Novel SFTSV Phylogeny Reveals New Reassortment Events and Migration Routes

Wu, Xiaoli; Li, Mingyue; Zhang, Yanfang; Liang, Boyun; Shi, Junming; Fang, Yaohui; Sū, Zhèngyuán; Li, Mengmeng; Zhang, Wenjing; Xu, Ling; Wang, Jun; Wu, Qiaoli; Táng, Shuāng; Wang, Hualin; Zhang, Tao; Peng, Cheng; Zheng, Xin; Deng, Fei; Shěn, Shū

doi:10.1007/s12250-020-00289-0

Cited by 14 publications

(19 citation statements)

References 20 publications

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“…7A ). The two viruses of SFTSV Hb-2019 found in this study clustered with other SFTSV strains discovered in humans from Hubei province and shared the closest relationship (nt identities 99.8 per cent) to SFTSV strain HBHG30, which was isolated from the serum of a patient ( Wu et al. 2020 ) ( Fig.…”

Section: Resultssupporting

confidence: 56%

Tick virome diversity in Hubei Province, China, and the influence of host ecology

Guo

et al. 2021

Virus Evolution

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Ticks are important vector hosts of pathogens which cause human and animal diseases worldwide. Diverse viruses have been discovered in ticks; however, little is known about the ecological factors that affect the tick virome composition and evolution. Herein, we employed RNA sequencing to study the virome diversity of the Haemaphysalis longicornis and Rhipicephalus microplus ticks sampled in Hubei Province in China. Twelve RNA viruses with complete genomes were identified, which belonged to six viral families: Flaviviridae, Matonaviridae, Peribunyaviridae, Nairoviridae, Phenuiviridae, and Rhabdoviridae. These viruses showed great diversity in their genome organization and evolution, four of which were proposed to be novel species. The virome diversity and abundance of R. microplus ticks fed on cattle were evidently high. Further ecological analyses suggested that host species and feeding status may be key factors affecting the tick virome structure. This study described a number of novel viral species and variants from ticks and, more importantly, provided insights into the ecological factors shaping the virome structures of ticks, although it clearly warrants further investigation.

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Section: Resultssupporting

confidence: 56%

Tick virome diversity in Hubei Province, China, and the influence of host ecology

Guo

et al. 2021

Virus Evolution

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“…Reassortment event is widespread among viruses with segmented genomes, including Bunyavirus [ 32 ]. Natural reassortment has been reported for SFTSV of various sources, including human patients, ticks, and animals [ 13 , 14 ]; however, their role in the pathogenicity and transmissibility remained uninvestigated. Here, we likewise demonstrated the occurrence of reassortment events in 1.7% SFTSV strains from human patients, which, however, harboured no correlation with fatality in our analysis.…”

Section: Discussionmentioning

confidence: 99%

“…Similar to other bunyaviruses, SFTSV has a three single-stranded RNA genomes: L-segment encoding for the RNA-directed RNA polymerase (RdRp), M-segment encoding for the envelope glycoproteins (GPs) Gn and Gc that play important roles in receptor binding and entrance into cells, and S-segment encoding for both a nucleocapsid protein (Np) and a nonstructural protein (NS) that interacts with interferon signalling pathways and plays an important role in evading innate immunity [ 1 , 12 ]. Like other tri-segmented RNA viruses, the evolutionary characteristics of SFTSV rendered high substitution rates and recombinant and reassorted strains, leading to widespread geographical co-circulation of viral strains [ 13 , 14 ]. Previous studies grouped SFTSV strains into the Chinese lineage including at least four genotypes and the Japanese lineage including three genotypes [ 13 , 15 ], suggesting a degree of sequence diversity that shows a geographic pattern.…”

Section: Introductionmentioning

confidence: 99%

Effect of genomic variations in severe fever with thrombocytopenia syndrome virus on the disease lethality

Dai

Peng

et al. 2022

Emerging Microbes & Infections

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Severe fever with thrombocytopenia syndrome virus (SFTSV), an emerging tick-borne bunyavirus, causes mild-to-moderate infection to critical illness or even death in human patients. The effect of virus variations on virulence and related clinical significance is unclear. We prospectively recruited SFTSV-infected patients in a hotspot region of SFTS endemic in China from 2011 to 2020, sequenced whole genome of SFTSV, and assessed the association of virus genomic variants with clinical data, viremia, and inflammatory response. We identified seven viral clades (I-VII) based on phylogenetic characterization of 805 SFTSV genome sequences. A significantly increased case fatality rate (32.9%) was revealed in one unique clade (IV) that possesses a specific co-mutation pattern, compared to other three common clades (I, 16.7%; II, 13.8%; and III, 11.8%). The phenotype-genotype association (hazard ratios ranged 1.327-2.916) was confirmed by multivariate regression adjusting age, sex, and hospitalization delay. We revealed a pronounced inflammation response featured by more production of CXCL9, IL-10, IL-6, IP-10, M-CSF, and IL-1β, in clade IV, which was also related to severe complications. We observed enhanced cytokine expression from clade IV inoculated PBMCs and infected mice. Moreover, the neutralization activity of convalescent serum from patients infected with one specified clade was remarkably reduced to other viral clades. Together, our findings revealed a significant association between one specific viral clade and SFTS fatality, highlighting the need for molecular surveillance for highly lethal strains in endemic regions and unravelled the importance of evaluating cross-clade effect in development of vaccines and therapeutics.

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“…Because SFTSV can spread between different regions through bird migration, the viral transmission range could be expanded ( 57 ). Moreover, rearrangement and recombination occur frequently among SFTSV strains and are usually not limited to viruses in specific regions, facilitating viral evolution ( 58 , 59 ). Notably, QTRV was phylogenetically clustered with the genus Coltivirus , which includes the pathogenic tick-borne virus Colorado tick fever virus and a number of tick-associated viruses identified in African bats ( 34 , 42 , 56 – 61 ).…”

Section: Discussionmentioning

confidence: 99%

“…Moreover, rearrangement and recombination occur frequently among SFTSV strains and are usually not limited to viruses in specific regions, facilitating viral evolution ( 58 , 59 ). Notably, QTRV was phylogenetically clustered with the genus Coltivirus , which includes the pathogenic tick-borne virus Colorado tick fever virus and a number of tick-associated viruses identified in African bats ( 34 , 42 , 56 – 61 ). In this regard, QTRV is in a relatively basic position in the genus Coltivirus and its specific evolution.…”

Section: Discussionmentioning

confidence: 99%

Metatranscriptomics Reveals the Diversity of the Tick Virome in Northwest China

et al. 2022

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Ticks are widely distributed in pastoral areas in northwestern China and act as vectors that carry and transmit a variety of pathogens, especially viruses. Our study revealed the diversity of tick viruses in Xinjiang and Inner Mongolia and uncovered the phylogenetic relationships of some RNA viruses, especially the important zoonotic tick-borne severe fever with thrombocytopenia syndrome virus in Inner Mongolia.

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Novel SFTSV Phylogeny Reveals New Reassortment Events and Migration Routes

Cited by 14 publications

References 20 publications

Tick virome diversity in Hubei Province, China, and the influence of host ecology

Tick virome diversity in Hubei Province, China, and the influence of host ecology

Effect of genomic variations in severe fever with thrombocytopenia syndrome virus on the disease lethality

Metatranscriptomics Reveals the Diversity of the Tick Virome in Northwest China

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