DEP2 - Revision history

Laughin: /* Knowledge extension */

2014-06-10T14:30:34Z

‎Knowledge extension

ZhuXiping: /* Labs working on this gene */

2014-06-10T04:34:29Z

‎Labs working on this gene

Wangzhaoyu: /* Knowledge extension */

2014-06-10T04:29:33Z

‎Knowledge extension

Wangzhaoyu: /* Function */

2014-06-10T04:28:55Z

‎Function

Wangzhaoyu: /* Knowledge extension */

2014-06-10T04:28:13Z

‎Knowledge extension

Wangzhaoyu: /* Mutation */

2014-06-10T04:27:36Z

‎Mutation

Wangzhaoyu: /* References */

2014-06-10T04:26:24Z

‎References

Wangzhaoyu: /* References */

2014-06-10T04:24:35Z

‎References

ZhuXiping: /* References */

2014-06-09T15:36:25Z

‎References

ZhuXiping: /* References */

2014-06-09T15:36:10Z

‎References

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 *Except dep2,cl7(t) was a novel allele of dep2. Sequence analysis showed that cl7(t) had a single nucleotide substitution (C to A) in the third exon that leads to a Ser substitution with a stop codon, giving a truncated DEP2 protein.<ref name="ref2" />
 *The leaves of the cl7(t) mutant were shorter with a smaller angle between the leaves and stem, and a higher chlorophyll content than that of wild type. Compared with the wild type, the cl7(t) mutant displayed a 30% reduction in panicle length and a marked decrease in the number of grains per panicle. the grains of the mutant were wider and shorter than those of the wild type.<ref name="ref2" />
 ==Labs working on this gene==

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 *QTL Genomics Research Center,National Institute of Agrobiological Sciences,Tsukuba,Ibaraki 305-8602,Japan
 *Bioscience and Biotechnology Center,Nagoya University,Chikusa,Nagoya 464-8604,Japan
 ===References===

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 ===Knowledge extension===
-*Except dep2,cl7(t) was a novel allele of dep2. Sequence analysis showed that cl7(t) had a single nucleotide substitution (C to A) in the third exon that leads to a Ser substitution with a stop codon, giving a truncated DEP2 protein.<ref name="ref1" />
+*Except dep2,cl7(t) was a novel allele of dep2. Sequence analysis showed that cl7(t) had a single nucleotide substitution (C to A) in the third exon that leads to a Ser substitution with a stop codon, giving a truncated DEP2 protein.<ref name="ref2" />
-*The leaves of the cl7(t) mutant were shorter with a smaller angle between the leaves and stem, and a higher chlorophyll content than that of wild type. Compared with the wild type, the cl7(t) mutant displayed a 30% reduction in panicle length and a marked decrease in the number of grains per panicle. the grains of the mutant were wider and shorter than those of the wild type.<ref name="ref1" />
+*The leaves of the cl7(t) mutant were shorter with a smaller angle between the leaves and stem, and a higher chlorophyll content than that of wild type. Compared with the wild type, the cl7(t) mutant displayed a 30% reduction in panicle length and a marked decrease in the number of grains per panicle. the grains of the mutant were wider and shorter than those of the wild type.<ref name="ref2" />
 ==Labs working on this gene==

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 ==Annotated Information==
 ===Function===
-*DEP2 gene reduced the development in the longitudinal direction but enhanced the development in the lateral direction of plural organs in rice. In the DEP2 mutants,the panicle length was reduced and panicle diameter was increased<ref name="ref3" />.
+*DEP2 gene reduced the development in the longitudinal direction but enhanced the development in the lateral direction of plural organs in rice. In the DEP2 mutants,the panicle length was reduced and panicle diameter was increased<ref name="ref1" />.
-*Besides panicle erectness, the DEP2 mutants also showed a slight reduction in plant height , an obvious decrease in panicle length, and a significant increase in both rachis and stem diameter. The leaves of DEP2 are short, wide, and erect, and the overall appearance of the mutant is more compact. The grain density is increased due to the decreased panicle length but not the change of grain number. The grains of the DEP2 mutant are wider and shorter than the wild type<ref name="ref3" />.
+*Besides panicle erectness, the DEP2 mutants also showed a slight reduction in plant height , an obvious decrease in panicle length, and a significant increase in both rachis and stem diameter. The leaves of DEP2 are short, wide, and erect, and the overall appearance of the mutant is more compact. The grain density is increased due to the decreased panicle length but not the change of grain number. The grains of the DEP2 mutant are wider and shorter than the wild type<ref name="ref1" />.
-*The mutation in DEP2 has pleiotropic effects on plant architecture,and that increased diameter of the rachis and decreased panicle length altogether contributed to the dense and erect panicle phenotype<ref name="ref3" />.
+*The mutation in DEP2 has pleiotropic effects on plant architecture,and that increased diameter of the rachis and decreased panicle length altogether contributed to the dense and erect panicle phenotype<ref name="ref1" />.
-*The DEP2 gene may regulate GA synthesis, and mutation of DEP2 leads to a decrease in plant height<ref name="ref3" />.
+*The DEP2 gene may regulate GA synthesis, and mutation of DEP2 leads to a decrease in plant height<ref name="ref1" />.
-[[File:Map-based cloning of the DEP2 gene.png|right|thumb|360px|Map-based cloning of the DEP2 gene(from reference.<ref name="ref3" />.)'']]
+[[File:Map-based cloning of the DEP2 gene.png|right|thumb|360px|Map-based cloning of the DEP2 gene(from reference.<ref name="ref1" />.)'']]
 ===Mutation===

@@ Line 24: / Line 24: @@
 ===Knowledge extension===
-*Except dep2,cl7(t) was a novel allele of dep2. Sequence analysis showed that cl7(t) had a single nucleotide substitution (C to A) in the third exon that leads to a Ser substitution with a stop codon, giving a truncated DEP2 protein.
+*Except dep2,cl7(t) was a novel allele of dep2. Sequence analysis showed that cl7(t) had a single nucleotide substitution (C to A) in the third exon that leads to a Ser substitution with a stop codon, giving a truncated DEP2 protein.<ref name="ref1" />
-*The leaves of the cl7(t) mutant were shorter with a smaller angle between the leaves and stem, and a higher chlorophyll content than that of wild type. Compared with the wild type, the cl7(t) mutant displayed a 30% reduction in panicle length and a marked decrease in the number of grains per panicle. the grains of the mutant were wider and shorter than those of the wild type.
+*The leaves of the cl7(t) mutant were shorter with a smaller angle between the leaves and stem, and a higher chlorophyll content than that of wild type. Compared with the wild type, the cl7(t) mutant displayed a 30% reduction in panicle length and a marked decrease in the number of grains per panicle. the grains of the mutant were wider and shorter than those of the wild type.<ref name="ref1" />
 ==Labs working on this gene==

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 ===Mutation===
-*The DEP2 locus was mapped to the long arm of rice chromosome 7<ref name="ref3" />.
+*The DEP2 locus was mapped to the long arm of rice chromosome 7<ref name="ref1" />.
 dep2-1:The 31-bp deletion in dep2-1 starts at 2184bp from the initiation codon ATG and caused a frameshift;
 dep2-2:the G/A substitution in the second intron of dep2-2 caused an altered splicing site of the second intron and also led to a frameshift.
-LOC_Os07g42410 was considered a candidate for the DEP2 gene<ref name="ref3" />.
+LOC_Os07g42410 was considered a candidate for the DEP2 gene<ref name="ref1" />.
-[[File:DEP2 expression pattern.png|left|thumb|160px|DEP2 expression pattern<ref name="ref3" />'']]
+[[File:DEP2 expression pattern.png|left|thumb|160px|DEP2 expression pattern<ref name="ref1" />'']]
 ===Expression===

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 <references>
-<ref name="ref1" >Feng Li,Wenbo Liu, Jiuyou Tang, Jinfeng Chen,et al.(2010)Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle outgrowth and elongation.Cell Research 20:838-849.</ref>
+<ref name="ref1" >Feng Li,Wenbo Liu,Jiuyou Tang,Jinfeng Chen,et al.(2010)Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle out growth and elongation.Cell Research 20:838-849.</ref>
-<ref name="ref2" >Da-Hu Ni1, Juan Li, Yong-Bo Duan1, Ya-Chun Yang, Peng-Cheng Wei, Rong-Fang Xu, Chun-Rong Li,
+<ref name="ref2" >Da-Hu Ni1,Juan Li,Yong-Bo Duan1,Ya-Chun Yang,Peng-Cheng Wei,Rong-Fang Xu,Chun-Rong Li,Dan-Dan Liang, Hao Li,Feng-Shun Song,Jin-Long Ni,Li Li and Jian-Bo Yang.(2014)Identification and utilization of cleistogamy gene cl7(t) in rice
 (Oryza sativa L.).Journal of Experimental Botany, Vol. 65, No. 8, pp. 2107–2117.</ref>

@@ Line 41: / Line 41: @@
 ===References===
-[1]Feng Li,Wenbo Liu, Jiuyou Tang, Jinfeng Chen,et al.(2010)Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle outgrowth and elongation.Cell Research 20:838-849.
+*[1]Feng Li,Wenbo Liu, Jiuyou Tang, Jinfeng Chen,et al.(2010)Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle outgrowth and elongation.Cell Research 20:838-849.
-[2]Da-Hu Ni1, Juan Li, Yong-Bo Duan1, Ya-Chun Yang, Peng-Cheng Wei, Rong-Fang Xu, Chun-Rong Li,
+*[2]Da-Hu Ni1, Juan Li, Yong-Bo Duan1, Ya-Chun Yang, Peng-Cheng Wei, Rong-Fang Xu, Chun-Rong Li,
 Dan-Dan Liang, Hao Li, Feng-Shun Song, Jin-Long Ni, Li Li and Jian-Bo Yang.(2014)Identification and utilization of cleistogamy gene cl7(t) in rice
 (Oryza sativa L.).Journal of Experimental Botany, Vol. 65, No. 8, pp. 2107–2117.