Rubus host range of rubus yellow net virus and its involvement with other aphid-borne latent viruses in inducing raspberry veinbanding mosaic disease

After graft inoculation with rubus yellow net virus (RYNV), 12 of 34 Rubus species and cultivars developed noticeable symptoms. R. macraei developed the most conspicuous symptoms and is recommended as an improved indicator plant. In attempts to determine the cause of raspberry veinbanding mosaic, a disease in which RYNV is involved, several European and North American red raspberry cvs were graft-inoculated with RYNV and three other aphid-borne viruses, black raspberry necrosis (BRNV), raspberry leaf mottle (RLMV) and raspberry leaf spot, singly and in all combinations. In periods of up to 4 yr, classical veinbanding mosaic symptoms developed in sensitive cvs only when they contained both RYNV and RLMV. These symptoms were intensified in plants co-infected with additional viruses. Veinbanding mosaic disease did not develop in any of 11 cvs infected with RYNV + BRNV, the combination of viruses previously assumed to be responsible for this disease in Britain and North America.     

Epidemiology of Raspberry Bushy Dwarf Virus in the Czech Republic

Extensive monitoring of the raspberry bushy dwarf virus (RBDV) in cultivated raspberry, wild raspberry and blackberry was conducted in 1994‐99. RBDV was revealed by ELISA in 31.6% of field samples, 15.7% plants in germplasm collections and in 43.8% of propagated plants. Infected cultivars were Aborigen, Balzam, Brigantina, Bulharský Rubín, Canby, Comox, F‐103, Findus, Gatineau, Glen Moy, Granát, Heritage, Lloyd George, M‐101, Mája, Meeker, Norfolk Giant, Norna, NS?‐1D‐101, Skeena, Trent, Veten, ZamatoS? and Zeva. The virus was detected in 6.5 and 6.7% of wild raspberry and wild blackberry plants, respectively, at 22.8% and 11.4% of sampled locations. Vegetatively propagated plants seem to be the main source for virus spread in cultivated raspberry, rather than naturally infested wild Rubus populations.     

Incidence and genetic diversity of raspberry bushy dwarf virus (RBDV) in Rubus spp. in Turkey

Raspberry bushy dwarf virus (RBDV), recently renamed to Idaeovirus rubi, is one of the most common viruses infecting Rubus species worldwide but there is still a limited number of genome sequences available in the GenBank database and the majority of the sequences include partial sequences of RNA-1 and RNA-2. The distribution and incidence of RBDV in main raspberry and blackberry growing provinces in Turkey were monitored during 2015–2019 and 537 Rubus spp. samples were tested by both DAS-ELISA and RT-PCR. Among the tested samples, 36 samples tested positive for RBDV by DAS-ELISA and 67 samples by RT-PCR. There was relatively low nucleotide diversity among the Turkish isolates. Turkish isolates shared 93%–97.7%, 84.3%–98.9%, and 85%–99.2% nucleotide sequence identities with available sequences in the GenBank, in partial RNA-1, movement protein (MP) and coat protein (CP) genes, respectively. In the phylogenetic tree constructed for RNA-1, MP, and CP sequences, all Turkish raspberry isolates were clustered in a distinct clade. However, the blackberry isolates showed considerable variation in nucleotide sequences and were placed in three distinct groups. The divergent blackberry isolates showed high variability in MP (84.5%–89.3%) and CP (85.5%–89.7%) regions and were placed in a distinct group. The rest of blackberry isolates clustered together with sweet cherry RBDV isolates adjacent to the grapevine clade or together with raspberry isolates. The comparative analysis conducted on three RNA segments of RBDV highlighted the high sequence diversity of Turkish RBDV isolates. This study also emphasizes the importance of regular monitoring of RBDV infections in Turkey, with special regard to those Rubus spp. and grapevine accessions employed in conservation and selection programmes. In particular, the presence of new RBDV genetic variants and infection of Rubus species must be taken into account to choose a correct detection protocol and management strategy.     

Isolates of raspberry bushy dwarf virus differing in Rubus host range

Isolates of raspberry bushy dwarf virus (RBDV) occurring in the field at East Mailing Research Station (EMRS), and an isolate from raspberry seed imported from the USSR, were found to differ from the Scottish type isolate (D200) of RBDV in that they infected red raspberry cultivars that are resistant, possibly immune, to isolate D200. Of several red raspberry, blackberry and hybrid berry cultivars and EMRS raspberry selections graft-inoculated with these recently discovered RBDV isolates only two raspberry cvs (Haida and Rannaya Sladkaya) and one EMRS selection did not become infected. Differences in the conclusions reached in two previous studies on the inheritance of resistance to RBDV in raspberry can be explained by the use of virus isolates that differed in Rubus host range.     

Unusual filamentous virus-like particles in symptomless blackberry associated with severe leaf curling in the virus indicator Rubus macraei, and anomalous data using a degenerate badnavirus primer in PCR of Rubus species

Electron microscopy of ultrathin sections of leaves of symptomless Himalaya Giant blackberry and of the virus indicator species, Rubus macraei, showing severe leaf curl symptoms following graft inoculation with scions from this blackberry, detected highly flexuous virus‐like particles with an unusual ‘beaded’ structure. Such particles were restricted to a few vascular cells and were distinct from P‐protein common in some such cells. This virus, provisionally named Hawaiian rubus leaf curl virus (HRLCV), symptomlessly infected a wide range of Rubus species and cultivars. Badnavirus‐like bacilliform particles were observed in some cells of a single R. macraei plant showing leaf curl symptoms following graft inoculation with the causal agent of this disease symptom from Himalaya Giant blackberry after passage through red raspberry, but not in any other material. PCR with primer sets for the badnaviruses Rubus yellow net virus and Gooseberry veinbanding associated virus, showed that no Rubus sources studied contained these viruses. However, using a sequence‐specific primer set designed from the sequence of the product generated with a badnavirus degenerate primer set, a specific product was amplified from healthy plants of all of 16 raspberry cultivars and two Rubus species, but not from 16 blackberry cultivars (including cv. Himalaya Giant). All of these sources were free from viruses known to occur in Rubus. Sequence analysis of this product showed no homology with any known badnavirus, or with any other published sequences. It seems most likely therefore that a region of the raspberry genome has been amplified using the degenerate badnavirus primer set and that it is absent from the blackberry genome.     

Further studies on double-stranded RNA species from raspberry plants infected with aphid-borne viruses

Analysis by electrophoresis in polyacrylamide gels, followed by silver staining, of dsRNA extracted from many samples of raspberry leaves infected with raspberry leaf mottle virus (RLMV) and/or raspberry leaf spot virus (RLSV) failed to detect reliably any significant quantities of dsRNA species in excess of 1·0 × 10⁶mol. wt. This contrasts with results reported from Canada where three dsRNA species of estimated mol. wt 2·6 × 10⁶1·6 × 10⁶and 1·1 × 10⁶were consistently associated with infection with RLSV but none were associated with RLMV. However, in Scotland, four dsRNA species of estimated mol. wt 2·4 × 10⁶1·6 × 10⁶0·7 × 10⁶and 0·3 × 10⁶were detected in raspberry infected with apple mosaic ilarvirus. These results suggest that the dsRNA species reported from Canada are not those of RLSV but are probably those of a second virus, possibly an ilarvirus, which occurs together with RLSV and/or induces similar symptoms. A few samples from plants infected with RLMV and RLSV contained very small amounts of two dsRNA species of estimated mol. wt 4·7 × 10⁶and 4·5 × 10⁶. It is not known whether these species are those of RLMV and RLSV.     

Molecular detection and characterisation of black raspberry necrosis virus and raspberry bushy dwarf virus isolates in wild raspberries

Virus‐derived small interfering RNAs (siRNAs) were extracted from leaves of wild raspberries (Rubus idaeus) sampled from three different regions in Finland and subjected to deep sequencing. Assembly of the siRNA reads to contigs and their comparison to sequences in databases revealed the presence of the bipartite positive‐sense single‐stranded RNA viruses, raspberry bushy dwarf virus (RBDV, genus Idaeovirus), and black raspberry necrosis virus (BRNV, family Secoviridae) in 19 and 26 samples, respectively, including 15 plants coinfected with both viruses. Coverage with siRNA reads [21 and 22 nucleotides (nt)] was higher in BRNV‐FI (Finland) RNA1 (79%) than RNA2 (45%). In RBDV, the coverage of siRNA reads was 89% and 90% for RNA1 and RNA2, respectively. Average depth of coverage was 1.6–4.9 for BRNV and 16.5–36.5 for RBDV. PCR primers designed for RBDV and BRNV based on the contigs were used for screening wild raspberry and a few cultivated raspberry samples from different regions. Furthermore, the sequences of BRNV RNA1 and RNA2 were determined by amplification and sequencing of overlapping contigs (length 1000–1200 nt) except for the 3′ and 5′ ends of RNA1 and RNA2 covered by primers. RNA1 of the Finnish BRNV isolate (BRNV‐FI) was 80% and 86% identical to BRNV‐NA (USA) and BRNV‐Alyth (UK), respectively, whereas the identity of NA and Alyth was 79%. RNA2 of BRNV‐FI was 84% and 80% identical to BRNV‐NA and BRNV‐Alyth, respectively, whereas NA and Alyth were 82% identical. Hence, the strains detected in Finland differ from those reported in the UK and USA. Our results reveal the presence of BRNV in Finland for the first time. The virus is common in wild raspberries and nearly identical isolates are found in cultivated raspberries as well. The results show that wild raspberries in Finland are commonly infected with RBDV or BRNV or both viruses and thus are likely to serve as reservoirs of RBDV and BRNV for cultivated Rubus spp.     

Natural infection with raspberry bushy dwarf virus (RBDV) of the putatively RBDV-resistant red raspberry cultivar Glen Moy, and the demonstration that it does not contain the RBDV resistance gene, Bu

When released to commerce in 1981, the red raspberry cv. Glen Moy was reported to be immune to the Scottish type isolate of raspberry bushy dwarf virus (RBDV-D200). Field observations of this cultivar in localities where RBDV was prevalent tended to support this claim of its resistance, but in the past 6–10 yr, RBDV infection has been reported in this cultivar in Australasia, USA and in several commercial crops in England. Therefore, experiments were made to investigate the reason(s) for this apparent anomaly using RBDV-infected material, putatively of cv. Glen Moy, from two locations in southern England and one each from Australia, New Zealand (NZ) and the USA. Genetic fingerprinting of genomic DNA from samples of these five RBDV-infected raspberry sources confirmed their identity as cv. Glen Moy. Comparisons of some serological and genomic properties of the five Glen Moy RBDV isolates indicated that, whilst they shared many properties with previously well characterised isolates of this virus, they were distinguishable from them. Characterisation of the isolate from NZ maintained in raspberry showed that it did not have a Rubus host range characteristic of resistance-breaking (RB) isolates, indicating that for this location, and probably also for those of Australia and the USA, RB isolates were not the cause of infection in cv. Glen Moy. When virus-tested plants of cv. Glen Moy and 45 progeny seedlings from the cross between cv. Glen Moy and the RBDV-susceptible cv. Autumn Bliss were graft inoculated with RBDV-D200, all grafted plants became infected indicating that cv. Glen Moy does not contain the RBDV resistance gene, Bu. Possible reasons for the previously reported resistance of cv. Glen Moy to RBDV are discussed.     

Effects of virus genotype and temperature on seed transmission of nepoviruses

Transmission of different nepoviruses through chickweed (Stellaria media) seed was differently affected by ambient temperature during seed production. Raspberry ringspot and tomato black ring (Scottish isolate) viruses were similarly and frequently transmitted at 14 , 18 and 22 ^oC, whereas arabis mosaic virus was transmitted most frequently at 14 ^oC, and strawberry latent ringspot and tomato black ring (German isolate) viruses at 22 ^oC. When infected by seed-borne nepoviruses, seedlings of S. media and other species were symptomless at 15–25 ^oC, and the viruses were therefore detected by inoculating sap to Chenopodium quinoa indicator plants. However, typical symptoms of arabis mosaic and tomato black ring viruses were induced by growing Nicotiana tabacum, N. clevelandii and C. quinoa seedlings infected with seed-borne virus at 33–37 ^oC during the third and fourth weeks after sowing, preceded and followed by periods at 15–25 ^oC. The proportion of N. tabacum seedlings developing symptoms was the same as that of untreated seedlings yielding sap-transmissible virus. Seed transmissibility of pseudo-recombinant isolates of raspberry ringspot and tomato black ring viruses, containing RNA-i from one virus strain and RNA-2 from another strain, depended greatly on the transmissibility of the strain contributing RNA-i. The source of RNA-2 had an additional but smaller influence. The satellite RNA (RNA-3) of tomato black ring virus was seed-transmitted in S. media and its occurrence in cultures did not affect the frequency of transmission of the virus. Results of testing the infectivity of extracts of seed from infected mother plants suggested that failure of seed transmission reflected failure to become established in the seed, not subsequent inactivation. Whereas seed transmissibility of raspberry ringspot virus is primarily dependent on information carried in RNA-i, transmissibility by nematode vectors, another property of major ecological importance, is determined by RNA-2. In the field, selection pressures presumably can act independently on the two parts of the genome but evidence was also obtained of selection for mutual compatibility of RNA-i and RNA-2.     

Infectibility of some new raspberry cultivars with arabismosaic and raspberry ringspot viruses and further evidence for variation in British isolates of these two nepoviruses

In field trials at sites of an outbreak of arabis mosaic nepovirus (AMV) in England and of raspberry ringspot nepovirus (RRV) in Scotland, the results of exposure of some new raspberry cultivars to natural infection with these viruses showed discrepancies from those obtained in graft inoculation tests using AMV-Lib and RRV-S, the Scottish type isolates. In particular, cv. Glen Prosen, which is immune to AMV-Lib and RRV-S, was infected with AMV and RRV in the field trials. Studies on these and other field isolates of AMV and RRV showed that they differed from the type isolates in Rubus host range and in symptomatology in herbaceous hosts. However, whereas four isolates of RRV found infecting Rubus were distinguishable by spur formation in gel double-diffusion serological tests, six AMV isolates were indistinguishable by this method. Immunoelectrophoresis of virus particles did not distinguish the six AMV isolates, but isolates RRV-MX and RRV-T were distinguishable from RRV-S and the English type isolate, RRV-E. Like the two RRV type isolates, RRV-MX contained a single electrophoretic component, but it migrated must faster whereas RRV-T contained two components, one with a migration rate similar to that of RRV-MX and the other similar to that of the type isolates. Polyacrylamide gel electrophoresis of protein preparations from highly purified virus particles of RRV isolates E, S and MX detected a single polypeptide of estimated mol. wt 54 × 10³, 54 × 10³ and 50 × 10³ respectively but that of isolate T contained two polypeptides of estimated mol. wt 54 × 10³ and 50 × 10³. These data suggest that RRV-T is a mixture of two isolates. In laboratory tests the nematode Xiphinema diversicaudatum transmitted four isolates of AMV efficiently whereas two populations of the nematode Longidorus elongatus were less efficient vectors of four RRV isolates. Neither vector species transmitted virus to any of nine raspberry cultivars. The results are discussed in relation to the control of nepoviruses in raspberry and to the biology of these viruses.     

Virus infections reduce in vitro multiplication of ‘Malling Landmark’ raspberry

Summary Virus-infected plants are often symptomless and may be inadvertently used as explant sources in tissue culture research. Our objective was to determine the effect of virus infection on micropropagation. We studied the effects of single and multiple infections of three common raspberry viruses on the in vitro culture of ‘Malling Landmark’ red raspberry (Rubus idaeus L.). Virus-infected reaspberry plants were produced by leaf-graft inoculation from known-infected plants onto virus-free ‘Malling Landmark’. Single-virus source plants were infected with either tobacco streak ilarvirus (TSV), tomato ringspot nepovirus (TomRSV), or raspberry bushy dwarf idaeovirus (RBDV) and were free of other viruses as determined by enzyme-linked immunosorbent assay (ELISA) and bioassay. Virus-free, single, and multiple virus-infected ‘malling Landmark’ explants were initiated into culture and multiplied on Anderson's medium with 8.9 μM N⁶-benzyladenine (BA). At the end of the multiplication tests, ELISA reconfirmed virus infections. In vitro multiplication of ‘Malling Landmark’ was significantly reduced by multiple infections, and multiplication of plants infected with all three viruses (RBDV+TomRSV+TSV) was less than half that of virus free cultures. Shoot height and morphology of in vitro cultures were not influenced by virus infection. The greenhouse stock plant with the three-virus infection was stunted and yellow compared to the control and the other infected plants. Part of a thesis submitted by C.-W.V.T. in partial fulfilment of the requirements for the MS degree. The use of trade names in this publication does not imply endorsement by the U.S. Department of Agriculture or Oregon State University.     

Identification of Rubus yellow net virus as a distinct badnavirus and its detection by PCR in Rubus species and in aphids

Rubus yellow net virus (RYNV) infects Rubus species and cultivars worldwide and is an essential component of raspberry veinbanding mosaic (RVBMD), a virus disease complex that causes serious decline in plant vigour and productivity. The virus is transmitted, probably in a semi‐persistent manner, by the large raspberry aphid, Amphorophora idaei in Europe, and A. agathonica in North America. The particles of RYNV are bacilliform in shape and measure 80–150 × 25–30 nm, similar to those of badnaviruses. A1.7 kb fragment of the viral DNA was amplified by PCR and then directly sequenced. Analysis of this sequence suggests that RYNV is possibly a distinct species in the genus Badnavirus and is most closely related to Gooseberry vein banding associated virus (GVBAV) and Spiraea yellow leaf spot virus, two other badnaviruses described recently. Using the sequence derived from the PCR‐amplified viral DNA fragment, RYNV‐specific primers were designed and used in PCR to assay for RYNV in a range of Rubus germplasm infected with RYNV, with other unrelated viruses and virus‐like diseases found in Rubus, and in healthy plants. RYNV was detected in all glasshouse cultures of RYNV‐infected plants, whether alone or in complex infections with other viruses, but not from healthy Rubus plants, nor from plants infected with other viruses. It was also detected in field‐grown raspberry plants with and without symptoms of RVBMD and in raspberry plants infected with RYNV by viruliferous A. idaei. RYNV was also detected by PCR in A. idaei following access feeds on RYNV‐infected plants of 1 h or more. PCR failed to amplify DNA from gooseberry infected with GVBAV confirming the specificity of the RYNV analysis. PCR detection of RYNV in dormant raspberry buds allows assays to be made outside the natural growing season, providing a useful application for plant introduction and quarantine programmes.     

A damaging outbreak of arabis mosaic nepovirus in blackcurrant, the occurrence of other nepoviruses in Ribes species, and the demonstration that alfalfa mosaic virus is the cause of interveinal white mosaic in blackcurrant

In a crop of blackcurrant (Ribes nigrum), cv. Baldwin in Eire, chlorotic mottling and ringspot symptoms in leaves on plants and severe crop loss was associated with infection with arabis mosaic nepovirus (ArMV) and the presence in the soil of its nematode vector, Xiphinema diversicaudatum. This is only the second report of ArMV damaging a crop of blackcurrant. Tomato black ring (TBRV) and raspberry ringspot nepoviruses were detected in single plants of redcurrant (R. rubrum) in England and flowering currant (R. sanguineum) in Scotland respectively; each of these infected plants showed foliar chlorotic line-pattern symptoms. This is the first record of TBRV in redcurrant. A single blackcurrant plant in New Zealand showing symptoms typical of those described for interveinal white mosaic disease, contained alfalfa mosaic virus (AMV). When AMV particles were purified and concentrated from herbaceous test plants and mechanically inoculated to young blackcurrant plants, several became infected with AMV and most infected plants developed systemic symptoms typical of the original disease. This provides the strongest evidence to date that AMV is the causal agent of interveinal white mosaic disease.     

Immunity from raspberry vein chlorosis virus in raspberry and its potential for control of the virus through plant breeding

The apparent immunity of five cultivars of red raspberry and two of black raspberry from graft inoculation with raspberry vein chlorosis virus (RVCV) was established or confirmed. The segregations obtained from selfs and crosses with infectible cultivars of four of the red raspberry cultivars and the black raspberry cultivar Cumberland indicated that the apparent immunity was not determined by a single major gene. The range in severity of the symptoms expressed in the segregates suggested either that sensitivity to infection is under separate genetic control, or that immunity and sensitivity are opposite expressions of a character which varies continuously rather than discontinuously. Nevertheless, although the precise mechanism of immunity remains unclear, the high proportion of immune segregates obtained in crosses indicated that breeding for immunity from RVCV is feasible and offers the best prospect for control of the virus.     

Spread of raspberry bushy dwarf virus by pollination, its association with crumbly fruit, and problems of control

Raspberry bushy dwarf virus (RBDV) was transmitted to raspberry seed both through the pollen and through the ovule and it infected plants pollinated with infected pollen. It did not infect plants prevented from flowering, and transmission through pollen seems to be the only method of spread in the field; in the proximity of infectors, most plants became infected during the first two or three flowering seasons. Plants containing RBDV showed no obvious symptoms, but healthy or infected flowers pollinated with infected pollen produced ‘crumbly’ fruit, containing a high proportion of aborted drupelets. RBDV was difficult to eliminate from infected raspberry by heat therapy. Raspberry cultivars that fail to become infected naturally were also immune to infection by grafting. Use of immune cultivars offers the only method of control and, because infected plants may produce crumbly fruit, future cultivars should if possible possess immunity to RBDV.     

Seed-transmission of nematode-borne viruses

Transmission through seed of crop and weed plants seems to be characteristic of nematode-borne viruses. It occurred with tomato black ring virus (TBRV) in nineteen species (thirteen botanical families), with arabis mosaic virus (AMV) in thirteen species (eleven families), with raspberry ringspot virus (RRV) in six species (five families), and also, in more limited tests, with tomato ringspot, cherry leaf roll and tobacco rattle viruses. A remarkable feature was that infected seedlings, except those containing tobacco rattle virus, often appeared healthy. The occurrence and extent of seed-transmission depended on both the virus and the host plant. In many progenies more than 10%, and in some 100%, of seedlings were infected. The viruses were transmitted through at least two or three generations of seed of those host species tested. After 6 years' storage, TBRV- and RRV-containing seed of Capsella bursa-pastoris and Stellaria media germinated to give infected seedlings. In controlled crossing experiments with strawberry and raspberry, virus was transmitted to seed from both male and female parents but, at least in raspberry, the presence of competing virus-free pollen much decreased the ability of pollen from infected plants to set seed. There was no evidence that healthy mother plants became infected when their flowers were pollinated with infected pollen.     

Properties, relationships and transmission of a strain of raspberry ringspot virus infecting raspberry cultivars immune to the common Scottish strain*

Plants of Lloyd George and Seedling M raspberry (Rubus idaeus L.) were found in eastern Scotland infected with raspberry ringspot (RRV), a virus to which these varieties were previously considered immune. Most RRV isolates from affected plants caused milder symptoms in herbaceous test plants than did the type isolates of the common Scottish and English strains. In graft-transmission tests the Lloyd George strain of RRV infected all the raspberry cultivars tested, including those immune to the common Scottish strain. No consistent differences were found between isolates of the two strains in in vitro properties or serological behaviour. Both strains were transmitted in seed of Stellaria media and in soil containing Longidorus elongatus. Possible reasons why the new strain is uncommon in Scotland are discussed.     

A comparison of the effectiveness of the four British virus vector species of Longidorus and Xiphinema

The frequency with which the four virus-vector species of longidoroid nematodes occurring in Britain transmitted their associated plant viruses were compared in a series of experiments using a standard procedure. In these tests Xiphinema diversicaudatum proved an effective vector of British isolates of arabis mosaic virus and strawberry latent ringspot virus and Longidorus attenuatus of an isolate of tomato black ring virus from England. In comparison, isolates of raspberry ringspot virus and tomato blackring virus from Scotland and of raspberry ringspot virus from England were transmitted much less readily by their respective vectors, L. elongatus and L. macrosoma. These differences in ability to transmit virus were not related to differences in feeding access on the virus source- or bait-plants, in the extent to which virus was retained within the nematode feeding apparatus or in the frequency with which virus was recovered from Longidorus in concurrent slash tests. Three Scottish isolates of raspberry ringspot and tomato black ring viruses were transmitted equally infrequently by two populations of L. elongatus and the frequency with which virus was transmitted was not greatly increased when the species of source or bait plants was changed.