| 102 matches found in 43 documents. Search time: 0.18 seconds. |
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Score: 19.00 |
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| Title: Molecular basis underlying the S5-dependent reproductive isolation and compatibility of indica/japonica rice hybrids .
| | Author: Ji Q Zhang M Lu J Wang H Lin B Liu Q Chao Q Zhang Y Liu C Gu M Xu M | | Journal: Plant Physiol Citation: V : 158 P : 1319-28 Year: 2012 Type: MEDLINE | | Literature: oryza Field: abstract Doc ID: pub22218926 Accession (PMID): 22218926 | | Abstract: The S5 locus regulates spikelet fertility of indica/japonica hybrid rice ( Oryza sativa ) .
There are three alleles at the S5 locus , including an indica allele ( S5i ) , a japonica allele ( S5j ) , and a wide-compatibility allele ( S5n ) .
This study analyzed the molecular basis for S5-dependent reproductive isolation and compatibility of indica/japonica rice hybrids .
Three S5 alleles were expressed at extremely low levels , and only in the ovary .
S5n was more similar to S5i in both RNA and protein expression profiles .
The S5 locus was not essential for embryo sac development , although deleterious interactions between S5i and S5j resulted in reduced rates of spikelet fertility .
The yeast two-hybrid system was used to test direct interactions between S5-encoded proteins .
The results indicated that the S5i and S5j-encoded eukaryotic aspartyl proteases formed both homodimers and heterodimers , whereas the S5n-encoded aspartyl protease was incapable of dimerization .
Site-directed mutagenesis revealed that a single amino acid difference between S5i and S5j-encoded aspartyl proteases ( phenylalanine/leucine at residue 273 ) was primarily responsible for embryo sac abortion .
The S5 locus may have promoted the subspeciation of indica and japonica , but it also enables gene flow between them .
| Matching Sentences:
[ Sen. 2, subscore: 4.00 ]: There are three alleles at the S5 locus , including an indica allele ( S5i ) , a japonica allele ( S5j ) , and a wide-compatibility allele ( S5n ) .
[ Sen. 6, subscore: 3.00 ]: The S5 locus was not essential for embryo sac development , although deleterious interactions between S5i and S5j resulted in reduced rates of spikelet fertility .
[ Sen. 8, subscore: 3.00 ]: The results indicated that the S5i and S5j-encoded eukaryotic aspartyl proteases formed both homodimers and heterodimers , whereas the S5n-encoded aspartyl protease was incapable of dimerization .
[ Sen. 5, subscore: 2.00 ]: S5n was more similar to S5i in both RNA and protein expression profiles .
[ Sen. 9, subscore: 2.00 ]: Site-directed mutagenesis revealed that a single amino acid difference between S5i and S5j-encoded aspartyl proteases ( phenylalanine/leucine at residue 273 ) was primarily responsible for embryo sac abortion .
[ Sen. 1, subscore: 1.00 ]: The S5 locus regulates spikelet fertility of indica/japonica hybrid rice ( Oryza sativa ) .
[ Sen. 3, subscore: 1.00 ]: This study analyzed the molecular basis for S5-dependent reproductive isolation and compatibility of indica/japonica rice hybrids .
[ Sen. 4, subscore: 1.00 ]: Three S5 alleles were expressed at extremely low levels , and only in the ovary .
[ Sen. 7, subscore: 1.00 ]: The yeast two-hybrid system was used to test direct interactions between S5-encoded proteins .
[ Sen. 10, subscore: 1.00 ]: The S5 locus may have promoted the subspeciation of indica and japonica , but it also enables gene flow between them .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 11.00 |
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| Title: Two sequence alterations , a 136 bp InDel and an A/C polymorphic site , in the S5 locus are associated with spikelet fertility of indica-japonica hybrid in rice .
| | Author: Ji Q Lu J Chao Q Zhang Y Zhang M Gu M Xu M | | Journal: J Genet Genomics Citation: V : 37 P : 57-68 Year: 2010 Type: MEDLINE | | Literature: oryza Field: abstract Doc ID: pub20171578 Accession (PMID): 20171578 | | Abstract: The rice indica/japonica hybrid shows strong heterosis .
However , such inter-subspecific hybrid cant be directly used in rice production due to its low spikelet fertility .
The S5 locus was proved to be associated with fertility of indica/japonica hybrid and its S5n allele from wide-compatibility variety ( WCV ) is capable to overcome fertility barrier .
In the present study , we reported the causal sites in the S5 locus responsible for compatibility of indica/japonica hybrid .
Fine-mapping of the S5 locus using the 11 test-cross families pinpoints a candidate S5 locus encoding aspartic protease ( Asp ) .
Intragenic recombination within the Asp gene happened in a number of recombinants , resulting in chimeric S5j-S5n alleles .
Just like S5n , the chimeric S5j-S5n allele displayed higher spikelet fertility when combined with the S5i allele .
In the complementary test , however , the S5n allele from WCVs failed to enhance fertilities of the indica/japonica hybrids .
Compared to both indica and japonica varieties , all nine WCVs from different resources are characterized with a 136 bp deletion in the Asp N-terminus , which probably renders the S5n allele non-functional Furthermore , an A/C polymorphic site is detected 1 , 233 bp downstream of the Asp start codon .
The heterozygous A/C site of the Asp gene in indica/japonica hybrid is believed to be the casual factor to cause partial sterility .
The functional makers based on the two polymorphic sites will be broadly used in developing wide-compatibility rice varieties .
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[ Sen. 7, subscore: 3.00 ]: Just like S5n , the chimeric S5j-S5n allele displayed higher spikelet fertility when combined with the S5i allele .
[ Sen. 3, subscore: 2.00 ]: The S5 locus was proved to be associated with fertility of indica/japonica hybrid and its S5n allele from wide-compatibility variety ( WCV ) is capable to overcome fertility barrier .
[ Sen. 5, subscore: 2.00 ]: Fine-mapping of the S5 locus using the 11 test-cross families pinpoints a candidate S5 locus encoding aspartic protease ( Asp ) .
[ Sen. 4, subscore: 1.00 ]: In the present study , we reported the causal sites in the S5 locus responsible for compatibility of indica/japonica hybrid .
[ Sen. 6, subscore: 1.00 ]: Intragenic recombination within the Asp gene happened in a number of recombinants , resulting in chimeric S5j-S5n alleles .
[ Sen. 8, subscore: 1.00 ]: In the complementary test , however , the S5n allele from WCVs failed to enhance fertilities of the indica/japonica hybrids .
[ Sen. 9, subscore: 1.00 ]: Compared to both indica and japonica varieties , all nine WCVs from different resources are characterized with a 136 bp deletion in the Asp N-terminus , which probably renders the S5n allele non-functional Furthermore , an A/C polymorphic site is detected 1 , 233 bp downstream of the Asp start codon .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 8.00 |
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| Title: Delimiting a rice wide-compatibility gene S5n to a 50 kb region .
| | Author: Ji Q Lu J Chao Q Gu M Xu M | | Journal: Theor . Appl . Genet . Citation: V : 111 ( 8 ) P : 1495-503 Year: 2005 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub16133303 Accession (PMID): 16133303 | | Abstract: Wide-compatibility ( WC ) is one of the most important traits in rice , which can overcome the fertility barrier in the indica/japonica hybrids , and hence to make it possible to utilize the higher yield potential of inter-subspecific hybrids .
The S5n gene located on chromosome 6 has been previously reported to be responsible for the wide-compatibility in rice .
Here we report the precise location of the S5n gene .
In the first-pass mapping , the S5n gene was restricted within a 200 kb region by using a population of 242 isogenic lines in combination with high-density markers developed in the S5 region .
In the fine mapping , the S5 region was further saturated with newly developed markers and more isogenic lines ( 549 in total ) were investigated .
Eventually , the S5n gene was mapped within a 50 kb region delimited by the left marker J13 and the right marker J17 .
One BAC clone screened from the BAC library of the WC rice variety 02428 covered the whole S5 region .
Sequence analysis of the 50 kb region revealed two candidate genes , coding an aspartyl protease and a hypothetical protein .
This result would greatly accelerate both cloning and marker-assisted selection of this important S5n gene . | Matching Sentences:
[ Sen. 4, subscore: 2.00 ]: In the first-pass mapping , the S5n gene was restricted within a 200 kb region by using a population of 242 isogenic lines in combination with high-density markers developed in the S5 region .
[ Sen. 2, subscore: 1.00 ]: The S5n gene located on chromosome 6 has been previously reported to be responsible for the wide-compatibility in rice .
[ Sen. 3, subscore: 1.00 ]: Here we report the precise location of the S5n gene .
[ Sen. 5, subscore: 1.00 ]: In the fine mapping , the S5 region was further saturated with newly developed markers and more isogenic lines ( 549 in total ) were investigated .
[ Sen. 6, subscore: 1.00 ]: Eventually , the S5n gene was mapped within a 50 kb region delimited by the left marker J13 and the right marker J17 .
[ Sen. 7, subscore: 1.00 ]: One BAC clone screened from the BAC library of the WC rice variety 02428 covered the whole S5 region .
[ Sen. 9, subscore: 1.00 ]: This result would greatly accelerate both cloning and marker-assisted selection of this important S5n gene .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 8.00 |
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| Title: A triallelic system of S5 is a major regulator of the reproductive barrier and compatibility of indica-japonica hybrids in rice .
| | Author: Chen J Ding J Ouyang Y Du H Yang J Cheng K Zhao J Qiu S Zhang X Yao J Liu K Wang L Xu C Li X Xue Y Xia M Ji Q Lu J Xu M Zhang Q | | Journal: Proc Natl Acad Sci U S A Citation: V : P : Year: 2008 Type: Publisher | | Literature: oryza Field: abstract Doc ID: pub18678896 Accession (PMID): 18678896 | | Abstract: Hybrid sterility is a major form of postzygotic reproductive isolation .
Although reproductive isolation has been a key issue in evolutionary biology for many decades in a wide range of organisms , only very recently a few genes for reproductive isolation were identified .
The Asian cultivated rice ( Oryza sativa L ) is divided into two subspecies , indica and japonica .
Hybrids between indica and japonica varieties are usually highly sterile .
A special group of rice germplasm , referred to as wide-compatibility varieties , is able to produce highly fertile hybrids when crossed to both indica and japonica .
In this study , we cloned S5 , a major locus for indica-japonica hybrid sterility and wide compatibility , using a map-based cloning approach .
We show that S5 encodes an aspartic protease conditioning embryo-sac fertility .
The indica ( S5-i ) and japonica ( S5-j ) alleles differ by two nucleotides .
The wide compatibility gene ( S5-n ) has a large deletion in the N terminus of the predicted S5 protein , causing subcellular mislocalization of the protein , and thus is presumably nonfunctional This triallelic system has a profound implication in the evolution and artificial breeding of cultivated rice .
Genetic differentiation between indica and japonica would have been enforced because of the reproductive barrier caused by S5-i and S5-j , and species coherence would have been maintained by gene flow enabled by the wide compatibility gene .
| Matching Sentences:
[ Sen. 8, subscore: 2.00 ]: The indica ( S5-i ) and japonica ( S5-j ) alleles differ by two nucleotides .
[ Sen. 9, subscore: 2.00 ]: The wide compatibility gene ( S5-n ) has a large deletion in the N terminus of the predicted S5 protein , causing subcellular mislocalization of the protein , and thus is presumably nonfunctional This triallelic system has a profound implication in the evolution and artificial breeding of cultivated rice .
[ Sen. 10, subscore: 2.00 ]: Genetic differentiation between indica and japonica would have been enforced because of the reproductive barrier caused by S5-i and S5-j , and species coherence would have been maintained by gene flow enabled by the wide compatibility gene .
[ Sen. 6, subscore: 1.00 ]: In this study , we cloned S5 , a major locus for indica-japonica hybrid sterility and wide compatibility , using a map-based cloning approach .
[ Sen. 7, subscore: 1.00 ]: We show that S5 encodes an aspartic protease conditioning embryo-sac fertility .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 8.00 |
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| Title: Sequence analysis of rice dwarf phytoreovirus genome segments S4 , S5 , and S6 : comparison with the equivalent wound tumor virus segments .
| | Author: Suzuki N Watanabe Y Kusano T Kitagawa Y | | Journal: Virology Citation: V : 179 ( 1 ) P : 446-54 Year: 1990 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub2219732 Accession (PMID): 2219732 | | Abstract: The complete nucleotide sequences of genome segments S4 , S5 , and S6 of rice dwarf phytoreovirus ( RDV ) were determined .
S4 and S5 consist of 2468 and 2570 base pairs , respectively , S5 thus being larger in size than S4 , contrary to the situation suggested by their relative migration in a polyacrylamide gel .
S6 is 1699 nucleotides long .
The individual segments have segment-specific inverted repeats adjacent to the conserved terminal sequences ( 5GGUAAA---UGAU3 for S4 , 5GGCAAA---UGAU3 for S5 and S6 ) .
S4 , S5 , and S6 each have single long open reading frames encoding 727 , 801 , and 509 amino acids , respectively .
A low level of amino acid sequence homology was observed between RDV S4 and wound tumor virus ( WTV ) S4 ( 22 . 4% ) , and between RDV S6 and WTV S6 ( 20 . 2% ) .
On the other hand , RDV S5 and WTV S5 show 52 . 0% amino acid sequence similarity , indicating that S5 is much more conserved than any other segments of RDV and WTV reported so far .
Further comparative analyses indicate that the RDV segment shows a greater frequency of usage of codons XYG and XYC , and much less frequent usage of codon XYA than the equivalent WTV segment , this codon preference bias being more conspicuous than expected from the base contents .
| Matching Sentences:
[ Sen. 7, subscore: 3.00 ]: On the other hand , RDV S5 and WTV S5 show 52 . 0% amino acid sequence similarity , indicating that S5 is much more conserved than any other segments of RDV and WTV reported so far .
[ Sen. 2, subscore: 2.00 ]: S4 and S5 consist of 2468 and 2570 base pairs , respectively , S5 thus being larger in size than S4 , contrary to the situation suggested by their relative migration in a polyacrylamide gel .
[ Sen. 1, subscore: 1.00 ]: The complete nucleotide sequences of genome segments S4 , S5 , and S6 of rice dwarf phytoreovirus ( RDV ) were determined .
[ Sen. 4, subscore: 1.00 ]: The individual segments have segment-specific inverted repeats adjacent to the conserved terminal sequences ( 5GGUAAA---UGAU3 for S4 , 5GGCAAA---UGAU3 for S5 and S6 ) .
[ Sen. 5, subscore: 1.00 ]: S4 , S5 , and S6 each have single long open reading frames encoding 727 , 801 , and 509 amino acids , respectively .
| | Supplemental links/files: reference in endnote online text related articles pubmed citation | |
