Screening of apple samples using a high-throughput sequencing (HTS) approach led to the discovery of a novel virus, tentatively named "Malus domestica virus A" (MdoVA). Its genomic organisation and phylogenetic relationship showed relatedness to viruses of the genus Velarivirus in the family Closteroviridae. It is not clear whether MdoVA has any impact on its host, as the analysed apple tree contained other viruses and a viroid.
We provide the complete sequence of a virus tentatively named "Tetranychus urticae-associated picorna-like virus 1PK13" (TuaPV1-PK13) obtained from the high-throughput sequencing of a symptomless apple leaf sample. Although the virus sequence was originally derived from apple leaves, the data suggest that the virus is associated with the two-spotted mite Tetranychus urticae.
Using high-throughput sequencing, a novel waikavirus was identified in a mixed virus infection of red clover (Trifolium pratense L.). Its complete genomic sequence was determined and characterized. The virus, tentatively named red clover associated virus 1 (RCaV1), is phylogenetically related to members of the genus Waikavirus (family Secoviridae, order Picornavirales).
- MeSH
- fylogeneze MeSH
- genom virový * MeSH
- molekulární sekvence - údaje MeSH
- nemoci rostlin virologie MeSH
- otevřené čtecí rámce MeSH
- satelitní viry klasifikace genetika izolace a purifikace MeSH
- sekvence nukleotidů MeSH
- sekvenční analýza DNA MeSH
- Trifolium virologie MeSH
- Waikavirus klasifikace genetika izolace a purifikace MeSH
- Publikační typ
- časopisecké články MeSH
Five isolates of a new member of the family Closteroviridae, tentatively named blackcurrant leafroll-associated virus 1 (BcLRaV-1), were identified in the currant. The 17-kb-long genome codes for 10 putative proteins. The replication-associated polyprotein has several functional domains, including papain-like proteases, methyltransferase, Zemlya, helicase, and RNA-dependent RNA polymerase. Additional open reading frames code for a small protein predicted to integrate into the host cell wall, a heat-shock protein 70 homolog, a heat-shock protein 90 homolog, two coat proteins, and three proteins of unknown functions. Phylogenetic analysis showed that BcLRaV-1 is related to members of the genus Closterovirus, whereas recombination analysis provided evidence of intraspecies recombination.
- MeSH
- Closterovirus klasifikace genetika izolace a purifikace ultrastruktura MeSH
- fylogeneze MeSH
- genetická variace MeSH
- genom virový MeSH
- genomika metody MeSH
- nemoci rostlin virologie MeSH
- otevřené čtecí rámce MeSH
- rekombinace genetická MeSH
- Ribes virologie MeSH
- RNA virová MeSH
- sekvence aminokyselin MeSH
- vysoce účinné nukleotidové sekvenování MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Research Support, U.S. Gov't, Non-P.H.S. MeSH
Strawberry crinkle disease is one of the major diseases that threatens strawberry production. Although the biological properties of the agent, strawberry crinkle virus (SCV), have been thoroughly investigated, its complete genome sequence has never been published. Existing RT-PCR-based detection relies on a partial sequence of the L protein gene, presumably the least expressed viral gene. Here, we present complete sequences of two divergent SCV isolates co-infecting a single plant, Fragaria x ananassa cv. Čačanská raná.
- MeSH
- fylogeneze MeSH
- genetická variace MeSH
- genom virový * MeSH
- jahodník virologie MeSH
- mapování chromozomů MeSH
- nemoci rostlin virologie MeSH
- Rhabdoviridae klasifikace genetika izolace a purifikace MeSH
- RNA virová genetika MeSH
- sekvence nukleotidů MeSH
- sekvenování celého genomu MeSH
- virové proteiny genetika MeSH
- Publikační typ
- časopisecké články MeSH
During their lifetime, perennial woody plants are expected to face multiple infection events. Furthermore, multiple genotypes of individual virus species may co-infect the same host. This may eventually lead to a situation where plants harbor complex communities of viral species/strains. Using high-throughput sequencing, we describe co-infection of sweet and sour cherry trees with diverse genomic variants of two closely related viruses, namely prunus virus F (PrVF) and cherry virus F (CVF). Both viruses are most homologous to members of the Fabavirus genus (Secoviridae family). The comparison of CVF and PrVF RNA2 genomic sequences suggests that the two viruses may significantly differ in their expression strategy. Indeed, similar to comoviruses, the smaller genomic segment of PrVF, RNA2, may be translated in two collinear proteins while CVF likely expresses only the shorter of these two proteins. Linked with the observation that identity levels between the coat proteins of these two viruses are significantly below the family species demarcation cut-off, these findings support the idea that CVF and PrVF represent two separate Fabavirus species.
During aetiological study of diseased red clover (Trifolium pratense L.) using high throughput sequencing, a novel virus with a 10 kb genome divided into two segments was discovered. The virus, tentatively named red clover associated varicosavirus (RCaVV), is phylogenetically related to classifiable members of the genus Varicosavirus (family Rhabdoviridae, order Mononegavirales). Analysis of mRNA levels from the individual RCaVV genes suggested possible differences in transcription regulation between rhabdoviruses with divided and undivided genomes.
- MeSH
- DNA viry klasifikace genetika izolace a purifikace MeSH
- fylogeneze MeSH
- genom virový MeSH
- nemoci rostlin virologie MeSH
- rostlinné viry klasifikace genetika izolace a purifikace MeSH
- sekvenční analýza DNA MeSH
- Trifolium virologie MeSH
- virové proteiny genetika MeSH
- vysoce účinné nukleotidové sekvenování MeSH
- Publikační typ
- časopisecké články MeSH
During high throughput sequencing (HTS) of leaves from a symptomatic red clover plant, a new RNA virus, tentatively named red clover nepovirus A (RCNVA), was discovered. The complete genomic sequence was determined and characterized. Particularly noteworthy was that RCNVA shares high sequence identities in RNA1 with a group of phylogenetically related nepoviruses while homologies in the RNA2 segments are markedly lower. Based on the genomic organization and phylogenetic attributes, RCNVA should be classified as a novel virus of the genus Nepovirus (subfamily Comovirinae, family Secoviridae, order Picornavirales).
The complete mitochondrial genome of the ascomycete fungus Phomopsis longicolla was sequenced using Illumina HiSeq platform. It consists of 53,439 bp with high (65.6%) A + T content and includes 14 conserved protein subunits of the mitochondrial oxidative phosphorylation system, two ribosomal RNAs and 25 tRNA genes. To our knowledge, this is the first complete mitochondrial genome of the Diaporthales member.
- MeSH
- Ascomycota genetika MeSH
- délka genomu MeSH
- genom fungální MeSH
- genom mitochondriální * MeSH
- kodon iniciační MeSH
- mitochondriální geny * MeSH
- molekulární evoluce MeSH
- pořadí genů * MeSH
- sekvenční analýza DNA MeSH
- terminační kodon MeSH
- vysoce účinné nukleotidové sekvenování MeSH
- zastoupení bazí MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Beauveria bassiana is a ubiquitous entomopathogen infecting hundreds of insect species. We have determined the genomic organization and the complete nucleotide sequence of a novel virus isolated from the isolate A24 of B. bassiana. Phylogenetic analysis of the polymerase gene reveals that the virus, tentatively named Beauveria bassiana virus 1, belongs to the family Amalgaviridae and represents a distinct lineage of amalgaviruses infecting fungi.
