Os09g0449000 - Revision history

Rice2012: /* Structured Information */

2015-06-12T09:44:28Z

‎Structured Information

Yuanjinhong13: /* Microarray analysis */

2014-05-23T14:31:09Z

‎Microarray analysis

Yuanjinhong13: /* References */

2014-05-23T14:27:31Z

‎References

Yuanjinhong13: /* Microarray analysis */

2014-05-23T14:25:55Z

‎Microarray analysis

Yuanjinhong13: /* Function */

2014-05-23T14:18:29Z

‎Function

Yuanjinhong13: /* Evolution */

2014-05-23T14:15:43Z

‎Evolution

Yuanjinhong13: /* Evolution */

2014-05-23T14:14:37Z

‎Evolution

Yuanjinhong13: /* Microarray analysis */

2014-05-23T14:04:52Z

‎Microarray analysis

Yuanjinhong13: /* Expression */

2014-05-23T14:03:03Z

‎Expression

Yuanjinhong13: /* Mutation */

2014-05-23T13:58:54Z

‎Mutation

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

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 Microarray analysis revealed 2,943 genes with a 2-fold or greater expression change over the two developmental stages in ptc1 anthers compared with the
 wild type (570 down-regulated and 278 up-regulated at stage 8; 1,252 down-regulated and 843 up-regulated at stage 9; Supplemental Data Set S1). Since PTC1 expression is specific to the tapetum and microspores.
-The ptc1 data were compared with the laser microdissection-coupled microarray data of wild-type rice microspores/pollen and the tapetum[4]. Identified 1,569 down-regulated genes and 848 upregulated genes (2,417 in total) with a change in expression of 2-fold or more in the tapetum and/or microspores at stages 8 and 9 between the wild type and ptc1 (Supplemental Data Set S1). Some genes previously identified as critical for postmeiotic anther development were down-regulated in the ptc1 microarray data, including a Cys protease, a fatty acyl-CoA reductase homologous to Arabidopsis MS2 , lipid transfer proteins, a stilbene synthase, BURP domain-containing proteins, a P450 family member, a ribosomeinactivating protein, and the putative homolog of AtMYB103. Consistent with the RT-qPCR analysis, PTC1 showed up-regulation in the ptc1 mutant (2.97-fold at stage 8, 5.49-fold at stage 9), whereas genes involved in early tapetal and pollen regulation, such as CYP703A3, TDR, UDT1, and GAMYB, showed no significant change.
+The ptc1 data were compared with the laser microdissection-coupled microarray data of wild-type rice microspores/pollen and the tapetum[4]. Identified 1,569 down-regulated genes and 848 upregulated genes (2,417 in total) with a change in expression of 2-fold or more in the tapetum and/or microspores at stages 8 and 9 between the wild type and ptc1 . Some genes previously identified as critical for postmeiotic anther development were down-regulated in the ptc1 microarray data(Table I), including a Cys protease, a fatty acyl-CoA reductase homologous to Arabidopsis MS2 , lipid transfer proteins, a stilbene synthase, BURP domain-containing proteins, a P450 family member, a ribosomeinactivating protein, and the putative homolog of AtMYB103. Consistent with the RT-qPCR analysis, PTC1 showed up-regulation in the ptc1 mutant (2.97-fold at stage 8, 5.49-fold at stage 9), whereas genes involved in early tapetal and pollen regulation, such as CYP703A3, TDR, UDT1, and GAMYB, showed no significant change.
 [[File:yuan7.jpg]]
 ===Evolution===

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 [3] Li N, Zhang DS, Liu HS. ''et al.''  The rice tapetum degeneration retardation gene is required for tapetum degradation and anther development. Plant Cell
 : 2999–3014 (2006)
 ==Structured Information==

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 ===Microarray analysis===
 Please input Microarray analysis here.
-Microarray analysis revealed 2,943 genes with a 2-fold or greater expression change over the two developmental stages in ptc1 anthers compared with the wild type (570 down-regulated and 278 up-regulated at stage 8; 1,252 down-regulated and 843 up-regulated at stage 9.
+Microarray analysis revealed 2,943 genes with a 2-fold or greater expression change over the two developmental stages in ptc1 anthers compared with the
-The 2,417 genes can be group into four COG (for Cluster of Orthologous Groups of proteins) categories: I, information storage and processing (144 genes); II, cellular processes and signaling (363 genes); III, metabolism (551 genes); and IV, poorly characterized genes (1,359 genes)
+wild type (570 down-regulated and 278 up-regulated at stage 8; 1,252 down-regulated and 843 up-regulated at stage 9; Supplemental Data Set S1). Since PTC1 expression is specific to the tapetum and microspores.

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 PERSISTANT TAPETAL CELL1(PTC1), a key regulator in monocot rice (Oryza sativa), which controls programmed tapetal development and functional pollen formation. The evolutionary significance of PTC1was revealed by partial genetic complementation of the homologous mutation MALE STERILITY1(MS1) in the dicot Arabidopsis (Arabidopsis thaliana). PTC1 encodes a PHD-finger (for plant homeodomain) protein, which is expressed specifically in tapetal cells and microspores during anther development in stages 8 and 9, when the wild-type tapetal cells initiate a typical apoptosis-like cell death [1]. Even though ptc1 mutants show phenotypic similarity to ms1in a lack of tapetal DNA fragmentation, delayed tapetal degeneration, as well as abnormal pollen wall formation and aborted microspore development, the ptc1 mutant displays a previously unreported phenotype of uncontrolled tapetal proliferation and subsequent commencement of necrosis-like tapetal death. Moreover, the regulatory role of PTC1in anther development was revealed by comparison with MS1 and other rice anther developmental regulators. PTC1 may functions downstream of GAMYB[2], and in parallel with TDR in regulating programmed anther development and pollen formation[3].
-[[File:p1.jpg]]
+[[File:yuan0.jpg]]
 ===Mutation===

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 homologous ESTs were from reproductive organs in monocot species.
-[[File:p6.jpg]]
+[[File:yuan8.jpg]]
 The phylogenetic analysis indicates that PTC1 and Arabidopsis MS1 are orthologs with 43.76% overall identity , suggesting that they may have
 similar functions.
-[[File:yuan7.jpg]]
+[[File:yuan9.jpg]]
 ==Labs working on this gene==

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 Please input evolution information here.
-You can also add sub-section(s) at will.
+To gain additional insights into the phylogenetic relationship between PTC1 and its close homologs, BLASTP searches were conducted with the full-length
-To gain additional insights into the phylogenetic elationship between PTC1 and its close homologs, BLASTP searches were conducted with the full-length amino acid sequence of PTC1. An unrooted tree of PTC1 and its 25 homologs from moss to flowering plants was constructed. PTC1 was located in the same clade with Arabidopsis MS1.
+amino acid sequence of PTC1. An unrooted tree of PTC1 and its 25 homologs from moss to flowering plants was constructed. PTC1 was located in the same clade with Arabidopsis MS1. No putative PTC1 close homolog was identified in green algae. In addition, another homolog of PTC1, Arabidopsis MALE MEIOCYTE
 [[File:p6.jpg]]
 ==Labs working on this gene==

← Older revision		Revision as of 14:04, 23 May 2014
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−	[[File:p5.jpg]]	+	[[File:yuan7.jpg]]

	===Evolution===		===Evolution===

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 Please input expression information
-According to the RiceGE (Gene Expression Atlas Data Sources), PTC1 expression is highest in the 10- to 15-cm inflorescence (stages 7–10), gradually decreasing in the 15- to 20-cm inflorescence (stages 10–12). Reverse transcription (RT)-PCR and quantitative RT-PCR (RT-qPCR) results indicated that PTC1was preferentially expressed in the anther from stage 8 to stage 9 (Fig. 4, A and B). Strikingly, ptc1 displayed an increased level of the mutantPTC1transcript (Fig. 4, A and B). This suggests either auto down-regulation of the PTC1 transcript or that the mutant transcript may be more stable and accumulates more than the wild type. In transgenic plants expressing the PTC1pro:GUS fusion (driven by the 3,043-bpPTC1upstream region), GUS staining was specifically detected in the anther from stages 8 to 9 and at a low level in stage 10 (Fig.4, C and D). No GUS expression was seen in the palea, lemma, pistil (Fig. 4, C and D) or other organs. Maximal GUS staining, albeit at a very low level, was seen in the tapetal tissues, but GUS was also apparent within the microspores (Fig. 4E), indicating that PTC1 plays a specific function in tapetal cells during anther development.
+According to the RiceGE (Gene Expression Atlas Data Sources), PTC1 expression is highest in the 10- to 15-cm inflorescence (stages 7–10), gradually decreasing in the 15- to 20-cm inflorescence (stages 10–12). Reverse transcription (RT)-PCR and quantitative RT-PCR (RT-qPCR) results indicated that PTC1was preferentially expressed in the anther from stage 8 to stage 9 (Fig.6, A and B). Strikingly, ptc1 displayed an increased level of the mutantPTC1transcript (Fig.6, A and B). This suggests either auto down-regulation of the PTC1 transcript or that the mutant transcript may be more stable and accumulates more than the wild type. In transgenic plants expressing the PTC1pro:GUS fusion (driven by the 3,043-bpPTC1upstream region), GUS staining was specifically detected in the anther from stages 8 to 9 and at a low level in stage 10 (Fig.6, C and D). No GUS expression was seen in the palea, lemma, pistil (Fig.6, C and D) or other organs. Maximal GUS staining, albeit at a very low level, was seen in the tapetal tissues, but GUS was also apparent within the microspores (Fig.6E), indicating that PTC1 plays a specific function in tapetal cells during anther development.
-[[File:p4.jpg]]
+[[File:yuan6.jpg]]
 ===Microarray analysis===

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 ===Mutation===
 Please input mutation information
-ptc1 displayed complete male sterility and normal female development when tested by reciprocal cross analysis. All of the F1 progeny were fertile, with an approximate 3:1 ratio for phenotypic segregation in F2 plants. Compared with wild-type plants, ptc1 exhibited normal vegetative development (Fig. 1A).
+ptc1 displayed complete male sterility and normal female development when tested by reciprocal cross analysis. All of the F1 progeny were fertile, with an approximate 3:1 ratio for phenotypic segregation in F2 plants. Compared with wild-type plants, ptc1 exhibited normal vegetative development (Fig.1,A).
-During the reproductive stage, ptc1 plants developed normal panicles and floral organs (Fig. 1, B–D), but ptc1 anthers were smaller, white, and lacked viable pollen grains (Fig. 1, D and E).
+During the reproductive stage, ptc1 plants developed normal panicles and floral organs (Fig.1,B–D), but ptc1 anthers were smaller, white, and lacked viable pollen grains (Fig.1, D and E).
 [[File:yuan1.jpg]]