Os04g0475600 - Revision history

192.168.72.52: /* Structured Information */

2015-06-12T07:05:33Z

‎Structured Information

Lixn.big: /* Introduction */

2014-06-22T14:31:22Z

‎Introduction

Lixn.big: /* Evolution */

2014-06-22T14:15:09Z

‎Evolution

Lixn.big: /* Evolution */

2014-06-22T14:14:39Z

‎Evolution

Lixn.big: /* Introduction */

2014-06-22T14:09:59Z

‎Introduction

Lixn.big: /* Evolution */

2014-06-22T13:51:20Z

‎Evolution

Lixn.big: /* Evolution */

2014-06-20T09:01:19Z

‎Evolution

Lixn.big: /* Introduction */

2014-06-20T08:26:19Z

‎Introduction

Yuki at 04:05, 15 June 2014

2014-06-15T04:05:54Z

Show changes

Yuki at 04:04, 15 June 2014

2014-06-15T04:04:37Z

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

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 IAA was found in 1880s and proved very important to plants grown up,the biosynthetic pathway for IAA in
 plants is still undefined.And this gene can catalyze the irreversible oxidation of IAA to OxIAA and essential for plant reproductive development. The identification of the rice dioxygenase for auxin oxidation (DAO) gene, which encodes a 2-oxoglutarate-dependent-Fe (II) (2OGFe (II))dioxygenase responsible for catalyzing the irreversible oxidation of IAA to OxIAA and essential for plant reproductive development.Sequence and phylogenetic analysis showed that DAO is a single copy gene in rice that is predicted to encode a 2OG-Fe(II) dioxygenase with a dioxygenase domain that is conserved in several classes of dioxygenase, including the GA-2 oxidase(GA2ox), GA-3 oxidase (GA3ox), and GA-20 oxidase (GA20ox).
-Mutant phynotype:In seedling stage and tillering stage and heading stage,there are no difference in mutant dao and widetype gene dao.flowering period Within the dao of lemma is not open, and there is no pollen from the anther no crack ,male sterility;after the flower Dao ovary and wild type size close to, produce parthenocarpy seeds, seeds are rich in sucrose but no starch accumulation.Mature period, the dao is shrunk seed dry, not germination;Applied auxin IAA or expression synthesis genes OsYUCCA1 consistent with the dao of the mutant phenotype.
+Mutant phynotype:In seedling stage and tillering stage and heading stage,there are no difference in mutant dao and widetype gene dao.flowering period Within the dao of lemma is not open, and there is no pollen from the anther no crack ,male sterility;after the flower Dao ovary and wild type size close to, produce parthenocarpy seeds, seeds are rich in sucrose but no starch accumulation.Mature period, the dao is shrunk seed dry, not germination;Applied auxin IAA or expression synthesis genes OsYUCCA1 consistent with the dao of the mutant phenotype.DAO gene location on the rice chromosome 4 a 52 KB range.Os04g0475600 first exon is a lack of a single nucleotide (25 c).Rt-pcr and protein immunoblot analysis shows that the DAO expressed in root, stem and leaf is low, but expressed in mature anther and development of the ovary is higher, and express the IAA.GUS staining, and early to rise is not observed in flower development, but in the mature anther and the sperm can be seen, moreover, GUS expression in the development of the seed.
 ===Highlight===

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 This gene is belong to oryza sativa and it is one of the world's oldest crop specise.In a heavy huge scale study,US researchers have thought oryza sativa orginated in China.As soon as 800 years ago appear in the Yangtze basin China.This gene is on the fourth chromsome in the rice.
 DAO is important in keep auxin metabolism and the balance of auxin.The most important is take action in plant reproductive development.It is indispensible on  rice seeds of anther dehiscence and pollen development and morphogenesis.[[File:进化.jpg]]
 ==Labs working on this gene==

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 This gene is belong to oryza sativa and it is one of the world's oldest crop specise.In a heavy huge scale study,US researchers have thought oryza sativa orginated in China.As soon as 800 years ago appear in the Yangtze basin China.This gene is on the fourth chromsome in the rice.
-DAO is important in keep auxin metabolism and the balance of auxin.The most important is take action in plant reproductive development.It is indispensible on  rice seeds of anther dehiscence and pollen development and morphogenesis.
+DAO is important in keep auxin metabolism and the balance of auxin.The most important is take action in plant reproductive development.It is indispensible on  rice seeds of anther dehiscence and pollen development and morphogenesis.[[File:进化.jpg]]
 http://ricewiki.big.ac.cn/images/8/83/%E8%BF%9B%E5%8C%96.jpg

@@ Line 7: / Line 7: @@
 IAA was found in 1880s and proved very important to plants grown up,the biosynthetic pathway for IAA in
 plants is still undefined.And this gene can catalyze the irreversible oxidation of IAA to OxIAA and essential for plant reproductive development. The identification of the rice dioxygenase for auxin oxidation (DAO) gene, which encodes a 2-oxoglutarate-dependent-Fe (II) (2OGFe (II))dioxygenase responsible for catalyzing the irreversible oxidation of IAA to OxIAA and essential for plant reproductive development.Sequence and phylogenetic analysis showed that DAO is a single copy gene in rice that is predicted to encode a 2OG-Fe(II) dioxygenase with a dioxygenase domain that is conserved in several classes of dioxygenase, including the GA-2 oxidase(GA2ox), GA-3 oxidase (GA3ox), and GA-20 oxidase (GA20ox).
 ===Highlight===

← Older revision		Revision as of 09:01, 20 June 2014
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	This gene is belong to oryza sativa and it is one of the world's oldest crop specise.In a heavy huge scale study,US researchers have thought oryza sativa orginated in China.As soon as 800 years ago appear in the Yangtze basin China.This gene is on the fourth chromsome in the rice.		This gene is belong to oryza sativa and it is one of the world's oldest crop specise.In a heavy huge scale study,US researchers have thought oryza sativa orginated in China.As soon as 800 years ago appear in the Yangtze basin China.This gene is on the fourth chromsome in the rice.
		+	DAO is important in keep auxin metabolism and the balance of auxin.The most important is take action in plant reproductive development.http://ricewiki.big.ac.cn/images/8/83/%E8%BF%9B%E5%8C%96.jpg

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

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 •Identification of a Putative GA 20-Oxidase in the sd-1 Region.
 Because the sd-1 phenotype is consistent with the dwarfism that results from a deficiency in bioactive GA1, we investigated whether GA biosynthetic genes were present near the Sd-1 locus. The Rice Genome Automated Annotation system (RiceGAAS, RGP) was used to identify predicted coding regions within the interval flanked by RFLP markers RG109 and RG220, as well as within 500 kb of sequence on either side of these markers. Most of the 28 predicted coding regions located between RG109 and RG220 were related to hypothetical proteins of unknown function or retrotransposable elements. However, one predicted ORF (between positions 136550–139292 on BAC clone AP003561, Fig. Fig.1)1) encoded a protein of 389 amino acids that was closely related to GA 20-oxidases previously isolated from Arabidopsis (GA5, 47% identity), pea (50% identity), rice (51% identity; refs. 18–20), and related GA 20-oxidase sequences from cereals such as wheat (Fig. (Fig.2).2). There was no other predicted coding region identified that contained significant amino acid sequence relatedness to proteins involved in GA biosynthesis in the regions either proximal or distal to the BAC contig. Genetic analysis has linked a mutant GA 20-oxidase gene to a semidwarf phenotype in Arabidopsis (18). Therefore, we investigated the possibility that the sd-1 allele is associated with a mutation in the putative GA 20-oxidase gene.
 •Characterization of Mutant GA 20-Oxidase Genes in sd-1 Lines.
 The putative GA 20-oxidase gene (Os20ox2) was amplified by PCR by using genomic DNA of cvs Kyeema (tall) and Doongara (sd-1) as template and primers developed from the Nipponbare genomic sequence (http://rgp.dna.affrc.go.jp). Sequence analysis of these PCR products demonstrated that the predicted ORF isolated from Kyeema was identical in sequence to Nipponbare. Intron positions (557–558 and 879–880 in Fig. Fig.3)3) were confirmed by RT-PCR (see Materials and Methods) and were conserved in relation to GA 20-oxidase genes isolated from Arabidopsis and pea (18, 19). The corresponding sequence amplified from the semidwarf cultivar Doongara contained a 280-bp deletion within the coding region. This deletion spanned parts of exon 1 and exon 2 and was predicted to result in a truncated, nonfunctional polypeptide containing the first 99 amino acid residues of the GA 20-oxidase, followed by an additional 3 amino acids that were in the wrong reading frame before a termination codon (Fig. (Fig.3).3). Hybridization of a DNA probe derived from exon 2 to digested genomic DNA of Kyeema (tall), Doongara (sd-1), and IR36 (sd-1) resulted in an RFLP pattern which was consistent with a deletion in the putative GA 20-oxidase gene (Fig. (Fig.4).4). The RFLP analysis identified two gene members in the rice genome: a strong band (4.6 kb) of the predicted size corresponding to a single member at the sd-1 locus, and a weaker band (≈8 kb) probably identifying a related GA 20-oxidase gene (Os20ox1) located on chromosome 3 (GenBank U50333; ref. 20).
 We investigated whether an independent semidwarf mutant, allelic to sd-1, also contained an altered Os20ox2 sequence by amplifying sequences from Calrose (tall) and a semidwarf Calrose76 (11). The predicted amino acid sequence of Calrose was identical to the sequence of Nipponbare and Kyeema. The DNA sequence of Calrose76 was identical to Calrose except for a C to T transition at position 798 that resulted in a change of the predicted amino acid leucine (Leu-266) in Calrose to phenylalanine in Calrose76 (Fig. (Fig.3).3). This change represents a conservative substitution between hydrophobic amino acids, and although the side chain of phenylalanine is larger than that of leucine, such a substitution may not necessarily affect enzyme activity. However, a comparison of dioxygenase gene sequences from public databases revealed that Leu-266 was conserved in all GA 20-oxidase sequences. Furthermore, this residue was still conserved when 20-oxidase sequences were compared with more distantly related dioxygenases such as GA 3-oxidase and 2-oxidase sequences (refs. 7, 21; Fig. Fig.22).
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 •Analysis of GA Contents in Elongating Stems.
 Most of the variation in final plant height between tall and semidwarf lines result from differences in stem length of the first (subtending panicle) and second (subtending flag leaf) stem internodes (24). We initially compared the GA contents of Kyeema (tall) and Doongara (sd-1) by using the uppermost stem internodes at equivalent stages of growth (about 50% of final length). The results (Table (Table1)1) showed a higher (about three-fold) content of GA53 in the semidwarf compared with the tall line, and lower (about two-fold) contents of GA20 and GA1, and possibly GA17, which is derived from GA19 (Table (Table1).1). There was no significant difference between semidwarf and tall lines in the contents of GA44 and GA19. This analysis also revealed that early 13-hydroxylated GAs predominated in the stem segments, and the peaks identified for GA9 and GA34 were just above the detection limits. The elevated content of GA53 in the semidwarf, and the reduced amount of GA20 (and GA1) were consistent with impaired GA 20-oxidase activity (Fig. (Fig.5)5) and dwarfing caused by a deficiency of GA1. Because sd-1 rice still contained considerable amounts of GA44, GA19, GA20, and GA1, yet is proposed to have a nonfunctional Os20ox2 gene, we conclude that there must be another functional GA 20-oxidase isozyme whose activity provides biosynthetic precursors to GA1 in the stem segment.
 We also compared GA contents in equivalent stem segments of Calrose and Calrose76. The results (Table (Table1)1) were similar to those above, in that there was an accumulation of GA53 and a deficiency of GA20 in the semidwarf variety, consistent with reduced activity of a GA 20 oxidase. The extent of these changes was slightly less than that observed for the Doongara/Kyeema pair, as was the degree of reduction in GA1 content of Calrose76 compared with Calrose (nonsignificant at P < 0.05). Calrose76 also had lower contents of GA44 and of GA19 than Calrose. These differences might be because of (i) other genetic differences between the Doongara/Kyeema pair, (ii) slight activity of the mutant GA20ox2 gene product in Calrose76, or (iii) experimental variation.