Evidence for an aquatic origin of influenza virus and the orderArticulavirales DOI Creative Commons
Mary E. Petrone, Rhys Parry, Jonathon C.O. Mifsud

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Фев. 16, 2023

ABSTRACT The emergence of novel disease-causing viruses in mammals is part the long evolutionary history viruses. Tracing these histories contextualises virus spill over events and may help to elucidate how why they occur. We used a combination total RNA sequencing transcriptome data mining extend diversity order Articulavirales , which includes influenza From this, we identified first instance Cnidaria (including corals), constituting divergent family that tentatively named Cnidenomoviridae . This be basal group within also extended known lineage by identifying highly divergent, sturgeon-associated virus. suggests fish were among hosts Finally, substantially expanded quaranjaviruses proposed this genus reclassified as (the Quaranjaviridae ). find evidence vertebrate infecting have initially evolved crustaceans before spilling into terrestrial Chelicerata (i.e., ticks). Together, our findings indicate has at least 600 million years, emerging aquatic animals. Importantly, evolution was not shaped strict virus-host codivergence, but rather multiple aquatic-terrestrial transitions substantial host jumps, some are still observable today.

Язык: Английский

Virus replication in the honey bee parasite, Varroa destructor DOI Creative Commons
James E. Damayo,

Rebecca C. McKee,

Gabriele Buchmann

и другие.

Journal of Virology, Год журнала: 2023, Номер 97(12)

Опубликована: Ноя. 15, 2023

The parasitic mite

Язык: Английский

Процитировано

12
Greetings from virologists to mycologists: A review outlining viruses that live in fungi DOI Open Access
Syun‐ichi Urayama,

Yanjie Zhao,

Misa Kuroki

и другие.

Mycoscience, Год журнала: 2024, Номер 65(1), С. 1 - 11

Опубликована: Янв. 30, 2024

Viruses are genetic elements that parasitize self-replicating cells. Therefore, organisms parasitized by viruses not limited to animals and plants but also include microorganisms. Among these, fungi known as mycoviruses. Mycoviruses with an RNA genome persistently replicate inside fungal cells coevolve their host cells, similar a cellular organelle. Within mycoviruses can modulate various characteristics activities, including pathogenicity the production of enzymes secondary metabolites. In this review, we provide overview mycovirus research field introduction researchers. Recognition all in aids towards better understanding control fungi, makes significant model system for studying microorganisms containing multiple elements.

Язык: Английский

Процитировано

4
An orphan viral genome with unclear evolutionary status sheds light on a distinct lineage of flavi-like viruses infecting plants DOI Creative Commons

Zhongtian Xu,

Luping Zheng, Fangluan Gao

и другие.

Virus Evolution, Год журнала: 2025, Номер 11(1)

Опубликована: Янв. 1, 2025

Advancements in high-throughput sequencing and associated bioinformatics methods have significantly expanded the RNA virus repertoire, including novel viruses with highly divergent genomes encoding "orphan" proteins that apparently lack homologous sequences. This absence of homologs routine sequence similarity search complicates their taxonomic classification raises a fundamental question: Do these orphan viral represent bona ide viruses? In 2022, an genome large polyprotein was identified alfalfa (Medicago sativa) thrips (Frankliniella occidentalis), named Snake River (SRAV). SRAV initially proposed as uncommon flavi-like plant host distantly related to family Flaviviridae. Subsequently, another research group showed its common occurrence but challenged position, suggesting it belongs Endornaviridae. this study, large-scale analysis 77 publicly available small datasets indicates could be detected across various tissues cultivars alfalfa, has broad geographical distribution. Moreover, profiles SRAV-derived interfering RNAs (vsiRNAs) exhibited typical characteristics hosts. The evolutionary suggests represents unique class plant-hosted unusual organization status, distinct from previously documented infect plants. latter shows close relationship primarily found plant-feeding invertebrates lacks evidence triggering interference (RNAi) responses so far. mining transcriptome shotgun assembly (TSA) database two sequences similar status SRAV. summary, our study resolves disagreement regarding potential existence clades independent origins. Furthermore, provides first host's RNAi antiviral response. widespread underscores ecological significance crop substantial economic importance.

Язык: Английский

Процитировано

0
Uncovering the hidden RNA virus diversity in Lake Nam Co: Evolutionary insights from an extreme high-altitude environment DOI Creative Commons

Lilin Wu,

Yongqin Liu,

Wenqing Shi

и другие.

Proceedings of the National Academy of Sciences, Год журнала: 2025, Номер 122(6)

Опубликована: Фев. 4, 2025

Alpine lakes, characterized by isolation, low temperatures, oligotrophic conditions, and intense ultraviolet radiation, remain a poorly explored ecosystem for RNA viruses. Here, we present the first comprehensive metatranscriptomic study of viruses in Lake Nam Co, high-altitude alkaline saline lake on Tibetan Plateau. Using combination sequence- structure-based homology searches, identified 742 virus species, including 383 novel genus-level groups 84 family-level exclusively found Co. These findings significantly expand known diversity Orthornavirae , uncovering evolutionary adaptations such as permutated RNA-dependent polymerase motifs distinct secondary structures. Notably, 14 additional families potentially infecting prokaryotes were predicted, broadening host range questioning traditional assumption that predominantly target eukaryotes. The presence auxiliary metabolic genes viral genomes suggested (families f . 0102 Nam-Co_family_51) exploit energy production mechanisms energy-limited alpine lakes. Low nucleotide diversity, single polymorphism frequencies, pN/pS ratios indicate strong purifying selection Co populations. Our offer insights into evolution ecology, highlighting importance extreme environments hidden further shed light their potential ecological implications, particularly context climate change.

Язык: Английский

Процитировано

0
Detection of multiple novel viruses in argasid and ixodid ticks in Mexico DOI Creative Commons

S. Viridiana Laredo-Tiscareño,

Javier A. Garza‐Hernández, Chandra S. Tangudu

и другие.

Ticks and Tick-borne Diseases, Год журнала: 2025, Номер 16(2), С. 102455 - 102455

Опубликована: Фев. 12, 2025

We examined ticks from Mexico using viral metagenomics to increase our understanding of the composition and diversity tick virome. The analysis was performed 3,127 four Ixodidae spp. one Argasidae collected in 2019 2021 domestic animals states (Chiapas, Chihuahua, Guerrero, Michoacán). All were homogenized tested for viruses two approaches. In first approach, an aliquot each homogenate underwent blind passages Ixodes scapularis (ISE6) cells. Supernatants all second passage cultures subjected polyethylene glycol (PEG) precipitation enrich virions then RNAs extracted precipitates analyzed by unbiased high-throughput sequencing (UHTS). every PEG UHTS, allowing detection unable replicate ISE6 identified seven novel species multiple taxonomic groups (Bunyavirales, Flaviviridae, Nodaviridae, Nyamivirdae, Rhabdoviridae, Solemoviridae, Totiviridae), some which are highly divergent classified cannot be assigned any established genus. Twelve recognized also identified. summary, detected Mexico, highlighting remarkable

Язык: Английский

Процитировано

0
Systematic Review of Phylogenetic Analysis Techniques for RNA Viruses Using Bioinformatics DOI Open Access

Irena Wadas,

Inês Domingues

International Journal of Molecular Sciences, Год журнала: 2025, Номер 26(5), С. 2180 - 2180

Опубликована: Фев. 28, 2025

The present paper addresses topics from various fields of biology. Its purpose is to enlarge the understanding usage bioinformatics tools in phylogenetic analysis RNA viruses. highlights benefits using information technology virology, bringing scientific community closer unraveling mysteries virus evolution and their adaptation different niches hosts facilitating rapid mutation processes. Phylogenetic genetic sequences allows exploration causes these changes viruses categorizes them into taxonomic groups. This a systematic review most important articles on bioinformatics. studies included were selected based Preferred Reporting Items for Systematic Reviews Meta-Analyses (PRISMA 2020) guidelines discuss methods analyzing protein (including codon sequences) describe analyses used (such as VConTACT, RAxML, etc.). emphasizes importance further development particularly with respect viruses, order mitigate risk future pandemic. It also aims provide detailed mechanisms entities, which will help efforts limit viral virulence, example. article did not receive any funding its creation has been registered database.

Язык: Английский

Процитировано

0
VITALdb: to select the best viroinformatics tools for a desired virus or application DOI Creative Commons

M. K. Koul,

Shalini kaushik,

Kavya Singh

и другие.

Briefings in Bioinformatics, Год журнала: 2025, Номер 26(2)

Опубликована: Март 1, 2025

Abstract The recent pandemics of viral diseases, COVID-19/mpox (humans) and lumpy skin disease (cattle), have kept us glued to research. These along with the human metapneumovirus outbreak exposed urgency for early diagnosis infections, vaccine development, discovery novel antiviral drugs therapeutics. To support this, there is an armamentarium virus-specific computational tools that are currently available. VITALdb (VIroinformatics Tools ALgorithms database) a resource ~360 viroinformatics encompassing all major viruses (SARS-CoV-2, influenza virus, immunodeficiency papillomavirus, herpes simplex hepatitis dengue Ebola Zika etc.) several diverse applications [structural functional annotation, peptides subspecies characterization, recognition recombination, inhibitors identification, phylogenetic analysis, virus–host prediction, metagenomics, detection mutation(s), primer designing, etc.]. Resources, tools, other utilities mentioned in this article will not only facilitate further developments realm but also provide tremendous fillip translate fundamental knowledge into applied Most importantly, inevitable tool selecting best tool(s) carry out desired task hence prove be vital database (VITALdb) scientific community. Database URL: https://compbio.iitr.ac.in/vitaldb

Язык: Английский

Процитировано

0
Virome diversity and potential sharing of wild mammals in a biodiversity hotspot, Yunnan, China DOI Creative Commons
Yongman Guo, Chao Su, Hanwei Liang

и другие.

Virology Journal, Год журнала: 2025, Номер 22(1)

Опубликована: Март 18, 2025

Small mammals, including rodents, shrews and moonrats are widespread serve as natural reservoirs for many viral pathogens. However, the composition distribution of wild animal viromes remain poorly understood. At least 10,000 virus species have ability to infect humans, but vast majority circulating silently in mammals. Understanding virome profiles these animals is crucial outbreak preparedness, particularly regions with high mammalian diversity. In this study, we enriched extracted RNA from fecal samples 459 representing 16 species, Xishuangbanna Dai Autonomous Prefecture China, a recognized biodiversity hotspot China. We then performed next-generation sequencing comprehensive analyses across different species. identified 5,346 nearly complete contigs annotated 64 families, 45 families rodents 46 moonrats, showing significant variation diversity host Among these, 28 were shared 11 viruses that potential zoonotic Additionally, numerous unidentified containing RdRp-gene close evolutionary relationships known cause infections animals. Importantly, several detected animals, belonging family Hepeviridae, Flaviviridae, Astroviridae, Picornaviridae, Picobirnaviridae, exhibited > 70% nucleotide sequence identity diseases other wildlife domestic or even humans. These findings significantly increase our knowledge transmission within sympatric small mammals an emerging disease hotspot, shedding light on need continued surveillance mammal populations.

Язык: Английский

Процитировано

0
Phosphate amendment drives bloom of RNA viruses after soil wet-up DOI
Ella T. Sieradzki, Greg Allen, Jeffrey A. Kimbrel

и другие.

Soil Biology and Biochemistry, Год журнала: 2025, Номер unknown, С. 109791 - 109791

Опубликована: Март 1, 2025

Язык: Английский

Процитировано

0
High-throughput screening reveals high diversity and widespread distribution of viruses in black soldier flies (Hermetia illucens) DOI Creative Commons
Robert D. Pienaar, Salvador Herrero, Alexandra Cerqueira de Araujo

и другие.

Journal of Invertebrate Pathology, Год журнала: 2025, Номер unknown, С. 108322 - 108322

Опубликована: Март 1, 2025

Язык: Английский

Процитировано

0