Complete genome sequence of a previously undescribed badnavirus occurring in Polyscias fruticosa L. (Ming aralia)

Alvarez-Quinto, Robert A.; Lockhart, B. E. L.; Olszewski, Neil E.

doi:10.1007/s00705-019-04307-9

Cited by 5 publications

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“…Of the 1738 contigs, 113 were long (1000-6219 nt) and had good coverage of the viral genomes. Three long contigs of 6219, 5344, and 3704 nt shared ~90% nt identity (95% coverage) with the complete genome of the polyscias mosaic virus (PoMV, NC_055562), a recently identified badnavirus from Polyscias fruticosa L. (Ming aralia) [8]. Considering the 7.14% nt divergence of RT + RNAse H sequences, lower than the species demarcation criteria of 20% in the Badnavirus genus, the badnavirus found in this study was considered to be PoMV, which was for the first time discovered from P. balfouriana in China.…”

Section: Results Of Rrna-depleted Totrna Sequencing and Discovery Of ...mentioning

confidence: 99%

“…The main cultivar is P. balfouriana Marginata, imported in 2001 from untraceable origin, and now with a small number of plantings in Hainan, China. So far, viral studies of the P. balfouriana are scarce, with only one badnavirus (polyscias mosaic virus, PoMV) being reported from the Polyscias fruticosa L. (Ming aralia) [8]. In a viromic study of diverse tropical plants in China in 2019, a P. balfouriana Marginata sample (Figure 1A) was collected from Xinglong Tropical Botanical Garden (18 • 44 06.6 N 110 • 11 36.1 E), Hainan province, China.…”

Section: Introductionmentioning

confidence: 99%

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Diverse Novel Viruses Coinfecting the Tropical Ornamental Plant Polyscias balfouriana in China

Che

Gao

et al. 2022

Viruses

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The viromic profile of Polyscias balfouriana cv. Marginata, a perennial woody and ornamental plant, was determined using ribosomal RNA-depleted total RNA (rRNA-depleted totRNA) sequencing. Five viruses (i.e., polyscias mosaic virus, PoMV; one potential novel rhabdovirus; and three novel viruses of Betaflexiviridae and Closteroviridae) were detected and prevalence-surveyed in Hainan province, China. The genomes of polyscias capillovirus 1 (PCaV-1) and polyscias citrivirus 1 (PCiV-1) of family Betaflexiviridae were completed, and the genomes of polyscias crinivirus 1 (PCrV-1) of Closteroviridae were nearly completed lacking the 5′ and 3′ termini. PCaV-1 shares 68% genome nucleotide (nt) identity and 66% replicase (Rep) amino acid (aa) identity with homologues in apple stem grooving virus (ASGV). PCiV-1 shares 65% genome nt identity and 64% Rep aa identity with homologs in citrus leaf blotch virus (CLBV). Meeting the species demarcation criteria, PCaV-1 and PCiV-1 were considered to be new species in genera Capillovirus and Citrivirus, respectively. PCrV-1 shares high genome nt identity (62%), heat shock protein 70-like protein (HSP70h) and RNA-dependent RNA polymerase (RdRp) aa identity (78–80%) with homologues in tomato chlorosis virus (ToCV). We tentatively consider PCrV-1 to be an unclassified member of the Crinivirus genus. PoMV, PCaV-1, PCiV-1, and PCrV-1 are the prevalent viruses with >73% occurrence in the Xinglong Tropical Botanical Garden, Hainan, China.

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Section: Results Of Rrna-depleted Totrna Sequencing and Discovery Of ...mentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Diverse Novel Viruses Coinfecting the Tropical Ornamental Plant Polyscias balfouriana in China

Che

Gao

et al. 2022

Viruses

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“…Badnaviruses are also reported to infect several ornamentals, medicinal herbs, fruits, trees, and weeds [ 154 , 155 , 156 , 157 , 158 , 159 , 160 , 161 , 162 , 163 , 164 , 165 , 166 , 167 , 168 , 169 , 170 , 171 , 172 , 173 , 174 , 175 , 176 , 177 , 178 , 179 , 180 , 181 , 182 , 183 , 184 , 185 , 186 , 187 , 188 , 189 ]. Birch leaf roll-associated virus, pagoda yellow mosaic-associated virus, and mulberry badnavirus 1 are known to infect different tree crops ( Table 1 ) [ 156 , 157 , 158 ].…”

Section: Emerging Disease Problems In Plantsmentioning

confidence: 99%

“…Similarly, aglaonema bacilliform virus, aucuba ringspot virus, bougainvillea spectabilis chlorotic vein-banding virus, camellia lemon glow virus, canna yellow mottle-associated virus, canna yellow mottle virus, codonopsis vein-clearing virus, epiphyllum mottle-associated virus, ivy ringspot-associated virus, kalanchoë top-spotting virus, spiraea yellow leaf spot virus, wisteria badnavirus 1, and rubus yellow net virus are reported to infect different ornamentals ( Table 1 ) [ 154 , 159 , 160 , 161 , 162 , 163 , 164 , 165 , 166 , 167 , 168 , 170 , 171 , 172 , 174 , 175 , 176 ], while cycad leaf necrosis virus infects the gymnosperm Zamia fischeri [ 177 ]. Viruses such as blackberry virus F, chestnut mosaic virus, fig badnavirus 1, gooseberry vein banding-associated virus, and jujube mosaic-associated virus infect different fruit crops [ 155 , 178 , 179 , 180 , 181 , 182 , 183 , 184 , 185 ], while polyscias mosaic virus and green Sichuan pepper vein clearing-associated virus infect medicinal and spice crops [ 186 , 187 ]. The yacon necrotic mottle virus infects the tuber crop, Smallanthus sonchifolius while commelina yellow mottle virus, the type species of the genus, Badnavirus , infects the weed plant ( Commelina diffusa ) [ 188 , 189 ].…”

Section: Emerging Disease Problems In Plantsmentioning

confidence: 99%

Emerging and Re-Emerging Diseases Caused by Badnaviruses

2023

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New and emerging plant diseases are caused by different pathogens including viruses that often cause significant crop losses. Badnaviruses are pararetroviruses that contain a single molecule of ds DNA genome of 7 to 9 kb in size and infect a large number of economically important crops such as banana and plantains, black pepper, cacao, citrus, grapevine, pineapple, sugarcane, sweet potato, taro, and yam, causing significant yield losses. Many of the species in the genus have a restricted host range and several of them are known to infect a single crop. Combined infections of different virus species and strains offer conditions that favor the development of new strains via recombination, especially in vegetatively propagated crops. The primary spread of badnaviruses is through vegetative propagating materials while for the secondary spread, they depend on insects such as mealybugs and aphids. Disease emerges as a consequence of the interactions between host and pathogens under favorable environmental conditions. The viral genome of the pararetroviruses is known to be integrated into the chromosome of the host and a few plants with integrants when subjected to different kinds of abiotic stress will give rise to episomal forms of the virus and cause disease. Attempts have been made to develop management strategies for badnaviruses both conventionally and using precision breeding techniques such as genome editing. Until 2016 only 32 badnavirus species infecting different crops were known, but in a span of six years, this number has gone up to 68. The current review highlights the emerging disease problems and management options for badnaviruses infecting economically important crops.

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“…SYLSV-MN was sequenced from virion-associated DNA as previously described [2]. PCR was done using the outward-facing primers (SYLSV-Det-R1: 5'-CCATCGACAGCTATCGAATCTGC-3' and SYLSV-Right-1: 5'-AGAATTTCAGGAATTTTAGTAGGAGGG-3'), designed from a partial genome sequence of SYLSV (AF299074) corresponding to the RT-RNase H of the virus [1].…”

Section: Introductionmentioning

confidence: 99%

Complete genome sequences of two isolates of spiraea yellow leafspot virus (genus Badnavirus) from Spiraea x bumalda ‘Anthony Waterer’

et al. 2022

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Complete genome sequence of a previously undescribed badnavirus occurring in Polyscias fruticosa L. (Ming aralia)

Cited by 5 publications

References 7 publications

Diverse Novel Viruses Coinfecting the Tropical Ornamental Plant Polyscias balfouriana in China

Diverse Novel Viruses Coinfecting the Tropical Ornamental Plant Polyscias balfouriana in China

Emerging and Re-Emerging Diseases Caused by Badnaviruses

Complete genome sequences of two isolates of spiraea yellow leafspot virus (genus Badnavirus) from Spiraea x bumalda ‘Anthony Waterer’

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