Os08g0424500 - Revision history

Rice2012: /* Structured Information */

2015-06-12T09:30:51Z

‎Structured Information

Huanghs: Undo revision 175629 by Huanghs (talk)

2014-06-01T11:47:47Z

Undo revision 175629 by Huanghs (talk)

Huanghs: /* Labs working on this gene */

2014-06-01T11:46:13Z

‎Labs working on this gene

Vivian at 11:00, 1 June 2014

2014-06-01T11:00:53Z

Vivian at 10:48, 1 June 2014

2014-06-01T10:48:13Z

Vivian at 10:03, 1 June 2014

2014-06-01T10:03:30Z

Vivian at 09:45, 1 June 2014

2014-06-01T09:45:01Z

Vivian at 09:09, 1 June 2014

2014-06-01T09:09:37Z

Vivian at 09:03, 1 June 2014

2014-06-01T09:03:52Z

Vivian at 08:51, 1 June 2014

2014-06-01T08:51:31Z

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

@@ Line 74: / Line 74: @@
 [[File:Evolution11.png|left|thumb|500px|'''Figure6.''' ''Phylogenetic tree showing relatedness of betaine aldehyde dehydrogenases (BADs) from various species. BAD1 and BAD2 proteins form distinct groups within monocotyledonous plant species. No full-length BAD1 protein or cDNA sequences were available for wheat or maize, although there were partial sequences suggesting that BAD1 was present in these species. Bacterial and yeast BAD2 was much less related to the plant BADs. The numbers above the nodes indicate bootstrap support based on 10 000 replicates, constructed using MacVector™ 7.0.From(from reference <ref name="ref4"/>).'']]
 The production of two different subunits in the same subcellular compartment allows for the possible formation of heterodimers of the two subunits. The presence of such heterodimers might lead to an altered substrate specificity of BAD in rice. The presence of two BAD homologues has been widely reported in many grasses, and the BAD2 protein in rice appears to be closely related to the BAD2 protein from wheat, barley, sorghum, maize and the turfgrass Zoysia tenuifolia (Figure 6). Analysis of the sequences in genes from other species (Figure 6) shows that BAD2s from different species are more closely related than different BADs from the same species, suggesting a distinct and important role for each of the two BADs. However, only the BAD2 protein in Z. tenuifolia has a similar PTS1 at its C-terminus.
@@ Line 113: / Line 112: @@
 *Faculty of Medical Technology, Huachiew Chalermprakiet University, Samut Prakran 10540, Thailand
 *Rice Gene Discovery Unit, Kasetsart University, Kamphangsaen Campus, Nakhon Pathom 73140, Thailand
 ==References==

@@ Line 74: / Line 74: @@
 [[File:Evolution11.png|left|thumb|500px|'''Figure6.''' ''Phylogenetic tree showing relatedness of betaine aldehyde dehydrogenases (BADs) from various species. BAD1 and BAD2 proteins form distinct groups within monocotyledonous plant species. No full-length BAD1 protein or cDNA sequences were available for wheat or maize, although there were partial sequences suggesting that BAD1 was present in these species. Bacterial and yeast BAD2 was much less related to the plant BADs. The numbers above the nodes indicate bootstrap support based on 10 000 replicates, constructed using MacVector™ 7.0.From(from reference <ref name="ref4"/>).'']]
 The production of two different subunits in the same subcellular compartment allows for the possible formation of heterodimers of the two subunits. The presence of such heterodimers might lead to an altered substrate specificity of BAD in rice. The presence of two BAD homologues has been widely reported in many grasses, and the BAD2 protein in rice appears to be closely related to the BAD2 protein from wheat, barley, sorghum, maize and the turfgrass Zoysia tenuifolia (Figure 6). Analysis of the sequences in genes from other species (Figure 6) shows that BAD2s from different species are more closely related than different BADs from the same species, suggesting a distinct and important role for each of the two BADs. However, only the BAD2 protein in Z. tenuifolia has a similar PTS1 at its C-terminus.
@@ Line 112: / Line 113: @@
 *Faculty of Medical Technology, Huachiew Chalermprakiet University, Samut Prakran 10540, Thailand
 *Rice Gene Discovery Unit, Kasetsart University, Kamphangsaen Campus, Nakhon Pathom 73140, Thailand
 ==References==

@@ Line 102: / Line 102: @@
 ==Labs working on this gene==
-Please input related labs here.
+*National Maize Improvement Center of China, China Agricultural University, Beijing 100193, People’s Republic of China
 ==References==

@@ Line 72: / Line 72: @@
 ===Evolution===
-Please input evolution information here.
+[[File:Evolution11.png|left|thumb|500px|'''Figure6.''' ''Phylogenetic tree showing relatedness of betaine aldehyde dehydrogenases (BADs) from various species. BAD1 and BAD2 proteins form distinct groups within monocotyledonous plant species. No full-length BAD1 protein or cDNA sequences were available for wheat or maize, although there were partial sequences suggesting that BAD1 was present in these species. Bacterial and yeast BAD2 was much less related to the plant BADs. The numbers above the nodes indicate bootstrap support based on 10 000 replicates, constructed using MacVector™ 7.0.From(from reference <ref name="ref4"/>).'']]
 ==Labs working on this gene==
@@ Line 80: / Line 105: @@
 ==References==
-<references>
+  <references>
-<ref name="ref1"> Saihua Chen,Yi Yang, Weiwei Shi, Qing Ji, Fei He,Ziding Zhang, Zhukuan Cheng, Xiangnong Liu, Mingliang Xu,
+  <ref name="ref1"> Saihua Chen,Yi Yang, Weiwei Shi, Qing Ji, Fei He,Ziding Zhang, Zhukuan Cheng, Xiangnong Liu, Mingliang Xu,
   Badh2, Encoding Betaine Aldehyde Dehydrogenase, Inhibits the Biosynthesis of 2-Acetyl-1-Pyrroline, a Major Component in Rice Fragrance, The Plant Cell, July 2008, Vol. 20: 1850–1861.</ref>
 </references>
-. Louis M. T. Bradbury ,Susan A. Gillies Donald J. Brushett, Daniel L. E. Waters Robert J. Henry, Encoding
       Betaine Aldehyde Dehydrogenase, Inhibits the Biosynthesis of 2-Acetyl-1-Pyrroline, a Major Component in Rice
        Fragrance,Plant Mol Biol (2008) 68:439–449.
 . Ratree Wongpanya , Nonlawat Boonyalai , Napaporn Thammachuchourat, Natharinee Horata , Siwaret Arikit,  Khin
       Myo Myint, Biochemical and Enzymatic Study of Rice BADH Wild-Type and Mutants: An Insight into Fragrance in Rice,
       Protein J (2011) 30:529–538

@@ Line 52: / Line 52: @@
-[[File:Expression11.png|right|thumb|250px|'''Figure3.''' '' Examination of the Badh2/badh2 Transcription Levels in Various Plant Tissues Using Real-Time RT-PCR.From(from reference <ref name="ref1"/>).'']]
+[[File:Expression11.png|right|thumb|250px|'''Figure3.''' '' Examination of the Badh2/badh2 Transcription Levels in Various Plant Tissues Using Real-Time RT-PCR.Initial fully expanded leaf (A), last fully expanded leaf (B), stem (C), young panicle at the booting stage (D), panicle at the heading stage (E), panicle at 15 d after the heading stage (F), and roots (G) are shown. The relative transcription level for each plant tissue was represented as a 2 DCT
-[[File:Expression11.png|left|thumb|250px|'''Figure4.''' ''Relative Abundance of different Badh2 Transcripts. From(from reference <ref name="ref1"/>).'']]
+value. Error bars represent the SD of transcription levels determined from the three independent real-time PCRs.From(from reference <ref name="ref1"/>).'']]
 [[File:Expression11.png|right|thumb|250px|'''Figure5.''' ''Indirect Subcellular Immunodetection of BADH2.From(from reference <ref name="ref1"/>).'']]

@@ Line 3: / Line 3: @@
 ==Annotated Information==
 ===Function===
-[[File:function.png|right|thumb|500px|'''Figure1.''' ''2AP Levels and Their Significant Differences among Nontransgenic Lines and Three Kinds of Transgenic Lines Carrying Different Badh2 CDS Driven by the CaMV35S Promoter.From(from reference <ref name="ref1"/>).'']]
+[[File:function.png|right|thumb|400px|'''Figure1.''' ''2AP Levels and Their Significant Differences among Nontransgenic Lines and Three Kinds of Transgenic Lines Carrying Different Badh2 CDS Driven by the CaMV35S Promoter.From(from reference <ref name="ref1"/>).'']]
 ''BADH2'', encoding betaine aldehyde dehydrogenase (BADH2) inhibits the synthesis of 2-acetyl-1-pyrroline (2AP), a potent flavor component in rice fragrance.In rice the nitrogen in the pyrroline ring of proline becomes the nitrogen in the pyrroline ring of 2AP while the carboxyl group of proline is removed and replaced with an acetyl group from another source found that in L. hilgardii the acetyl group of 2AP can be derived from fructose when either ethanol or acetaldehyde are supplied in excess. They further suggested D1pyrroline, a product of proline catabolism via putrescine oxidation, is the immediate precursor of the pyrroline ring of 2AP and the acetyl group was most likely formed from reaction with acetyl-CoA or acetaldehyde in either a chemical or enzymatic reaction. Additionally, detailed precursor studies have revealed that the formation of 2AP in Bacillus cerus proceeds via acetylation of D1pyrroline.
@@ Line 14: / Line 14: @@
 BADH2 could be divided into three domains: a NAD binding domain (residues 9 to 124 and 152 to 262), an oligomerization domain (residues 129 to 151 and 480 to 486), and a substrate binding domain (residues 263 to 464).
-[[File:Structure.png|left|frame|100px|'''Figure2.''' ''The Three-Dimensional Structure of BADH2 and the Annotated Active Sites.From(from reference <ref name="ref1"/>).'']]
+[[File:Structure.png|left|frame|10px|'''Figure2.''' ''The Three-Dimensional Structure of BADH2 and the Annotated Active Sites.From(from reference <ref name="ref1"/>).'']]
@@ Line 52: / Line 52: @@
-[[File:Expression11.png|right|thumb|150px|'''Figure3.''' '' Examination of the Badh2/badh2 Transcription Levels in Various Plant Tissues Using Real-Time RT-PCR.From(from reference <ref name="ref1"/>).'']]
+[[File:Expression11.png|right|thumb|250px|'''Figure3.''' '' Examination of the Badh2/badh2 Transcription Levels in Various Plant Tissues Using Real-Time RT-PCR.From(from reference <ref name="ref1"/>).'']]
-[[File:Expression11.png|left|thumb|150px|'''Figure4.''' ''Relative Abundance of different Badh2 Transcripts. From(from reference <ref name="ref1"/>).'']]
+[[File:Expression11.png|left|thumb|250px|'''Figure4.''' ''Relative Abundance of different Badh2 Transcripts. From(from reference <ref name="ref1"/>).'']]
-[[File:Expression11.png|right|thumb|150px|'''Figure5.''' ''Indirect Subcellular Immunodetection of BADH2.From(from reference <ref name="ref1"/>).'']]
+[[File:Expression11.png|right|thumb|250px|'''Figure5.''' ''Indirect Subcellular Immunodetection of BADH2.From(from reference <ref name="ref1"/>).'']]
 In the nonfragrant rice cv Nanjing11, Badh2 transcripts were detected in all tissues tested except for the roots. The Badh2 transcript was more abundant in the initial fully expanded leaf than in other tissues (Figure 3). Interestingly, a similar transcription pattern with a lower transcription level was observed for the badh2-E7 allele in the fragrant rice cv Wuxiangjing (Figure 3). This indicates that sequence alterations specific to the badh2-E7 allele significantly reduce its transcription levels but cause only a slight change in its transcription pattern.

@@ Line 50: / Line 50: @@
 ===Expression===
-Please input expression information here.
+In the nonfragrant rice cv Nanjing11, Badh2 transcripts were detected in all tissues tested except for the roots. The Badh2 transcript was more abundant in the initial fully expanded leaf than in other tissues (Figure 2). Interestingly, a similar transcription pattern with a lower transcription level was observed for the badh2-E7 allele in the fragrant rice cv Wuxiangjing (Figure 2). This indicates that sequence alterations specific to the badh2-E7 allele significantly reduce its transcription levels but cause only a slight change in its transcription pattern.
 ===Evolution===