| 73 matches found in 35 documents. Search time: 0.002 seconds. |
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| Title: [ Self-aggregation of the structural protein encoded by rice ragged stunt Oryzavirus genome segment 8 ] | | Author: L HJ Shao CG Gong ZX .
| | Journal: Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao Citation: V : 34 ( 5 ) P : 565-70 Year: 2002 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub12198557 Accession (PMID): 12198557 | | Abstract: Rice ragged stunt oryzavirus ( RRSV ) is a member of the genus oryzavirus within the family Reoviridae .
Its genome consists of ten segments of dsRNA .
The functions of all products encoded by these viral genome segments , except one encoded by S9 , have not yet been elucidated .
In the present study , the ORF of S 8 of RRSV-Philippines isolate was sequenced and expressed in E coli .
The 67 kD product of S8 could be self-cleaved into two fragments with molecular weights of 43 kD and 26 kD .
Western blotting indicated that both 67 kD and 43 kD products were major structural proteins of the virus .
It was also found that the 67 kD protein could self aggregate into aggregates with higher sedimentation rate in sucrose gradients during centrifugation .
Moreover , the self-aggregation process could be accelerated by the complex of S6 product and genome dsRNAs of RRSV .
These results suggest that the S8 products , 67 kD or 43 kD , may be the structural components of the viral inner-capsid . | Matching Sentences:
[ Sen. 5, subscore: 1.00 ]: The 67 kD product of S8 could be self-cleaved into two fragments with molecular weights of 43 kD and 26 kD .
[ Sen. 9, subscore: 1.00 ]: These results suggest that the S8 products , 67 kD or 43 kD , may be the structural components of the viral inner-capsid .
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Score: 4.00 |
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| Title: Sequence analysis of genome segments S4 and S8 of Mal de R Cuarto virus ( MRCV ) : evidence that the virus should be a separate Fijivirus species .
| | Author: Distfano AJ Conci LR Muoz Hidalgo M Guzmn FA Hopp HE del Vas M | | Journal: Arch . Virol . Citation: V : 147 ( 9 ) P : 1699-709 Year: 2002 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub12209310 Accession (PMID): 12209310 | | Abstract: This is the first sequence-based characterization of Mal de R Cuarto virus ( MRCV ) , currently classified as a variant of Maize rough dwarf virus ( MRDV ) and exclusively found in South America .
We sequenced and analyzed genome segments S4 and S8 .
MRCV S4 coded for a putative 131 . 67 kDa protein while MRCV S8 coded for a putative 68 . 26 kDa protein containing an ATP/GTP-binding motif .
The 5 and 3 ends of MRCV segments , were 5AAGUUUUU3 and 5CAGCUnnnGUC3 , respectively .
Prediction of secondary structure of both segments coding strands showed that terminal regions were able to form structures that are proposed to be replication and packaging signals .
MRCV S4 showed identity to members of Fijivirus as well as to two other genera of the Reoviridae family .
MRCV S8 revealed identity with Rice black streaked dwarf virus ( RBSDV ) S8 , MRDV S7 , Oat sterile dwarf virus ( OSDV ) S9 and Nilaparvata lugens reovirus ( NLRV ) S7 .
While MRDV and RBSDV segments are highly homologous between each other , MRCV identity levels with them was considerably lower .
We discussed the evolutionary relationships of MRCV to other Reoviridae , and based on phylogenetic analysis we proposed that although MRCV is related to MRDV , it could be regarded as a new species of the Fijivirus genus .
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[ Sen. 7, subscore: 2.00 ]: MRCV S8 revealed identity with Rice black streaked dwarf virus ( RBSDV ) S8 , MRDV S7 , Oat sterile dwarf virus ( OSDV ) S9 and Nilaparvata lugens reovirus ( NLRV ) S7 .
[ Sen. 2, subscore: 1.00 ]: We sequenced and analyzed genome segments S4 and S8 .
[ Sen. 3, subscore: 1.00 ]: MRCV S4 coded for a putative 131 . 67 kDa protein while MRCV S8 coded for a putative 68 . 26 kDa protein containing an ATP/GTP-binding motif .
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Score: 1.00 |
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| Title: [ cDNA cloning and sequence analysis of the seventh segment of maize rough dwarf virus genome ] | | Author: Deng W Yang X Zhang Y Liu Y Kang L | | Journal: Wei Sheng Wu Xue Bao Citation: V : 40 ( 5 ) P : 488-94 Year: 2000 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub12548759 Accession (PMID): 12548759 | | Abstract: The double strand RNA of maize rough dwarf virus ( MRDV ) was prepared from the maize samples showing symptoms which was from the Luanchen county of Heibei province of China .
The primers were designed according to the known sequence of MRDV , the cDNA sequence of the seventh segment of MRDV was obtained by RT-PCR , the S7 sequence was analyzed by computer after sequencing .
The results showed : the full length of the S7 cDNA is 1936 bp and equal to that of the S7 cDNA from abroad , the two open reading frame ( ORF1 and ORF2 ) contained in the S7 segment are also unchanged .
In comparison with the S7 segment from Italy , the homology of S7 nucleotide is 87 . 7% and the homology of ORF1 amino acid sequence is 91 . 6% .
However , the MRDV S7 segment and the rice black strike dwarf virus S8 segment showed 95 . 5% nucleotide identities and 93 . 5% ORF1 amino acid identities .
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[ Sen. 5, subscore: 1.00 ]: However , the MRDV S7 segment and the rice black strike dwarf virus S8 segment showed 95 . 5% nucleotide identities and 93 . 5% ORF1 amino acid identities .
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Score: 2.00 |
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| Title: [ Expression of rice dwarf virus outer coat protein gene ( S8 ) in insect cells ] | | Author: Li S Liu H Chen Z Li Y | | Journal: Wei Sheng Wu Xue Bao Citation: V : 41 ( 2 ) P : 162-6 Year: 2001 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub12549020 Accession (PMID): 12549020 | | Abstract: Outer coat protein gene ( S8 ) of RDV was cloned into the transfer vector pVL 1393 to construct a recombinant vector pVL1393-S8 .
The recombinant vector pVL1393-S8 and the linear baculovirus RP23 .
LacZ were cotransfected into sf9 cells to produce the recombinant virus RP23-S8 .
RP23-S8 infected sf9 cells were collected and analysed by SDS-PAGE and Western-blot .
The results showed that the S8 gene of RDV was expressed in sf9 cells and the expression level of sf9 cells was higher between 72-96 h after infected . | Matching Sentences:
[ Sen. 1, subscore: 1.00 ]: Outer coat protein gene ( S8 ) of RDV was cloned into the transfer vector pVL 1393 to construct a recombinant vector pVL1393-S8 .
[ Sen. 5, subscore: 1.00 ]: The results showed that the S8 gene of RDV was expressed in sf9 cells and the expression level of sf9 cells was higher between 72-96 h after infected .
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Score: 3.00 |
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| Title: The S8 serine , C1A cysteine and A1 aspartic protease families in Arabidopsis .
| | Author: Beers EP Jones AM Dickerman AW .
| | Journal: Phytochemistry Citation: V : 65 ( 1 ) P : 43-58 Year: 2004 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub14697270 Accession (PMID): 14697270 | | Abstract: The Arabidopsis thaliana genome has over 550 protease sequences representing all five catalytic types : serine , cysteine , aspartic acid , metallo and threonine ( MEROPS peptidase database , http : //merops . sanger . ac . uk/ ) , which probably reflect a wide variety of as yet unidentified functions performed by plant proteases .
Recent indications that the 26S proteasome , a T1 family-threonine protease , is a regulator of light and hormone responsive signal transduction highlight the potential of proteases to participate in many aspects of plant growth and development .
Recent discoveries that proteases are required for stomatal distribution , embryo development and disease resistance point to wider roles for four additional multigene families that include some of the most frequently studied ( yet poorly understood ) plant proteases : the subtilisin-like , serine proteases ( family S8 ) , the papain-like , cysteine proteases ( family C1A ) , the pepsin-like , aspartic proteases ( family A1 ) and the plant matrixin , metalloproteases ( family M10A ) .
In this report , 54 subtilisin-like , 30 papain-like and 59 pepsin-like proteases from Arabidopsis , are compared with S8 , C1A and A1 proteases known from other plant species at the functional , phylogenetic and gene structure levels .
Examples of structural conservation between S8 , C1A and A1 genes from rice , barley , tomato and soybean and those from Arabidopsis are noted , indicating that some common , essential plant protease roles were established before the divergence of monocots and eudicots .
Numerous examples of tandem duplications of protease genes and evidence for a variety of restricted expression patterns suggest that a high degree of specialization exists among proteases within each family .
We propose that comprehensive analysis of the functions of these genes in Arabidopsis will firmly establish serine , cysteine and aspartic proteases as regulators and effectors of a wide range of plant processes .
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[ Sen. 3, subscore: 1.00 ]: Recent discoveries that proteases are required for stomatal distribution , embryo development and disease resistance point to wider roles for four additional multigene families that include some of the most frequently studied ( yet poorly understood ) plant proteases : the subtilisin-like , serine proteases ( family S8 ) , the papain-like , cysteine proteases ( family C1A ) , the pepsin-like , aspartic proteases ( family A1 ) and the plant matrixin , metalloproteases ( family M10A ) .
[ Sen. 4, subscore: 1.00 ]: In this report , 54 subtilisin-like , 30 papain-like and 59 pepsin-like proteases from Arabidopsis , are compared with S8 , C1A and A1 proteases known from other plant species at the functional , phylogenetic and gene structure levels .
[ Sen. 5, subscore: 1.00 ]: Examples of structural conservation between S8 , C1A and A1 genes from rice , barley , tomato and soybean and those from Arabidopsis are noted , indicating that some common , essential plant protease roles were established before the divergence of monocots and eudicots .
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Score: 4.00 |
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| Title: Molecular analysis of Fiji disease virus genome segments 5 , 6 , 8 and 10 .
| | Author: McQualter RB Burns P Smith GR Dale JL Harding RM .
| | Journal: Arch . Virol . Citation: V : 149 ( 4 ) P : 713-21 Year: 2004 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub15045559 Accession (PMID): 15045559 | | Abstract: The complete sequences of Fiji disease virus ( FDV ) genome segments 5 ( S5 ) , S6 , S8 and S10 were obtained and comprised 3150 nt , 2831 nt , 1959 nt and 1819 nt , respectively .
Each segment contained a single ORF which encoded putative proteins of 115 kDa , 97 kDa , 69 kDa and 63 . 0 kDa , respectively .
The putative amino acid sequences encoded by S5 and S6 contained putative leucine zipper motifs while FDV S5 and S8 each contained an ATP-GTP-binding motif .
At the amino acid level , FDV S5 , S6 , S8 and S10 showed most similarity to the corresponding segments of Rice black-streaked dwarf virus .
Based on sequence similarities , it is predicted that FDV S8 encodes a minor core protein , while FDV S10 encodes an outer capsid protein .
The evolutionary relationships of FDV to other reoviruses are discussed .
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[ Sen. 1, subscore: 1.00 ]: The complete sequences of Fiji disease virus ( FDV ) genome segments 5 ( S5 ) , S6 , S8 and S10 were obtained and comprised 3150 nt , 2831 nt , 1959 nt and 1819 nt , respectively .
[ Sen. 3, subscore: 1.00 ]: The putative amino acid sequences encoded by S5 and S6 contained putative leucine zipper motifs while FDV S5 and S8 each contained an ATP-GTP-binding motif .
[ Sen. 4, subscore: 1.00 ]: At the amino acid level , FDV S5 , S6 , S8 and S10 showed most similarity to the corresponding segments of Rice black-streaked dwarf virus .
[ Sen. 5, subscore: 1.00 ]: Based on sequence similarities , it is predicted that FDV S8 encodes a minor core protein , while FDV S10 encodes an outer capsid protein .
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Score: 1.00 |
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| Title: Pns4 of rice dwarf virus is a phosphoprotein , is localized around the viroplasm matrix , and forms minitubules .
| | Author: Wei T Kikuchi A Suzuki N Shimizu T Hagiwara K Chen H Omura T | | Journal: Arch . Virol . Citation: V : 151 ( 9 ) P : 1701-12 Year: 2006 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub16609816 Accession (PMID): 16609816 | | Abstract: Rice dwarf virus ( RDV ) , a member of the family Reoviridae , has a 12-segmented dsRNA genome .
Seven segments , designated S1 , S2 , S3 , S5 , S7 , S8 , and S9 , encode structural proteins , while the remainder encode nonstructural proteins .
One of the nonstructural proteins , Pns4 , which is encoded by S4 , was characterized .
Pns4 was a phosphorylatable substrate in a phosphorylation assay in vivo ; it associated with large cytoplasmic fibrils and formed novel minitubules in infected cultured cells of its leafhopper insect vector , as revealed by immunofluorescence and immunoelectron microscopy .
Early in infection , Pns4 was detected at the periphery of the viroplasm , and it was then observed on amorphous or fibrillar inclusions , which were identified as bundles of minitubules , at later stages of infection .
Since viroplasms are believed to be the site of RDV replication , the intracellular location of Pns4 suggests that this protein might be involved in the process of assembly of the RDV virion .
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[ Sen. 2, subscore: 1.00 ]: Seven segments , designated S1 , S2 , S3 , S5 , S7 , S8 , and S9 , encode structural proteins , while the remainder encode nonstructural proteins .
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Score: 1.00 |
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| Title: Identification of simple sequence repeat markers for utilizing wide-compatibility genes in inter-subspecific hybrids in rice ( Oryza sativa L ) .
| | Author: Singh SP Sundaram RM Biradar SK Ahmed MI Viraktamath BC Siddiq EA .
| | Journal: Theor . Appl . Genet . Citation: V : 113 ( 3 ) P : 509-17 Year: 2006 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub16788798 Accession (PMID): 16788798 | | Abstract: Although pronounced heterosis in inter-subspecific hybrids was known in rice for a long time , its utilization for hybrid rice breeding has been limited due to their hybrid sterility ( HS ) .
For the last two decades , however , a few inter-subspecific hybrids have been developed by incorporating wide-compatibility genes ( WCG ) that resolve HS , into parental lines of these inter-subspecific hybrids .
For effective use of WCG , it is necessary to find convenient markers linked to WCG of practical importance .
In this paper , initially a set of simple sequence repeat ( SSR ) markers in the vicinity of known WCG loci identified based on comparative linkage maps have been surveyed in a population derived from the three-way cross IR36/Dular//Akihikari , where a known donor of WCG Dular was crossed to a representative indica and japonica cultivar .
Of the five parental polymorphic markers , RM253 and RM276 were found to be closely linked to the WCG locus S5 at a distance of 3 . 0 and 2 . 8 cM , respectively .
Later , loci for HS were examined in three F ( 2 ) populations derived from inter-subspecific crosses , with same set of SSR markers .
The locus S8 was confirmed to have major influence on HS in the F ( 2 ) population derived from CHMRF-1/Taichung65 since two SSR markers in its vicinity , RM412 and RM141 , co-segregated with HS at a map distance of 7 . 6 and 4 . 8 cM , respectively .
In the F ( 2 ) population derived from the cross BPT5204/Taipei309 , three SSR markers in the vicinity of S5 , RM50 , RM276 and RM136 co-segregated with HS at a map distance of 4 . 2 , 3 . 2 and 7 . 8 cM , respectively .
In the third F ( 2 ) population derived from Swarna/Taipei309 , the SSR markers in the vicinity of S5 , RM225 , RM253 , RM50 , RM276 and RM136 were identified to co-segregate with HS at a map distance of 3 . 2 , 2 . 6 , 3 . 4 , 2 . 6 and 6 . 6 cM , respectively .
These results indicated a clear picture of WCG in Dular as well as the predominant role of HS alleles at S5 locus .
The identified SSR markers are expected to be used for incorporation of WCG into parental lines in hybrid rice breeding to solve HS in inter-subspecific hybrids . | Matching Sentences:
[ Sen. 7, subscore: 1.00 ]: The locus S8 was confirmed to have major influence on HS in the F ( 2 ) population derived from CHMRF-1/Taichung65 since two SSR markers in its vicinity , RM412 and RM141 , co-segregated with HS at a map distance of 7 . 6 and 4 . 8 cM , respectively .
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Score: 1.00 |
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| Title: [ Stability of hpt marker gene in transgenic rice in different food matrices and under varying food-processing conditions ] | | Author: Shen LM Wu YN Zhang JZ Zhou PP .
| | Journal: Citation: V : 35 ( 4 ) P : 431-4 Year: 2006 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub16986517 Accession (PMID): 16986517 | | Abstract: OBJECTIVE : To estimate the likelihood of horizontal gene transfer from transgenic rice to bacteria of the food chain and human gut , the stability of s86 transgenic rice hpt gene in different food matrices and under varying food-processing conditions was studied .
METHODS : Degradation of DNA was monitored by fragment -multiplex polymerase chain reaction .
Integrity of hpt gene in various food samples was tested .
RESULTS : A PCR system for the hpt gene of genetically modified rice has been established to detect fragments ranging between 236bp and 910bp .
Detection of hpt and rbcl gene fragments was carried out in various food-processed samples by this PCR system .
The data showed that the fragments up to 500 bp were detected in rice and congee , while the fragment length more than 236bp was not detected in crispy rice and popcorn-like rice .
CONCLUSION : These results suggested that there are significant differences in DNA degradation by different food-processing methods .
The likelihood of the large hpt gene fragments transfer from transgenic rice processed food to bacteria is reduced by food process .
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[ Sen. 1, subscore: 1.00 ]: OBJECTIVE : To estimate the likelihood of horizontal gene transfer from transgenic rice to bacteria of the food chain and human gut , the stability of s86 transgenic rice hpt gene in different food matrices and under varying food-processing conditions was studied .
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Score: 2.00 |
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| Title: Molecular analysis of six segments of Tobacco leaf enation virus , a novel phytoreovirus from tobacco | | Author: Picton A Potgieter C Rey ME .
| | Journal: Citation: V : ( ) P : Year: 2007 Type: ARTICLE | | Literature: oryza Field: abstract Doc ID: pub17356907 Accession (PMID): 17356907 | | Abstract: Tobacco leaf enation virus ( TLEV ) is a putative member of the genus Phytoreovirus within the family Reoviridae .
Previous western blot analysis of structural viral proteins ( apparent molecular weights of 93 kDa ; 58 kDa ; 48 kDa ; 39 kDa and 36 kDa ) associated with TLEV , isolated from infected tobacco in South Africa , suggested that these proteins may correspond to structural Wound tumor virus ( WTV ) proteins .
To further establish the nature of this novel virus disease phenotype in tobacco , molecular characterization of six dsRNA components was undertaken .
Full-length cDNA clones were obtained by an optimized modified single-primer amplification sequence-independent dsRNA cloning method .
Results of this study revealed the conserved terminal sequence : 5GG ( U/C ) . . . UGAU 3 of segments S6-S12 , while adjacent to these conserved terminal sequences are imperfect inverted repeats ( 7-15 bp in length ) , both features being common to reoviruses .
The complete nucleotide sequences of segments S5 ( 2 , 610 bp ) , S7 ( 1 , 740 bp ) , S8 ( 1 , 439 bp ) , S10 ( 1 , 252 bp ) , S11 ( 1 , 187 bp ) and S12 ( 836 bp ) were determined .
Comparison of full-length nucleotide sequences with corresponding segments of other phytoreoviruses , Rice gall dwarf virus ( RGDV ) , Rice dwarf virus ( RDV ) and WTV has shown nucleotide and predicted amino acid identities within the range of 30-60% .
TLEV consistently shows a higher identity to WTV than to other phytoreovirus species where sequence data is available .
Each segment had a single predicted open reading frame encoding proteins with calculated molecular weights of S5 ( 90 . 6 kDa ) ; S7 ( 58 . 1 kDa ) ; S8 ( 47 . 7 kDa ) ; S10 ( 39 . 8 kDa ) ; S11 ( 35 kDa ) and S12 ( 19 . 5 kDa ) .
The relatively low nucleotide and amino acid identity to other members of the genus demonstrates that TLEV is a novel phytoreovirus , distinct from the only other reported dicotyledenous-infecting WTV and is the first phytoreovirus reported to emerge in Africa .
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[ Sen. 6, subscore: 1.00 ]: The complete nucleotide sequences of segments S5 ( 2 , 610 bp ) , S7 ( 1 , 740 bp ) , S8 ( 1 , 439 bp ) , S10 ( 1 , 252 bp ) , S11 ( 1 , 187 bp ) and S12 ( 836 bp ) were determined .
[ Sen. 9, subscore: 1.00 ]: Each segment had a single predicted open reading frame encoding proteins with calculated molecular weights of S5 ( 90 . 6 kDa ) ; S7 ( 58 . 1 kDa ) ; S8 ( 47 . 7 kDa ) ; S10 ( 39 . 8 kDa ) ; S11 ( 35 kDa ) and S12 ( 19 . 5 kDa ) .
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