Identification of a novel plant amalgavirus (Amalgavirus, Amalgaviridae) genome sequence in Cistus incanus

Goh, Chul Jun; Park, D; Lee, J S; Sebastiani, Federico; Hahn, Yoonsoo

doi:10.4149/av_2018_201

Cited by 13 publications

(7 citation statements)

References 26 publications

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“…Besides, in the four viruses, the GNN codon will be present in the A-site post-frameshifting and this is in agreement with other plant amalgaviruses(Park et al, 2018). In accordance with the ndings of previous studies(Goh et al, 2018, Lee et al, 2019, the + 1 PRF motif of identi ed viruses was located at three regions, equidistant from each other, in the nucleotide alignment with region 3 having the maximum number of + 1 PRF motif followed by region 1 and region 2.Similar to the observations of Nibert et al (…”

supporting

confidence: 91%

Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses

2022

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supporting

confidence: 91%

Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses

2022

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“…The detectable sequence similarity observed between the Partitiviridae and Amalgaviridae also suggests that they share common ancestry [ 68 ], despite a wide range of hosts and genomic organizations. As such, it is important to determine whether amalgaviruses are restricted to plants [ 74 , 75 , 76 ] or, as the Partitiviridae , infect many divergent eukaryotic hosts such as fungi, plants and protists [ 77 , 78 ].…”

Section: Discussionmentioning

confidence: 99%

Metatranscriptomic Identification of Diverse and Divergent RNA Viruses in Green and Chlorarachniophyte Algae Cultures

Charon

Marcelino

Wetherbee

et al. 2020

Viruses

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Our knowledge of the diversity and evolution of the virosphere will likely increase dramatically with the study of microbial eukaryotes, including the microalgae within which few RNA viruses have been documented. By combining total RNA sequencing with sequence and structural-based homology detection, we identified 18 novel RNA viruses in cultured samples from two major groups of microbial algae: the chlorophytes and the chlorarachniophytes. Most of the RNA viruses identified in the green algae class Ulvophyceae were related to the Tombusviridae and Amalgaviridae viral families commonly associated with land plants. This suggests that the evolutionary history of these viruses extends to divergence events between algae and land plants. Seven Ostreobium sp-associated viruses exhibited sequence similarity to the mitoviruses most commonly found in fungi, compatible with horizontal virus transfer between algae and fungi. We also document, for the first time, RNA viruses associated with chlorarachniophytes, including the first negative-sense (bunya-like) RNA virus in microalgae, as well as a distant homolog of the plant virus Virgaviridae, potentially signifying viral inheritance from the secondary chloroplast endosymbiosis that marked the origin of the chlorarachniophytes. More broadly, these data suggest that the scarcity of RNA viruses in algae results from limited investigation rather than their absence.

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“…Despite the great diversity of host and genomic organizations, the detectable sequence similarity observed between Partitiviridae and Amalgaviridae strongly suggests that they share common ancestry 34 . As such, it is important to determine whether amalgaviruses are restricted to plant hosts [36][37][38] , and hence differ from the Partitiviridae that have been characterized in many divergent eukaryotic hosts such as fungi, plants and protists 39,40 .…”

Section: Structural-based Homology Analysismentioning

confidence: 99%

Meta-transcriptomic detection of diverse and divergent RNA viruses in green and chlorarachniophyte algae

Charon

Wetherbee

et al. 2020

Preprint

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24Our knowledge of the diversity and evolution of the virosphere will likely increase 25 dramatically with the study of microbial eukaryotes, including the microalgae in few RNA 26 viruses have been documented to date. By combining meta-transcriptomic approaches 27 with sequence and structural-based homology detection, followed by PCR confirmation, we 28 identified 18 novel RNA viruses in two major groups of microbial algae -the chlorophytes 29 and the chlorarachniophytes. Most of the RNA viruses identified in the green algae class 30 Ulvophyceae were related to those from the families Tombusviridae and Amalgaviridae that 31 have previously been associated with plants, suggesting that these viruses have an 32 evolutionary history that extends to when their host groups shared a common ancestor. In 33 contrast, seven ulvophyte associated viruses exhibited clear similarity with the mitoviruses 34 that are most commonly found in fungi. This is compatible with horizontal virus transfer 35 between algae and fungi, although mitoviruses have recently been documented in plants. 36 We also document, for the first time, RNA viruses in the chlorarachniophytes, including the 37 first observation of a negative-sense (bunya-like) RNA virus in microalgae. The other virus-38 like sequence detected in chlorarachniophytes is distantly related to those from the plant 39 virus family Virgaviridae, suggesting that they may have been inherited from the secondary 40 chloroplast endosymbiosis event that marked the origin of the chlorarachniophytes. More 41 broadly, this work suggests that the scarcity of RNA viruses in algae most likely results from 42 limited investigation rather than their absence. Greater effort is needed to characterize the 43 RNA viromes of unicellular eukaryotes, including through structure-based methods that are 44 able to detect distant homologies, and with the inclusion of a wider range of eukaryotic 45 microorganisms. 46 47 Author summary 48 3 RNA viruses are expected to infect all living organisms on Earth. Despite recent 49 developments in and the deployment of large-scale sequencing technologies, our 50 understanding of the RNA virosphere remains anthropocentric and largely restricted to 51 human, livestock, cultivated plants and vectors for viral disease. However, a broader 52 investigation of the diversity of RNA viruses, especially in protists, is expected to answer 53 fundamental questions about their origin and long-term evolution. This study first 54 investigates the RNA virus diversity in unicellular algae taxa from the phylogenetically 55 distinct ulvophytes and chlorarachniophytes taxa. Despite very high levels of sequence 56 divergence, we were able to identify 18 new RNA viruses, largely related to plant and fungi 57 viruses, and likely illustrating a past history of horizontal transfer events that have occurred 58 during RNA virus evolution. We also hypothesise that the sequence similarity between a 59 chlorarachniophyte-associated virga-like virus and members of Virgaviridae...

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Identification of a novel plant amalgavirus (Amalgavirus, Amalgaviridae) genome sequence in Cistus incanus

Cited by 13 publications

References 26 publications

Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses

Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses

Metatranscriptomic Identification of Diverse and Divergent RNA Viruses in Green and Chlorarachniophyte Algae Cultures

Meta-transcriptomic detection of diverse and divergent RNA viruses in green and chlorarachniophyte algae

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