Os10g0467800 - Revision history

Rice2012: /* Labs working on this gene */

2015-06-13T08:48:20Z

‎Labs working on this gene

Lmw2015: /* Structured Information */

2015-06-12T04:01:07Z

‎Structured Information

Zhangh: /* References */

2014-06-09T08:48:25Z

‎References

Wenqian: /* Evolution */

2014-06-03T10:26:43Z

‎Evolution

Wenqian: /* Evolution */

2014-06-03T10:25:54Z

‎Evolution

Wenqian: /* Expression */

2014-06-03T10:24:12Z

‎Expression

Wenqian: /* Expression */

2014-06-03T10:20:49Z

‎Expression

Huanghs: /* Evolution */

2014-06-03T10:01:44Z

‎Evolution

Wenqian: /* Labs working on this gene */

2014-06-03T10:00:39Z

‎Labs working on this gene

Wenqian: /* Evolution */

2014-06-03T09:59:53Z

‎Evolution

← Older revision		Revision as of 08:48, 13 June 2015
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	[[Category:Japonica Chromosome 10]]		[[Category:Japonica Chromosome 10]]
	[[Category:Chromosome 10]]		[[Category:Chromosome 10]]
		+	== Structured Information ==

@@ Line 32: / Line 32: @@
 To date 17 plant and algal genomes have been fully or nearly fully sequenced, and their gene prediction and annotation are publicly available. The availability of these genomes and their annotated genes facilitates comparative genomic studies of plants, making it possible to address major plant biology questions in ''silico''. Yanbin Yin ''et al.'' have performed comparative analyses of the CesA superfamily genes in the 17 sequenced plant and algal genomes. They defined CesA and Csl gene homologs across these genomes  investigated  the evolution of different Csl gene families，build a catalog of all the Csl genes and classified them phylogenetically. The gene structure, the evolutionary rate, and the distribution of the Csl families across different genomes are also studied<ref name="ref8" />.
 [[Category:Genes]]
 [[Category:Japonica mRNA]]

← Older revision		Revision as of 08:48, 9 June 2014
Line 31:		Line 31:

	To date 17 plant and algal genomes have been fully or nearly fully sequenced, and their gene prediction and annotation are publicly available. The availability of these genomes and their annotated genes facilitates comparative genomic studies of plants, making it possible to address major plant biology questions in ''silico''. Yanbin Yin ''et al.'' have performed comparative analyses of the CesA superfamily genes in the 17 sequenced plant and algal genomes. They defined CesA and Csl gene homologs across these genomes investigated the evolution of different Csl gene families，build a catalog of all the Csl genes and classified them phylogenetically. The gene structure, the evolutionary rate, and the distribution of the Csl families across different genomes are also studied<ref name="ref8" />.		To date 17 plant and algal genomes have been fully or nearly fully sequenced, and their gene prediction and annotation are publicly available. The availability of these genomes and their annotated genes facilitates comparative genomic studies of plants, making it possible to address major plant biology questions in ''silico''. Yanbin Yin ''et al.'' have performed comparative analyses of the CesA superfamily genes in the 17 sequenced plant and algal genomes. They defined CesA and Csl gene homologs across these genomes investigated the evolution of different Csl gene families，build a catalog of all the Csl genes and classified them phylogenetically. The gene structure, the evolutionary rate, and the distribution of the Csl families across different genomes are also studied<ref name="ref8" />.
−
−	~~==References==~~
−	~~<references>~~
−	~~<ref name="ref1">Saxena IM, Brown RM. Cellulose Biosynthesis: Current views and evolving concepts.Ann Bot. 2005;96:9–21.</ref>~~
−	~~<ref name="ref2">Pear JR, Kawagoe Y, Schreckengost WE, Delmer DP, Stalker DM.Proc Natl Acad Sci USA.1996;29; 93(22):12637-42.</ref>~~
−	~~<ref name="ref3">N G Taylor, W R Scheible, S Cutler, C R Somerville, and S R Turner.Plant Cell.1999;11(5): 769–780.</ref>~~
−	~~<ref name="ref4">Peng L, Kawagoe Y, Hogan P, Delmer D (2002) Sitosterol-β-glucoside as primer for cellulose synthesis in plants.Science.295:147-150.</ref>~~
−	~~<ref name="ref5">Richmond TA, Somerville CR: The cellulose synthase superfamily.Plant physiology 2000,124(2):495-498.</ref>~~
−	~~<ref name="ref6">Lerouxel O, Cavalier DM, Liepman AH, Keegstra K: Biosynthesis of plant cell wall polysaccharides– a complex process.Current opinion in plant biology 2006,9(6):621-630.</ref>~~
−	~~<ref name="ref7">Roberts AW, Bushoven JT: The cellulose synthase (CESA) gene superfamily of the moss Physcomitrella patens.Plant molecular biology 2007,63(2):207-219.</ref>~~
−	~~<ref name="ref8">Yanbin Yin1, Jinling Huang2 and Ying Xu. BMC Plant Biology 2009, 9:99</ref>~~
−	~~</references>~~

	==Structured Information==		==Structured Information==

@@ Line 23: / Line 23: @@
 as the transition of the group one and group two ,The family of Csl can be divided into six groups, This results
 laiding a foundation on origin, evolution and function research of ccellulose synthase gene family.
-[[File:360截图20140603170036984.jpg|right|thumb|250px|'''Figure 5.''' ''An external file that holds a picture, illustration, etc.Genomic structure of three rice CesA genes, OsCesA4, -7, and -9. The black boxes and lines indicate exon and intron sequences, respectively. Scale bar = 1 kb. Arrows and numbers indicate the Tos17 insertion sites and mutant lines, respectively.'']]
+[[File:360截图20140603170036984.jpg|right|thumb|250px|'''Figure 5.''' ''The phylogenetic tree of distinct rice cellulose synthase catalytic subunit genes required for cellulose synthesis.'']]
 ==Labs working on this gene==

@@ Line 23: / Line 23: @@
 as the transition of the group one and group two ,The family of Csl can be divided into six groups, This results
 laiding a foundation on origin, evolution and function research of ccellulose synthase gene family.
 ==Labs working on this gene==

@@ Line 9: / Line 9: @@
 Based on the sequences shown in Figure 3, phylogenetic relationships of ''CesA'' genes from higher plants were examined (Fig. 4). Three rice ''CesA'' genes were considered to function to synthesize cellulose in the secondary cell walls responsible for the overall strength of the plant, judging from the brittle culm phenotype (Fig. 1) exhibited by their respective mutants (Fig. 2).
-[[File:pp0938041001.jpg|right|thumb|250px|'''Figure 1.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
+[[File:pp0938041001.jpg|right|thumb|250px|'''Figure 1.''' ''Phenotypes of the five rice brittle culm mutants. A, Plant heights of the wild-type plant (1) and the mutants of NC0259 (2), ND8759 (3), NE1031 (4), ND2395 (5), and NF1011 (6). B, Brittleness of culm (C) and mature leaf (L) from wild-type plant (W) and the mutant (M) as demonstrated by the damage caused by stressing between fingers. Numbers indicate mutant lines as described above. All culms were prepared from the second internodes.'']]
-[[File:pp0938041002.jpg|right|thumb|250px|'''Figure 2.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
+[[File:pp0938041002.jpg|right|thumb|250px|'''Figure 2.''' ''An external file that holds a picture, illustration, etc.Genomic structure of three rice CesA genes, OsCesA4, -7, and -9. The black boxes and lines indicate exon and intron sequences, respectively. Scale bar = 1 kb. Arrows and numbers indicate the Tos17 insertion sites and mutant lines, respectively.'']]
-[[File:pp0938041003.jpg|right|thumb|250px|'''Figure 3.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
+[[File:pp0938041003.jpg|right|thumb|250px|'''Figure 3.''' ''An external file that holds a picture, illustration, etc.Alignment of the deduced amino acid sequences of OsCesA4, -7, and -9. Numbers indicate the position of the amino acid residues of each protein. The residues that are identical in at least two CesA genes are marked in reverse contrast letters. The three Asp (D) residues and the QxxRW motif that are critical for the function of CESA (see text) are marked by asterisks. The plant conserved region (P-CR), variable regions (VR1 and -2), and RING finger motif are also shown by overhead double-dashed lines.'']]
-[[File:pp0938041004.jpg|right|thumb|250px|'''Figure 4.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
+[[File:pp0938041004.jpg|right|thumb|250px|'''Figure 4.''' ''Phylogenetic relationships of CesA genes from higher plants. Phylogenetic trees based on the complete amino acid sequences were generated by using ClustalX (version 1.8), then bootstrapping at random number generator seed = 1,000 and number of bootstrap trials = 10,000. Plant species are as follows: At, Arabidopsis; Gc, cotton; Os, rice; Pc, Populus × canescens; Ptr, Populus tremuloides; and Zm, maize.'']]
 The phylogenetic relationships between the three rice CesA genes and all of the Arabidopsis genes indicated that OsCesA9, OsCesA4, and OsCesA7 are the functional analogues for ''AtCesA7'', ''AtCesA8'', and ''AtCesA4'', respectively. This result strongly suggests that these three rice CESA proteins, like the three Arabidopsis CESA proteins, make a complex essential for cellulose synthesis in secondary cell wall. Two cotton ''CesA'' genes (GhCesA1 and -3) that are considered to be members of secondary wall-forming genes  belong to the same group including OsCesA4 and AtCesA8. In maize, only eight complete amino acid sequences have been determined, and no ''CesA'' genes analogous to the three rice/Arabidopsis genes have been isolated, probably due to low abundance of the cDNAs<ref name="ref4" />.

← Older revision		Revision as of 10:20, 3 June 2014
Line 9:		Line 9:

	Based on the sequences shown in Figure 3, phylogenetic relationships of ''CesA'' genes from higher plants were examined (Fig. 4). Three rice ''CesA'' genes were considered to function to synthesize cellulose in the secondary cell walls responsible for the overall strength of the plant, judging from the brittle culm phenotype (Fig. 1) exhibited by their respective mutants (Fig. 2).		Based on the sequences shown in Figure 3, phylogenetic relationships of ''CesA'' genes from higher plants were examined (Fig. 4). Three rice ''CesA'' genes were considered to function to synthesize cellulose in the secondary cell walls responsible for the overall strength of the plant, judging from the brittle culm phenotype (Fig. 1) exhibited by their respective mutants (Fig. 2).
		+	[[File:pp0938041001.jpg\|right\|thumb\|250px\|'''Figure 1.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
		+	[[File:pp0938041002.jpg\|right\|thumb\|250px\|'''Figure 2.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
		+	[[File:pp0938041003.jpg\|right\|thumb\|250px\|'''Figure 3.''' ''Seeds from normal-type lines VS. transgenic lines .'']]
		+	[[File:pp0938041004.jpg\|right\|thumb\|250px\|'''Figure 4.''' ''Seeds from normal-type lines VS. transgenic lines .'']]

	The phylogenetic relationships between the three rice CesA genes and all of the Arabidopsis genes indicated that OsCesA9, OsCesA4, and OsCesA7 are the functional analogues for ''AtCesA7'', ''AtCesA8'', and ''AtCesA4'', respectively. This result strongly suggests that these three rice CESA proteins, like the three Arabidopsis CESA proteins, make a complex essential for cellulose synthesis in secondary cell wall. Two cotton ''CesA'' genes (GhCesA1 and -3) that are considered to be members of secondary wall-forming genes belong to the same group including OsCesA4 and AtCesA8. In maize, only eight complete amino acid sequences have been determined, and no ''CesA'' genes analogous to the three rice/Arabidopsis genes have been isolated, probably due to low abundance of the cDNAs<ref name="ref4" />.		The phylogenetic relationships between the three rice CesA genes and all of the Arabidopsis genes indicated that OsCesA9, OsCesA4, and OsCesA7 are the functional analogues for ''AtCesA7'', ''AtCesA8'', and ''AtCesA4'', respectively. This result strongly suggests that these three rice CESA proteins, like the three Arabidopsis CESA proteins, make a complex essential for cellulose synthesis in secondary cell wall. Two cotton ''CesA'' genes (GhCesA1 and -3) that are considered to be members of secondary wall-forming genes belong to the same group including OsCesA4 and AtCesA8. In maize, only eight complete amino acid sequences have been determined, and no ''CesA'' genes analogous to the three rice/Arabidopsis genes have been isolated, probably due to low abundance of the cDNAs<ref name="ref4" />.

@@ Line 13: / Line 13: @@
 ===Evolution===
 Analyze the cellulose synthase gene family of rice by using the DNAStar and MEGA software, The results show that cellulose synthase gene family is formed by the cellulose synthase family which is make up of eleven members and
 the cellulose synthaselike family which including thirtyfour members, By Protein sequence alignment and

@@ Line 20: / Line 20: @@
 ==Labs working on this gene==
-In 2000, Richmond and Somerville identified 10 CesA genes and 31 cellulose synthases-like (Csl) genes in Arabidopsis, which were further classified into one CesA family and six Csl families (CslA/B/C/D/E/G) based on phylogenetic analyses . Since then, the whole CesA and Csl gene repertoire has been cataloged in fully sequenced plants, including rice , poplar and the moss ''Physcomitrella patens'' . Additional CesA and Csl genes have also been found in diverse and not fully sequenced land plants such as maize , barley and pine; CesAs have been identified in streptophyte green algae such as ''Mesotaenium caldariorum'' and in red alga ''Porphyra yezoensis''  as well. Two additional Csl families (CslF and CslH) were found in these studies; together with the other six Csl families and one CesA family, they comprise the CesA superfamily.
+In 2000, Richmond and Somerville identified 10 CesA genes and 31 cellulose synthases-like (Csl) genes in Arabidopsis, which were further classified into one CesA family and six Csl families (CslA/B/C/D/E/G) based on phylogenetic analyses . Since then, the whole CesA and Csl gene repertoire has been cataloged in fully sequenced plants, including rice , poplar and the moss ''Physcomitrella patens'' . Additional CesA and Csl genes have also been found in diverse and not fully sequenced land plants such as maize , barley and pine; CesAs have been identified in streptophyte green algae such as ''Mesotaenium caldariorum'' and in red alga ''Porphyra yezoensis''  as well. Two additional Csl families (CslF and CslH) were found in these studies; together with the other six Csl families and one CesA family, they comprise the CesA superfamily<ref name="ref5" />.
-The phylogenetic classification and the function of the CesA superfamily were reviewed by Lerouxel ''et al.'' in 2006 , and since then there have been a few updates in terms of the phylogenetic analyses of these important genes. Fincher ''et al''. have found a new Csl family (CslJ) in cereals . Roberts and Bushoven have mined the ''P. pattens'' genomic and EST data and found CesA, CslA, CslC and CslD genes in this lower plant; their phylogenetic analyses revealed that seven P. patens CesA genes form a monophyletic clade by themselves and there are no one-to-one orthologs in the moss corresponding to the Arabidopsis CesA triplet subunits (CesA1/3/6 for the primary cell wall and CesA4/7/8 for the secondary cell wall). Furthermore, comprehensive phylogenetic analyses of the plant CesA superfamily by including CesAs from other organismal groups (e.g., bacteria, fungi and animals) indicated that plant CslA and CslC genes have a different origin than the remaining plant genes . Evidences have been reported that these remaining genes of the CesA superfamily were anciently acquired from cyanobacteria. It was proposed  that the plant CslG genes evolved first, followed by the CslE, CslB, CesA and CslD/F genes. However, a more recent study could not find homologs of the CslG/E/B/H/F genes in ''P. patens'', suggesting that these Csl families are narrowly distributed and unlikely to be the earliest evolved.
+The phylogenetic classification and the function of the CesA superfamily were reviewed by Lerouxel ''et al.'' in 2006 , and since then there have been a few updates in terms of the phylogenetic analyses of these important genes. Fincher ''et al''. have found a new Csl family (CslJ) in cereals . Roberts and Bushoven have mined the ''P. pattens'' genomic and EST data and found CesA, CslA, CslC and CslD genes in this lower plant; their phylogenetic analyses revealed that seven P. patens CesA genes form a monophyletic clade by themselves and there are no one-to-one orthologs in the moss corresponding to the Arabidopsis CesA triplet subunits (CesA1/3/6 for the primary cell wall and CesA4/7/8 for the secondary cell wall). Furthermore, comprehensive phylogenetic analyses of the plant CesA superfamily by including CesAs from other organismal groups (e.g., bacteria, fungi and animals) indicated that plant CslA and CslC genes have a different origin than the remaining plant genes . Evidences have been reported that these remaining genes of the CesA superfamily were anciently acquired from cyanobacteria. It was proposed  that the plant CslG genes evolved first, followed by the CslE, CslB, CesA and CslD/F genes. However, a more recent study could not find homologs of the CslG/E/B/H/F genes in ''P. patens'', suggesting that these Csl families are narrowly distributed and unlikely to be the earliest evolved<ref name="ref6" /><ref name="ref7" />.
-To date 17 plant and algal genomes have been fully or nearly fully sequenced, and their gene prediction and annotation are publicly available. The availability of these genomes and their annotated genes facilitates comparative genomic studies of plants, making it possible to address major plant biology questions in ''silico''. Yanbin Yin ''et al.'' have performed comparative analyses of the CesA superfamily genes in the 17 sequenced plant and algal genomes. They defined CesA and Csl gene homologs across these genomes  investigated  the evolution of different Csl gene families，build a catalog of all the Csl genes and classified them phylogenetically. The gene structure, the evolutionary rate, and the distribution of the Csl families across different genomes are also studied.
+To date 17 plant and algal genomes have been fully or nearly fully sequenced, and their gene prediction and annotation are publicly available. The availability of these genomes and their annotated genes facilitates comparative genomic studies of plants, making it possible to address major plant biology questions in ''silico''. Yanbin Yin ''et al.'' have performed comparative analyses of the CesA superfamily genes in the 17 sequenced plant and algal genomes. They defined CesA and Csl gene homologs across these genomes  investigated  the evolution of different Csl gene families，build a catalog of all the Csl genes and classified them phylogenetically. The gene structure, the evolutionary rate, and the distribution of the Csl families across different genomes are also studied<ref name="ref8" />.
 ==References==