Viral metagenomics unveiled extensive communications of viruses within giant pandas and their associated organisms in the same ecosystem

Zhao, Min; Yue, Chanjuan; Zhang, Yang; Li, Yun-Li; Zhang, Dongsheng; Ju, Zhang; Yang, Shixing; Shen, Qing; Su, Xiaoyan; Qi, Dunwu; Ma, Rui; Xiao, Yu; Hou, Rong; Yan, Xia; Li, Lin; Yanshan, Zhou; Liu, Jiabin; Wang, Xiaochun; Wu, Wei; Zhang, Wen; Shan, Tongling; Liu, Songrui

doi:10.1016/j.scitotenv.2022.153317

Cited by 28 publications

(19 citation statements)

References 59 publications

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“…Novel groups corresponded to the recently discovered LaAV-1 ( Canuti et al. 2020a ) and RpAPV-2 ( Zhao et al. 2022 ) and the virus described for the first time in this study (BCAV).…”

Section: Resultssupporting

confidence: 60%

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A new perspective on the evolution and diversity of the genus Amdoparvovirus (family Parvoviridae) through genetic characterization, structural homology modeling, and phylogenetics

2022

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Amdoparvoviruses (genus Amdoparvovirus, family Parvoviridae) are primarily viruses of carnivorans, but recent studies have indicated that their host range might also extend to rodents and chiropterans. While their classification is based on the full sequence of the major non-structural protein (NS1), several studies investigating amdoparvoviral diversity have been focused on partial sequences, leading to difficulties in accurately determining species demarcations and leaving several viruses unclassified. In this study, while reporting the complete genomic sequence of a novel amdoparvovirus identified in an American mink (British Columbia amdoparvovirus, BCAV), we studied the phylogenetic relationships of all amdoparvovirus-related sequences and provide a comprehensive reevaluation of their diversity and evolution. After excluding recombinant sequences, phylogenetic and pairwise sequence identity analyses allowed us to define 14 different viruses, including the five currently classified species, BCAV, and four additional viruses that fulfill the International Committee on Taxonomy of Viruses (ICTV) criteria to be classified as species. We show that the group of viruses historically known as Aleutian mink disease virus (AMDV, species Carnivore amdoparvovirus 1) should be considered as a cluster of at least four separate viral species that have been co-circulating in mink farms, facilitating the occurrence of inter-species recombination. Genome organization, splicing donor and acceptor sites, and protein sequence motifs were surprisingly conserved within the genus. The sequence of the major capsid protein (VP2) was significantly more conserved between and within species compared to NS1, a phenomenon possibly linked to antibody-dependent enhancement (ADE). Homology models suggest a remarkably high degree of conservation of the spikes located near the icosahedral threefold axis of the capsid, comprising the surface region associated with ADE. A surprisingly high number of divergent amino acid positions were found in the luminal threefold and twofold axes of the capsid, regions of hitherto unknown function. We emphasize the importance of complete genome analyses and, given the marked phylogenetic inconsistencies across the genome, advise to obtain the complete coding sequences of divergent strains. Further studies on amdoparvovirus biology and structure as well as epidemiological and virus discovery investigations are required to better characterize the ecology and evolution of this important group of viruses.

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“…Novel groups corresponded to the recently discovered LaAV-1 ( Canuti et al. 2020a ) and RpAPV-2 ( Zhao et al. 2022 ) and the virus described for the first time in this study (BCAV).…”

Section: Resultssupporting

confidence: 60%

“…Since there are no data about their distributions in wildlife, their host range and geographical distribution are still unconfirmed. Recently, a second red panda amdoparvovirus (referred to here as RpAPV-2) was discovered in captive Chinese red pandas ( Zhao et al. 2022 ).…”

Section: Introductionmentioning

confidence: 99%

A new perspective on the evolution and diversity of the genus Amdoparvovirus (family Parvoviridae) through genetic characterization, structural homology modeling, and phylogenetics

2022

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“…4 ). Remarkably, with the exception of Tick114AV01-10, all tick strains are most closely related to the Giant panda anellovirus (GpAV) previously detected in blood samples of giant pandas in Sichuan Province (from the sampling points adjacent to this study) ( 11 , 28 ). We also recovered five Tick.TTV viruses that shared high degrees of identity (98.37%-100.00%) with GpAVs at protein level of the ORF1 ( Fig.…”

Section: Resultsmentioning

confidence: 51%

“…5 ). At an amino acid level, the Reps of 15 tick-associated CRESS-DNA viruses showed homology to that of the sequences from giant pandas, red pandas, wild birds, or mosquitoes sampled adjacent to this study ( 11 , 28 , 33 ). For example, within the circovirus group the Reps of two Sichuan tick-associated circoviruses (STaCV-1, strain Tick114CircoC2 and STaCV-2, strain Tick094CircoC5) were most closely related to that of a circovirus (GenBank no.…”

Section: Resultsmentioning

confidence: 68%

“…The free-roaming giant pandas living in the Daxiangling Reintroduction Base are commonly allowed free movement to search for water and food, increasing exposure to various ticks in the environment. Our previous research has elucidated the relationship of viruses in ‘Giant pandas-Associated animals-Arthropods’ and reported numerous cases of viral host-switching among these host species living in the same area ( 11 ). However, to date, the possible role of blood-sucking ticks acting as vectors participating in the circulation of some viruses from giant pandas and responsible for TBD spreading in this animal species is still ignored.…”

Section: Introductionmentioning

confidence: 99%

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Virome of Giant Panda-Infesting Ticks Reveals Novel Bunyaviruses and Other Viruses That Are Genetically Close to Those from Giant Pandas

Zhao

Wang

et al. 2022

Microbiol Spectr

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Development and application of a colloidal-gold immunochromatographic strip for detecting Getah virus antibodies

Jiang,

Qin,

Zhang

et al. 2024

Appl Microbiol Biotechnol

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Getah virus (GETV) is a re-emerging mosquito-borne alphavirus that is highly pathogenic, mainly to pigs and horses. There are no vaccines or treatments available for GETV in swine in China. Therefore, the development of a simple, rapid, specific, and sensitive serological assay for GETV antibodies is essential for the prevention and control of GETV. Current antibody monitoring methods are time-consuming, expensive, and dependent on specialized instrumentation, and these features are not conducive to rapid detection in clinical samples. To address these problem, we developed immunochromatographic test strips (ICTS) using eukaryotically expressed soluble recombinant p62-E1 protein of GETV as a labelled antigen, which has good detection sensitivity and no cross-reactivity with other common porcine virus-positive sera. The ICTS is highly compatible with IFA and ELISA and can be stored for 1 month at 37 °C and for at least 3 months at room temperature. Hence, p62-E1-based ICTS is a rapid, accurate, and convenient method for rapid on-site detection of GETV antibodies. Key points • We established a rapid antibody detection method that can monitor GETV infection • We developed colloidal gold test strips with high sensitivity and specificity • The development of colloidal gold test strips will aid in the field serologic detection of GETV

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Viral metagenomics unveiled extensive communications of viruses within giant pandas and their associated organisms in the same ecosystem

Cited by 28 publications

References 59 publications

A new perspective on the evolution and diversity of the genus Amdoparvovirus (family Parvoviridae) through genetic characterization, structural homology modeling, and phylogenetics

A new perspective on the evolution and diversity of the genus Amdoparvovirus (family Parvoviridae) through genetic characterization, structural homology modeling, and phylogenetics

Virome of Giant Panda-Infesting Ticks Reveals Novel Bunyaviruses and Other Viruses That Are Genetically Close to Those from Giant Pandas

Development and application of a colloidal-gold immunochromatographic strip for detecting Getah virus antibodies

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