Os04g0671900 - Revision history

192.168.72.52: /* Structured Information */

2015-06-12T07:18:23Z

‎Structured Information

ChenYusheng: /* Regulation */

2014-05-25T17:50:17Z

‎Regulation

ChenYusheng: /* Annotated Information */

2014-05-25T17:49:32Z

‎Annotated Information

ChenYusheng: /* References */

2014-05-25T17:48:37Z

‎References

ChenYusheng: /* Annotated Information */

2014-05-25T17:46:23Z

‎Annotated Information

ChenYusheng: /* References */

2014-05-25T17:45:40Z

‎References

ChenYusheng: /* Regulation */

2014-05-25T17:42:45Z

‎Regulation

ChenYusheng: /* Annotated Information */

2014-05-25T17:42:25Z

‎Annotated Information

ChenYusheng: /* Regulation */

2014-05-25T17:41:39Z

‎Regulation

ChenYusheng: /* Regulation */

2014-05-25T17:41:13Z

‎Regulation

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 ==Structured Information==
 [[Category:Genes]]
 [[Category:Japonica mRNA]]

@@ Line 20: / Line 20: @@
 [[File:fig4.jpg|left|thumb|400px|"Fig. 4 Overexpression of osa-miR167d in Nicotiana benthamiana leaves and rice (Oryza sativa) callus<ref name="ref1" />."]]
-Plant development and physiology are widely determined by polar transport of the signaling molecule auxin. This process is controlled at the cellular efflux level catalyzed by members of the PIN (pin-formed) and ATP-binding cassette protein subfamily B/P-glycoprotein family that can function either independently or in concert . The majority of ''OsPINs'' (except for ''OsPIN1, 1b, 1d, 2'' and ''8'') and the majority of ''OsPGPs'' (except for ''OsPGP2, 3, 9, 10, 14'' and ''22'') are significantly reduced in ''osarf12'' (Fig. 5d–f). Experimental evidence suggests that ''OsARF12'' may affect the expression of auxin transporter proteins and thereby modulate auxin distribution. However, it is inexplicable why the five auxin influx-like carriers (''OsLAX'') are all enhanced in ''osarf12'' (Fig.5e), and ''OsARF12'' expression was decreased by the auxin influx inhibitor NOA (Fig. 5c). These results suggests that ''OsARF12''-regulated auxin transport has a complexity that needs to be further investigated.
+Plant development and physiology are widely determined by polar transport of the signaling molecule auxin. This process is controlled at the cellular efflux level catalyzed by members of the PIN (pin-formed) and ATP-binding cassette protein subfamily B/P-glycoprotein family that can function either independently or in concert . The majority of ''OsPINs'' (except for ''OsPIN1, 1b, 1d, 2'' and ''8'') and the majority of ''OsPGPs'' (except for ''OsPGP2, 3, 9, 10, 14'' and ''22'') are significantly reduced in ''osarf12'' (Fig. 5d–f). Experimental evidence suggests that ''OsARF12'' may affect the expression of auxin transporter proteins and thereby modulate auxin distribution. However, it is inexplicable why the five auxin influx-like carriers (''OsLAX'') are all enhanced in ''osarf12'' (Fig.5e), and ''OsARF12'' expression was decreased by the auxin influx inhibitor NOA (Fig. 5c). These results suggests that ''OsARF12''-regulated auxin transport has a complexity that needs to be further investigated<ref name="ref1" />.
 [[File:fig5.jpg|right|thumb|200px|"Fig. 5 OsARF12 may affect the expression of auxin transporter proteins and thereby modulate auxin distribution<ref name="ref1" />."]]
-''OsSCR2'' and ''OsMIR'' are up-regulated in ''osarf12'' and ''osarf12/25''. The knockout mutant of ''OsMIR'' accumulates more Fe than does the WT. Conversely, ''short postembryonic root1'' (''OsSPR1'') was inhibited in ''osarf12'' or ''osarf12/25''. The knockdown mutant of ''osspr1'' accumulates less Fe compared with the WT. This all indicated that both mitochondrial proteins, ''OsMIR'' and ''OsSPR1'', involved in root development and Fe homeostasis may be negatively/positively regulated by ''OsARF12''. The Fe concentrations in leaves and roots of ''osarf12'' and ''osarf12/25'' are distinctly lower than WT while the concentration in seed was slightly lower than WT (Fig. 7a–c). The results suggested that the knockout of ''OsARF12'' might impair Fe accumulation.
+''OsSCR2'' and ''OsMIR'' are up-regulated in ''osarf12'' and ''osarf12/25''. The knockout mutant of ''OsMIR'' accumulates more Fe than does the WT. Conversely, ''short postembryonic root1'' (''OsSPR1'') was inhibited in ''osarf12'' or ''osarf12/25''. The knockdown mutant of ''osspr1'' accumulates less Fe compared with the WT. This all indicated that both mitochondrial proteins, ''OsMIR'' and ''OsSPR1'', involved in root development and Fe homeostasis may be negatively/positively regulated by ''OsARF12''. The Fe concentrations in leaves and roots of ''osarf12'' and ''osarf12/25'' are distinctly lower than WT while the concentration in seed was slightly lower than WT (Fig. 7a–c). The results suggested that the knockout of ''OsARF12'' might impair Fe accumulation<ref name="ref1" />.
 [[File:fig6.jpg|left|thumb|400px|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref1" />."]]

@@ Line 4: / Line 4: @@
 [[File:fig1.jpg|right|thumb|500px|"Fig. 1 Identification of OsARF mutants<ref name="ref1" />."]]
-Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). ''OsARF12'' is a transcription activator, which facilitated the transcription of the auxin response reporting gene. Auxin acts as a versatile trigger in root developmental processes, including the regulation of root growth, root patterning and root cell division and elongation. The dicotyledonous model plant Arabidopsis has a primary root (PR) and lateral roots (LRs), whereas the monocotyled- onous crop rice has fibrous roots predominantly composed of adventitious roots (ARs) and LRs. The primary root lengths (PRLs) in mutant ''osarf12T'' and ''osarf12'' were ''c''. 35% shorter than WT Nipponbare or Dongjin (Fig. 1a). In particular, the PRL in double mutant ''osarf12/25'' was ''c''. 43% of that in WT. Thus the double mutation of ''OsARF12'' and ''OsARF25'' increased the effect of ''OsARF12'' loss-of-function. However, the PRLs of both mutants ''osarf12'' and ''osarf12T'' were all greater than WT under 2,4-D treatments, indicating that these mutants were insensitive to auxin (Fig. 1b); ''osarf25'' was sensitive to axuin, while ''osarf12/25'' was less sensitive to it (Fig. 1b).
+Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). ''OsARF12'' is a transcription activator, which facilitated the transcription of the auxin response reporting gene. Auxin acts as a versatile trigger in root developmental processes, including the regulation of root growth, root patterning and root cell division and elongation. The dicotyledonous model plant Arabidopsis has a primary root (PR) and lateral roots (LRs), whereas the monocotyled- onous crop rice has fibrous roots predominantly composed of adventitious roots (ARs) and LRs. The primary root lengths (PRLs) in mutant ''osarf12T'' and ''osarf12'' were ''c''. 35% shorter than WT Nipponbare or Dongjin (Fig. 1a). In particular, the PRL in double mutant ''osarf12/25'' was ''c''. 43% of that in WT. Thus the double mutation of ''OsARF12'' and ''OsARF25'' increased the effect of ''OsARF12'' loss-of-function. However, the PRLs of both mutants ''osarf12'' and ''osarf12T'' were all greater than WT under 2,4-D treatments, indicating that these mutants were insensitive to auxin (Fig. 1b); ''osarf25'' was sensitive to axuin, while ''osarf12/25'' was less sensitive to it (Fig. 1b)<ref name="ref1" />.
-Longitudinal PR sections of WT, ''osarf12'', ''osarf25'' and ''osarf12/25'' were examined (Fig. 2a): the elongation zones of ''osarf12'' and ''osarf12/25'' were distinctly shorter than the WT. Additionally, the auxin concentration in roots or leaves of ''osarf12'' was also half that of the WT (Fig. 2b). These results suggested that decreased primary root elongation (PRE) might be caused by a shortened elongation zone of PR and reduction of auxin concentration in ''osarf12''.
+Longitudinal PR sections of WT, ''osarf12'', ''osarf25'' and ''osarf12/25'' were examined (Fig. 2a): the elongation zones of ''osarf12'' and ''osarf12/25'' were distinctly shorter than the WT. Additionally, the auxin concentration in roots or leaves of ''osarf12'' was also half that of the WT (Fig. 2b). These results suggested that decreased primary root elongation (PRE) might be caused by a shortened elongation zone of PR and reduction of auxin concentration in ''osarf12''<ref name="ref1" />.
 [[File:fig2.jpg|center|thumb|500px|"Fig. 2 (a) Longitudinal sections of Oryza sativa primary root (PR) in wild-type (WT) plants and mutants. The thick (white) bars show the elongation zone of roots; the thinner bars are scale bars, 100 lm. (b) Contents of auxin in WT, osarf12, osarf25 and osarf12 ⁄ 25 in leaves (dark gray bars) and roots (light gray bars).<ref name="ref1" />."]]
@@ Line 13: / Line 13: @@
 [[File:fig3.jpg|right|thumb|400px|"Fig. 3 OsARF12 expression pattern and subcellular localization<ref name="ref1" />."]]
-GUS staining was mainly found in the stele and root tip (Fig. 3a and b) of PRs, ARs (same as for PRs, data no shown) and LRs (initiation to maturation) (Fig. 3f–j). In the stem, ''OsARF12'' showed the highest expression in vascular tissue (Fig. 3c). ''OsARF12'' expression was also observed in the stamen, ovary, glume and leaf vein (Fig. 3d,e). The transient expression of ''OsARF12'' in onion epidermal cells  confirmed that it was localized in the cell nucleus (Fig. 3l,m).
+GUS staining was mainly found in the stele and root tip (Fig. 3a and b) of PRs, ARs (same as for PRs, data no shown) and LRs (initiation to maturation) (Fig. 3f–j). In the stem, ''OsARF12'' showed the highest expression in vascular tissue (Fig. 3c). ''OsARF12'' expression was also observed in the stamen, ovary, glume and leaf vein (Fig. 3d,e). The transient expression of ''OsARF12'' in onion epidermal cells  confirmed that it was localized in the cell nucleus (Fig. 3l,m)<ref name="ref1" />.
 ===Regulation===
-''OsARF12'' expression is repressed by ''osa-miRNA167d'' in rice. Predicted by http://csrdb.ucdavis.edu/cgi-bin/rice_smrna, the 2467–2494 regions on the ''OsARF12'' gene may be a target site of ''miR167d'' (Fig. 4a). The sqRT-PCR and qRT-PCR analyses also show that the ''OsARF12'' expression level decreased fivefold in infected tobacco carrying 35S:''OsARF12'' ⁄ 35S:''miR167d-1'' and 35S:''OsARF12'' ⁄ 35S:''miR167d-2'' compared with 35S:''OsARF12'' (Fig. 4b,c)
+''OsARF12'' expression is repressed by ''osa-miRNA167d'' in rice. Predicted by http://csrdb.ucdavis.edu/cgi-bin/rice_smrna, the 2467–2494 regions on the ''OsARF12'' gene may be a target site of ''miR167d'' (Fig. 4a). The sqRT-PCR and qRT-PCR analyses also show that the ''OsARF12'' expression level decreased fivefold in infected tobacco carrying 35S:''OsARF12'' ⁄ 35S:''miR167d-1'' and 35S:''OsARF12'' ⁄ 35S:''miR167d-2'' compared with 35S:''OsARF12'' (Fig. 4b,c)<ref name="ref1" /><ref name="ref2" />.
 [[File:fig4.jpg|left|thumb|400px|"Fig. 4 Overexpression of osa-miR167d in Nicotiana benthamiana leaves and rice (Oryza sativa) callus<ref name="ref1" />."]]

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 <references>
 <ref name="ref1">Qi Y H, Wang S K, Shen C J, et al. OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa)[J]. New Phytologist, 2012, 193(1): 109-120.
 </ref>
 </references>

@@ Line 2: / Line 2: @@
 ==Annotated Information==
 ===Function===
-[[File:fig1.jpg|right|thumb|500px|"Fig. 1 Identification of OsARF mutants<ref name="ref3" />."]]
+[[File:fig1.jpg|right|thumb|500px|"Fig. 1 Identification of OsARF mutants<ref name="ref1" />."]]
 Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). ''OsARF12'' is a transcription activator, which facilitated the transcription of the auxin response reporting gene. Auxin acts as a versatile trigger in root developmental processes, including the regulation of root growth, root patterning and root cell division and elongation. The dicotyledonous model plant Arabidopsis has a primary root (PR) and lateral roots (LRs), whereas the monocotyled- onous crop rice has fibrous roots predominantly composed of adventitious roots (ARs) and LRs. The primary root lengths (PRLs) in mutant ''osarf12T'' and ''osarf12'' were ''c''. 35% shorter than WT Nipponbare or Dongjin (Fig. 1a). In particular, the PRL in double mutant ''osarf12/25'' was ''c''. 43% of that in WT. Thus the double mutation of ''OsARF12'' and ''OsARF25'' increased the effect of ''OsARF12'' loss-of-function. However, the PRLs of both mutants ''osarf12'' and ''osarf12T'' were all greater than WT under 2,4-D treatments, indicating that these mutants were insensitive to auxin (Fig. 1b); ''osarf25'' was sensitive to axuin, while ''osarf12/25'' was less sensitive to it (Fig. 1b).
@@ Line 8: / Line 8: @@
 Longitudinal PR sections of WT, ''osarf12'', ''osarf25'' and ''osarf12/25'' were examined (Fig. 2a): the elongation zones of ''osarf12'' and ''osarf12/25'' were distinctly shorter than the WT. Additionally, the auxin concentration in roots or leaves of ''osarf12'' was also half that of the WT (Fig. 2b). These results suggested that decreased primary root elongation (PRE) might be caused by a shortened elongation zone of PR and reduction of auxin concentration in ''osarf12''.
-[[File:fig2.jpg|center|thumb|500px|"Fig. 2 (a) Longitudinal sections of Oryza sativa primary root (PR) in wild-type (WT) plants and mutants. The thick (white) bars show the elongation zone of roots; the thinner bars are scale bars, 100 lm. (b) Contents of auxin in WT, osarf12, osarf25 and osarf12 ⁄ 25 in leaves (dark gray bars) and roots (light gray bars).<ref name="ref3" />."]]
+[[File:fig2.jpg|center|thumb|500px|"Fig. 2 (a) Longitudinal sections of Oryza sativa primary root (PR) in wild-type (WT) plants and mutants. The thick (white) bars show the elongation zone of roots; the thinner bars are scale bars, 100 lm. (b) Contents of auxin in WT, osarf12, osarf25 and osarf12 ⁄ 25 in leaves (dark gray bars) and roots (light gray bars).<ref name="ref1" />."]]
 ===Expression===
-[[File:fig3.jpg|right|thumb|400px|"Fig. 3 OsARF12 expression pattern and subcellular localization<ref name="ref3" />."]]
+[[File:fig3.jpg|right|thumb|400px|"Fig. 3 OsARF12 expression pattern and subcellular localization<ref name="ref1" />."]]
 GUS staining was mainly found in the stele and root tip (Fig. 3a and b) of PRs, ARs (same as for PRs, data no shown) and LRs (initiation to maturation) (Fig. 3f–j). In the stem, ''OsARF12'' showed the highest expression in vascular tissue (Fig. 3c). ''OsARF12'' expression was also observed in the stamen, ovary, glume and leaf vein (Fig. 3d,e). The transient expression of ''OsARF12'' in onion epidermal cells  confirmed that it was localized in the cell nucleus (Fig. 3l,m).
@@ Line 18: / Line 18: @@
 ''OsARF12'' expression is repressed by ''osa-miRNA167d'' in rice. Predicted by http://csrdb.ucdavis.edu/cgi-bin/rice_smrna, the 2467–2494 regions on the ''OsARF12'' gene may be a target site of ''miR167d'' (Fig. 4a). The sqRT-PCR and qRT-PCR analyses also show that the ''OsARF12'' expression level decreased fivefold in infected tobacco carrying 35S:''OsARF12'' ⁄ 35S:''miR167d-1'' and 35S:''OsARF12'' ⁄ 35S:''miR167d-2'' compared with 35S:''OsARF12'' (Fig. 4b,c)
-[[File:fig4.jpg|left|thumb|400px|"Fig. 4 Overexpression of osa-miR167d in Nicotiana benthamiana leaves and rice (Oryza sativa) callus<ref name="ref3" />."]]
+[[File:fig4.jpg|left|thumb|400px|"Fig. 4 Overexpression of osa-miR167d in Nicotiana benthamiana leaves and rice (Oryza sativa) callus<ref name="ref1" />."]]
 Plant development and physiology are widely determined by polar transport of the signaling molecule auxin. This process is controlled at the cellular efflux level catalyzed by members of the PIN (pin-formed) and ATP-binding cassette protein subfamily B/P-glycoprotein family that can function either independently or in concert . The majority of ''OsPINs'' (except for ''OsPIN1, 1b, 1d, 2'' and ''8'') and the majority of ''OsPGPs'' (except for ''OsPGP2, 3, 9, 10, 14'' and ''22'') are significantly reduced in ''osarf12'' (Fig. 5d–f). Experimental evidence suggests that ''OsARF12'' may affect the expression of auxin transporter proteins and thereby modulate auxin distribution. However, it is inexplicable why the five auxin influx-like carriers (''OsLAX'') are all enhanced in ''osarf12'' (Fig.5e), and ''OsARF12'' expression was decreased by the auxin influx inhibitor NOA (Fig. 5c). These results suggests that ''OsARF12''-regulated auxin transport has a complexity that needs to be further investigated.
-[[File:fig5.jpg|right|thumb|200px|"Fig. 5 OsARF12 may affect the expression of auxin transporter proteins and thereby modulate auxin distribution<ref name="ref3" />."]]
+[[File:fig5.jpg|right|thumb|200px|"Fig. 5 OsARF12 may affect the expression of auxin transporter proteins and thereby modulate auxin distribution<ref name="ref1" />."]]
 ''OsSCR2'' and ''OsMIR'' are up-regulated in ''osarf12'' and ''osarf12/25''. The knockout mutant of ''OsMIR'' accumulates more Fe than does the WT. Conversely, ''short postembryonic root1'' (''OsSPR1'') was inhibited in ''osarf12'' or ''osarf12/25''. The knockdown mutant of ''osspr1'' accumulates less Fe compared with the WT. This all indicated that both mitochondrial proteins, ''OsMIR'' and ''OsSPR1'', involved in root development and Fe homeostasis may be negatively/positively regulated by ''OsARF12''. The Fe concentrations in leaves and roots of ''osarf12'' and ''osarf12/25'' are distinctly lower than WT while the concentration in seed was slightly lower than WT (Fig. 7a–c). The results suggested that the knockout of ''OsARF12'' might impair Fe accumulation.
-[[File:fig6.jpg|left|thumb|400px|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]
+[[File:fig6.jpg|left|thumb|400px|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref1" />."]]

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 ==References==
-Please input cited references here.
+<references>
 ==Structured Information==

← Older revision		Revision as of 17:42, 25 May 2014
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	[[File:fig6.jpg\|left\|thumb\|400px\|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]		[[File:fig6.jpg\|left\|thumb\|400px\|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]
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 [[File:fig6.jpg|left|thumb|400px|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]
-<nowiki>Insert non-formatted text here</nowiki>
 ==Labs working on this gene==

← Older revision		Revision as of 17:41, 25 May 2014
Line 27:		Line 27:

	[[File:fig6.jpg\|left\|thumb\|400px\|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]		[[File:fig6.jpg\|left\|thumb\|400px\|"Fig. 6 Fe concentrations in Oryza sativa wild-type (WT), osarf12, osarf25 and osarf12 ⁄ 25, and expression of genes related to Fe uptake and transport in WT and osarf12. The five biological repeats in each line were used in measurement of Fe concentrations (lg g)1) of leaves (a), roots (b) and seeds (c)<ref name="ref3" />."]]
		+	--[[User:ChenYusheng\|ChenYusheng]] 01:41, 26 May 2014 (CST)

	==Labs working on this gene==		==Labs working on this gene==