Os11g0235200 - Revision history

Rice2012: /* References */

2015-06-13T09:05:07Z

‎References

Lmw2015: /* Structured Information */

2015-06-12T04:24:14Z

‎Structured Information

Mayamei0424: /* Function */

2014-06-05T12:38:43Z

‎Function

Mayamei0424: /* References */

2014-06-05T12:37:21Z

‎References

Mayamei0424: /* Knowledge Expansion */

2014-06-05T12:34:03Z

‎Knowledge Expansion

Mayamei0424: /* Annotated Information */

2014-06-05T12:25:59Z

‎Annotated Information

Mayamei0424: /* Evolution */

2014-06-05T12:24:49Z

‎Evolution

Mayamei0424: /* Annotated Information */

2014-06-05T12:22:00Z

‎Annotated Information

Mayamei0424: /* Evolution */

2014-06-05T12:20:53Z

‎Evolution

Mayamei0424: /* Expression */

2014-06-05T12:20:27Z

‎Expression

← Older revision		Revision as of 09:05, 13 June 2015
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	[[Category:Japonica Chromosome 11]]		[[Category:Japonica Chromosome 11]]
	[[Category:Chromosome 11]]		[[Category:Chromosome 11]]
		+	==Structured Information==

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 </references>
 [[Category:Genes]]
 [[Category:Japonica mRNA]]

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 ==Annotated Information==
 ===Function===
-''SP1'' encodes a putative transporter that belongs to the peptide transporter (PTR) family. SP1 is preferentially expressed in young panicle，especially in the phloem of the branches of young panicle.SP1 regulates panicle development and seed size in rice.
+''SP1'' encodes a putative transporter that belongs to the peptide transporter (PTR) family. ''SP1'' is preferentially expressed in young panicle，especially in the phloem of the branches of young panicle.''SP1'' regulates panicle development and seed size in rice.
 ===Mutation===

@@ Line 45: / Line 45: @@
 ==References==
-Please input cited references here.
+<references>
 ==Structured Information==

← Older revision		Revision as of 12:34, 5 June 2014
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	===Knowledge Expansion===		===Knowledge Expansion===
		+	[[File:SP1图5.png\|right\|thumb\|250px\|Figure 5. ''SP1'' sequences and the predicted hydropathy profile of ''SP1''.(from reference<ref name="ref1" />)]]
		+	[[File:SP1图6.png\|left\|thumb\|250px\|Figure 6. Subcellular localization of the SP1-GFP fusion protein. .(from reference<ref name="ref1" />)]]
		+	Most members of the PTR family contain 12 a-helical transmembrane domains, and are classified into four groups according to their structure <ref name="ref2"/>. Hydropathy analysis shows that SP1 protein indeed contained 12 transmembrane domains (TMDs), harboring a long hydrophilic loop between TM6 and TM7 (Figure 5b,c). Three consensus sequences, GxxIADxWLGxFx TIxxxxxVxxxG, LGTGGIKPxV and FxxFYLxINxGSL, have been characterized for PTR proteins. However, these motifs were not strictly conserved in all PTR proteins <ref name="ref3"/><ref name="ref4"/>. This is also the case in ''SP1'', in which there are several alternatives within the conserved motifs (GxxLSDxYLGxFxTMxxxxxVxxxG, LGSGCLKPxI and FxxAYFxFCxGEL). In consistent with the 12 TMDs, the ''SP1'' is located at the plasma membrane ,which is correlates with the ''SP1'' action ,as one nitrate transporter(figure 6). In contrast with the control, signal is observed ubiquitously in onion epidermal cells, in which the SP1-GFP fusion protein is exclusively localized in the plasma membrane (Figure 6a–d). And analysis of ACTIN:SP1-GFP transgenic rice also indicates that ''SP1'' localizes at the plasma membrane in rice (Figure 6e–f).<br>
		+	(Footnote: In Figure 5,(a) The nucleotide sequence and the deduced amino acid sequences of ''SP1''. Numbers at left refer to the positions of nucleic acids. The box highlights the 31-bp deletion in sp1-2. The asterisk indicates the stop codon introduced by the 31-bp deletion. The shaded letters refer to the conserved PTR2 domains, and the underlined letters indicate the 12 transmembrane domains. (b) Prediction of membrane-spanning regions and their orientation of ''SP1'' made by the TMPRED program. (c) A prediction model for the transmembrane topology of ''SP1''.)

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

@@ Line 31: / Line 31: @@
 Bioinformatic analysis revealed that the deduced amino acid sequence of ''SP1'' contains a conserved PTR2 domain, implying that ''SP1'' may encode a PTR family protein. Phylogenetic analysis showed that the ''SP1'' gene is classified into a distinct clade for nitrate transporters, and is closest to AtNRT1:2, an Arabidopsis nitrate transporter (Figure 4). <br>
 (Footnote: In Figure 4,the amino acid sequences of the entire proteins were aligned by CLUSTALX, and the phylogenetic tree was constructed using the neighbor-joining algorithm. Bootstrap values are shown at each node. The circle and the triangle indicate peptide and nitrate transporters, respectively. The square indicates a dicarboxylate transporter.)
 ==Labs working on this gene==

← Older revision		Revision as of 12:24, 5 June 2014
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	===Evolution===		===Evolution===
		+	[[File:SP1图4.png\|left\|thumb\|250px\|Figure 4. Phylogentic analysis of the ''SP1'' amino acid sequence with plant peptide transporter (PTR) proteins. (from reference<ref name="ref1" />)]]
		+	Bioinformatic analysis revealed that the deduced amino acid sequence of ''SP1'' contains a conserved PTR2 domain, implying that ''SP1'' may encode a PTR family protein. Phylogenetic analysis showed that the ''SP1'' gene is classified into a distinct clade for nitrate transporters, and is closest to AtNRT1:2, an Arabidopsis nitrate transporter (Figure 4). <br>
		+	(Footnote: In Figure 4,the amino acid sequences of the entire proteins were aligned by CLUSTALX, and the phylogenetic tree was constructed using the neighbor-joining algorithm. Bootstrap values are shown at each node. The circle and the triangle indicate peptide and nitrate transporters, respectively. The square indicates a dicarboxylate transporter.)

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

@@ Line 26: / Line 26: @@
 The spatial and temporal expression pattern of ''SP1'' is analyzed by GUS reporter system and RT-PCR.<br>
 As shown in figure 3a-m, weak GUS signals could be detected in panicle axes upon the formation of spikelets (Figure 3a), subsequently, the GUS signals become stronger in rachis, branches, stigmas, ovules, and the surfaces of palea and lemma during the elongation stage of the young panicle (Figure 3b-g). The GUS signals are barely detectable in mature panicle (Figure 3h). And the GUS signals are hardly detected in root, culm and leaf (Figure 3i-k). Interesting, the SP1-GUS fusion protein is specially located in the phloem of vascular bundles of panicle rachis (Figure 3l-m). RT-PCR analysis results indicated that ''SP1'' highly expressed in young panicle (Figure 3n).
 ==Labs working on this gene==

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 Map-based approach was used to clone the ''SP1'' gene. Primary gene mapping showed that the ''SP1''locus is located between the molecular markers S21074 and RM3701 on chromosome 11 (Figure 2a), and then fine mapping narrowed the locus to an 8-kb region between markers M7 and M8 (Figure 2b). Annotation of the 8-kb sequence identified an open reading frame (ORF), LOC_Os11g12740, which is composed of five exons and four introns (Figure 2c). DNA sequence comparison revealed a 31-bp deletion in the third exon in ''sp1-2''. The identity of ''SP1'' is further confirmed by genetic complementation. The plasmid pSPC containing the entire LOC_Os11g12740 ORF and pSPCT containing the partial coding region of the ORF were introduced into the ''sp1-2'' mutant (Figure 2d). All the 10 transgenic lines of pSPC showed a complementation of the sp1-2 phenotype, whereas all of the eight lines of pSPCT failed to rescue the ''sp1-2'' phenotype (Figure 2e,f). RT-PCR analysis showed that the transcription level of the ''SP1'' gene is dramatically decreased in young panicles of ''sp1-2'' (Figure 2g). These results presented above showed that the rice ''SP1'' gene and its mutation is responsible for the altered phenotype of sp1.
-===Evolution===
+===Expression===
 [[File:SP1图3.png|right|thumb|250px|Figure 3. Expression pattern of ''SP1''.(from reference<ref name="ref1" />)]]
 The spatial and temporal expression pattern of ''SP1'' is analyzed by GUS reporter system and RT-PCR.<br>