Os06g0196700 - Revision history

Rice2012: /* Structured Information */

2015-06-12T08:08:19Z

‎Structured Information

Shijc at 13:49, 27 December 2014

2014-12-27T13:49:12Z

Shijc at 13:48, 27 December 2014

2014-12-27T13:48:31Z

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124.16.129.48 at 20:19, 22 July 2012

2012-07-22T20:19:22Z

127.0.0.1: Created page with "{{JaponicaGene| GeneName = Os06g0196700| Description = Similar to Auxin response factor 1| Version = NM_001187722.1 GI:297724574 GeneID:9270361| Length = 6594 bp| Definit..."

2012-06-24T09:08:33Z

Created page with "{{JaponicaGene| GeneName = Os06g0196700| Description = Similar to Auxin response factor 1| Version = NM_001187722.1 GI:297724574 GeneID:9270361| Length = 6594 bp| Definit..."

New page

{{JaponicaGene|
GeneName = Os06g0196700|
Description = Similar to Auxin response factor 1|
Version = NM_001187722.1 GI:297724574 GeneID:9270361|
Length = 6594 bp|
Definition = Oryza sativa Japonica Group Os06g0196700, 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 = [[:category:Japonica Chromosome 6|Chromosome 6]]|
AP = Chromosome 6:4925020..4931613|
CDS = 4925493..4925538,4925790..4925902,4925994..4926089,4926187..4926243,4926329..4926484<br>,4926586..4926670,4926911..4927001,4927080..4927365|
GCID = <gbrowseImage1>
name=NC_008399:4925020..4931613
source=RiceChromosome06
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008399:4925020..4931613
source=RiceChromosome06
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atgaaggatcagggatcatccggtgtgtctcccgccccaggggaaggggagaagaaagccatcaattcggagctatggcatgcttgtgccgggcctcttgtgtcgctgccgccggtgggcagtctcgtcgtgtacttccctcagggtcatagcgagcaggttgctgcttccatgcacaaggagctggacaacatccctggttatccctctcttccgtctaagctgatctgcaaacttctgagtctcaccttacatgcagattctgaaactgatgaagtttatgctcagatgacacttcaaccagtcaataaatatgatcgagatgcaatgctggcatctgaactgggcctgaagcaaaacaagcaaccagcggagttcttttgcaaaacgctgacggcgagcgacacaagtacccatggtggattttcagtgccacgtcgtgcggcggagaagatatttccaccactagactttaccatgcaaccaccagcacaagagctcatcgccaaggatctgcatgatatttcatggaaatttcgacacatttaccgaggtcaaccaaagaggcaccttctgacaactggttggagcgtctttgtcagcacaaaaaggcttctagctggtgattcagttctgtttataagggatgagaaatctcagcttctattaggcatacgtcgtgctaccagaccccaaccagctctatcgtcatcagttctatcaagtgatagcatgcacattgggattctagctgctgcagcacatgctgctgcaaacagtagcccatttactattttctacaatccaaggtattatagttcttacttgatatcccattatcccaatgcactctctgctaccctttgggactatgaactcattgttgttattctgatagggcaagtccatcagaatttgtcattcctttag</cdnaseq>|
AA = <aaseq>MKDQGSSGVSPAPGEGEKKAINSELWHACAGPLVSLPPVGSLVV YFPQGHSEQVAASMHKELDNIPGYPSLPSKLICKLLSLTLHADSETDEVYAQMTLQPV NKYDRDAMLASELGLKQNKQPAEFFCKTLTASDTSTHGGFSVPRRAAEKIFPPLDFTM QPPAQELIAKDLHDISWKFRHIYRGQPKRHLLTTGWSVFVSTKRLLAGDSVLFIRDEK SQLLLGIRRATRPQPALSSSVLSSDSMHIGILAAAAHAAANSSPFTIFYNPRYYSSYL ISHYPNALSATLWDYELIVVILIGQVHQNLSFL</aaseq>|
DNA = <dnaseqindica>474..519#771..883#975..1070#1168..1224#1310..1465#1567..1651#1892..1982#2061..2346#ggcttcctcctccacttgcttcgtcgtcgtcgtcctcctcctcctctctctactctctctctccgaaccatccttcccacccggcacgccgccgcgcgctgttcccgacggcggccggtggccggagtgagaggctgggtgtactgtccgctgatgctcgtgggaggcggcggcggcggcggcggcgtgtgatgagcggaggccgcgtgggcgagaacctgtcgcgtcggcacggcggcggcggcggtggcgagggctcgtcaggcttggccacgctttgctcccttcgcagtggcgctcccctggtgccgaatattatactcgccgccgcctcgtgccgcctactttaggcggaaagggggagagctctcctatcctagctgctgctgctgccactggctaagttggtaaaaggtggaggaggcggatattcgtgtatccggaggagagatttggatcgggatctcgccgggatgaaggatcagggatcatccggtgtgtctcccgccccaggggaaggtgagaagaatccttttgctctttgctcatgtgcttgcttcctttgcattgttcagaaaaattcaggtcgttttgcttgagcatttgccgaattcatggccatcatcgttgccgcagcgcacatttgcagtgaaaccttgctcatggcctcctcctcctcctccctatgaatcttatcgcattagcgtgtgctgtgtagtgtgaggttggatacactgctgtaacaactgagcatgggttttgcaaagcaggggagaagaaagccatcaattcggagctatggcatgcttgtgccgggcctcttgtgtcgctgccgccggtgggcagtctcgtcgtgtacttccctcagggtcatagcgagcaggtgaacaattttgtcatcttactgtctgaaatgtgctgaatcgtgacaagtttctgaaaattttcttgttttctggtatgcctttgtttaggttgctgcttccatgcacaaggagctggacaacatccctggttatccctctcttccgtctaagctgatctgcaaacttctgagtctcaccttacatgtatgtgcatagtactttccactttgatgctatagttgtgtttttcctttttcatctttgctaattgggtgcgcgcaacatgttttttattgttcaggcagattctgaaactgatgaagtttatgctcagatgacacttcaaccagtcaataaagtatgtaagatgatgatctatttgattatgggaacacactatttatctccgtgaaattgaaatatgttttctggatgtgttttagtatgatcgagatgcaatgctggcatctgaactgggcctgaagcaaaacaagcaaccagcggagttcttttgcaaaacgctgacggcgagcgacacaagtacccatggtggattttcagtgccacgtcgtgcggcggagaagatatttccaccactagtatgcagagtttcttcataacccttgcagtaattttgatggaactatgcatttatcagatgcagtgaatacctgccttaccaggataacatgttcgataggactttaccatgcaaccaccagcacaagagctcatcgccaaggatctgcatgatatttcatggaaatttcgacacatttaccgaggtatgccaaactgctaactgctcagagaatatctgtacattgacttggttttatatttatttcattgccacattttttttgacagacccattacttacacttagttagcactttgcatctagttttcctgctttttctttgaactgctaaggatgtctctgtcctgggacatggtggccgatcaatcaattgcattctgtacttacctgtatactactgtaccttcacatggacacgcaggtcaaccaaagaggcaccttctgacaactggttggagcgtctttgtcagcacaaaaaggcttctagctggtgattcagttctgtttataaggtagcacactgaaattcaagtgcatcgatttgtctaaatcgtttcaagaaatattgattctacatcttttgtttgcagggatgagaaatctcagcttctattaggcatacgtcgtgctaccagaccccaaccagctctatcgtcatcagttctatcaagtgatagcatgcacattgggattctagctgctgcagcacatgctgctgcaaacagtagcccatttactattttctacaatccaaggtattatagttcttacttgatatcccattatcccaatgcactctctgctaccctttgggactatgaactcattgttgttattctgatagggcaagtccatcagaatttgtcattcctttagcgaaatataacaaggctttgtatacacaagtatctcttggaatgcggttcagaatgctgtttgagacagaggattcaggggttcgaagatatatgggaacaatcacaggtattggtgacttggatccagtgcgctggaagaactctcattggcgaaaccttcaggtgtgctactcttttcttcttttagttctgcaatgtgtcacattcatacatctcattctcatctatgatctgtaagaaataacaaaatatctggattaattatttgtattaaattagaaaattcaacctcattttgaagaaatctttgaaataagattgcctaacaccctatagaattgttgtttgcaagtttgtttagcatattatacaaaaccttccctgacttcacctcctctttctaagttaggttggttgggatgaatcaacagcatctgagaggcgcactcgtgtttcaatatgggagattgaaccagtcgcgacacctttttatatttgtccaccaccatttttcaggccaaaacttcctaagcagccaggaatgccaggtacagatacttccactcaacattatatatatattagctagtattactatttagggaatagtgtaatatgcagatcattttgatctttgggaattagtgcttcaatcatacagtcattctcttcttgctgaactcattaagcttgtaaagaacactgcaacctaattttcaccaacgtgcatacgcattatactaaaaatggtttgcttcttgcatgcatatgaacttgatgcatctgttaacagcaagaggttctagccaaagcacataaacacacttcaattctcttaaatgtagttgcttcttgattgtgtataaacttgaaatattaataatcagcaagaactgtggatttgttgtttgttacctgtgtacaagttaacttccttgcaaattttgcttgcattttcttaagattagtttgggcctcatatgaaaattgctaaaacttgcagatgatgaaaatgaagttgagagtgctttcaaaagagccatgccatggcttgctgatgactttgccctgaaagatgtgcaaagtgcattatttccaggtctgagcctagtccaatggatggctatgcaacagaatcctcagatgctaacagctgcgtcccaaacagtgcaatcaccgtacttgaactccaatgcattggctatgcaggatgtgatgggtagtagcaacgaggacccaacaaaaagattgaacacacaggcacaaaatatggttttacctaatttacaggttggctcaaaagtggatcaccctgtaatgtctcaacatcaacagcagccacaccaactatcacaacagcagcaggtccagccatcgcagcaaagttctgtggttttacagcaacatcaagcccagttgctgcagcagaacgccattcacttgcagcagcagcaagaacatctccagcggcagcagtcacaaccggcacagcagttgaaggctgcttcaagtctgcattcagtggaacagcacaagctgaaagaacagacttcaggtgggcaggttgcctcacaagcacaaatgttaaaccagattttcccaccatcttcatcgcagctacaacagttaggtttacccaagtcacctactcatcgccaagggttgacaggattaccaattgcaggttctttgcagcagcccacactaactcagacatctcaagtccagcaagcagccgaatatcagcaggccctcctacagagtcagcaacagcaacagcaactgcaactgcaacaactatcacaaccagaagtacagctgcagctgcttcaaaagattcaacaacaaaacatgctatctcagctgaacccacaacatcagtcccagttgattcaacaattgtctcagaaaagccaggaaattctacagcaacaaattttgcaacatcaatttggtgggtctgattctattggtcaactcaagcaatcaccatcgcagcaagctcctttaaaccacatgacaggatctttgacgccccagcaacttgtcagatcacattcggcacttgctgagagtggggatccatccagttcaactgctccatccaccagccgtatttctccaataaattcgctgagtagggcaaaccaaggaagcagaaatttaactgacatggtggcaacaccacaaattgacaacttacttcaggaaattcaaagcaagccagataatcgaattaagaatgacatacagagcaaagaaacagtccctatacataaccgacatccagtttctgatcaacttgatgcatcatctgctacctccttttgtttagacgagagcccacgagaaggtttttccttccctccagtttgtttggataacaatgttcaagttgatccaagagataactttcttattgcggaaaatgtggacgcattgatgccagatgccctgttgtcaagaggtatggcttcaggaaagggcatgtgcactctgacttctggacaaagggatcacagggatgtcgagaatgagctatcatctgctgcattcagttcccagtcatttggtgtgcctgacatgtcctttaagcctggatgttcaagtgacgttgctgttactgatgccggaatgccaagccaaggtttgtggaataatcaaacacaacggatgagaactttcactaaggttggtacagttcttttgaggacacatttattctggacctacatttgtctgcgatctttcaaaattgtgaaaatgcacatatcaaaagctaccttattgggtgcatacatgtctagcttgagaaagttttgcttgattcaagatcagagggctaagttagaaaacctgaattgttcttgttagtaatcaattaatcactaagttagatatcgcctgcatcttttttttgtgaactatcaatgtcgttgaataggaccaatgaattttcggatacatgtgtcattctatcgtttgtgatttaaaaaattgacaaccaatttgaacatgacaagtgggccctgacccacagatgagcgtggcattgactagcatttctcagacacaaactatagggtaacatgtagctagatgacccaccaatgattcctgacatcagttggcacatactaataatgtaactccagaaatgttaaacgttgtttgtgatatttttgctgcctttcatgtctatgttggtcatgttttttgggggaacatatgttggtcaggtttagcgagaactaaacatcctgcattcctgctcatgttctggagcatcatcatttattccaaatttctatgccaaacaatggcttaacgatccaactattatcctttattctcaaactgtcctcttatgtggcaaactatcttcatgaaggttcaaaagcgtggttctgtggggagatcaattgatatcacaagatatcgagattatgatgaacttaggcatgatcttgcatgcatgtttggtatccaaggtcaacttgaagatccatataggatggattggaagctagtctatgttgatcatgagaatgatatccttcttgtcggcgacgacccttgggagtaagtgcttcccttccctcctcttggatccaatacaattctatagctagcccctcctgatgatttagaaaacttgatatgcagggaatttgtgggctgtgtgaagagcatcaaaatactctcagctgctgaagtacaacagatgagcttggatggtgaccttggtggcgtccctccacaaacacaggcctgtagtgcctctgatgatgcaaatgcatggagaggttgaggttcctgacagtaaatactaaattatccttaccattctttttaaggatacttgagagactcaaggatcaaatacacacctagggatctagagccaactcactgacaaattgatcaaaatgcttcgattaggcggaggatgttcagtgaaccgccttgttatggagctcttgacattttgttcacactaaaactggcaacctatcctcatagtcagattaatttcttcttttcttttcggcatacagaactgattttcagtttcataagctacctatgtttatctgggacttgttcattgtaatcttacaagttcataaacaatctgaccgtatatacatgctgttgtatctcccaatgtaatactcggatgattctattggtgtttccactacagaagtaaaaagttgtatggccaaaggcgttctattgtctg</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001187722.1 RefSeq:Os06g0196700]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 6]]
[[Category:Chromosome 6]]

@@ Line 4: / Line 4: @@
 ===Function===
 [[File: Shijc-Os06g0196700-Fig1.gif|right|thumb|200px|'' Indole acetic acid (IAA) content, and expressions of auxin biosynthesis genes and auxin transporters in Nipponbare (NIP) and osarf16 under normal nutritional solution (CK), IAA and −Pi treatments. (from reference <ref name="ref1" />).'']]
- ‘’’OsARF16 effects on the −Pi signalling were correlated with auxin distribution’’’
+'''OsARF16 effects on the −Pi signalling were correlated with auxin distribution'''
 To elucidate the function of ARF in rice, the structures of OsARF genes and OsARF12 features were investigated in our previous study <ref name="ref2" /><ref name="ref3" /> . Further identified and characterized the biological function of OsARF16 with TOS17 insertion in greater detail in rice. osarf16 mutant or Ov16 scarcely showed phenotypic differences in their roots, suggesting that OsARF16, one member of the ARF gene family might have functional redundancy with another member. However, the PR, LR, and RH of osarf16 showed auxin insensitivity, suggesting that OsARF16 plays a role on auxin response in root development. OsARF16 was mainly expressed in the stele and root tip of PR, AR and LR, which further supported that it was implicated in root development. And, OsARF16 expression in PR and LR was induced by auxin and −Pi treatments, and the expression of most OsLAX and OsPINs in osarf16 was markedly lower than in NIP under exogenous IAA treatment – this demonstrated that absence of OsARF16 might affect auxin polar transport. The temporal and spatial distribution of auxin mainly depends on the dynamic expression and subcellular localization of auxin efflux proteins, PINs <ref name="ref4" />. The genomic sequencing of these auxin transporter genes, OsLAX and OsPINs, in rice was recently published in our study where it was compared to Arabidopsis <ref name="ref5" />, but their individual functions remain unknown. However, the expression pattern of OsARF16 in PR was the same as OsPIN1b, OsPIN4 and OsPIN9 <ref name="ref6" />, suggesting that OsARF16 may affect auxin transport mainly via these three genes. In addition, in osarf16 under −Pi, the expression of the four OsYUCCAs was highly induced, and most OsLAXs and OsPINs showed a similar trend with IAA treatment, indicating that an auxin transporter was also involved in −Pi response. The results indicated that −Pi response may alter auxin distribution or auxin polar transport via the regulation of OsARF16. In NIP, the auxin content was increased by −Pi condition while in osarf16 mutant, it was not affected. These results suggested that the impact of −Pi signalling on auxin distribution depends on OsARF16. On the other hand, in NIP, applying exogenous auxin enhanced Pi absorption, but in the OsARF16 knockout mutant, the Pi content was not increased. Therefore, the improvement of Pi absorption caused by changes of auxin distribution also depends on OsARF16. Taken together, results further confirmed that the effects of OsARF16 on −Pi signalling were correlated with auxin distribution.
 [[File: Shijc-Os06g0196700-Fig2.gif|right|thumb|200px|'' Interaction between auxin distribution and −Pi signalling in Nipponbare (NIP) andosarf16. Indole acetic acid (IAA) contents from lateral roots (LR) initiation to maturation in NIP and osarf16 under CK and −Pi conditions. (from reference <ref name="ref1" />).'']]
 Furthermore, microarray data <ref name="ref7" /><ref name="ref8" /> showed that auxin signalling takes part in differences responses to Pi deficiency in the shoot and root. Most of the auxin-induced genes in the rice root were also up-regulated by Pi deficiency. These data further confirmed that a number of genes co-participate in auxin and −Pi response, and not only OsARF16.
-‘’’RH and LR development under P deficiency in rice depends on OsARF16-mediated −Pi signalling’’’
+'''RH and LR development under P deficiency in rice depends on OsARF16-mediated −Pi signalling'''
 The phenotype of a plant under auxin treatment is similar to that for Pi starvation <ref name="ref9" /><ref name="ref10" /><ref name="ref11" />. Our study found that osarf16 had auxin insensitivity and was also insensitive to Pi deficiency, especially in terms of RH and LR development. In NIP, but not in osarf16, the RH length was extended by −Pi, and OsARF16::GUS staining was also induced in RH by −Pi. RH development in −Pi has been infrequently reported <ref name="ref12" /><ref name="ref13" /><ref name="ref14" />. The present study was the first to demonstrate that OsARF16 was a key regulator in RH expansion under −Pi in rice. Moreover, the LR number in osarf16 showed a small increase under −Pi, consistent with an arf19 mutant in Arabidopsis <ref name="ref15" />. OsARF16 is highly homologous to ARF19, which is implicated in responses to Pi deficiency <ref name="ref16" />. The data indicated that OsARF16 also acted in LR development under −Pi as well as ARF19. Plants respond to Pi deficiency by allocating more carbon to their roots, thereby increasing their root-to-shoot ratio <ref name="ref17" /><ref name="ref18" />. The root-to-shoot ratio in osarf16 was only slightly increased compared with NIP, which further suggested that osarf16 was insensitive to Pi deficiency. It is worth mentioning that Fe accumulation in osarf16 under −Pi was lower than in NIP. A previous report showed that −Pi induced Fe acquisition and increased the Fe content of rice <ref name="ref19" />. Our results suggested that the knockout of OsARF16 may indirectly affect the Fe signal via the −Pi response.
-‘’’OsARF16 is an essential regulator in −Pi response’’’
+'''OsARF16 is an essential regulator in −Pi response'''
 [[File: Shijc-Os06g0196700-Fig2.gif|right|thumb|200px|'' Indole acetic acid (IAA) content, and expressions of auxin biosynthesis genes and auxin transporters in Nipponbare (NIP) and osarf16 under normal nutritional solution (CK), IAA and −Pi treatments. (from reference <ref name="ref1" />).'']]
 Under −Pi conditions, a plant enhances P absorption efficiency by regulating the expression of genes induced by phosphate starvation (PSIs) to maintain normal growth and development <ref name="ref20" /><ref name="ref21" />. In Arabidopsis, the complete regulatory network for the P signal is important for plant responses to −Pi. Thus, the absence of AtPHR1 located in the centre of the P signal network resulted in the expression of numerous downstream genes that were inhibited under −Pi, and with an impaired P signal <ref name="ref22" /><ref name="ref23" /><ref name="ref24" />. In rice, the knockdown of OsPHR2 led to a series of PSIs genes that were not distinctly induced by −Pi <ref name="ref25" />. The genetic effect of OsARF16 knockout was similar to the absence of AtPHR1 and OsPHR2. The knockout of OsARF16 greatly weakened the transmission of the P signal, leading PSIs genes to lose their correct response. The P deficiency response still was impaired in the osarf16 mutant, even if OsPHR2 was normally expressed. Thus, the P deficiency response via OsPHR2 was dependent on OsARF16-mediated −Pi signalling. The effect of the OsPHR2 function was based on the normal expression of the OsARF16 gene, which maintained P signal transmission and allowed rice to respond to P deficiency in time.

← Older revision		Revision as of 20:19, 22 July 2012
Line 1:		Line 1:
		+	Please input one-sentence summary here.
		+
		+	==Annotated Information==
		+	===Function===
		+	Please input function information here.
		+
		+	===Expression===
		+	Please input expression information here.
		+
		+	===Evolution===
		+	Please input evolution information here.
		+
		+	You can also add sub-section(s) at will.
		+
		+	==Labs working on this gene==
		+	Please input related labs here.
		+
		+	==References==
		+	Please input cited references here.
		+
		+	==Structured Information==
	{{JaponicaGene\|		{{JaponicaGene\|
	GeneName = Os06g0196700\|		GeneName = Os06g0196700\|

@@ Line 68: / Line 68: @@
 ==Structured Information==
 [[Category:Genes]]
 [[Category:Japonica mRNA]]