- Volume 78, Issue 6, 1997

The aphid Myzus persicae (Sulz.) was shown to transmit potato spindle tuber viroid (PSTVd) to potato clone DTO-33 from source plants doubly infected with potato leafroll virus (PLRV) and PSTVd. Transmission was of the persistent type and did not occur when the insects were allowed to feed on singly infected plants. Only low levels of PSTVd were associated with purified PLRV virions, but its resistance to digestion with micrococcal nuclease indicates that the viroid RNA is encapsidated within the PLRV particles. Epidemiological surveys carried out at three locations in China revealed a strong correlation between PSTVd infection and the presence of PLRV, suggesting that PLRV can facilitate PSTVd spread under field conditions.

A 13-amino-acid peptide derived from the V3 loop of human immunodeficiency virus (HIV-1) glycoprotein 120 (gp120) was attached as a C-terminal gene fusion to the coat protein of tomato bushy stunt virus (TBSV). The architecture of this plant virus permitted external display of the foreign sequence 180 times on the surface of the chimaeric virus particle. The chimaera replicated to a level similar to wild-type TBSV and the foreign sequence was retained through six sequential passages in plants. The HIV epitope was detected on the surface of the virus capsid by a V3-specific monoclonal antibody and by human sera from HIV-1-positive patients, demonstrating the potential of using plant-derived chimaeric particles for diagnostic purposes. Chimaeric virus also induced a specific immune response to the foreign HIV epitope when injected into NMRI mice.

Pothos latent virus (PoLV) is an isometric virus with a positive-sense, single-stranded RNA genome of 4415 nt. The genome contains five open reading frames (ORF), coding for five proteins with approximate molecular masses of 25, 84, 40, 27 and 14 kDa, respectively. In vitro synthesized PoLV RNA was infectious to Nicotiana benthamiana plants and protoplasts, but could not support replication of the defective interfering (DI) and satellite RNAs associated with Cymbidium ringspot tombusvirus. No DI RNA related to PoLV was generated after repeated passaging with infected sap. Mutagenesis studiesdefined the role of the ORF 4 product (27 kDa) as a movement protein, and the ORF 5 product (14 kDa) as being responsible for symptom severity. Moreover, it was shown that the coat protein (CP) is important in regulating synthesis of the 14 kDa protein, excess production of which is lethal to infected plants. CP mutants defective in capsid formation infected plants systemically and induced severe necrotic symptoms. Conversely, CP mutants able to form apparently normal virus particles induced symptoms indistinguishable from those elicited by wild-type virus.

Mutational analysis of defective interfering (DI) RNAs of Cymbidium ringspot virus (CymRSV) was used to study the mechanism of DI RNA evolution. It was shown that a highly base-paired structure in the 3′ region of the longer DI RNA directed the formation of smaller DI RNA molecules. Mutations which increased the stability of the computer- predicted, highly structured 3′ region of the longest DI RNA of CymRSV significantly enhanced the generation and accumulation of the smaller derivatives. Sequence analysis of smaller progeny molecules revealed that the highly base-paired region was deleted from the precursor DI RNA. Moreover, sites of recombination were found in other regions of the DI RNA progenies due to transposition of the highly base-paired structure. It is likely that the deletion event was structure- and not sequence- specific, and operated when a foreign sequence containing a 37-nt-long base-paired stem was inserted at the appropriate position of DI RNA.

The complete genome sequence of tobacco necrosis virus strain D (Hungarian isolate, TNV-DH) was determined. The genome (3762 nt) has an organization identical to that reported for TNV-D. Highly infectious synthetic transcripts from a full- length TNV-DH cDNA clone were prepared, the first infectious necrovirus transcript reported. This clone was used for reverse genetic studies to map the viral genes required for replication and movement. Protoplast inoculation with Δ22 and Δ82 mutants revealed that both the 22 kDa and 82 kDa gene products are required for RNA replication. Although the products of three small central genes (p71, p7a and p7b) were not essential for RNA replication in protoplasts, mutations in these ORFs prevented infection of plants. In contrast, viral RNA accumulation and cell-to-cell movement were observed in the inoculated, but not the systemically infected, leaves of Nicotiana benthamiana challenged with RNA lacking the intact coat protein (CP) gene. These results strongly suggest that p71, p7a, p7b and CP are involved in TNV-DHcell-to-cell and longdistance movement, respectively.

Two mutant potato virus X (PVX) movement protein (MP) genes (m12K-Sal and m12K-Kpn) were obtained by inserting specific linkers at the boundary between the N-terminal hydrophobic and putative transmembrane segment, and the central invariant hydrophilic region of the respective 12 kDa, 12K, triple gene block (TGB) protein. Several transgenic potato lines which expressed m12K-Sal or m12K- Kpn to different degrees were resistant to infection by PVX, potato aucuba mosaic potexvirus and the carlaviruses potato virus M and S over a wide range of inoculum concentrations (3-300 μg/ml). However,theywere not resistantto potato virus Y, which lacks a TGB protein. We suggest that the resistance of m12K-Sal and m12K-Kpn transgenic potato lines is MP-derived and not RNA-mediated.

The RNA-dependent RNA polymerase (RdRp) of potato virus X (PVX) contains a glycine-lysine- serine (GKS) motif. This motif is present in the replication enzyme of many RNA viruses and is thought to be required for nucleoside triphosphatebinding. Three single amino acid changes, glycine to alanine (AKS), lysine to asparagine (GNS) and lysine to glutamate (GES) within the GKS motif of the PVX RdRp were tested for their effect on PVX accumulation. The GNS and GES mutations rendered the virus unable to accumulate in either tobacco plants or protoplasts, whereas substitution of glycine with alanine had only a minor effect on accumulation of PVX. The glycine to alanine mutation reverted to wild-type after passage on Nicotiana clevelandii plants. These findings suggest that the GKS motif is required for PVX replication and that strong selection pressures are active to maintain necessary sequences of the viral RdRp.

Partial sequences from serologically characterized yam mosaic potyvirus (YMV) isolates were determined in conserved (helper-component proteinase, HC; nuclear inclusion b, NIb) and variable (first protein, P1; third protein, P3; and coat protein, CP) regions of the potyviral genome in order to investigate the intraspecies molecular diversity of YMV. Multiple sequence alignments and pairwise comparisons were used to quantify the sequence polymorphism in these regions. Two levels of diversity were observed among YMV isolates: above 90% nucleotide (nt) sequence identities were found between YMV isolates of the same group (intragroup) regardless of the region considered, whereas identities between isolates from different groups (intergroup) were lower and depended upon the protein chosen. For instance, the average intergroup nt sequence identity between YMV isolates was about 65% in the P1 protein and the N terminus of the CP while there was more than 80% nt identity in the HC, P3 and NIb proteins. Thus P3 appeared to be conserved between YMV isolates even though this region was variable between potyvirus species. Similar analysis of the intraspecies molecular diversity of other potyviruses (potato virus Y, zucchini yellow mosaic virus, plum pox virus, pea seed-borne mosaic virus) led to the same results: (i) two levels of intraspecies molecular diversity were found (intragroup and intergroup); (ii) intraspecies molecular diversity differed from interspecies molecular diversity in the P3, P1 and N- terminal regions.

Maize streak virus (MSV) coat protein (CP) is required for virus movement within the plant. Deletion or mutation of MSV CP does not prevent virus replication in single cells or protoplasts but leads to a loss of infectivity in the inoculated plant. The mechanism by which MSV CP mediates the transfer of MSV DNA from cell to cell and through the vascular bundle is still unknown. Towards understanding the role of MSV CP in virus movement, the interaction of the CP with viral DNA was investigated using the ‘south-western’ assay. Wild-type and truncated MSV CPs were expressed in E. coli and the expressed CPs were used to investigate interactions with single-stranded (ss) and double-stranded (ds) DNA. The results showed that MSV CP bound ss and ds viral and plasmid DNA in a sequence non-specific manner. The binding domain was mapped to within the 104 N-terminal amino acids of the MSV CP. We propose that the binding of CP to MSV DNA is involved in viral DNA nuclear transport as well as encapsidation and thus may have a role in intra- and inter-cellular movement as well as systemic infection.

RNA transcribed from cloned satellite tobacco mosaic virus (STMV) cDNA replicated in Nicotiana benthamiana protoplasts when co-inoculated with tobacco mild green mosaic virus (TMGMV) genomic RNA, but degraded when inoculated alone. STMV genomic RNA extracted from wild-type virions replicated in protoplasts when co-inoculated with TMGMV, tobacco mosaic virus (TMV) or tomato mosaic virus (ToMV). Transcripts from clones of two STMV coat protein (CP) mutants accumulated to the same level as wild-type transcripts in protoplasts when co-inoculated with TMGMV, whereas a third mutant accumulated to detectable levels in some, but not all, experiments. These results confirm that STMV RNA requires helper virus for replication, and that the helper specificity exhibited by cloned STMV reflects a specific requirement for the TMGMV replicase. It also demonstrates that the low accumulation of STMV CP mutants observed previously in whole plants cannot be attributed to inefficient RNA replication.

Isolates of groundnut rosette umbravirus (GRV) contain a satellite RNA(sat-RNA), about 900 nucleotides (nt) in length, different variants of which are responsible for the symptoms of different forms of rosette disease in groundnuts and, in the particular instance of sat-RNA YB3b, for the production of yellow blotch symptoms in Nicotiana benthamiana. Sat-RNA YB3b does not affect the accumulation of GRV genomic or subgenomic RNAs in infected plants. Replication of sat-RNA YB3b and induction of yellow blotch symptoms do not require the production of any sat-RNA-encoded proteins. Experiments with deletion mutants identified three functional untranslated elements in sat-RNA YB3b. One (designated R) comprises nt 47–281, is essential for sat-RNA replication and appears to be cis-acting. The other two (designated A and B) comprise nt 280–470 and 629–849, respectively, are both involved in yellow blotch symptom production and can act in trans. Element A contains the determinant that is unique to sat-RNA YB3b. The process of symptom induction by sat-RNA YB3b apparently involves a novel type of specific interaction of two untranslated RNA elements, which can complement each other, with a host factor or factors.

Three distinct genotypes were identified amongst 50 measles virus (MV) strains characterized in the UK between 1992 and 1995 by direct sequencing of the RT-PCR products amplified from clinical specimens. All three genotypes were related to viruses previously reported in the United States or in continental Europe. Phylogenetic analyses of 255 and 152 nucleotide sequences from the N and M genes, respectively, generated very similar lineages. The degree of divergence between genotypes was 3·5–16% and 2·6–7·9% in the N and the M genes, respectively. MV genotypes which circulated during the 1970s and 1980s in the UK were not detected in this period. Comparison of the C-terminal regions of the N gene sequences of UK strains isolated or detected between 1974 and 1995 suggests that there have been multiple genotypes of MV circulating in the UK over the past 20 years.

The haemagglutinin protein (H) of measles virus (MV) binds to susceptible cells and collaborates with the fusion protein (F) to mediate fusion of the virus with the cell membrane. Binding and fusion activity of the virus can be monitored by haemagglutination and haemolysis, respectively, of monkey erythrocytes. Most monoclonal antibodies (MAbs) with haemolysis inhibiting activity (HLI ) are either MV-F specific and do not inhibit haemagglutination (HI ), or they bind to MV-H and are HI by interfering with virus binding. We describe here a small panel of H- specific MAbs (BH47, BH59, BH103, BH129) which bind to a new linear neutralizing epitope, H244–250 (SELSQLS; NE domain), and which prevent virus-cell fusion (HLI ) but not virus binding (HI ). These antibodies also protect against MV encephalitis in an animal model. They do not compete with an HLI /HI antibody (BH216) which binds to the haemagglutinin noose epitope (HNE). The antibodies described here and the HNE-specific antibodies are functionally distinct and define two topographically non-overlapping interfaces, supposedly with a bias towards the host cell MV- receptor and the fusion protein respectively. The proximity of the CD46 downregulating amino acid Arg-243 may suggest a functional link between the domain described here and the CD46 binding domain. This new protective linear site is also of potential interest for the design of a subunit-based vaccine.

The epitopes recognized by 42 monoclonal antibodies directed against the human parainfluenza virus type 2 (hPIV-2) phosphoprotein (P) were mapped on the primary structure of the P protein by testing their reactivities with deletion mutants. By Western immunoblotting with these monoclonal antibodies and P protein deletion mutants the region essential for P-P interactions was determined. The P protein region encompassing amino acids 211–248 was required for proper folding and oligomerization which is mediated by predicted coiled-coils in this region. The oligomer was shown to be a homotrimer by chemical cross-linking experiments.

A 1622 nucleotide region of the bovine ephemeral fever virus (BEFV) genome, located between the second glycoprotein (GNs) gene and the polymerase (L) gene, has been cloned and sequenced in Australian (BB7721) and Chinese (Beijing-1) isolates of the virus. In the Australian isolate, the region contains five long open reading frames (ORFs) organized into three coding regions (α,β and γ), each of which are bound by a consensus transcription initiation and transcription termination- polyadenylation-like sequences. The α coding region contains three long ORFs (α1, α2 and α3). The a1 ORF encodes a 10 6 kDa polypeptide which contains hydrophobic and highly basic regions characteristic of a viroporin. The α2 ORF encodes a 13 7 kDa polypeptide and overlaps the a3 ORF which encodes a 5·7 kDa polypeptide. The β coding region contains a single long ORF encoding a polypeptide of 12·2 kDa. The y coding region, which does not occur in Adelaide River virus (ARV), contains a single long ORF encoding a polypeptide of 13·4 kDa. The Chinese isolate shares 91% nucleotide sequence identity with the Australian isolate. The organization of the α, β and γ coding regions is preserved and the sequences of the encoded polypeptides are similar to those of BB7721. The major transcription products of the region were identified in BB7721 as polycistronic a (α1-α2-α3) and β-γ mRNAs. Sequence similarities in the BEFV α-β and β-γ gene junctions, and the γ-L and β-L gene junctions of BEFV and ARV, suggest that the γ gene may have evolved from the β-gene by sequence duplication.

RT-PCR methods have been applied to the detection and sequencing of the glycoprotein gene of viral haemorrhagic septicaemia virus (VHSV), the rhab- dovirus which causes viral haemorrhagic septicaemia (VHS) in farmed salmonid fish. Phylogenetic analysis of a 360 nt region of the glycoprotein gene from a range of marine and fresh water VHSV isolates identified three genogroups, I-III. Significantly, two virus isolates recovered from ulcerated North Sea cod caught off the Shetland Islands, and an isolate recovered from diseased turbot farmed on the island of Gigha, Scotland were assigned to the same genogroup. Moreover, a virus isolated from diseased turbot farmed on the Baltic Sea coast shared 99·4% nucleotide sequence similarity with a virus associated with a VHS outbreak in rainbow trout. This is the first time that a genetic link between a VHS outbreak and natural VHSV infections of marine fish species has been demonstrated.

An influenza C virus variant, C/AA-cyt, was identified as the agent responsible for highly effective induction of cytopathogenicity in MDCK cells. The cytopathogenic effect was manifested by cell rounding, cell shrinkage and foci of cell destruction leading finally to disruption of the monolayer in a virus dose-dependent manner. Virus-induced cyto- pathogenicity was suppressed by temperatures nonpermissive for virus replication. Maintenance of plasma membrane integrity post-infection, in connection with induction of a DNA fragmentation ladder, revealed the characteristic picture of apoptosis. In support of this, quantitative analysis demonstrated high levels of apoptosis-like oligo- nucleosomal DNA. The results indicate that influenza C viruses can induce programmed cell death, as formerly reported for influenza type A and B viruses.

Hepatitis C virus (HCV) core protein forms the internal viral coat that encapsidates the genomic RNA and is enveloped in a host cell-derived lipid membrane. As the single capsid protein, core should be capable of multimerization but attempts to produce virus-like particles following expression of HCV structural proteins have not been successful. In this study, we have analysed the interaction capacity of full-length and truncated HCV core using the yeast two-hybrid system. Full-length core containing or lacking the translocation signal for the E1 glycoprotein did not interact with full-length or truncated core proteins. Truncation to the N-ter- minal 122 aa revealed an interaction domain which was mapped to the tryptophan-rich sequence from aa 82–102 and was termed the main homotypic interaction domain. The C-terminal hydrophobic fragment of core (aa 122–172) was incapable of interacting with itself but interacted with the main homotypic interaction domain in trans (the weak heterotypic interaction domain). Core proteins truncated at their N and C termini (aa 46-102) were trans-activating when fused to the DNA-binding domain of GAL4. Based on our results, we suggest that the C-terminal segment may interact in cis with the main homotypic interaction domain and thereby prevent multimerization. Core-core interaction was also observed for in wtro-translated proteins bound to truncated immobilized core102. However, interaction was less specific in this system suggesting that protein interaction and possibly conformational alteration of core may be dependent on the experimental system.

Hepatitis C virus (HCV) type 4 is the predominant genotype found throughout the Middle East and parts of Africa, often in association with high population prevalence as in Egypt. To investigate more fully its evolutionary relationship with other genotypes of HCV, and to study its overall genome organization, we have determined the entire sequence encompassing the coding region of the genotype 4a isolate ED43, obtained from an HCV- infected individual from Egypt. The sequence of ED43 contained a single open reading frame encoding a polyprotein of 3008 amino acids (aa), smaller than that reported for other HCV genotypes which vary from 3010 aato 3037 aa.The nucleotide and amino acid sequences were compared with the full-length sequences already reported for genotypes 1a, 1b, 1c, 2a, 2b, 2c, 3a, 3b and those of isolates JK049 and JK046 described as types 10a and 11a. The differences in length of the polyprotein originated in variable regions in the E2 and NS5A genes. The complete sequence of ED43 confirmed the classification of type 4 as a separate major genotype.