Os12g0281300 - Revision history

Qianqian: /* Annotated Information */

2016-11-10T11:59:00Z

‎Annotated Information

Qianqian at 04:55, 10 November 2016

2016-11-10T04:55:02Z

Rice2012: /* References */

2015-06-13T09:16:23Z

‎References

Lmw2015: /* Structured Information */

2015-06-12T04:31:53Z

‎Structured Information

Zhonghongming: /* Function */

2014-05-29T10:25:21Z

‎Function

Zhonghongming: /* Evolution */

2014-05-29T10:24:37Z

‎Evolution

Zhonghongming: /* Expression */

2014-05-29T10:23:51Z

‎Expression

Zhonghongming: /* Expression */

2014-05-24T13:07:18Z

‎Expression

Zhonghongming: /* Evolution */

2014-05-24T13:05:28Z

‎Evolution

Zhonghongming: /* Function */

2014-05-24T13:03:34Z

‎Function

@@ Line 3: / Line 3: @@
 ==Annotated Information==
 ===Gene Symbol===
-*'''''Os12g0281300''''' '''<=>''' '''''OsPi-ta,Pi-ta'''''
+*'''''Os12g0281300''''' '''<=>''' '''''OsPi-ta,Pi-ta,Pita'''''
 ===Function===
 * The rice blast resistance ( R ) gene Pi-ta mediates gene-for-gene resistance against strains of the fungus Magnaporthe grisea that express avirulent alleles of AVR-Pita .

@@ Line 1: / Line 1: @@
-Please input one-sentence summary here.
+The rice '''''Os12g0281300''''' was reported as '''''Pi-ta''''' in 2000 <ref name="ref1" /> by researchers from New Zealand, USA and Netherlands.
 ==Annotated Information==
 ===Function===
+* The rice blast resistance ( R ) gene Pi-ta mediates gene-for-gene resistance against strains of the fungus Magnaporthe grisea that express avirulent alleles of AVR-Pita .
-The rice blast resistance gene, Pi-ta, originally introgressed into japonica from indica rice is important in breeding for rice blast resistance worldwide. In the southern USA, the rice cultivar Katy contains Pi-ta and is resistant to the predominant blast M. grisea races IB-49 and IC-17 and has been used as the blast resistant breeding parent. Three pairs of DNA primers specific to the dominant indica Pi-ta gene were designed to amplify the Pi-ta DNA fragments by polymerase chain reaction (PCR).
+* Pi-ta encodes a predicted 928–amino acid cytoplasmic receptor with a centrally localized nucleotide binding site.
-−
 ===Expression===
-AVR-Pita176 protein is shown to bind specifically to the LRD of the Pi-ta protein, both in the yeast two-hybrid system and in an in vitro binding assay. Single amino acid substitutions in the Pi-ta LRD or in the AVR-Pita176 protease motif that result in loss of resistance in the plant also disrupt the physical interaction, both in yeast and in vitro. Rice seedlings were used in the blast inoculation because younger plants are quite susceptible. Resistance of rice plants to blast varies with the growth stage, and they become resistant after the bolting stage . Resistance to M. grisea also increases as the leaf age of rice plants increases on the same tillers. In most inoculation results, lesions formed only on the expanding leaf. Therefore, lesions on expanding leaves of each tiller were used to evaluate the resistance to blast . Twelve accessions showed the typical resistant phenotype. The accessions belonging to haplogroup H1 all exhibited resistance. Haplogroup H1 is distributed sporadically around the rim of the Indian Ocean . All but four accessions (OR3, OR5, OR8, and OR36) of haplogroup H2 were susceptible to M. grisea IK81-25. The 2pot21-02 collected from Lawrence County, AR, where Cypress once was grown, possesses the same pi-ta genomic region of the US cultivar Cypress. The susceptible pi-ta region in the weedy accessions of presumed crop-weed progenies was genetically identical to that in US cultivars, while other weedy accessions were genetically more similar to indica.
+* Pi-ta shows low constitutive expression in both resistant and susceptible rice.
 ==Labs working on this gene==
-.Dale Bumpers National Rice Research Center, Agricultural Research Service, United States Department of Agriculture, Stuttgart, Arkansas, United States of America.
+* AgResearch Grasslands, Private Bag 11008,Palmerston North, New Zealand.
-.Institute of Plant Biology, National Taiwan University, Taipei 106, Taiwan.
+* USDA-ARS, Dale Bumpers National Rice Research Center, Stuttgart, AR 72160
-.Department of Botany, National Museum of Natural Science, Taichung 404, Taiwan.
+* Plant Research International, Wageningen UR, Genomics Department, Droevendaalsesteeg 1, 6700 AA Wageningen, The Netherlands.
 ==References==
-. Seonghee Lee;Yulin Jia;Melissa Jia;David R. Gealy;Kenneth M. Olsen;Ana L. Caicedo
+<references>
-  Molecular Evolution of the Rice Blast Resistance Gene Pi-ta in Invasive Weedy Rice in the USA
+* <ref name="ref1">
-  PLoS ONE, 2011, 6(10): e26260
+Bryan GT, Wu KS, Farrall L, Jia Y, Hershey HP, McAdams SA, Faulk KN, Donaldson
-. X. Wang;R. Fjellstrom;Y. Jia;W. G. Yan;M. H. Jia;B. E. Scheffler;D. Wu;Q. Shu;A. McClung
+GK, Tarchini R, Valent B. tA single amino acid difference distinguishes resistant
-  Characterization of Pi-ta blast resistance gene in an international rice core collection
+and susceptible alleles of the rice blast resistance gene Pi-ta. Plant Cell. 2000
-  Plant Breeding, 2010, 129(5): 491-501
+Nov;12(11):2033-46. PubMed PMID: 11090207; PubMed Central PMCID: PMC150156.
-. Yulin Jia;Rodger Martin
+</references>
-  Identification of a New Locus, Ptr(t), Required for Rice Blast Resistance Gene Pi-ta–Mediated Resistance
 ==Structured Information==
 [[Category:Genes]]

@@ Line 71: / Line 71: @@
    Development of pre-isogenic lines for rice blast-resistance by marker-aided selection from a recombinant inbred population
    Theoretical and Applied Genetics, 1996, 93(4): 560-567
+==Structured Information==
 [[Category:Genes]]
 [[Category:Japonica mRNA]]

@@ Line 72: / Line 72: @@
    Theoretical and Applied Genetics, 1996, 93(4): 560-567
 [[Category:Genes]]
 [[Category:Japonica mRNA]]

← Older revision		Revision as of 10:25, 29 May 2014
Line 13:		Line 13:

	In addition, the resistant Pi-ta allele (Pi-ta) found in the majority of US weedy rice belongs to the weedy group strawhull awnless (SH), suggesting a single source of origin for Pi-ta. Weeds with Pi-ta were resistant to two M. oryzae races, IC17 and IB49, except for three accessions, suggesting that component(s) required for the Pi-ta mediated resistance may be missing in these accessions.		In addition, the resistant Pi-ta allele (Pi-ta) found in the majority of US weedy rice belongs to the weedy group strawhull awnless (SH), suggesting a single source of origin for Pi-ta. Weeds with Pi-ta were resistant to two M. oryzae races, IC17 and IB49, except for three accessions, suggesting that component(s) required for the Pi-ta mediated resistance may be missing in these accessions.
		+	The DNA sequences of the resistant Pi-ta allele of most rice cultivars distributed in different areas are identical; the rice cultivar 435 (GenBank no. AB364491) has some polymorphisms that differ from those of others. O. rufipogon and O. sativa have very similar patterns of resistant Pi-ta alleles, and no fixed polymorphism exists between H1 and Pi-ta alleles of cultivated rice . This characteristic further supports the above scenario. Cultivated rice might have directly acquired the resistant Pi-ta allele from its wild ancestor accompanying domestication or through gene flow between each other. Some differences in resistant Pi-ta alleles might have arisen from different standing genetic variations of O. sativa and O. rufipogon, or mutations may have recently accumulated.

	===Expression===		===Expression===

@@ Line 28: / Line 28: @@
 [[File:Figure 5. Extended haplotype homozygosity (EHH) at and around Pi-ta.png]]
-The pattern of genomic diversity and population differentiation at/around the Pi-ta gene in all US weedy rice revealed that the Pi-ta locus in weedy rice was genetically more similar to that in Asian cultivated rice (indica) rather than US cultivars and O. rufipogon, respectively. US weedy accessions can be divided into two major subgroups, SH and BHA. Our sequence and marker data demonstrated that SH is similar to indica and BHA is similar with aus. These findings suggest that Pi-ta in weedy rice could be derived from Asian rice distinct from those used to introgress Pi-ta into US germplasm. In plants, some resistance genes show gene presence/absence polymorphisms (P/A). These P/A polymorphisms can be selectively maintained for long evolutionary periods with flanking regions bearing the molecular signatures of balancing selection
+The pattern of genomic diversity and population differentiation at/around the Pi-ta gene in all US weedy rice revealed that the Pi-ta locus in weedy rice was genetically more similar to that in Asian cultivated rice (indica) rather than US cultivars and O. rufipogon, respectively. US weedy accessions can be divided into two major subgroups, SH and BHA. Our sequence and marker data demonstrated that SH is similar to indica and BHA is similar with aus. These findings suggest that Pi-ta in weedy rice could be derived from Asian rice distinct from those used to introgress Pi-ta into US germplasm. In plants, some resistance genes show gene presence/absence polymorphisms (P/A). These P/A polymorphisms can be selectively maintained for long evolutionary periods with flanking regions bearing the molecular signatures of balancing selection.
 ==Labs working on this gene==

← Older revision		Revision as of 10:23, 29 May 2014
Line 15:		Line 15:

	===Expression===		===Expression===
−		+	AVR-Pita176 protein is shown to bind specifically to the LRD of the Pi-ta protein, both in the yeast two-hybrid system and in an in vitro binding assay. Single amino acid substitutions in the Pi-ta LRD or in the AVR-Pita176 protease motif that result in loss of resistance in the plant also disrupt the physical interaction, both in yeast and in vitro. Rice seedlings were used in the blast inoculation because younger plants are quite susceptible. Resistance of rice plants to blast varies with the growth stage, and they become resistant after the bolting stage . Resistance to M. grisea also increases as the leaf age of rice plants increases on the same tillers. In most inoculation results, lesions formed only on the expanding leaf. Therefore, lesions on expanding leaves of each tiller were used to evaluate the resistance to blast . Twelve accessions showed the typical resistant phenotype. The accessions belonging to haplogroup H1 all exhibited resistance. Haplogroup H1 is distributed sporadically around the rim of the Indian Ocean . All but four accessions (OR3, OR5, OR8, and OR36) of haplogroup H2 were susceptible to M. grisea IK81-25. The 2pot21-02 collected from Lawrence County, AR, where Cypress once was grown, possesses the same pi-ta genomic region of the US cultivar Cypress. The susceptible pi-ta region in the weedy accessions of presumed crop-weed progenies was genetically identical to that in US cultivars, while other weedy accessions were genetically more similar to indica.
−	AVR-Pita176 protein is shown to bind specifically to the LRD of the Pi-ta protein, both in the yeast two-hybrid system and in an in vitro binding assay. Single amino acid substitutions in the Pi-ta LRD or in the AVR-Pita176 protease motif that result in loss of resistance in the plant also disrupt the physical interaction, both in yeast and in vitro. The 2pot21-02 collected from Lawrence County, AR, where Cypress once was grown, possesses the same pi-ta genomic region of the US cultivar Cypress. The susceptible pi-ta region in the weedy accessions of presumed crop-weed progenies was genetically identical to that in US cultivars, while other weedy accessions were genetically more similar to indica.

← Older revision		Revision as of 13:07, 24 May 2014
Line 16:		Line 16:
	===Expression===		===Expression===

−	AVR-Pita176 protein is shown to bind specifically to the LRD of the Pi-ta protein, both in the yeast two-hybrid system and in an in vitro binding assay. Single amino acid substitutions in the Pi-ta LRD or in the AVR-Pita176 protease motif that result in loss of resistance in the plant also disrupt the physical interaction, both in yeast and in vitro.	+	AVR-Pita176 protein is shown to bind specifically to the LRD of the Pi-ta protein, both in the yeast two-hybrid system and in an in vitro binding assay. Single amino acid substitutions in the Pi-ta LRD or in the AVR-Pita176 protease motif that result in loss of resistance in the plant also disrupt the physical interaction, both in yeast and in vitro. The 2pot21-02 collected from Lawrence County, AR, where Cypress once was grown, possesses the same pi-ta genomic region of the US cultivar Cypress. The susceptible pi-ta region in the weedy accessions of presumed crop-weed progenies was genetically identical to that in US cultivars, while other weedy accessions were genetically more similar to indica.

← Older revision		Revision as of 13:05, 24 May 2014
Line 28:		Line 28:

	[[File:Figure 5. Extended haplotype homozygosity (EHH) at and around Pi-ta.png]]		[[File:Figure 5. Extended haplotype homozygosity (EHH) at and around Pi-ta.png]]
		+
		+	The pattern of genomic diversity and population differentiation at/around the Pi-ta gene in all US weedy rice revealed that the Pi-ta locus in weedy rice was genetically more similar to that in Asian cultivated rice (indica) rather than US cultivars and O. rufipogon, respectively. US weedy accessions can be divided into two major subgroups, SH and BHA. Our sequence and marker data demonstrated that SH is similar to indica and BHA is similar with aus. These findings suggest that Pi-ta in weedy rice could be derived from Asian rice distinct from those used to introgress Pi-ta into US germplasm. In plants, some resistance genes show gene presence/absence polymorphisms (P/A). These P/A polymorphisms can be selectively maintained for long evolutionary periods with flanking regions bearing the molecular signatures of balancing selection

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

← Older revision		Revision as of 13:03, 24 May 2014
Line 11:		Line 11:

	[[File:Figure 3. Structure diagram of rice accessions carrying Pi-ta.png]]		[[File:Figure 3. Structure diagram of rice accessions carrying Pi-ta.png]]
		+
		+	In addition, the resistant Pi-ta allele (Pi-ta) found in the majority of US weedy rice belongs to the weedy group strawhull awnless (SH), suggesting a single source of origin for Pi-ta. Weeds with Pi-ta were resistant to two M. oryzae races, IC17 and IB49, except for three accessions, suggesting that component(s) required for the Pi-ta mediated resistance may be missing in these accessions.

	===Expression===		===Expression===