequence |
<aaseq>MNPTTAAAADQPSKPSAAAAARKRKSSAKPKASSSSLPTATATT NASPKRSKVAAGAGDDGDADADAAEEKPEPAKDYIHVRARRGQATDSHSLAERVRRER ISERMKLLQSLVPGCNKITGKALMLDEIINYVQSLQRQVEFLSMKLATMNPQLDFDSH YMPSKDMSHMPVPAYPSSDPTTTTAFSYTGSPATADPFTVYNCWELDLHTAMQMGATT GLSQDGPIATMAPSPSPLPHHPPLHGFYGGQQQQGTTVNHMKAEP</aaseq> |
| Gene Sequence |
<dnaseqindica>2892..2944#2434..2674#2238..2309#1992..2060#1094..1159#726..899#531..647#tcccctctcctctctctctctcttctctcctcctccactctcccacgccgccgacgacgacgatggccgacgagcacttcttccccgccggcgactacttctccacctcctcgtccggcgccggcacgggcggtgcgggcgcgttgctgcccgccgcggcgtacgggacgatgacgatgatgccgccgtgggcagtggcggccgccgagcagatgatgatgatggcgccggcggcggccgcggcggagttcgactccgcgctcagctccctcgtgtcgtctccgcagggcggcggcggcggcgacgagatggcggccatcggcgacctcatcggccggcttgggagcatctgcagccacggcgggccagcgccaacaactcctgctacagcacgccgctcagctccccgccgcgggccgccccgccgccgccgttccgtggcttagccgccgcggcggcaggctgtcccgtgtctccagcagcaagtccctccgggcgccgccgcggcattggacagctccgaggccgacatgaaccccaccaccgccgccgccgccgaccaaccatccaagccctccgccgccgccgccgcccggaagcgcaagtcgtcggcgaagcccaaggcctcgtcctcatccttacccacggtacgacaccatactccgaccaccgctctccatcacttctccgatctccactgatcaccaaccccatgcacaatgcaggccacggcgacgacgaacgcgagcccgaagcggtccaaggtcgccgccggcgccggagacgacggcgacgccgacgccgacgcggcggaggagaagccggagccagccaaagactacatccatgtgagggcgaggcgggggcaagccaccgatagccatagcctcgccgagagggtaattaatcacctaattaattaaatcctaattagcttttttgcaagtactacactaatcccaaaattaatcacaatgcgagggcaccccctaattgcgcaccgtgttactaattgctctacttattgagttgcaaggacgcttaattattattaaaattttaattagctttgtgttttgtttaatattggtaggtgaggagggagaggataagcgagaggatgaagcttctgcagtcgctcgtgccaggctgcaacaaggtagtatgaacacaaacacactccagcggctaatctcattcttaaatttcctccaaattcatgtatccaaacaagtggcttcttttttttcccgctccaaattacactcaaaatttaaaattctagttttagagtttaattaatatcaaaagcagttgtactaatttgtaatattagaattccgttatacggggcagtactgaaaattagtggtcaaaaatgtattttcgaggacgcgcattaagggggaatagtaacctaacgtacaaaacggacttgcctgtgtggcaataattaagtttaatatatatacaattactttagtttcagtattgcctagagctaggagttggactttttgctactgggatagataaaattaagtaaaaaaataataatcttttttgtaccgaaagtgtgagcactaactgcggtggttagtctatgcagccagtagtaattttgaccgtaatgcatgtaagctactagtagtactcctaagttaagctcccagtggtccaagaggatataataataattgattagttaataatctgagaggctcttgctctgtacttaaactaatcaaaccggctaatcaattgcaaggtcctggtggtttaggtggtgcgcacgattattttagttgccccaattattgccacggtagtgatgccaccgccggtggtcaaatttgggttgaattttaaatttggttgataacttttcttacctttttaaaatttattgctgagtttttttctagatgattgtttattgtttttgttttgttaattagttagcaaataaatgtgaatgttgcggtgtgcagatcaccggcaaggctctcatgctggacgagatcatcaactatgtgcagtcgctgcagcgtcaggtcgaggtaccaatgcaagcatttgctttaatagtgtgctaaatgaacttgttttaatgacaataaatatgttggagaaaaatgttgttgtgttctccttctgtcgtcctagctagctcttatttgaagttatgtatgaaattaagcccaaaagctaaattttgacattggtgtgtctcacagtttttgtccatgaagttggcgaccatgaatcctcagctggactttgacagccattacatgccttccaaagatgtaagtatagcatctgaaaacacttttatctgatctagagagacagttgacacagagtactattacgatattgtccctcaatttgcaaatgttatattcgccgcactcggggtatcattttcagatgagccatatgccagtacccgcatacccgtcaagcgatccgaccaccaccaccgcgttctcctacaccggctcacccgccactgctgatccattcaccgtctacaactgctgggagctcgacctccacaccgctatgcaaatgggagccaccaccggactcagccaagacggtccaatcgcaacgatggcaccctctccctcgccattgccgcaccatcctcctcttcacggcttctacggtaagtgaaatcgaaccaccacatctccttacatccctaacaaattatacatgaatttttaaaaatactcaattttttttttaaaaaaagttcaaaaataagattattttttttactggactacagtagtggagtggtggtggtcatactactccagtacggtaggtttgtttgtccaagtttgttgagtttcgctgttggtggtaattgggcgcaggggggcagcagcagcaggggacgacagtaaaccacatgaaggccgagccataataaatgcggcgacctctccttctgtacatacgcccagccgccgtacgtgtactccgcttttctgctcccatcctgcagcatcagcatcaccagcagcagcaaacccaagctcacaatcattgccatcaaagaagaaagaagaggatgttgtgtgtgactgtgtgtgtggctttgatcatggctttggcttgatcctacaaaagccactatctttttttccgcttttctacccctctgccgtctgtcactgcaggtggggcccagctgcacagggaaggagaaggttttccaaggcttaactttttccagatgcagtgtcatattgtttaggcaaagaacttgttttgatgttgtgatgcttgtaggacagaggagtatatgtgtagtatgtctggaaatggcaaggcaggggagctgtgtgacctttgtgtgtgctggttgcatgccctaactgtagaaaaaaaaaagaggaggattgtgctagtgatgttagtagtggtagtggctttgtaggatttggcatgcatggggatgtatgtactatgtatgtagagattggagaggattttgaaaaacaccttccttttttgtggacattgttttgtatcaagagtactggaatcatcatgcatgcaagaaatgttctttgaacaat</dnaseqindica> |
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