Meta-Viromic Sequencing Reveals Virome Characteristics of Mosquitoes and
            <i>Culicoides</i>
            on Zhoushan Island, China

Yang, Xiaojing; Qin, Shiyu; Liu, Xiong; Zhang, Na; Chen, Jiali; Jin, Meiling; Liu, Fangni; Wang, Yong; Guo, Jian; Shu, Hua; Wang, Changjun; Chen, Yong

doi:10.1128/spectrum.02688-22

Cited by 5 publications

(4 citation statements)

References 67 publications

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“…In recent years, propelled by the widespread adoption of Viral Metagenomics sequencing technologies, the identification of a wide range of established and emerging viruses within hematophagous vectors, such as mosquitoes and ticks, has become feasible (Ni et al, 2023; X. Yang et al, 2023). This technological progress presents an unprecedented opportunity to comprehensively explore the distribution and transmission patterns of arboviruses and ISVs across a spectrum of hosts, including both vectors and non-vectors.…”

Section: Introductionmentioning

confidence: 99%

“…Notable arboviruses include Zika virus (ZIKAV) (Khongwichit et al, 2023; Weaver et al, 2018), Japanese encephalitis virus (JEV) (Kampen & Werner, 2014), and the incessant menace of Dengue virus (DENV) (Fournet et al, 2023). In recent years, propelled by the widespread adoption of viral metagenomics sequencing technologies, the identification of a wide range of established and emerging viruses within hematophagous vectors, such as mosquitoes and ticks, has become feasible (Ni et al, 2023; X. Yang et al, 2023).…”

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Ensemble Learning: Predicting Human Pathogenicity of Hematophagous Arthropod Vector-Borne Viruses

Hu,

Zhao,

Jin

et al. 2023

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Hematophagous arthropods occupy a pivotal role in ecosystems, serving as vectors for a wide array of pathogens with significant implications for public health. Their capacity to harbor and transmit viruses through biting actions creates a substantial risk of zoonotic spillover. Despite the advancements in metagenomic approaches for virus discovery in vectors, the isolation and cultivation of viruses still pose significant challenges, thereby limiting comprehensive assessments of their pathogenicity. Here, we curated two datasets: one with 294 viruses, characterized by 37 epidemiological features, encompassing virus information and host associations; the second with 71,622 sequences of hematophagous arthropod vector-borne viruses, annotated with 33 sequence features. Two XGBoost models were developed to predict arbovirus human pathogenicity: one integrating macroscopic eco-epidemiological data, the other incorporating virus-related sequence features. The macroscopic model identified non-vector host transmission as a key determinant, especially involving Perissodactyla, Artiodactyla, and Carnivora Order. The sequence-based model demonstrated that viral adhesion and viral invasion had distinct trends with consistent increase and decrease in the likelihood of virus pathogenicity to humans, respectively. With validated through an independent dataset, the model exhibited a congruous alignment with documented pathogenicity outcomes. Together, the models offer a holistic framework for assessing the pathogenic potential of viruses transmitted by hematophagous arthropods.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Ensemble Learning: Predicting Human Pathogenicity of Hematophagous Arthropod Vector-Borne Viruses

Hu,

Zhao,

Jin

et al. 2023

Preprint

Self Cite

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“…A comparison of virus-infected and virus-eliminated strains of Aspergillus flavus found that narnavirus infection is not associated with changes in colony appearance, growth rate or mycelial/hyphal morphology, despite changes in transcriptomic profile (Kuroki et al, 2023). Besides fungi, Narnaviridae have also been found in marine protists (Charon et al, 2021; Chiba et al, 2023), mosquitoes (Batson et al, 2021; Yang et al, 2023; Abbo et al, 2023), and other arthropods (Harvey et al, 2019; Xu et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

A Parasite Odyssey: An RNA virus concealed inToxoplasma gondii

Gupta,

Hiller,

Chowdhury

et al. 2023

Preprint

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We are in the midst of the "Platinum Age of Virus Discovery", an era characterized by the exponential growth in the discovery of virus biodiversity. In humans (or any animal) there are more viruses than simply those directly infecting the animal cells. Viruses infect all species constituting the microbiome: including bacteria, fungi, and unicellular parasites. Thus the complexity of possible interactions between host, microbe, and viruses is unfathomable. To understand this network we must employ computationally assisted virology as a means of analyzing and interpreting the millions of available samples to decipher the myriad of ways in which viruses may intersect human health. From a global screen for human neuron-associated viruses, we identify a novel narnavirus Achaeavirus odysseus (Ao) which likely infects the neurotropic parasite Toxoplasma gondii. Previously, several parasitic protozoan viruses (PPVs) have been mechanistically established as triggers of host innate responses, and here we present in silico evidence that Ao is a plausible pro-inflammatory factor in mouse and human cells infected by T. gondii. T. gondii infects billions of people worldwide, yet the prognosis of toxoplasmosis disease is highly variable, and PPVs like Ao could function as a hitherto undescribed hypervirulence factor. More broadly, we explore phylogenetically proximal viruses to Ao and discover 18 new species of Achaeavirus, all found in vertebrate transcriptome and metatranscriptomes. While the Narnavirus samples making up this genus-like clade are derived from sheep, goat, bat, rabbit, chicken, and pigeon, the presence of virus is strongly predictive of parasitic (Apicomplexa) nucleic acid co-occurrence, supporting that these are a clade of parasite-infecting viruses. This is a computational proof-of-concept study in which we rapidly analyze millions of datasets from which we distill a mechanistically, ecologically, and phylogenetically refined hypothesis. We predict this highly diverged Ao RNA virus is biologically a T. gondii infection, and that Ao, and other viruses like it, will modulate this disease which afflicts billions worldwide.

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