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29 matches found in 12 documents. Search time: 0.01 seconds.
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Score: 14.00
Title: DNA polymorphism in the blast disease resistance gene Pita of the wild rice Oryza rufipogon and its related species .
Author: Yoshida K Miyashita NT
Journal: Genes Genet Syst Citation: V : 84 P : 121-36 Year: 2009 Type: MEDLINE
Literature: oryza Field: abstract Doc ID: pub19556706 Accession (PMID): 19556706
Abstract: Intra-and interspecific DNA variations in the blast resistance gene Pita in wild rice ( Oryza rufipogon ) , cultivated rice ( O sativa ) , and two other related wild rice species ( O meridionalis and O officinalis ) were analyzed to elucidate the nucleotide polymorphism maintenance mechanisms and evolution of Pita in these species . Nucleotide diversity at silent sites of O rufipogon Pita was 0 . 0101 , an intermediate value relative to other O rufipogon nuclear genes . A dimorphic pattern of nucleotide polymorphism was detected in the O rufipogon Pita region . Inoculation of the blast fungus Magnaporthe oryzae verified that the O rufipogon Pita gene resides in a dimorphic sequence type . The resistance Pita allele had lower levels of variation than the susceptibility pita allele . A hypothesis of evolutionary relationships indicated that the amino acid mutation in the O rufipogon Pita protein responsible for the difference between resistance and susceptibility occurred relatively recently . These results suggested that the resistance Pita originated from the susceptibility pita . Nucleotide diversity at replacement sites of the leucine-rich domain ( LRD ) of both the resistance and susceptibility O rufipogon pita was low . In tests of neutrality , significantly negative values were detected for the LRD of O rufipogon susceptibility pita . The low nucleotide diversity at replacement sites of the LRD of the susceptibility pita could be explained by purifying selection . Comparison of Pita between O rufipogon and O officinalis revealed an excess of nonconservative amino acid substitutions in the LRD , which could be related to the host-pathogen interaction .
Matching Sentences:
[ Sen. 1, subscore: 2.00 ]: Intra-and interspecific DNA variations in the blast resistance gene Pita in wild rice ( Oryza rufipogon ) , cultivated rice ( O sativa ) , and two other related wild rice species ( O meridionalis and O officinalis ) were analyzed to elucidate the nucleotide polymorphism maintenance mechanisms and evolution of Pita in these species .
[ Sen. 5, subscore: 2.00 ]: The resistance Pita allele had lower levels of variation than the susceptibility pita allele .
[ Sen. 7, subscore: 2.00 ]: These results suggested that the resistance Pita originated from the susceptibility pita .
[ Sen. 2, subscore: 1.00 ]: Nucleotide diversity at silent sites of O rufipogon Pita was 0 . 0101 , an intermediate value relative to other O rufipogon nuclear genes .
[ Sen. 3, subscore: 1.00 ]: A dimorphic pattern of nucleotide polymorphism was detected in the O rufipogon Pita region .
[ Sen. 4, subscore: 1.00 ]: Inoculation of the blast fungus Magnaporthe oryzae verified that the O rufipogon Pita gene resides in a dimorphic sequence type .
[ Sen. 6, subscore: 1.00 ]: A hypothesis of evolutionary relationships indicated that the amino acid mutation in the O rufipogon Pita protein responsible for the difference between resistance and susceptibility occurred relatively recently .
[ Sen. 8, subscore: 1.00 ]: Nucleotide diversity at replacement sites of the leucine-rich domain ( LRD ) of both the resistance and susceptibility O rufipogon pita was low .
[ Sen. 9, subscore: 1.00 ]: In tests of neutrality , significantly negative values were detected for the LRD of O rufipogon susceptibility pita .
[ Sen. 10, subscore: 1.00 ]: The low nucleotide diversity at replacement sites of the LRD of the susceptibility pita could be explained by purifying selection .
[ Sen. 11, subscore: 1.00 ]: Comparison of Pita between O rufipogon and O officinalis revealed an excess of nonconservative amino acid substitutions in the LRD , which could be related to the host-pathogen interaction .
Supplemental links/files: reference in endnote online text related articles pubmed citation
Score: 4.00
Title: Development of PCR-based allele-specific and InDel marker sets for nine rice blast resistance genes .
Author: Hayashi K Yoshida H Ashikawa I
Journal: Citation: V : ( ) P : Year: 2006 Type: ARTICLE
Literature: oryza Field: abstract Doc ID: pub16673143 Accession (PMID): 16673143
Abstract: Blast resistance is one of the most important traits in rice breeding , and application of molecular markers for blast resistance breeding is likely to allow the rapid screening for the trait during early growth stages , without the need for inoculation of pathogen and phenotyping . Allele-specific PCR markers and insertion/deletion ( InDel ) markers , which genotype single-nucleotide polymorphisms and InDel polymorphisms , respectively , are useful tools for marker-assisted selections . We developed sets of allele-specific PCR and InDel markers for nine rice blast resistance genes-Piz , Piz-t , Pit , Pik , Pik-m , Pik-p , Pita , Pita-2 , and Pib-which are commonly used in Japanese blast resistance rice breeding programs . For each resistance gene , we used the segregation information from thousands of progeny in several crosses or published gene locations to generate a marker that cosegregated with the gene and markers that closely flanked the gene on either side . The developed cosegregating markers uniquely discriminated among each of the lines with the individual resistance genes ( except for Pita and Pita-2 ) . Therefore , these markers will likely facilitate the development of multiline cultivars carrying one or a combination of these nine blast resistance genes . In addition , the systems we developed may be valuable tools in the quality control of seed production from blast-resistant multiline cultivars .
Matching Sentences:
[ Sen. 3, subscore: 2.00 ]: We developed sets of allele-specific PCR and InDel markers for nine rice blast resistance genes-Piz , Piz-t , Pit , Pik , Pik-m , Pik-p , Pita , Pita-2 , and Pib-which are commonly used in Japanese blast resistance rice breeding programs .
[ Sen. 5, subscore: 2.00 ]: The developed cosegregating markers uniquely discriminated among each of the lines with the individual resistance genes ( except for Pita and Pita-2 ) .
Supplemental links/files: reference in endnote online text related articles pubmed citation
Score: 4.00
Title: Development of PCR-based allele-specific and InDel marker sets for nine rice blast resistance genes .
Author: Hayashi K Yoshida H Ashikawa I
Journal: Theor . Appl . Genet . Citation: V : 113 ( 2 ) P : 251-60 Year: 2006 Type: ARTICLE
Literature: oryza Field: abstract Doc ID: pub16791691 Accession (PMID): 16791691
Abstract: Blast resistance is one of the most important traits in rice breeding , and application of molecular markers for blast resistance breeding is likely to allow the rapid screening for the trait during early growth stages , without the need for inoculation of pathogen and phenotyping . Allele-specific PCR markers and insertion/deletion ( InDel ) markers , which genotype single-nucleotide polymorphisms and InDel polymorphisms , respectively , are useful tools for marker-assisted selections . We developed sets of allele-specific PCR and InDel markers for nine rice blast resistance genes -- Piz , Piz-t , Pit , Pik , Pik-m , Pik-p , Pita , Pita-2 , and Pib -- which are commonly used in Japanese blast resistance rice breeding programs . For each resistance gene , we used the segregation information from thousands of progeny in several crosses or published gene locations to generate a marker that cosegregated with the gene and markers that closely flanked the gene on either side . The developed cosegregating markers uniquely discriminated among each of the lines with the individual resistance genes ( except for Pita and Pita-2 ) . Therefore , these markers will likely facilitate the development of multiline cultivars carrying one or a combination of these nine blast resistance genes . In addition , the systems we developed may be valuable tools in the quality control of seed production from blast-resistant multiline cultivars .
Matching Sentences:
[ Sen. 3, subscore: 2.00 ]: We developed sets of allele-specific PCR and InDel markers for nine rice blast resistance genes -- Piz , Piz-t , Pit , Pik , Pik-m , Pik-p , Pita , Pita-2 , and Pib -- which are commonly used in Japanese blast resistance rice breeding programs .
[ Sen. 5, subscore: 2.00 ]: The developed cosegregating markers uniquely discriminated among each of the lines with the individual resistance genes ( except for Pita and Pita-2 ) .
Supplemental links/files: reference in endnote online text related articles pubmed citation
Score: 4.00
Title: Multiple translocation of the AVR-Pita effector gene among chromosomes of the rice blast fungus Magnaporthe oryzae and related species .
Author: Chuma I Isobe C Hotta Y Ibaragi K Futamata N Kusaba M Yoshida K Terauchi R Fujita Y Nakayashiki H Valent B Tosa Y
Journal: PLoS Pathog Citation: V : 7 P : e1002147 Year: 2011 Type: MEDLINE
Literature: oryza Field: abstract Doc ID: pub21829350 Accession (PMID): 21829350
Abstract: Magnaporthe oryzae is the causal agent of rice blast disease , a devastating problem worldwide . This fungus has caused breakdown of resistance conferred by newly developed commercial cultivars . To address how the rice blast fungus adapts itself to new resistance genes so quickly , we examined chromosomal locations of AVR-Pita , a subtelomeric gene family corresponding to the Pita resistance gene , in various isolates of M oryzae ( including wheat and millet pathogens ) and its related species . We found that AVR-Pita ( AVR-Pita1 and AVR-Pita2 ) is highly variable in its genome location , occurring in chromosomes 1 , 3 , 4 , 5 , 6 , 7 , and supernumerary chromosomes , particularly in rice-infecting isolates . When expressed in M oryzae , most of the AVR-Pita homologs could elicit Pita-mediated resistance , even those from non-rice isolates . AVR-Pita was flanked by a retrotransposon , which presumably contributed to its multiple translocation across the genome . On the other hand , family member AVR-Pita3 , which lacks avirulence activity , was stably located on chromosome 7 in a vast majority of isolates . These results suggest that the diversification in genome location of AVR-Pita in the rice isolates is a consequence of recognition by Pita in rice . We propose a model that the multiple translocation of AVR-Pita may be associated with its frequent loss and recovery mediated by its transfer among individuals in asexual populations . This model implies that the high mobility of AVR-Pita is a key mechanism accounting for the rapid adaptation toward Pita . Dynamic adaptation of some fungal plant pathogens may be achieved by deletion and recovery of avirulence genes using a population as a unit of adaptation .
Matching Sentences:
[ Sen. 3, subscore: 1.00 ]: To address how the rice blast fungus adapts itself to new resistance genes so quickly , we examined chromosomal locations of AVR-Pita , a subtelomeric gene family corresponding to the Pita resistance gene , in various isolates of M oryzae ( including wheat and millet pathogens ) and its related species .
[ Sen. 5, subscore: 1.00 ]: When expressed in M oryzae , most of the AVR-Pita homologs could elicit Pita-mediated resistance , even those from non-rice isolates .
[ Sen. 8, subscore: 1.00 ]: These results suggest that the diversification in genome location of AVR-Pita in the rice isolates is a consequence of recognition by Pita in rice .
[ Sen. 10, subscore: 1.00 ]: This model implies that the high mobility of AVR-Pita is a key mechanism accounting for the rapid adaptation toward Pita .
Supplemental links/files: reference in endnote online text related articles pubmed citation
Score: 3.00
Title: One of two major paralogs of AVR-Pita1 is functional in Japanese rice blast isolates .
Author: Takahashi M Ashizawa T Hirayae K Moriwaki J Sone T Sonoda R Noguchi MT Nagashima S Ishikawa K Arai M
Journal: Phytopathology Citation: V : 100 P : 612-8 Year: 2010 Type: MEDLINE
Literature: oryza Field: abstract Doc ID: pub20465417 Accession (PMID): 20465417
Abstract: We analyzed the avirulence gene AVR-Pita1 in Japanese rice blast isolates to determine how they gain virulence toward rice cultivars containing the Pita resistance gene . An avirulent isolate , OS99-G-7a ( G7a ) , from a Japanese commercial field contained two paralogs of AVR-Pita1 , designated as AVR-Pita1 ( JA ) and AVR-Pita1 ( JB ) . Analysis of virulent , independent mutants derived from G7a , a single avirulent progenitor strain , indicated that AVR-Pita1 ( JA ) was functional but AVR-Pita1 ( JB ) was nonfunctional The most frequent mutation was loss of AVR-Pita1 ( JA ) . Analyses of field isolates collected from diverse areas in Japan revealed that most of the AVR-Pita1 genes carried by Japanese isolates were identical to AVR-Pita1 ( JA ) or AVR-Pita1 ( JB ) . The relationship between these major paralogs in Japanese isolates and the virulence of the strains carrying them indicate that AVR-Pita1 ( JA ) is functional but AVR-Pita1 ( JB ) is not , as is the case in G7a . Isolates that show virulence toward rice cultivars containing the Pita gene are presumed to have evolved virulence from avirulent origins via loss of AVR-Pita1 ( JA ) , except for one case in which virulence resulted from a base substitution . In this study , we discuss the properties and specificities of Japanese rice blasts that relate to virulence against Pita-containing rice . Furthermore , we present a method to amplify AVR-Pita1 ( JA ) and AVR-Pita1 ( JB ) separately and , specifically , to monitor functional AVR-Pita1 in Japan .
Matching Sentences:
[ Sen. 1, subscore: 1.00 ]: We analyzed the avirulence gene AVR-Pita1 in Japanese rice blast isolates to determine how they gain virulence toward rice cultivars containing the Pita resistance gene .
[ Sen. 6, subscore: 1.00 ]: Isolates that show virulence toward rice cultivars containing the Pita gene are presumed to have evolved virulence from avirulent origins via loss of AVR-Pita1 ( JA ) , except for one case in which virulence resulted from a base substitution .
[ Sen. 7, subscore: 1.00 ]: In this study , we discuss the properties and specificities of Japanese rice blasts that relate to virulence against Pita-containing rice .
Supplemental links/files: reference in endnote online text related articles pubmed citation
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