Score: 4.00 | 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 .
| Matching Sentences: [ Sen. 7, subscore: 2.00 ]: 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 . 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 . [ Sen. 2, subscore: 1.00 ]: 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 . [ Sen. 3, subscore: 1.00 ]: 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 .
| Supplemental links/files: reference in endnote online text related articles pubmed citation | |
Score: 3.00 | 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 .
| Matching Sentences: [ Sen. 3, subscore: 1.00 ]: 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 . [ Sen. 4, subscore: 1.00 ]: 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 . [ Sen. 5, subscore: 1.00 ]: 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 .
| Supplemental links/files: reference in endnote online text related articles pubmed citation | |