423 matches found in 290 documents. Search time: 0.166 seconds. |
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Score: 1.00 | Title: A "defeated" rice resistance gene acts as a QTL against a virulent strain of Xanthomonas oryzae pv . oryzae .
| Author: Li ZK Luo LJ Mei HW Paterson AH Zhao XH Zhong DB Wang YP Yu XQ Zhu L Tabien R Stansel JW Ying CS .
| Citation: V : 261 ( 1 ) P : 58-63 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10071210 Accession (PMID): 10071210 | Abstract: The genetic components responsible for qualitative and quantitative resistance of rice plants to three strains ( CR4 , CXO8 , and CR6 ) of Xanthomonas oryzae pv . oryzae ( Xoo ) were investigated using a set of 315 recombinant inbred lines ( RILs ) from the cross Lemont ( japonica ) x Teqing ( indica ) and a complete linkage map with 182 well distributed RFLP markers .
We mapped a major gene ( Xa4 ) and ten quantitative trait loci ( QTLs ) which were largely responsible for segregation of the resistance phenotype in the RILs .
The Teqing allele at the Xa4 locus , Xa4T , acted as a dominant resistance gene against CR4 and CXO8 .
The breakdown of Xa4T-associated resistance mediated by the mutant allele at the avrXa4 locus in the virulent strain CR6 results from significant changes in both gene action ( lose of dominance ) and the magnitude of gene effect ( approximately 50% reduction ) .
Nevertheless , Xa4T still acted as a recessive QTL with a significant residual effect against CR6 .
The mutant alleles at the avrXa4 locus in CXO8 and CR6 that lead to a reduction in effect , or "breakdown" , of Xa4T were apparently accompanied by corresponding penalties for their fitness .
The quantitative component of resistance to Xoo in the RILs was largely due to a number of resistance QTLs .
Most resistance QTLs mapped to genomic locations where major resistance genes and/or QTLs for resistance to Xoo , blast and sheath blight were identified in the same cross .
Most QTLs showed consistent levels of resistance against all three Xoo strains .
Our results suggest that a high level of durable resistance to Xoo may be achieved by the cumulative effects of multiple QTLs , including the residual effects of "defeated" major resistance genes . | Matching Sentences: [ Sen. 1, subscore: 1.00 ]: The genetic components responsible for qualitative and quantitative resistance of rice plants to three strains ( CR4 , CXO8 , and CR6 ) of Xanthomonas oryzae pv . oryzae ( Xoo ) were investigated using a set of 315 recombinant inbred lines ( RILs ) from the cross Lemont ( japonica ) x Teqing ( indica ) and a complete linkage map with 182 well distributed RFLP markers .
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Score: 1.00 | Title: Application of restriction fragment fingerprinting with a rice microsatellite sequence to assembling rice YAC clones .
| Author: Ashikawa I Kurata N Saji S Umehara Y Sasaki T | Citation: V : 42 ( 2 ) P : 330-7 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10231964 Accession (PMID): 10231964 | Abstract: To refine the current physical map of rice , we have established a restriction fragment fingerprinting method for identifying overlap between pairs of rice yeast artificial chromosome ( YAC ) clones and defining the physical arrangement of YACs within contiguous fragments ( contigs ) .
In this method , Southern blots of rice YAC DNAs digested with a restriction endonuclease are probed with a rice microsatellite probe , ( GGC ) 5 .
The probe produces a unique fingerprint profile characteristic of each YAC clone .
The profile is then digitized , processed in a computer , and a statistic that represents the degree of overlap between two YACs is calculated .
The statistics have been used to detect overlaps among YAC clones , thereby filling a gap between two neighbouring contigs and organizing overlapping rice YAC clones into contiguous fragments .
We applied this method to rearranging YACs that had previously been assigned to rice chromosome 6 by anchoring with RFLP markers . | Matching Sentences: [ Sen. 6, subscore: 1.00 ]: We applied this method to rearranging YACs that had previously been assigned to rice chromosome 6 by anchoring with RFLP markers .
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Score: 2.00 | Title: Identification of mutable slender glume gene in rice ( Oryza sativa L ) .
| Author: Teraishi M Okumoto Y Hirochika H Horibata A Yamagata H Tanisaka T | Citation: V : 261 ( 3 ) P : 487-94 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10323229 Accession (PMID): 10323229 | Abstract: The segregation pattern and chromosomal location of a slender glume mutation , induced by gamma-ray irradiation , was investigated .
The mutation is genetically unstable : in the selfed progenies of slender glumed plants , not only plants with normal glumes but also plants that are chimeric for glume shape almost always appear at low frequency .
The results showed that the mutation is controlled by a single recessive , mutable mutant gene slg .
The frequency of reversion of slg to its wild-type state was little affected by crossing , back-crossing , genetic background or cytoplasmic factors .
Conventional trisomic and linkage analyses revealed that the slg locus was located close to the rfs ( rolled fine stripe leaf ) locus on chromosome 7 .
In a subsequent RFLP analysis , slg was found to be located between the two RFLP loci XNpb20 and XNpb33 , with recombination values of 3 . 0 and 3 . 2% , respectively .
Southern analysis indicated that the mutability of slg is caused by none of the known transposable elements in rice .
From these results , we infer that slg has a novel transposable DNA insert in its vicinity , which was possibly activated by gamma-ray irradiation . | Matching Sentences: [ Sen. 6, subscore: 2.00 ]: In a subsequent RFLP analysis , slg was found to be located between the two RFLP loci XNpb20 and XNpb33 , with recombination values of 3 . 0 and 3 . 2% , respectively .
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Score: 2.00 | Title: RAPD mapping in a doubled haploid population of rice ( Oryza sativa L ) .
| Author: Subudhi PK Huang N | Citation: V : 130 ( 1 ) P : 41-9 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10364828 Accession (PMID): 10364828 | Abstract: To examine the distribution and genome coverage of RAPDs , a total of 242 Random Amplified Polymorphic DNA ( RAPD ) markers generated by 73 random decamer primers were mapped onto 12 rice chromosomes by linkage analysis using a doubled haploid population , developed from an indica x japonica cross .
The RAPD markers were derived from both parents equally and were well distributed over the rice genome .
Furthermore , multiple RAPD markers generated from the same primer were dispersed over different chromosomes rather than clustered .
The RAPD technique provided improved marker coverage on a previously developed RFLP map .
A set of primers producing reproducible markers originating from either parent and equally spaced over all the 12 chromosomes were selected for application in marker-assisted backcross breeding .
The RAPD analysis as a realistic and practical alternative to RFLP and their usefulness in anchoring the identified BAC contigs directly to chromosomes is discussed . | Matching Sentences: [ Sen. 4, subscore: 1.00 ]: The RAPD technique provided improved marker coverage on a previously developed RFLP map . [ Sen. 6, subscore: 1.00 ]: The RAPD analysis as a realistic and practical alternative to RFLP and their usefulness in anchoring the identified BAC contigs directly to chromosomes is discussed .
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Score: 2.00 | Title: Isolation and characterization of rice MADS box gene homologues and their RFLP mapping .
| Author: Shinozuka Y Kojima S Shomura A Ichimura H Yano M Yamamoto K Sasaki T | Citation: V : 6 ( 2 ) P : 123-9 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10382970 Accession (PMID): 10382970 | Abstract: Thirty-five MADS box gene homologues were identified through a large-scale cDNA analysis in rice .
Based on the nucleotide sequences of the 3-untranslated region , these clones were classified into 11 independent species .
Seven species were found to be new among the rice MADS box gene family , and the other 4 corresponded to the previously reported OsMADS1 , OsMADS2 , OsMADS4 , and OsMADS5 .
The full nucleotide sequences of the 7 new species were determined .
Each clone encoded a deduced protein of 164-267 amino acids .
The K-domain of the MADS protein was conserved in all clones though with lower degree in clone S10304 .
Reverse transcription PCR analysis showed that clones E31254 and E31864 were expressed mainly in panicles .
Dendrogram analysis suggested that E31254 and E31864 are close to Arabidopsis AGL9 and AP1 , respectively .
Restriction fragment length polymorphism ( RFLP ) linkage mapping revealed that the rice MADS box gene homologues reported here are not clustered but are located throughout the genome .
The locus of E31864 on the RFLP map was closely linked to the long sterile lemma gene , g-1 . | Matching Sentences: [ Sen. 9, subscore: 1.00 ]: Restriction fragment length polymorphism ( RFLP ) linkage mapping revealed that the rice MADS box gene homologues reported here are not clustered but are located throughout the genome . [ Sen. 10, subscore: 1.00 ]: The locus of E31864 on the RFLP map was closely linked to the long sterile lemma gene , g-1 .
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Score: 1.00 | Title: Physical map and organization of chromosome 7 in the rice blast fungus , Magnaporthe grisea .
| Author: Zhu H Blackmon BP Sasinowski M Dean RA .
| Citation: V : 9 ( 8 ) P : 739-50 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10447509 Accession (PMID): 10447509 | Abstract: The rice blast fungus Magnaporthe grisea is a highly destructive plant pathogen and one of the most important for studying various aspects of host-plant interactions .
It has been widely adopted as a model organism because it is ideally suited for genetic and biological studies .
To facilitate map-based cloning , chromosome walking , and genome organization studies of M grisea , a complete physical map of chromosome 7 was constructed using a large-insert ( 130 kb ) bacterial artificial chromosome ( BAC ) library .
Using 147 chromosome 7-specific single-copy BAC clones and 20 RFLP markers on chromosome 7 , 625 BAC clones were identified by hybridization .
BAC clones were digested with HindIII , and fragments were size separated on analytical agarose gels to create DNA fingerprints .
Hybridization contigs were constructed using a random cost algorithm , whereas fingerprinting contigs were constructed using the software package FPC .
Results from both methods were generally in agreement , but numerous anomalies were observed .
The combined data produced five robust anchored contigs after gap closure by chromosomal walking .
The genetic and physical maps agreed closely .
The final physical map was estimated to cover >95% of the 4 . 2 Mb of chromosome 7 .
Based on the contig maps , a minimum BAC tile containing 42 BAC clones was created , and organization of repetitive elements and expressed genes of the chromosome was investigated . | Matching Sentences: [ Sen. 4, subscore: 1.00 ]: Using 147 chromosome 7-specific single-copy BAC clones and 20 RFLP markers on chromosome 7 , 625 BAC clones were identified by hybridization .
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Score: 1.00 | Title: Characterization of Astragalus sinicus rhizobia by restriction fragment length polymorphism analysis of chromosomal and nodulation genes regions .
| Author: Guo XW Zhang XX Zhang ZM Li FD .
| Citation: V : 39 ( 6 ) P : 358-0364 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10525842 Accession (PMID): 10525842 | Abstract: Two hundred and four isolates of rhizobia were sampled from root nodules of Astragalus sinicus grown in rice fields of six southern provinces of China .
Genotypic diversity was determined by Southern hybridization using nodDBC genes as a probe , restriction fragment length polymorphism ( RFLP ) analysis of PCR-amplified 16S-23S rDNA intergenic spacers ( IGS ) , and plasmid profile .
Our results show that rhizobia associated with A sinicus were very diverse , and 10 genotypes were resolved within the previously identified dominant 16S rDNA type .
Diversity levels varied greatly between different geographical locations .
The same nod gene genotypes were harbored by distinct chromosomal types , suggesting that lateral plasmid transfer occurred during the evolution process .
| Matching Sentences: [ Sen. 2, subscore: 1.00 ]: Genotypic diversity was determined by Southern hybridization using nodDBC genes as a probe , restriction fragment length polymorphism ( RFLP ) analysis of PCR-amplified 16S-23S rDNA intergenic spacers ( IGS ) , and plasmid profile .
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Score: 5.00 | Title: Phylogenetic relationships in the genus Oryza based on mitochondrial RFLPs .
| Author: Abe T Edanami T Adachi E Sasahara T | Citation: V : 74 ( 1 ) P : 23-7 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10549129 Accession (PMID): 10549129 | Abstract: Restriction fragment length polymorphism ( RFLP ) of mitochondrial DNA in the genus Oryza was surveyed using 20 accessions including 11 species and a single endonuclease , EcoRI .
RFLPs were visualized by Southern hybridization with eight rice mitochondrial DNA probes labeled non-radioactively with digoxigenin-dUTP .
A total of 66 bands were obtained from all of the accessions .
The total number of fragments per plant was higher in diploid A-genome species ( an average of 35 . 3 ) than that in diploid B and C-genome species and allotetraploid BC and CD-genome species ( an average of 28 . 2 ) .
The extent of the polymorphism in the RFLP patterns was various depending on the probes used .
A diverse polymorphism was observed with most of the probes used , ie the cob , cox I , atp6 , rrn18 , rrn26 and atp9 regions , whereas , no polymorphic band was observed with a probe for the coxII region .
The genus Oryza was separated into two large clusters .
One cluster was comprised of A-genome species and the other cluster was comprised of B- , BC- , C- , and CD genome species .
Within A-genome species , the genetic variation was relatively high .
Even in O sativa species , the RFLP patterns of japonica and indica subspecies were clearly different from each other when three probes were used .
However , there was no polymorphism between O glaberrima and O barthii .
Within the genomes of B , BC , C , and CD , RFLP patterns were similar to each other and they showed a closer affinity except for O minuta ( BBCC ) .
Within the BC genome species , the patterns of O punctata and O minuta were largely different from each other and separated into two different subclusters .
Thus , the mitochondrial genomes of the two BC species ( O punctata and O minuta ) apparently evolved independently .
Among CD genome species ( O latifolia and O alta ) , the patterns of one accession , O alta W0017 were largely different from those of the other accessions of CD genome species . | Matching Sentences: [ Sen. 1, subscore: 1.00 ]: Restriction fragment length polymorphism ( RFLP ) of mitochondrial DNA in the genus Oryza was surveyed using 20 accessions including 11 species and a single endonuclease , EcoRI . [ Sen. 2, subscore: 1.00 ]: RFLPs were visualized by Southern hybridization with eight rice mitochondrial DNA probes labeled non-radioactively with digoxigenin-dUTP . [ Sen. 5, subscore: 1.00 ]: The extent of the polymorphism in the RFLP patterns was various depending on the probes used . [ Sen. 10, subscore: 1.00 ]: Even in O sativa species , the RFLP patterns of japonica and indica subspecies were clearly different from each other when three probes were used . [ Sen. 12, subscore: 1.00 ]: Within the genomes of B , BC , C , and CD , RFLP patterns were similar to each other and they showed a closer affinity except for O minuta ( BBCC ) .
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Score: 2.00 | Title: [ Molecular mapping of the S-a locus for F1 pollen sterility in cultivated rice ( Oryza sativa L ) ] | Author: Zhuang CX Zhang GQ Mei MT Lu YG .
| Citation: V : 26 ( 3 ) P : 213-8 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10589160 Accession (PMID): 10589160 | Abstract: F1 pollen sterility in cultivated rice ( Oryza sativa L ) was found to be caused by at least six loci of F1 pollen sterility genes .
At the S-a locus , one of the six loci for F1 pollen sterility , the allelic interaction of S-ai and S-aj causes the male gametes carrying S-aj allele abortive .
To map the S-a locus , Taichung 65 ( T65 ) , a Keng ( japonica ) variety with S-aj/S-aj , its isogenic F1 sterile line TISL4 with S-ai/S-ai from Chin-tsao , a Hsien ( indica ) variety , and the F2 population from cross T65 x TISL4 were used as materials .
The polymorphism between T65 and TISL4 detected by RFLP and RAPD analysis was less than 1% .
This result indicated that short segments from Chin-tsao were introgressed into the isogenic F1 sterile line , since the TISL4 was developed by repeatedly backcrossing for thirteen times .
By linkage analysis of S-a and the marker loci , the S-a locus was mapped on chromosome 1 .
The genetic distances between S-a and RFLP markers CDO548 and RG146 are 6 . 4 cM and 7 . 2 cM respectively , and those between S-a and RAPD markers O11-1000 and Y13-500 are 6 . 8 cM and 11 . 2 cM respectively .
The mapping of the S-a locus is an important step towards marker-aided selection for overcoming the hybrid sterility in rice . | Matching Sentences: [ Sen. 4, subscore: 1.00 ]: The polymorphism between T65 and TISL4 detected by RFLP and RAPD analysis was less than 1% . [ Sen. 7, subscore: 1.00 ]: The genetic distances between S-a and RFLP markers CDO548 and RG146 are 6 . 4 cM and 7 . 2 cM respectively , and those between S-a and RAPD markers O11-1000 and Y13-500 are 6 . 8 cM and 11 . 2 cM respectively .
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Score: 2.00 | Title: [ Favorable genes and favorable genic interactions enhancing F1 fertility in indica/japonica hybrids ] | Author: Li RH Xu CG Li XH Wang XK .
| Citation: V : 26 ( 3 ) P : 228-38 Type: ARTICLE | Literature: oryza Field: abstract Doc ID: pub10589162 Accession (PMID): 10589162 | Abstract: Two test cross populations were developed by crossing a set of DH lines as male parents to two wide compatibility rice lines , photoperiod-sensitive genic male sterile ( PGMS ) line-N422S and thermosensitive-genic male sterile ( TGMS ) line-Peiai64S .
Polymorphism of the cross parents and another set of diverse indica or japonica lines ( as a control ) was assayed by using 92 RFLP markers .
41 RFLP markers were detected highly associated with indica and japonica phenotypes , which can be used as diagnostic markers to differentiate indica and japonica .
Our results indicated that 87 . 8% of the diagnostic markers were also highly associated with grain yield and its components in at least one of the test cross populations , suggesting parallel relationships between the genes involving in evolution and QTLs controlling grain yield and yield components in the process of differentiation of rice ( O sativa L ) .
Further analysis indicated that fertility was a main factor affecting the heterosis for grain yield in inter-subspecific rice hybrids .
The fertility was conditioned by both intra-locus and inter-locus gene interactions and favorable genic interactions could raise it accordingly . | Matching Sentences: [ Sen. 2, subscore: 1.00 ]: Polymorphism of the cross parents and another set of diverse indica or japonica lines ( as a control ) was assayed by using 92 RFLP markers . [ Sen. 3, subscore: 1.00 ]: 41 RFLP markers were detected highly associated with indica and japonica phenotypes , which can be used as diagnostic markers to differentiate indica and japonica .
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