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1.
Mol Plant ; 17(6): 955-971, 2024 Jun 03.
Artigo em Inglês | MEDLINE | ID: mdl-38745413

RESUMO

Circular single-stranded DNA (ssDNA) viruses have been rarely found in fungi, and the evolutionary and ecological relationships among ssDNA viruses infecting fungi and other organisms remain unclear. In this study, a novel circular ssDNA virus, tentatively named Diaporthe sojae circular DNA virus 1 (DsCDV1), was identified in the phytopathogenic fungus Diaporthe sojae isolated from pear trees. DsCDV1 has a monopartite genome (3185 nt in size) encapsidated in isometric virions (21-26 nm in diameter). The genome comprises seven putative open reading frames encoding a discrete replicase (Rep) split by an intergenic region, a putative capsid protein (CP), several proteins of unknown function (P1-P4), and a long intergenic region. Notably, the two split parts of DsCDV1 Rep share high identities with the Reps of Geminiviridae and Genomoviridae, respectively, indicating an evolutionary linkage with both families. Phylogenetic analysis based on Rep or CP sequences placed DsCDV1 in a unique cluster, supporting the establishment of a new family, tentatively named Gegemycoviridae, intermediate to both families. DsCDV1 significantly attenuates fungal growth and nearly erases fungal virulence when transfected into the host fungus. Remarkably, DsCDV1 can systematically infect tobacco and pear seedlings, providing broad-spectrum resistance to fungal diseases. Subcellular localization analysis revealed that DsCDV1 P3 is systematically localized in the plasmodesmata, while its expression in trans-complementation experiments could restore systematic infection of a movement-deficient plant virus, suggesting that P3 is a movement protein. DsCDV1 exhibits unique molecular and biological traits not observed in other ssDNA viruses, serving as a link between fungal and plant ssDNA viruses and presenting an evolutionary connection between ssDNA viruses and fungi. These findings contribute to expanding our understanding of ssDNA virus diversity and evolution, offering potential biocontrol applications for managing crucial plant diseases.


Assuntos
DNA de Cadeia Simples , Micovírus , Filogenia , Doenças das Plantas , Micovírus/genética , Micovírus/fisiologia , Doenças das Plantas/microbiologia , Doenças das Plantas/virologia , DNA de Cadeia Simples/genética , Ascomicetos/virologia , Ascomicetos/fisiologia , Vírus de DNA/genética , Resistência à Doença/genética , Genoma Viral , Pyrus/microbiologia , Pyrus/virologia , Nicotiana/virologia , Nicotiana/microbiologia
2.
Viruses ; 16(4)2024 03 26.
Artigo em Inglês | MEDLINE | ID: mdl-38675852

RESUMO

Fire blight, caused by the bacterium Erwinia amylovora, is a major threat to pear production worldwide. Bacteriophages, viruses that infect bacteria, are a promising alternative to antibiotics for controlling fire blight. In this study, we isolated a novel bacteriophage, RH-42-1, from Xinjiang, China. We characterized its biological properties, including host range, plaque morphology, infection dynamics, stability, and sensitivity to various chemicals. RH-42-1 infected several E. amylovora strains but not all. It produced clear, uniform plaques and exhibited optimal infectivity at a multiplicity of infection (MOI) of 1, reaching a high titer of 9.6 × 109 plaque-forming units (PFU)/mL. The bacteriophage had a short latent period (10 min), a burst size of 207 PFU/cell, and followed a sigmoidal one-step growth curve. It was stable at temperatures up to 60 °C but declined rapidly at higher temperatures. RH-42-1 remained viable within a pH range of 5 to 9 and was sensitive to extreme pH values. The bacteriophage demonstrates sustained activity upon exposure to ultraviolet radiation for 60 min, albeit with a marginal reduction. In our assays, it exhibited a certain level of resistance to 5% chloroform (CHCl3), 5% isopropanol (C3H8O), and 3% hydrogen peroxide (H2O2), which had little effect on its activity, whereas it showed sensitivity to 75% ethanol (C2H5OH). Electron microscopy revealed that RH-42-1 has a tadpole-shaped morphology. Its genome size is 14,942 bp with a GC content of 48.19%. Based on these characteristics, RH-42-1 was identified as a member of the Tectiviridae family, Alphatectivirus genus. This is the first report of a bacteriophage in this genus with activity against E. amylovora.


Assuntos
Bacteriófagos , Erwinia amylovora , Microbiologia do Solo , Bacteriófagos/isolamento & purificação , Bacteriófagos/genética , Bacteriófagos/fisiologia , Bacteriófagos/classificação , China , Erwinia amylovora/virologia , Erwinia amylovora/efeitos dos fármacos , Genoma Viral , Especificidade de Hospedeiro , Concentração de Íons de Hidrogênio , Filogenia , Doenças das Plantas/microbiologia , Pyrus/microbiologia , Pyrus/virologia
3.
Arch Virol ; 165(11): 2665-2671, 2020 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-32638117

RESUMO

The transmission of the apscaviroid tentatively named apple chlorotic fruit spot viroid (ACFSVd) was investigated using a one-step reverse-transcription (RT) droplet digital PCR assay for absolute quantification of the viroid, followed by quantification of relative standard curves by RT-qPCR. Our results indicate that ACFSVd is effectively transmitted by grafting, budding and seeds. No transmission has yet been observed to the viroid-inoculated pome fruit species Pyrus sp. and Cydonia sp. ACFSVd was detected in viruliferous aphids (Myzus persicae, Dysaphis plantaginea) and in codling moths (Cydia pomonella). The viroid was also detected systemically in the infected hemiparasitic plant Viscum album subsp. album (mistletoe).


Assuntos
Frutas/virologia , Doenças das Plantas/virologia , Reação em Cadeia da Polimerase em Tempo Real/métodos , Viroides/isolamento & purificação , Animais , Afídeos/virologia , Malus/virologia , Mariposas/virologia , Pyrus/virologia , RNA Viral/análise , Rosaceae/virologia , Viroides/classificação
4.
J Virol Methods ; 274: 113747, 2019 12.
Artigo em Inglês | MEDLINE | ID: mdl-31580840

RESUMO

A molecular diagnostic assay for the rapid, sensitive and specific detection of Apple stem pitting virus (ASPV) in infected samples, utilizing reverse transcription-recombinase polymerase amplification (RT-RPA) at an isothermal constant temperature of 42 °C and the designed target-specific primers, was developed. The RT-RPA assay was able to be used in ASPV-infected leaves, rootstocks and fruits. Sensitivity tests, using ASPV transcripts, showed that the RT-RPA with the ASPV-specific primers was more sensitive than the conventional RT-PCR, with a detection limit of 1 fg/µL of RNA. In addition, the reaction time for the amplification of ASPV was shortened to as little as 1 min. The assay was highly specific and did not give a positive reaction to other viruses infecting pears. Moreover, the amplified genomic fragment of ASPV produced by the assay could be determined within 4 min using a portable capillary gel electrophoresis system. The entire process, excluding the extraction of total RNA, could be completed in 5 min using portable equipment in the field. This is the first report of utilizing an RT-RPA assay to detect a pear tree virus and the assay could be used both in the laboratory and in the field for ASPV detection.


Assuntos
Agricultura/métodos , Flexiviridae/isolamento & purificação , Técnicas de Amplificação de Ácido Nucleico/métodos , Doenças das Plantas/virologia , Pyrus/virologia , Primers do DNA , Eletroforese , Frutas/virologia , Folhas de Planta/virologia , Raízes de Plantas/virologia , RNA Viral/isolamento & purificação , Transcrição Reversa , Sensibilidade e Especificidade , Temperatura , Tempo
5.
J Gen Virol ; 100(10): 1442-1456, 2019 10.
Artigo em Inglês | MEDLINE | ID: mdl-31424379

RESUMO

In this study, 267 coat protein gene (CP) sequences from 48 Polish isolates of Apple stem pitting virus (ASPV) were determined. The genetic structure of the virus population was analysed and possible mechanisms of molecular evolution explored. We found evidence of recombination within the ASPV population and the presence of 17 ASPV molecular variants that differ in the length, number and arrangement of deletions in the CP. Population genetic analyses showed significant variation among isolates from pear and apple trees, between isolates from the same host species and, more interestingly, within isolates, supporting the existence of significant levels of variability within individual hosts, as expected by a quasispecies population structure. In addition, different tests support that selection might have been an important force driving diversification within isolates: positive selection was found acting upon certain amino acids. Phylogenetic analyses also showed that isolates did not classify according to the host species (pear or apple trees) but according to the pattern of deletions, suggesting a possible role for deletions during clade diversification.


Assuntos
Proteínas do Capsídeo/genética , Evolução Molecular , Flexiviridae/genética , Flexiviridae/classificação , Flexiviridae/isolamento & purificação , Malus/virologia , Filogenia , Doenças das Plantas/virologia , Polônia , Pyrus/virologia , Deleção de Sequência
6.
J Virol Methods ; 263: 105-110, 2019 01.
Artigo em Inglês | MEDLINE | ID: mdl-30385299

RESUMO

A highly sensitive nested multiplex reverse transcription-polymerase chain reaction (nmRT-PCR) assay was developed for the simultaneous detection of Apple chlorotic leaf spot virus (ACLSV), Apple stem grooving virus (ASGV) and Apple stem pitting virus (ASPV) infecting pear trees. In the assay, a set of three forward primers specific to each of the three viruses and a universal reverse primer was used as external primers in the first-round PCR, which was followed by a second-round PCR developed previously. The nmRT-PCR assay was 104 times more sensitive than conventional mRT-PCR assay in detecting the three viruses in in vitro pear plantlets. This assay was subsequently used to detect these viruses in leaf and bark samples of cultivated and wild pear trees from orchards and demonstrated to be highly sensitive and reliable. This is the first report describing a use of nmRT-PCR for the sensitive and simultaneous detection of the three viruses infecting pear plants. The assay would be useful for the certification of pear planting materials and surveillance of nursery stocks.


Assuntos
Flexiviridae/isolamento & purificação , Pyrus/virologia , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Flexiviridae/classificação , Flexiviridae/genética , Casca de Planta/virologia , Doenças das Plantas/virologia , Folhas de Planta/virologia , RNA Viral/genética , Sensibilidade e Especificidade , Proteínas Virais/genética
7.
Methods Mol Biol ; 1875: 151-157, 2019.
Artigo em Inglês | MEDLINE | ID: mdl-30362002

RESUMO

A one-step multiplex quantitative reverse transcription polymerase chain reaction protocol is described, for the detection in pome trees of Pear blister canker viroid and Apple scar skin viroid, together with universal detection of phytoplasmas. Total nucleic acids extraction is performed according to a modified CTAB protocol and TaqMan MGB probes are used to surpass high genetic variability of viroids. The multiplex real-time assay is at least ten times more sensitive than conventional protocols and its features make it suitable for rapid and massive screening of pome fruit trees phytoplasmas and viroids in certification schemes and surveys.


Assuntos
Reação em Cadeia da Polimerase Multiplex/métodos , Phytoplasma/isolamento & purificação , Doenças das Plantas/microbiologia , Viroides/isolamento & purificação , DNA Bacteriano , Malus/microbiologia , Malus/virologia , Phytoplasma/genética , Doenças das Plantas/virologia , Pyrus/microbiologia , Pyrus/virologia , RNA Viral/genética , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Sensibilidade e Especificidade , Viroides/genética
8.
J Virol Methods ; 252: 80-85, 2018 02.
Artigo em Inglês | MEDLINE | ID: mdl-29180245

RESUMO

A reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay was developed for the detection of Apple chlorotic leaf spot virus (ACLSV) and Apple stem pitting virus (ASPV), two important viruses frequently occurring in pear trees. A set of four RT-LAMP primers designed based on the highly conserved region of each CP gene of the two viruses showed high specificity and feasibility for ACLSV and ASPV detections. The RT-LAMP assays for ACLSV and ASPV in pear samples were 104 and 103 times more sensitive than that of conventional RT-PCR assays. The RT-LAMP under optimal reaction condition was subsequently utilized in the detection of the two viruses in-vitro cultures of pear and field pear samples. This study provides a rapid and sensitive tool to determine the infection statues of the two viruses in pear certification program.


Assuntos
Flexiviridae/genética , Flexiviridae/isolamento & purificação , Técnicas de Amplificação de Ácido Nucleico/métodos , Pyrus/virologia , Transcrição Reversa , Primers do DNA/genética , Malus/virologia , Doenças das Plantas/virologia , RNA Viral/genética , Sensibilidade e Especificidade , Temperatura
9.
Virus Genes ; 54(1): 149-154, 2018 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-28986679

RESUMO

Pyrus pyrifolia cryptic virus (PpCV) had been previously reported from Japanese pear (Pyrus pyrifolia). In analyses of Japanese pear, two other double-stranded (ds) RNA molecules (dsRNA4 and 5) were observed along with the three dsRNA segments from PpCV on an electrophoretic profile of isolated dsRNA. When the purified dsRNA sample was deep sequenced by a next-generation sequencer, two de novo assembled contigs corresponding to dsRNA4 and 5, with predicted amino acid sequences showing homologies to the RNA-dependent RNA polymerase and the capsid protein of Rose partitivirus, respectively, were found by BLAST analysis. The relationships between the two contigs and dsRNA4, 5 were confirmed by northern blot analyses with probes amplified using primers designed from the contigs. Terminal sequence analyses by rapid amplification of cDNA ends revealed that dsRNA4 and 5 were 1945 and 1788 bp long, respectively. The 5' terminal sequences (GUCAAAUU) of dsRNA4 and 5 were conserved. Based on genome size and phylogenetic analyses, the newly found virus is thought to be a member of the genus Alphapartitivirus. Thus, it has been designated as Pyrus pyrifolia partitivirus 2.


Assuntos
Vírus de Plantas/classificação , Vírus de Plantas/isolamento & purificação , Pyrus/virologia , Vírus de RNA/classificação , Vírus de RNA/isolamento & purificação , Northern Blotting , Sequência Conservada , Sequenciamento de Nucleotídeos em Larga Escala , Japão , Filogenia , Vírus de Plantas/genética , Vírus de RNA/genética , RNA Polimerase Dependente de RNA/genética , Análise de Sequência de DNA , Homologia de Sequência de Aminoácidos , Proteínas Virais/genética
10.
Virus Res ; 240: 64-68, 2017 08 15.
Artigo em Inglês | MEDLINE | ID: mdl-28760347

RESUMO

According to previous studies, three double-stranded (ds) RNA molecules (dsRNA1, 2, and 3) detected in Japanese pear are transmitted to the next generation with high frequency through both ovules and pollen. Nucleotide sequence analysis of dsRNA1-encoding RNA-dependent RNA polymerase (RdRp) has suggested that these dsRNAs are related to a cryptovirus named Pyrus pyrifolia cryptic virus (PpCV). In this study, purified dsRNA prepared from a PpCV-infected Japanese pear cultivar was subjected to next-generation deep sequencing. This sequencing generated two de novo assembled contigs corresponding to dsRNA2 and 3, with BLAST analysis of the predicted amino acid sequences indicating homology to capsid proteins (CPs) of the cryptoviruses persimmon cryptic virus and Sinapis alba cryptic virus 1, respectively. Relationships between the two contigs and dsRNA2 and 3 were confirmed by northern blot hybridization with probes generated using primers designed from the assembled contigs. Rapid amplification of cDNA ends analyses of 5'- and 3'-terminal sequences of dsRNA2 and 3 revealed that these two dsRNAs consist of 1523 and 1481bp, respectively. The 5'-terminal sequences (AGAAUUUC) of dsRNA1, 2 and 3 were found to be conserved. Phylogenetic analysis of deduced amino acid sequences of the two CP-like variants indicated that PpCV belongs to Deltapartitivirus (Partitiviridae). Our results imply that PpCV is tri-segmented.


Assuntos
Proteínas do Capsídeo/genética , Genoma Viral , Doenças das Plantas/virologia , Pyrus/virologia , Vírus de RNA/isolamento & purificação , Proteínas do Capsídeo/metabolismo , Sequenciamento de Nucleotídeos em Larga Escala , Filogenia , Vírus de RNA/classificação , Vírus de RNA/genética , RNA Viral/genética , RNA Viral/metabolismo
11.
PLoS One ; 12(7): e0180877, 2017.
Artigo em Inglês | MEDLINE | ID: mdl-28749955

RESUMO

A one-step multiplex real-time reverse transcription polymerase chain reaction (RT-qPCR) based on TaqMan probes was developed for the simultaneous detection of Apple mosaic virus (ApMV), Apple stem pitting virus (ASPV) and Apple stem grooving virus (ASGV) in total RNA of pome trees extracted with a CTAB method. The sensitivity of the method was established using in vitro synthesized viral transcripts serially diluted in RNA from healthy, virus-tested (negative) pome trees. The three viruses were simultaneously detected up to a 10-4 dilution of total RNA from a naturally triple-infected apple tree prepared in total RNA of healthy apple tissue. The newly developed RT-qPCR assay was at least one hundred times more sensitive than conventional single RT-PCRs. The assay was validated with 36 field samples for which nine triple and 11 double infections were detected. All viruses were detected simultaneously in composite samples at least up to the ratio of 1:150 triple-infected to healthy pear tissue, suggesting the assay has the capacity to examine rapidly a large number of samples in pome tree certification programs and surveys for virus presence.


Assuntos
Frutas/virologia , Malus/virologia , Vírus de Plantas/fisiologia , Pyrus/virologia , Reação em Cadeia da Polimerase em Tempo Real/métodos , Reação em Cadeia da Polimerase Via Transcriptase Reversa/métodos , Árvores/virologia , RNA de Plantas/isolamento & purificação , Padrões de Referência , Reprodutibilidade dos Testes
12.
Virol J ; 13(1): 166, 2016 10 06.
Artigo em Inglês | MEDLINE | ID: mdl-27716257

RESUMO

BACKGROUND: Heat treatment (known as thermotherapy) together with in vitro culture of shoot meristem tips is a commonly used technology to obtain virus-free germplasm for the effective control of virus diseases in fruit trees. RNA silencing as an antiviral defense mechanism has been implicated in this process. To understand if high temperature-mediated acceleration of the host antiviral gene silencing system in the meristem tip facilitates virus-derived small interfering RNAs (vsiRNA) accumulation to reduce the viral RNA titer in the fruit tree meristem tip cells, we used the Apple stem grooving virus (ASGV)-Pyrus pyrifolia pathosystem to explore the possible roles of vsiRNA in thermotherapy. RESULTS: At first we determined the full-length genome sequence of the ASGV-Js2 isolate and then profiled vsiRNAs in the meristem tip of in vitro-grown pear (cv. 'Jinshui no. 2') shoots infected by ASGV-Js2 and cultured at 24 and 37 °C. A total of 7,495 and 7,949 small RNA reads were obtained from the tips of pear shoots cultured at 24 and 37 °C, respectively. Mapping of the vsiRNAs to the ASGV-Js2 genome revealed that they were unevenly distributed along the ASGV-Js2 genome, and that 21- and 22-nt vsiRNAs preferentially accumulated at both temperatures. The 5'-terminal nucleotides of ASGV-specific siRNAs in the tips cultured under different temperatures had a similar distribution pattern, and the nucleotide U was the most frequent. RT-qPCR analyses suggested that viral genome accumulation was drastically compromised at 37 °C compared to 24 °C, which was accompanied with the elevated levels of vsiRNAs at 37 °C. As plant Dicer-like proteins (DCLs), Argonaute proteins (AGOs), and RNA-dependent RNA polymerases (RDRs) are implicated in vsiRNA biogenesis, we also cloned the partial sequences of PpDCL2,4, PpAGO1,2,4 and PpRDR1 genes, and found their expression levels were up-regulated in the ASGV-infected pear shoots at 37 °C. CONCLUSIONS: Collectively, these results showed that upon high temperature treatment, the ASGV-infected meristem shoot tips up-regulated the expression of key genes in the RNA silencing pathway, induced the biogenesis of vsiRNAs and inhibited viral RNA accumulation. This study represents the first report on the characterization of the vsiRNA population in pear plants infected by ASGV-Js2, in response to high temperature treatment.


Assuntos
Flexiviridae/crescimento & desenvolvimento , Temperatura Alta , Brotos de Planta/virologia , Pyrus/virologia , RNA Interferente Pequeno/genética , Flexiviridae/genética , Flexiviridae/efeitos da radiação , Inativação Gênica , Brotos de Planta/imunologia , Brotos de Planta/efeitos da radiação , Pyrus/imunologia , Pyrus/efeitos da radiação , RNA Interferente Pequeno/metabolismo , RNA Viral/antagonistas & inibidores
13.
BMC Genomics ; 16: 945, 2015 Nov 16.
Artigo em Inglês | MEDLINE | ID: mdl-26573813

RESUMO

BACKGROUND: MicroRNAs (miRNAs) have functions in diverse biological processes such as growth, signal transduction, disease resistance, and stress responses in plants. Thermotherapy is an effective approach for elimination of viruses from fruit trees. However, the role of miRNAs in this process remains elusive. Previously, we showed that high temperature treatment reduces the titers of Apple stem grooving virus (ASGV) from the tips of in vitro-grown Pyrus pyrifolia plants. In this study, we identified high temperature-altered pear miRNAs using the next generation sequencing technology, and futher molecularly characterized miRNA-mediated regulaton of target gene expression in the meristem tip and base tissues of in vitro-grown, ASGV-infected pear shoots under different temperatures. RESULTS: Using in vitro-grown P. pyrifolia shoot meristem tips infected with ASGV, a total of 22,592,997 and 20,411,254 clean reads were obtained from Illumina high-throughput sequencing of small RNA libraries at 24 °C and 37 °C, respectively. We identified 149 conserved and 141 novel miRNAs. Seven conserved miRNAs and 77 novel miRNAs were differentially expressed at different temperatures. Target genes for differentially expressed known and novel miRNAs were predicted and functionally annotated. Gene Ontology (GO) analysis showed that high-ranking miRNA target genes were involved in metabolic processes, responses to stress, and signaling, indicating that these high temperature-responsive miRNAs have functions in diverse gene regulatory networks. Spatial expression patterns of the miRNAs and their target genes were found to be expressed in shoot tip and base tissues by qRT-PCR. In addition, high temperature reduced viral titers in the shoot meristem tip, while negatively regulated miRNA-mediated target genes related to resistance disease defense and hormone signal transduction pathway were up-regulated in the P. pyrifolia shoot tip in response to high temperature. These results suggested that miRNAs may have important functions in the high temperature-dependent decrease of ASGV titer in in vitro-grown pear shoots. CONCLUSIONS: This is the first report of miRNAs differentially expressed at 24 °C and 37 °C in the meristem tip of pear shoots infected with ASGV. The results of this study provide valuable information for further exploration of the function of high temperature-altered miRNAs in suppressing viral infections in pear and other fruit trees.


Assuntos
Flexiviridae/fisiologia , MicroRNAs/genética , Doenças das Plantas/genética , Doenças das Plantas/virologia , Pyrus/genética , Pyrus/virologia , RNA de Plantas/genética , Perfilação da Expressão Gênica , Genes de Plantas , Sequenciamento de Nucleotídeos em Larga Escala , Temperatura Alta , Técnicas In Vitro , Caules de Planta , Análise de Sequência de RNA
14.
Virus Res ; 210: 27-33, 2015 Dec 02.
Artigo em Inglês | MEDLINE | ID: mdl-26186890

RESUMO

Fruit trees of temperate and tropical climates are of great economical importance worldwide and several viruses have been reported affecting their productivity and longevity. Fruit trees of different Brazilian regions displaying virus-like symptoms were evaluated for infection by circular DNA viruses. Seventy-four fruit trees were sampled and a novel, highly divergent, monopartite circular ssDNA virus was cloned from apple, pear and grapevine trees. Forty-five complete viral genomes were sequenced, with a size of approx. 3.4 kb and organized into five ORFs. Deduced amino acid sequences showed identities in the range of 38% with unclassified circular ssDNA viruses, nanoviruses and alphasatellites (putative Replication-associated protein, Rep), and begomo-, curto- and mastreviruses (putative coat protein, CP, and movement protein, MP). A large intergenic region contains a short palindromic sequence capable of forming a hairpin-like structure with the loop sequence TAGTATTAC, identical to the conserved nonanucleotide of circoviruses, nanoviruses and alphasatellites. Recombination events were not detected and phylogenetic analysis showed a relationship with circo-, nano- and geminiviruses. PCR confirmed the presence of this novel ssDNA virus in field plants. Infectivity tests using the cloned viral genome confirmed its ability to infect apple and pear tree seedlings, but not Nicotiana benthamiana. The name "Temperate fruit decay-associated virus" (TFDaV) is proposed for this novel virus.


Assuntos
Vírus de DNA/classificação , Vírus de DNA/isolamento & purificação , Malus/virologia , Vírus de Plantas/classificação , Vírus de Plantas/isolamento & purificação , Pyrus/virologia , Vitis/virologia , Brasil , Análise por Conglomerados , Vírus de DNA/genética , DNA de Cadeia Simples/química , DNA de Cadeia Simples/genética , Dados de Sequência Molecular , Filogenia , Vírus de Plantas/genética , Análise de Sequência de DNA , Homologia de Sequência de Aminoácidos
15.
Mikrobiol Z ; 77(3): 36-46, 2015.
Artigo em Inglês | MEDLINE | ID: mdl-26214897

RESUMO

Fine ultrastructure of polyvalent bacteriophages TT10-27 and KEY isolated from affected with fire blight disease plant tissues, was studied using electron microscopy. Phages have isometric heads connected to short complex tail (TT10-27, C1-morphotype) or long non-contractile tail (KEY B-1 morphotype). Maximum diameter of TT10-27 head, measured as the distance between opposite vertices, is 71.3 nm; tail tube of 22 nm in diameter and 9.0 nm in width is framed with 12 appendages that form flabellate structure of 47.0-58.6 nm in diameter. KEY features capsid of 78.6 nm in diameter and flexible non-contractile tail of 172.5 nm long, which ends with a conical tip. Due to a number of features phage TT10-27 was assigned to a group of N4-like phages of Podoviridae family. KEY is a representative of family Siphoviridae, the least freaquent group of Erwinia amylovora phages.


Assuntos
Capsídeo/ultraestrutura , Podoviridae/ultraestrutura , Siphoviridae/ultraestrutura , Vírion/ultraestrutura , Erwinia amylovora/virologia , Microscopia Eletrônica , Doenças das Plantas/virologia , Pyrus/virologia , Rosaceae/virologia
16.
J Virol Methods ; 196: 113-9, 2014 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-24269332

RESUMO

A multiplex RT-PCR (mRT-PCR) assay was developed for detection and differentiation of the Apple stem pitting virus (ASPV), Apple stem grooving virus (ASGV) and Apple chlorotic leaf spot virus (ACLSV), which are viruses frequently occurring in pear trees. Different combinations of mixed primer pairs were tested for their specificity and sensitivity for the simultaneous detection of the three viruses. Three primer pairs were used to amplify their fragments of 247bp, 358bp and 500bp, respectively. The primer pair for ASPV was designed in this work, while the primer pairs for ACLSV and ASGV were from previous reports. The sensitivity and specificity of the mRT-PCR assay for the three viruses were comparable to that of each uniplex RT-PCR. The mRT-PCR was applied successfully for the detection of three viruses in leaves of pear and apple plants, but was unreliable in the detection of ASGV in dormant barks. In conclusion, this mRT-PCR provides a useful tool for the routine and rapid detection and the differentiation of three pear viruses.


Assuntos
Reação em Cadeia da Polimerase Multiplex/métodos , Doenças das Plantas/virologia , Vírus de Plantas/isolamento & purificação , Pyrus/virologia , Reação em Cadeia da Polimerase Via Transcriptase Reversa/métodos , Virologia/métodos , Primers do DNA/genética , Malus/virologia , Folhas de Planta/virologia , Vírus de Plantas/genética , RNA Viral/genética , RNA Viral/isolamento & purificação , Sensibilidade e Especificidade
17.
Mikrobiol Z ; 75(2): 80-8, 2013.
Artigo em Russo | MEDLINE | ID: mdl-23720968

RESUMO

Phage populations appearing as a result of a pathogenic process caused by Erwinia amylovora have been discovered and described. They accompany bacterial fire blight development in the process of quince, pear and apple trees vegetation in Zakarpattya region of Ukraine. Phage isolates of the affected pear and quince include polyvalent virulent phages able to develop on bacterial strains associated with plants--E. amylovora. E. "horticola" and Pantoea agglomerans. E. amylovora isolated from the plant tissues affected by the fire blight and detected at the same time as phages proved to be resistant to the viral infection. It is hard to explain now this characteristic however it was noticed that resistance to phages can change drastically in case of dissociation, lysogenization and mutagenesis of erwinia in laboratory conditions. Phage population study shows that they are heterogeneous and can obviously include not only polyvalent but also specific viruses. Further studies of biology and molecular genetics of pure lines of isolated phages will help to get closer to understanding the place and role of bacteriophages in the complicated network of relations between bacterial pathogens and plants.


Assuntos
Bacteriófagos/isolamento & purificação , Erwinia amylovora/virologia , Doenças das Plantas/virologia , Árvores/virologia , Bacteriófagos/patogenicidade , Bacteriófagos/ultraestrutura , Malus/microbiologia , Malus/virologia , Doenças das Plantas/microbiologia , Pyrus/microbiologia , Pyrus/virologia , Rosaceae/microbiologia , Rosaceae/virologia , Árvores/microbiologia , Ucrânia
18.
Biosci Biotechnol Biochem ; 77(1): 182-8, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23291763

RESUMO

Molecular diversity within six viroid species and different molecular variants, in each species infecting fruit trees was first estimated by the single-strand conformation polymorphism (SSCP) technique and then by direct sequencing analysis. The different variants studied are to three Australian grapevine viroids(AGVd), four citrus dwarfing viroids (CDVd), eleven grapevine yellow speckle viroids type-1 (GYSVd-1), four hop stunt viroids (HSVd), seven peach latent mosaic viroids (PLMVd), and eight pear blister canker viroids (PBCVd). Polyacrylamide gel electrophoresis (PAGE) conditions were compared and optimized to improve the sensitivity of the existing SSCP parameters. The relationships among the various SSCP profiles observed and the variation in nucleotide sequences was studied. The results indicate that the variations of some parameters of electrophoresis for each species allowed higher resolution and hence detection of single nucleotide variations among clones initially clustered into the same group.


Assuntos
Doenças das Plantas/virologia , Polimorfismo Conformacional de Fita Simples , RNA Viral/genética , Viroides/genética , Sequência de Bases , Citrus/virologia , Eletroforese em Gel de Poliacrilamida/métodos , Humulus/virologia , Dados de Sequência Molecular , Conformação de Ácido Nucleico , Prunus/virologia , Pyrus/virologia , RNA Viral/classificação , Análise de Sequência de DNA , Viroides/classificação , Vitis/virologia
19.
Mikrobiol Z ; 75(5): 67-75, 2013.
Artigo em Russo | MEDLINE | ID: mdl-24479316

RESUMO

Phage populations of isolates from quince and pear affected with fire blight disease were studied using electron microscopy, restriction analysis and both agarose gel electrophoresis of particles and host range scoping method. The isolate from quince (pMA1) comprises at least three phage populations and two phage variants that can be detected on different bacterial indicators. After titration of this isolate on Erwinia amylovora the bacteriophage KEY of B1 morphotype with the genome size of 82.4 kb was identified. The isolate pMA1 also includes a unique phage population 4*, which can be identified on the test bacteria Pantoea agglomerans (Pag) g150. Two analogous populations being also present in the isolate pMA1 that appeared to be close phage variants with almost identical Hpal-restriction patterns can be identified using Pag g157 and 9/7-1. The situation is similar in the case of phage isolates from pear, pMG. Three phage populations identified in it using three different indicators represent the same phage of C1 morphotype (TT10-27) with a genome size of 71.4 kb. At least two other phage populations were also detected in the same isolate using P. agglomerans 9/7-2 as an indicator. A model system allowing the most efficient analysis of the isolates for the presence of different phage populations and phage variants in plants infected by fire blight disease has been developed. It provides for using three indicator enterobacterial species closely associated with the plants: E. amylovora, Erwinia "horticola" and Pagglomerans and ignoring of the phage cloning procedure.


Assuntos
Bacteriófagos/genética , Erwinia amylovora/virologia , Genoma Viral , Pantoea/virologia , Doenças das Plantas/virologia , Pyrus/virologia , Rosaceae/virologia , Bacteriófagos/classificação , Bacteriófagos/isolamento & purificação , Bacteriófagos/ultraestrutura , Enzimas de Restrição do DNA/metabolismo , Tamanho do Genoma , Microscopia Eletrônica , Tipagem Molecular , Doenças das Plantas/microbiologia , Reação em Cadeia da Polimerase , Pyrus/microbiologia , Rosaceae/microbiologia
20.
Virus Genes ; 44(2): 319-22, 2012 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-22006446

RESUMO

Japanese quince, ornamental and wild pear symptomless samples were infected with Apple stem pitting virus (ASPV). Identification of ASPV was achieved by different PCR assays that amplified either the RNA polymerase or coat protein gene regions. For further confirmation, 312 bp amplicons within the polymerase gene were sequenced and compared with previously published ASPV sequences and additional sequences of isolates from ancient Italian cultivars. Comparison of the partial sequences isolated from wild/ornamental hosts and from cultivated species revealed significant divergence levels. Among the wild/ornamental isolates, the PCT88 isolate from Pyrus calleryana was the most divergent, having an amino acid deletion and incorporating a unique stretch of amino acids not present in any other isolate. Further to this preliminary partial sequence data, statistical analysis demonstrated that the isolates from wild or ornamental hosts were not more closely related to each other than to isolates from cultivated hosts. These results represent the first report of natural ASPV infection in these novel ornamental and wild Rosaceae hosts.


Assuntos
Flexiviridae/isolamento & purificação , Flexiviridae/patogenicidade , Doenças das Plantas/virologia , Pyrus/virologia , Rosaceae/virologia , Sequência de Aminoácidos , Variação Genética , Dados de Sequência Molecular , RNA Viral/genética , Alinhamento de Sequência , Análise de Sequência de DNA
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