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2021
Otero-Colina, Gabriel; Ramos-González, Pedro Luis; Chabi-Jesus, Camila; Freitas-Astúa, Juliana; Tassi, Aline D.; Kitajima, Elliot W.
First detection of orchid fleck virus in orchids in Mexico Journal Article
In: VirusDisease, vol. 32, iss. 1, pp. 167-172, 2021, ISSN: 23473517.
Abstract | Links | BibTeX | Tags: Brevipalpus californicus mites, Citrus leprosis, Cytopathology, Dichorhavirus, Epidendrum veroscriptum, Tenuipalpid mites
@article{nokey,
title = {First detection of orchid fleck virus in orchids in Mexico},
author = {Gabriel Otero-Colina and Pedro Luis Ramos-González and Camila Chabi-Jesus and Juliana Freitas-Astúa and Aline D. Tassi and Elliot W. Kitajima},
url = {https://link.springer.com/article/10.1007/s13337-021-00676-5},
doi = {10.1007/S13337-021-00676-5/METRICS},
issn = {23473517},
year = {2021},
date = {2021-01-01},
journal = {VirusDisease},
volume = {32},
issue = {1},
pages = {167-172},
publisher = {Springer},
abstract = {For the first time, an isolate of the dichorhavirus orchid fleck virus (OFV, family Rhabdoviridae) was found infecting an orchid plant in Mexico. The infected sample of Epidendrum veroscriptum was collected in a nursery in Lagunillas, municipality of Zihuateutla, Edo. Puebla. Mites gathered on this plant were analyzed by light and scanning electron microscopy, which consistently indicated the presence of adults of the species Brevipalpus californicus, the common vector of OFV. Viral identification was based on symptoms, cytopathology, and reverse transcriptase-PCR/sequencing of genome fragments of the RNA1 and 2 molecules. Since isolates of OFV causing citrus leprosis have been previously detected in the Mexican states of Chiapas, Querétaro, and Jalisco, we promote a pertinent discussion and thought-provoking questions regarding the epidemiology and putative evolution of OFV.},
keywords = {Brevipalpus californicus mites, Citrus leprosis, Cytopathology, Dichorhavirus, Epidendrum veroscriptum, Tenuipalpid mites},
pubstate = {published},
tppubtype = {article}
}
For the first time, an isolate of the dichorhavirus orchid fleck virus (OFV, family Rhabdoviridae) was found infecting an orchid plant in Mexico. The infected sample of Epidendrum veroscriptum was collected in a nursery in Lagunillas, municipality of Zihuateutla, Edo. Puebla. Mites gathered on this plant were analyzed by light and scanning electron microscopy, which consistently indicated the presence of adults of the species Brevipalpus californicus, the common vector of OFV. Viral identification was based on symptoms, cytopathology, and reverse transcriptase-PCR/sequencing of genome fragments of the RNA1 and 2 molecules. Since isolates of OFV causing citrus leprosis have been previously detected in the Mexican states of Chiapas, Querétaro, and Jalisco, we promote a pertinent discussion and thought-provoking questions regarding the epidemiology and putative evolution of OFV.
Ramos-González, Pedro L.; Pons, Tirso; Chabi-Jesus, Camila; Arena, Gabriella Dias; Freitas-Astua, Juliana
In: Frontiers in Plant Science, vol. 12, pp. 2542, 2021, ISSN: 1664462X.
Abstract | Links | BibTeX | Tags: Dichorhavirus, Horizontal gene transfer, Kitaviridae, miniproteins, orphan ORF, small ORF, structure-based phylogenetic analysis, synonymous codon usage bias
@article{nokey,
title = {Poorly Conserved P15 Proteins of Cileviruses Retain Elements of Common Ancestry and Putative Functionality: A Theoretical Assessment on the Evolution of Cilevirus Genomes},
author = {Pedro L. Ramos-González and Tirso Pons and Camila Chabi-Jesus and Gabriella Dias Arena and Juliana Freitas-Astua},
doi = {10.3389/FPLS.2021.771983/BIBTEX},
issn = {1664462X},
year = {2021},
date = {2021-01-01},
journal = {Frontiers in Plant Science},
volume = {12},
pages = {2542},
publisher = {Frontiers Media S.A.},
abstract = {The genus Cilevirus groups enveloped single-stranded (+) RNA virus members of the family Kitaviridae, order Martellivirales. Proteins P15, scarcely conserved polypeptides encoded by cileviruses, have no apparent homologs in public databases. Accordingly, the open reading frames (ORFs) p15, located at the 5′-end of the viral RNA2 molecules, are considered orphan genes (ORFans). In this study, we have delved into ORFs p15 and the relatively poorly understood biochemical properties of the proteins P15 to posit their importance for viruses across the genus and theorize on their origin. We detected that the ORFs p15 are under purifying selection and that, in some viral strains, the use of synonymous codons is biased, which might be a sign of adaptation to their plant hosts. Despite the high amino acid sequence divergence, proteins P15 show the conserved motif [FY]-L-x(3)-[FL]-H-x-x-[LIV]-S-C-x-C-x(2)-C-x-G-x-C, which occurs exclusively in members of this protein family. Proteins P15 also show a common predicted 3D structure that resembles the helical scaffold of the protein ORF49 encoded by radinoviruses and the phosphoprotein C-terminal domain of mononegavirids. Based on the 3D structural similarities of P15, we suggest elements of common ancestry, conserved functionality, and relevant amino acid residues. We conclude by postulating a plausible evolutionary trajectory of ORFans p15 and the 5′-end of the RNA2 of cileviruses considering both protein fold superpositions and comparative genomic analyses with the closest kitaviruses, negeviruses, nege/kita-like viruses, and unrelated viruses that share the ecological niches of cileviruses.},
keywords = {Dichorhavirus, Horizontal gene transfer, Kitaviridae, miniproteins, orphan ORF, small ORF, structure-based phylogenetic analysis, synonymous codon usage bias},
pubstate = {published},
tppubtype = {article}
}
The genus Cilevirus groups enveloped single-stranded (+) RNA virus members of the family Kitaviridae, order Martellivirales. Proteins P15, scarcely conserved polypeptides encoded by cileviruses, have no apparent homologs in public databases. Accordingly, the open reading frames (ORFs) p15, located at the 5′-end of the viral RNA2 molecules, are considered orphan genes (ORFans). In this study, we have delved into ORFs p15 and the relatively poorly understood biochemical properties of the proteins P15 to posit their importance for viruses across the genus and theorize on their origin. We detected that the ORFs p15 are under purifying selection and that, in some viral strains, the use of synonymous codons is biased, which might be a sign of adaptation to their plant hosts. Despite the high amino acid sequence divergence, proteins P15 show the conserved motif [FY]-L-x(3)-[FL]-H-x-x-[LIV]-S-C-x-C-x(2)-C-x-G-x-C, which occurs exclusively in members of this protein family. Proteins P15 also show a common predicted 3D structure that resembles the helical scaffold of the protein ORF49 encoded by radinoviruses and the phosphoprotein C-terminal domain of mononegavirids. Based on the 3D structural similarities of P15, we suggest elements of common ancestry, conserved functionality, and relevant amino acid residues. We conclude by postulating a plausible evolutionary trajectory of ORFans p15 and the 5′-end of the RNA2 of cileviruses considering both protein fold superpositions and comparative genomic analyses with the closest kitaviruses, negeviruses, nege/kita-like viruses, and unrelated viruses that share the ecological niches of cileviruses.
Otero-Colina, Gabriel; Ramos-González, Pedro Luis; Chabi-Jesus, Camila; Freitas-Astúa, Juliana; Tassi, Aline D.; Kitajima, Elliot W.
First detection of orchid fleck virus in orchids in Mexico Journal Article
In: VirusDisease, vol. 32, iss. 1, pp. 167-172, 2021, ISSN: 23473517.
Abstract | Links | BibTeX | Tags: Brevipalpus californicus mites, Citrus leprosis, Cytopathology, Dichorhavirus, Epidendrum veroscriptum, Tenuipalpid mites
@article{nokey,
title = {First detection of orchid fleck virus in orchids in Mexico},
author = {Gabriel Otero-Colina and Pedro Luis Ramos-González and Camila Chabi-Jesus and Juliana Freitas-Astúa and Aline D. Tassi and Elliot W. Kitajima},
url = {https://link.springer.com/article/10.1007/s13337-021-00676-5},
doi = {10.1007/S13337-021-00676-5/METRICS},
issn = {23473517},
year = {2021},
date = {2021-01-01},
journal = {VirusDisease},
volume = {32},
issue = {1},
pages = {167-172},
publisher = {Springer},
abstract = {For the first time, an isolate of the dichorhavirus orchid fleck virus (OFV, family Rhabdoviridae) was found infecting an orchid plant in Mexico. The infected sample of Epidendrum veroscriptum was collected in a nursery in Lagunillas, municipality of Zihuateutla, Edo. Puebla. Mites gathered on this plant were analyzed by light and scanning electron microscopy, which consistently indicated the presence of adults of the species Brevipalpus californicus, the common vector of OFV. Viral identification was based on symptoms, cytopathology, and reverse transcriptase-PCR/sequencing of genome fragments of the RNA1 and 2 molecules. Since isolates of OFV causing citrus leprosis have been previously detected in the Mexican states of Chiapas, Querétaro, and Jalisco, we promote a pertinent discussion and thought-provoking questions regarding the epidemiology and putative evolution of OFV.},
keywords = {Brevipalpus californicus mites, Citrus leprosis, Cytopathology, Dichorhavirus, Epidendrum veroscriptum, Tenuipalpid mites},
pubstate = {published},
tppubtype = {article}
}
For the first time, an isolate of the dichorhavirus orchid fleck virus (OFV, family Rhabdoviridae) was found infecting an orchid plant in Mexico. The infected sample of Epidendrum veroscriptum was collected in a nursery in Lagunillas, municipality of Zihuateutla, Edo. Puebla. Mites gathered on this plant were analyzed by light and scanning electron microscopy, which consistently indicated the presence of adults of the species Brevipalpus californicus, the common vector of OFV. Viral identification was based on symptoms, cytopathology, and reverse transcriptase-PCR/sequencing of genome fragments of the RNA1 and 2 molecules. Since isolates of OFV causing citrus leprosis have been previously detected in the Mexican states of Chiapas, Querétaro, and Jalisco, we promote a pertinent discussion and thought-provoking questions regarding the epidemiology and putative evolution of OFV.
Ramos-González, Pedro L.; Pons, Tirso; Chabi-Jesus, Camila; Arena, Gabriella Dias; Freitas-Astua, Juliana
In: Frontiers in Plant Science, vol. 12, pp. 2542, 2021, ISSN: 1664462X.
Abstract | Links | BibTeX | Tags: Dichorhavirus, Horizontal gene transfer, Kitaviridae, miniproteins, orphan ORF, small ORF, structure-based phylogenetic analysis, synonymous codon usage bias
@article{nokey,
title = {Poorly Conserved P15 Proteins of Cileviruses Retain Elements of Common Ancestry and Putative Functionality: A Theoretical Assessment on the Evolution of Cilevirus Genomes},
author = {Pedro L. Ramos-González and Tirso Pons and Camila Chabi-Jesus and Gabriella Dias Arena and Juliana Freitas-Astua},
doi = {10.3389/FPLS.2021.771983/BIBTEX},
issn = {1664462X},
year = {2021},
date = {2021-01-01},
journal = {Frontiers in Plant Science},
volume = {12},
pages = {2542},
publisher = {Frontiers Media S.A.},
abstract = {The genus Cilevirus groups enveloped single-stranded (+) RNA virus members of the family Kitaviridae, order Martellivirales. Proteins P15, scarcely conserved polypeptides encoded by cileviruses, have no apparent homologs in public databases. Accordingly, the open reading frames (ORFs) p15, located at the 5′-end of the viral RNA2 molecules, are considered orphan genes (ORFans). In this study, we have delved into ORFs p15 and the relatively poorly understood biochemical properties of the proteins P15 to posit their importance for viruses across the genus and theorize on their origin. We detected that the ORFs p15 are under purifying selection and that, in some viral strains, the use of synonymous codons is biased, which might be a sign of adaptation to their plant hosts. Despite the high amino acid sequence divergence, proteins P15 show the conserved motif [FY]-L-x(3)-[FL]-H-x-x-[LIV]-S-C-x-C-x(2)-C-x-G-x-C, which occurs exclusively in members of this protein family. Proteins P15 also show a common predicted 3D structure that resembles the helical scaffold of the protein ORF49 encoded by radinoviruses and the phosphoprotein C-terminal domain of mononegavirids. Based on the 3D structural similarities of P15, we suggest elements of common ancestry, conserved functionality, and relevant amino acid residues. We conclude by postulating a plausible evolutionary trajectory of ORFans p15 and the 5′-end of the RNA2 of cileviruses considering both protein fold superpositions and comparative genomic analyses with the closest kitaviruses, negeviruses, nege/kita-like viruses, and unrelated viruses that share the ecological niches of cileviruses.},
keywords = {Dichorhavirus, Horizontal gene transfer, Kitaviridae, miniproteins, orphan ORF, small ORF, structure-based phylogenetic analysis, synonymous codon usage bias},
pubstate = {published},
tppubtype = {article}
}
The genus Cilevirus groups enveloped single-stranded (+) RNA virus members of the family Kitaviridae, order Martellivirales. Proteins P15, scarcely conserved polypeptides encoded by cileviruses, have no apparent homologs in public databases. Accordingly, the open reading frames (ORFs) p15, located at the 5′-end of the viral RNA2 molecules, are considered orphan genes (ORFans). In this study, we have delved into ORFs p15 and the relatively poorly understood biochemical properties of the proteins P15 to posit their importance for viruses across the genus and theorize on their origin. We detected that the ORFs p15 are under purifying selection and that, in some viral strains, the use of synonymous codons is biased, which might be a sign of adaptation to their plant hosts. Despite the high amino acid sequence divergence, proteins P15 show the conserved motif [FY]-L-x(3)-[FL]-H-x-x-[LIV]-S-C-x-C-x(2)-C-x-G-x-C, which occurs exclusively in members of this protein family. Proteins P15 also show a common predicted 3D structure that resembles the helical scaffold of the protein ORF49 encoded by radinoviruses and the phosphoprotein C-terminal domain of mononegavirids. Based on the 3D structural similarities of P15, we suggest elements of common ancestry, conserved functionality, and relevant amino acid residues. We conclude by postulating a plausible evolutionary trajectory of ORFans p15 and the 5′-end of the RNA2 of cileviruses considering both protein fold superpositions and comparative genomic analyses with the closest kitaviruses, negeviruses, nege/kita-like viruses, and unrelated viruses that share the ecological niches of cileviruses.
2018
Dietzgen, Ralf G.; Tassi, Aline D.; Freitas-Astúa, Juliana; Kitajima, Elliot W.
First report of orchid fleck virus and its mite vector on green cordyline Journal Article
In: Australasian Plant Disease Notes, vol. 13, iss. 1, pp. 1-4, 2018, ISSN: 1833928X.
Abstract | Links | BibTeX | Tags: Brevipalpus mites, Cordyline terminalis, Dichorhavirus, Family Rhabdoviridae, Nucleoprotein gene sequence, RT-PCR
@article{Dietzgen2018,
title = {First report of orchid fleck virus and its mite vector on green cordyline},
author = {Ralf G. Dietzgen and Aline D. Tassi and Juliana Freitas-Astúa and Elliot W. Kitajima},
url = {https://link.springer.com/article/10.1007/s13314-018-0295-4},
doi = {10.1007/S13314-018-0295-4/FIGURES/3},
issn = {1833928X},
year = {2018},
date = {2018-01-01},
journal = {Australasian Plant Disease Notes},
volume = {13},
issue = {1},
pages = {1-4},
publisher = {Springer Netherlands},
abstract = {Orchid fleck virus (OFV) and its mite vector Brevipalpus californicus were for the first time identified on green cordyline plants showing distinctive chlorotic and necrotic ringspots. Thin section electron microscopy revealed bacilliform, dichorhavirus-like particles within nuclear viroplasms. RT-PCR using OFV degenerate primers yielded a single amplicon, the nucleotide sequence of which closely matched the nucleoprotein gene of OFV.},
keywords = {Brevipalpus mites, Cordyline terminalis, Dichorhavirus, Family Rhabdoviridae, Nucleoprotein gene sequence, RT-PCR},
pubstate = {published},
tppubtype = {article}
}
Orchid fleck virus (OFV) and its mite vector Brevipalpus californicus were for the first time identified on green cordyline plants showing distinctive chlorotic and necrotic ringspots. Thin section electron microscopy revealed bacilliform, dichorhavirus-like particles within nuclear viroplasms. RT-PCR using OFV degenerate primers yielded a single amplicon, the nucleotide sequence of which closely matched the nucleoprotein gene of OFV.
2017
Arena, Gabriella Dias; Ramos-González, Pedro Luis; Nunes, Maria Andréia; Jesus, Camila Chabi; Calegario, Renata Faier; Kitajima, Elliot Watanabe; Novelli, Valdenice Moreira; Freitas-Astúa, Juliana
Arabidopsis thaliana as a model host for Brevipalpus mite-transmitted viruses Journal Article
In: Scientia Agricola, vol. 74, iss. 1, pp. 85-89, 2017, ISSN: 1678-992X.
Abstract | Links | BibTeX | Tags: Cilevirus, Clerodendrum chlorotic spot virus, Coffee ringspot virus, Dichorhavirus, Solanum violaefolium ringspot virus
@article{Arena2017,
title = {\textit{Arabidopsis thaliana} as a model host for \textit{Brevipalpus} mite-transmitted viruses},
author = {Gabriella Dias Arena and Pedro Luis Ramos-González and Maria Andréia Nunes and Camila Chabi Jesus and Renata Faier Calegario and Elliot Watanabe Kitajima and Valdenice Moreira Novelli and Juliana Freitas-Astúa},
url = {http://www.scielo.br/j/sa/a/mLKYNzqSqGsJZwmP5XM5LbH/?lang=en},
doi = {10.1590/1678-992X-2015-0380},
issn = {1678-992X},
year = {2017},
date = {2017-01-01},
journal = {Scientia Agricola},
volume = {74},
issue = {1},
pages = {85-89},
publisher = {Escola Superior de Agricultura "Luiz de Queiroz"},
abstract = {ABSTRACT: Brevipalpus-transmitted viruses (BTV) are a taxonomically diverse group of plant viruses which severely affect a number of major crops. Members of the group can be sub-classified into cytoplasmic (BTV-C) or nuclear type (BTV-N) according to the accumulation sites of virions in the infected plant cells. Both types of BTV produce only local infections near the point of inoculation by viruliferous mites. Features of BTV-plant interactions such as the failure of systemic spread in their natural hosts are poorly understood. In this study we evaluated Arabidopsis thaliana, a model plant commonly used for the study of plant-virus interactions, as an alternative host for BTV. Infection of Arabidopsis with the BTV-N Coffee ringspot virus and Clerodendrum chlorotic spot virus, and the BTV-C Solanum violaefolium ringspot virus, were mediated by viruliferous Brevipalpus mites collected in the wild. Upon infestation, local lesions appeared in 7 to 10 days on leaves of, at least, 80 % of the assayed plants. Presence of viral particles and characteristic cytopathic effects were detected by transmission electron microscopy (TEM) and the viral identities confirmed by specific reverse-transcriptase polymerase chain reaction (RT-PCR) and further amplicon sequencing. The high infection rate and reproducibility of symptoms of the three different viruses assayed validate A. thaliana as a feasible alternative experimental host for BTV.},
keywords = {Cilevirus, Clerodendrum chlorotic spot virus, Coffee ringspot virus, Dichorhavirus, Solanum violaefolium ringspot virus},
pubstate = {published},
tppubtype = {article}
}
ABSTRACT: Brevipalpus-transmitted viruses (BTV) are a taxonomically diverse group of plant viruses which severely affect a number of major crops. Members of the group can be sub-classified into cytoplasmic (BTV-C) or nuclear type (BTV-N) according to the accumulation sites of virions in the infected plant cells. Both types of BTV produce only local infections near the point of inoculation by viruliferous mites. Features of BTV-plant interactions such as the failure of systemic spread in their natural hosts are poorly understood. In this study we evaluated Arabidopsis thaliana, a model plant commonly used for the study of plant-virus interactions, as an alternative host for BTV. Infection of Arabidopsis with the BTV-N Coffee ringspot virus and Clerodendrum chlorotic spot virus, and the BTV-C Solanum violaefolium ringspot virus, were mediated by viruliferous Brevipalpus mites collected in the wild. Upon infestation, local lesions appeared in 7 to 10 days on leaves of, at least, 80 % of the assayed plants. Presence of viral particles and characteristic cytopathic effects were detected by transmission electron microscopy (TEM) and the viral identities confirmed by specific reverse-transcriptase polymerase chain reaction (RT-PCR) and further amplicon sequencing. The high infection rate and reproducibility of symptoms of the three different viruses assayed validate A. thaliana as a feasible alternative experimental host for BTV.