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Registro Completo |
Biblioteca(s): |
Embrapa Mandioca e Fruticultura. |
Data corrente: |
08/02/2024 |
Data da última atualização: |
08/02/2024 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
Autoria: |
ZHANG, S.; YANG, C.; QIU, Y.; LIAO, R.; XUAN, Z.; REN, F.; DONG, Y.; WU, D.; GONZÁLEZ, P. L. R. G.; ASTUA, J. de F.; YANG, H.; ZHOU, C.; CAO, M. |
Afiliação: |
SONG ZHANG, SOUTHWEST UNIVERSITY; CAIXIA YANG, SHENYANG UNIVERSITY; YUANJIAN QIU, SOUTHWEST UNIVERSITY; RUILING LIAO, SOUTHWEST UNIVERSITY; ZHIYOU XUAN, SOUTHWEST UNIVERSITY; FANG REN, RESEARCH INSTITUTE OF POMOLOGY; YAFENG DONG, RESEARCH INSTITUTE OF POMOLOGY; DI WU, SOUTHWEST UNIVERSITY; PEDRO LUIS RAMOS-GONZÁLEZ, INSTITUTO BIOLÓGICO; JULIANA DE FREITAS ASTUA, CNPMF; HUADONG YANG, HUNAN AGRICULTURAL UNIVERSITY; CHANGYONG ZHOU, SOUTHWEST UNIVERSITY; MENGJI CAO, SOUTHWEST UNIVERSITY. |
Título: |
Conserved untranslated regions of multipartite viruses: Natural markers of novel viral genomic components and tags of viral evolution. |
Ano de publicação: |
2024 |
Fonte/Imprenta: |
Virus Evolution, v. 10, n. 1, p. 1-19, 2024. |
DOI: |
https://doi.org/10.1093/ve/veae004 |
Idioma: |
Inglês |
Conteúdo: |
Abstract: Viruses with split genomes are classified as being either segmented or multipartite based on whether their genomic segments occur within a single virion or across different virions. Despite variations in number and sequence during evolution, the genomic segments of many viruses are conserved within the untranslated regions (UTRs). In this study, we present a methodology that combines RNA sequencing with iterative BLASTn of UTRs (https://github.com/qq371260/Iterative-blast-v.1.0) to identify new viral genomic segments. Some novel multipartite-like viruses related to the phylum Kitrinoviricota were annotated using sequencing data from field plant samples and public databases. We identified potentially plant-infecting jingmen-related viruses (order Amarillovirales) and jivi-related viruses (order Martellivirales) with at least six genomic components. The number of RNA molecules associated with a genome of the novel viruses in the families Closteroviridae, Kitaviridae, and Virgaviridae within the order Martellivirales reached five. Several of these viruses seem to represent new taxa at the subgenus, genus, and family levels. The diversity of novel genomic components and the multiple duplication of proteins or protein domains within single or multiple genomic components emphasize the evolutionary roles of genetic recombination (horizontal gene transfer), reassortment, and deletion. The relatively conserved UTRs at the genome level might explain the relationships between monopartite and multipartite viruses, as well as how subviral agents such as defective RNAs and satellite viruses can coexist with their helper viruses. MenosAbstract: Viruses with split genomes are classified as being either segmented or multipartite based on whether their genomic segments occur within a single virion or across different virions. Despite variations in number and sequence during evolution, the genomic segments of many viruses are conserved within the untranslated regions (UTRs). In this study, we present a methodology that combines RNA sequencing with iterative BLASTn of UTRs (https://github.com/qq371260/Iterative-blast-v.1.0) to identify new viral genomic segments. Some novel multipartite-like viruses related to the phylum Kitrinoviricota were annotated using sequencing data from field plant samples and public databases. We identified potentially plant-infecting jingmen-related viruses (order Amarillovirales) and jivi-related viruses (order Martellivirales) with at least six genomic components. The number of RNA molecules associated with a genome of the novel viruses in the families Closteroviridae, Kitaviridae, and Virgaviridae within the order Martellivirales reached five. Several of these viruses seem to represent new taxa at the subgenus, genus, and family levels. The diversity of novel genomic components and the multiple duplication of proteins or protein domains within single or multiple genomic components emphasize the evolutionary roles of genetic recombination (horizontal gene transfer), reassortment, and deletion. The relatively conserved UTRs at the genome level might explain the relationships between... Mostrar Tudo |
Palavras-Chave: |
Multipartite viruses; Phylogenetics; Untranslated regions; Virus evolution. |
Thesagro: |
Vírus. |
Categoria do assunto: |
-- |
Marc: |
LEADER 02604naa a2200337 a 4500 001 2161831 005 2024-02-08 008 2024 bl uuuu u00u1 u #d 024 7 $ahttps://doi.org/10.1093/ve/veae004$2DOI 100 1 $aZHANG, S. 245 $aConserved untranslated regions of multipartite viruses$bNatural markers of novel viral genomic components and tags of viral evolution.$h[electronic resource] 260 $c2024 520 $aAbstract: Viruses with split genomes are classified as being either segmented or multipartite based on whether their genomic segments occur within a single virion or across different virions. Despite variations in number and sequence during evolution, the genomic segments of many viruses are conserved within the untranslated regions (UTRs). In this study, we present a methodology that combines RNA sequencing with iterative BLASTn of UTRs (https://github.com/qq371260/Iterative-blast-v.1.0) to identify new viral genomic segments. Some novel multipartite-like viruses related to the phylum Kitrinoviricota were annotated using sequencing data from field plant samples and public databases. We identified potentially plant-infecting jingmen-related viruses (order Amarillovirales) and jivi-related viruses (order Martellivirales) with at least six genomic components. The number of RNA molecules associated with a genome of the novel viruses in the families Closteroviridae, Kitaviridae, and Virgaviridae within the order Martellivirales reached five. Several of these viruses seem to represent new taxa at the subgenus, genus, and family levels. The diversity of novel genomic components and the multiple duplication of proteins or protein domains within single or multiple genomic components emphasize the evolutionary roles of genetic recombination (horizontal gene transfer), reassortment, and deletion. The relatively conserved UTRs at the genome level might explain the relationships between monopartite and multipartite viruses, as well as how subviral agents such as defective RNAs and satellite viruses can coexist with their helper viruses. 650 $aVírus 653 $aMultipartite viruses 653 $aPhylogenetics 653 $aUntranslated regions 653 $aVirus evolution 700 1 $aYANG, C. 700 1 $aQIU, Y. 700 1 $aLIAO, R. 700 1 $aXUAN, Z. 700 1 $aREN, F. 700 1 $aDONG, Y. 700 1 $aWU, D. 700 1 $aGONZÁLEZ, P. L. R. G. 700 1 $aASTUA, J. de F. 700 1 $aYANG, H. 700 1 $aZHOU, C. 700 1 $aCAO, M. 773 $tVirus Evolution$gv. 10, n. 1, p. 1-19, 2024.
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Embrapa Mandioca e Fruticultura (CNPMF) |
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Biblioteca(s): |
Embrapa Agroenergia. |
Data corrente: |
30/09/2015 |
Data da última atualização: |
06/04/2021 |
Tipo da produção científica: |
Artigo em Periódico Indexado |
Circulação/Nível: |
B - 5 |
Autoria: |
MARTINS, P. K.; RIBEIRO, A. P.; DIAS, B. B. A.; KOBAYASHI, A. K.; MOLINARI, H. B. C. |
Afiliação: |
Polyana Kelly Martins; Ana Paula Ribeiro; BARBARA ANDRADE DIAS BRITO DA CUNHA, CNPAE; ADILSON KENJI KOBAYASHI, CNPAE; HUGO BRUNO CORREA MOLINARI, CNPAE. |
Título: |
A simple and highly efficient Agrobacterium-mediated transformation protocol for Setaria viridis. |
Ano de publicação: |
2015 |
Fonte/Imprenta: |
Biotechnology Reports, v. 6, p. 41-44, 2015. |
Páginas: |
p. 41-44 |
DOI: |
https://doi.org/10.1016/j.btre.2015.02.002 |
Idioma: |
Inglês |
Conteúdo: |
Abstract: The production and use of sugarcane in Brazil is very important for bioenergy production and is recognized as one of the most efficient in the world. In our laboratory, Setaria viridis is being tested as a model plant for sugarcane. S. viridis has biological attributes (rapid life cycle, small genome, diploid, short stature and simple growth requirements) that make it suitable for use as a model system. We report a highly efficient protocol for Agrobacterium-mediated genetic transformation of S. viridis. The optimization of several steps in tissue culture allowed the rapid regeneration of plants and increased the rate of transformation up to 29%. This protocol could become a powerful tool for functional genomics in sugarcane |
Palavras-Chave: |
C4 metabolism; Green millet; Model system. |
Thesagro: |
Bioenergia; Cana de Açúcar; Genoma; Milho Verde. |
Thesaurus NAL: |
Bioenergy; Genomics; Setaria viridis; Sugarcane. |
Categoria do assunto: |
-- |
URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/222351/1/A-simple-and-highly-2015.pdf
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Marc: |
LEADER 01660naa a2200325 a 4500 001 2025487 005 2021-04-06 008 2015 bl uuuu u00u1 u #d 024 7 $ahttps://doi.org/10.1016/j.btre.2015.02.002$2DOI 100 1 $aMARTINS, P. K. 245 $aA simple and highly efficient Agrobacterium-mediated transformation protocol for Setaria viridis.$h[electronic resource] 260 $c2015 300 $ap. 41-44 520 $aAbstract: The production and use of sugarcane in Brazil is very important for bioenergy production and is recognized as one of the most efficient in the world. In our laboratory, Setaria viridis is being tested as a model plant for sugarcane. S. viridis has biological attributes (rapid life cycle, small genome, diploid, short stature and simple growth requirements) that make it suitable for use as a model system. We report a highly efficient protocol for Agrobacterium-mediated genetic transformation of S. viridis. The optimization of several steps in tissue culture allowed the rapid regeneration of plants and increased the rate of transformation up to 29%. This protocol could become a powerful tool for functional genomics in sugarcane 650 $aBioenergy 650 $aGenomics 650 $aSetaria viridis 650 $aSugarcane 650 $aBioenergia 650 $aCana de Açúcar 650 $aGenoma 650 $aMilho Verde 653 $aC4 metabolism 653 $aGreen millet 653 $aModel system 700 1 $aRIBEIRO, A. P. 700 1 $aDIAS, B. B. A. 700 1 $aKOBAYASHI, A. K. 700 1 $aMOLINARI, H. B. C. 773 $tBiotechnology Reports$gv. 6, p. 41-44, 2015.
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