Screening of the closterovirus genome by degenerate primer-mediated polymerase chain reaction

Karasev, Alexander V.; Николаева, О. В.; Koonin, Eugene V.; Gumpf, D. J.; Garnsey, S. M.

doi:10.1099/0022-1317-75-6-1415

Cited by 39 publications

(21 citation statements)

References 30 publications

(36 reference statements)

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Downstream of ORF 1B, LIYV RNA 1 contains ORF 2. The protein encoded by this ORF, P34, shows no similarity to any proteins in the National Center for Biotechnology Information (NCBI) database (www.ncbi.nlm.nih.gov), but shows analogy in respect to its size and location to ORF 2 of CTV and BYSV (Dolja et al, 1994; Karasev et al, 1994) that belong to the genus Closterovirus . However, other criniviruses also encode proteins on RNA 1 downstream of ORF 1B, but these vary in size and possible function ( Figure 2 ).…”

Section: Genome Organizationmentioning

confidence: 99%

“…ORF 2 encodes the Hsp70h. This is conserved among closteroviruses, and before many closterovirus genomes were sequenced, conservation among the specific motifs shared among heat shock 70 proteins was used to design degenerate oligonucleotide primers that proved to be very useful for generic closterovirus detection (Karasev et al, 1994; Tian et al, 1996). Interestingly, additional conservation between the Hsp70h-related proteins of closteroviruses was observed in the C-terminal regions indicating that these domains might be involved in protein–protein interactions, and may be important for chaperone activity (Klaassen et al, 1995).…”

Section: Genome Organizationmentioning

confidence: 99%

See 1 more Smart Citation

Crinivirus replication and host interactions

2013

View full text Add to dashboard Cite

Criniviruses comprise one of the genera within the family Closteroviridae. Members in this family are restricted to the phloem and rely on whitefly vectors of the genera Bemisia and/or Trialeurodes for plant-to-plant transmission. All criniviruses have bipartite, positive-sense single-stranded RNA genomes, although there is an unconfirmed report of one having a tripartite genome. Lettuce infectious yellows virus (LIYV) is the type species of the genus, the best studied so far of the criniviruses and the first for which a reverse genetics system was developed. LIYV RNA 1 encodes for proteins predicted to be involved in replication, and alone is competent for replication in protoplasts. Replication results in accumulation of cytoplasmic vesiculated membranous structures which are characteristic of most studied members of the Closteroviridae. These membranous structures, often referred to as Beet yellows virus (BYV)-type vesicles, are likely sites of RNA replication. LIYV RNA 2 is replicated in trans when co-infecting cells with RNA 1, but is temporally delayed relative to RNA 1. Efficient RNA 2 replication also is dependent on the RNA 1-encoded RNA-binding protein, P34. No LIYV RNA 2-encoded proteins have been shown to affect RNA replication, but at least four, CP (major coat protein), CPm (minor coat protein), Hsp70h, and P59 are virion structural components and CPm is a determinant of whitefly transmissibility. Roles of other LIYV RNA 2-encoded proteins are largely as yet unknown, but P26 is a non-virion protein that accumulates in cells as characteristic plasmalemma deposits which in plants are localized within phloem parenchyma and companion cells over plasmodesmata connections to sieve elements. The two remaining crinivirus-conserved RNA 2-encoded proteins are P5 and P9. P5 is 39 amino acid protein and is encoded at the 5′ end of RNA 2 as ORF 1 and is part of the hallmark closterovirus gene array. The orthologous gene in BYV has been shown to play a role in cell-to-cell movement and indicated to be localized to the endoplasmic reticulum as a Type III integral membrane protein. The other small protein, P9, is encoded by ORF 4 overlaps with ORF 3 that encodes the structural protein, P59. P9 seems to be unique to viruses in the genus Crinivirus, as no similar protein has been detected in viruses of the other two genera of the Closteroviridae.

show abstract

Section: Genome Organizationmentioning

confidence: 99%

Section: Genome Organizationmentioning

confidence: 99%

Crinivirus replication and host interactions

2013

View full text Add to dashboard Cite

show abstract

“…Database searches of amino acid and nucleotide sequences gave no clue as to the possible function of the 33-kd protein. However, the sequenced portion of the beet yellow stunt virus (BYSV) genome contains a similarly located ORF that encodes a distantly related 30-kd protein (57). Second, the region down stream from the capsid protein gene contains four ORFs in CTV and only two ORFs in BYV.…”

Section: Citrus Tristeza Virus: Further Extension Of the Genomementioning

confidence: 99%

MOLECULAR BIOLOGY AND EVOLUTION OF CLOSTEROVIRUSES: Sophisticated Build-up of Large RNA Genomes

Dolja¹,

Karasev²,

Koonin³

1994

Annu. Rev. Phytopathol.

155

View full text Add to dashboard Cite

“…They are involved in a proper virion assembly [15] and in the cell-to-cell movement of virus particles [16]. The HSP70 gene was used as a basic target for initial molecular characterisation of a number of closteroviruses and evaluation of their genetic diversity [17][18][19][20][21][22]. Moreover, in case of several closteroviruses the HSP70 gene is the only sequenced part of their genome.…”

Section: Introductionmentioning

confidence: 99%

Analysis of the Molecular Variability of Grapevine Leafroll-associated Virus 1 Reveals the Presence of Two Distinct Virus Groups and their Mixed Occurrence in Grapevines

2005

View full text Add to dashboard Cite

Genetic diversity of eight Grapevine leafroll-associated virus 1 (GLRaV-1) isolates recovered from grapevines in three distinct locations in the Czech Republic and Slovakia was characterised by restriction fragment length polymorphism (RFLP) analysis and by sequencing of cloned 540 bp fragment of the heat shock protein 70 (HSP70) gene. Comparison and phylogenetic analysis of obtained and previously available sequence data revealed the existence of two groups of GLRaV-l isolates, tentatively named A and E (genetic divergence between A and E group reached 13.9%). An RT-PCR detection method followed by simple restriction analysis was developed, showing the potential to differentiate GLRaV-1 isolates of these groups. Interestingly, a mixed infection of two GLRaV-1 groups in the same plant was frequently detected together with a high intra-group variability in some isolates.

show abstract

Screening of the closterovirus genome by degenerate primer-mediated polymerase chain reaction

Cited by 39 publications

References 30 publications

Crinivirus replication and host interactions

Crinivirus replication and host interactions

MOLECULAR BIOLOGY AND EVOLUTION OF CLOSTEROVIRUSES: Sophisticated Build-up of Large RNA Genomes

Analysis of the Molecular Variability of Grapevine Leafroll-associated Virus 1 Reveals the Presence of Two Distinct Virus Groups and their Mixed Occurrence in Grapevines

Contact Info

Product

Resources

About