Sequences Encoding a Novel Toursvirus Identified from Southern and Northern Corn Rootworms (Coleoptera: Chrysomelidae)

Liu, Sijun; Sappington, Thomas W.; Coates, Brad S.; Bonning, Bryony C.

doi:10.3390/v14020397

Cited by 2 publications

(3 citation statements)

References 49 publications

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“… Unofficial group. See . A new family, Toursviridae , has been suggested for this virus [101]. The corresponding protein sequence lacks the C-terminus. This virus is mistakenly called Picornaviridae sp.’ but is in fact related to Sinhaliviridae . …”

Section: Resultsmentioning

confidence: 99%

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WIV, a protein domain found in a wide number of arthropod viruses, which probably facilitates infection

Karlin

2024

Journal of General Virology

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The most powerful approach to detect distant homologues of a protein is based on structure prediction and comparison. Yet this approach is still inapplicable to many viral proteins. Therefore, we applied a powerful sequence-based procedure to identify distant homologues of viral proteins. It relies on three principles: (1) traces of sequence similarity can persist beyond the significance cutoff of homology detection programmes; (2) candidate homologues can be identified among proteins with weak sequence similarity to the query by using ‘contextual’ information, e.g. taxonomy or type of host infected; (3) these candidate homologues can be validated using highly sensitive profile–profile comparison. As a test case, this approach was applied to a protein without known homologues, encoded by ORF4 of Lake Sinai viruses (which infect bees). We discovered that the ORF4 protein contains a domain that has homologues in proteins from >20 taxa of viruses infecting arthropods. We called this domain ‘widespread, intriguing, versatile’ (WIV), because it is found in proteins with a wide variety of functions and within varied domain contexts. For example, WIV is found in the NSs protein of tospoviruses, a global threat to food security, which infect plants as well as their arthropod vectors; in the RNA2 ORF1-encoded protein of chronic bee paralysis virus, a widespread virus of bees; and in various proteins of cypoviruses, which infect the silkworm Bombyx mori. Structural modelling with AlphaFold indicated that the WIV domain has a previously unknown fold, and bibliographical evidence suggests that it facilitates infection of arthropods.

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Section: Resultsmentioning

confidence: 99%

“…See Table2. †A new family, Toursviridae, has been suggested for this virus[101]. ‡The corresponding protein sequence lacks the C-terminus.…”

mentioning

confidence: 99%

WIV, a protein domain found in a wide number of arthropod viruses, which probably facilitates infection

Karlin

2024

Journal of General Virology

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“…S8 is segment 8). 2 (2) A new family, Toursviridae, has been suggested for this genus and for related species [27].…”

Section: The Wiv Domain Is Found In Proteins From Over 20 Viral Taxa ...mentioning

confidence: 99%

An Overlooked Protein Domain, WIV, Is Found a Wide Number of Arthropod Viruses and Probably Facilitates Infection

Karlin¹

2023

Preprint

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Today, the most powerful approach to detect distant homologs of a protein is based on structure prediction and comparison. Yet this approach is still inapplicable to many viral proteins. Therefore, we developed a powerful sequence-based procedure to identify distant homologs of viral proteins. It relies on 3 main principles: 1) Traces of sequence similarity with a protein can persist beyond the significance cutoff of homology detection programs; 2) Candidate homologs can be identified among proteins with weak sequence similarity to the query, by using "contextual" information, e.g. taxonomy or type of host infected; 3) These candidate homologs can be validated using highly sensitive profile-profile comparison.As a test case, we applied our approach to a protein without known homologs, ORF4 of Lake Sinai virus (which infects bees). We discovered that ORF4 is composed of a domain that has homologs in proteins from >20 taxa of viruses infecting arthropods. We called it “Widespread, Intriguing, Versatile” (WIV) domain because it is found in proteins with a wide variety of domain organizations and functions. For example, WIV is encoded by the NSs protein of tospoviruses, a global threat to food security, which infect plants through arthropod vectors; by the protein encoded by RNA2 ORF1 of chronic bee paralysis virus, a widespread virus of bees; and by various proteins of cypoviruses, which infect the silkworm bombyx mori. WIV has a previously unknown structural fold, according to Alphafold predictions. In some viral species, WIV facilitates infection of arthropods, according to bibliographical evidence

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Sequences Encoding a Novel Toursvirus Identified from Southern and Northern Corn Rootworms (Coleoptera: Chrysomelidae)

Cited by 2 publications

References 49 publications

WIV, a protein domain found in a wide number of arthropod viruses, which probably facilitates infection

WIV, a protein domain found in a wide number of arthropod viruses, which probably facilitates infection

An Overlooked Protein Domain, WIV, Is Found a Wide Number of Arthropod Viruses and Probably Facilitates Infection

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