Complete Coding Genome Sequence for a Novel Multicomponent Kindia Tick Virus Detected from Ticks Collected in Guinea

Va, Ternovoĭ; Протопопова, Е. В.; Shvalov, Аlexander N.; Kartashov, M. Yu.; Bayandin, Roman B.; Трегубчак, Т. В.; Yakovlev, S. A.; Nikiforov, K. A.; Konovalova, Svetlana N.; Loktev, V. B.; Агафонов, А. П.; Maksyutov, Rinat А.; Popova, А. Yu.

doi:10.1101/2020.04.11.036723

Cited by 8 publications

(6 citation statements)

References 7 publications

(6 reference statements)

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“…Amblyomma, Dermacentor, Haemaphysalis, Hyalomma, and Ixodes (Maruyama et al, 2014;Qin et al, 2014;Souza et al, 2018;Dinçer et al, 2019Dinçer et al, , 2022Jia et al, 2019;Meng et al, 2019;Pascoal et al, 2019;Sameroff et al, 2019;Temmam et al, 2019;Gondard et al, 2020;Gómez et al, 2020;Ternovoi et al, 2020b;Xu et al, 2020Xu et al, , 2021Bratuleanu et al, 2021;Li et al, 2021;Shi et al, 2021;Ogola et al, 2022), as well as two mosquito species (Qin et al, 2014;Parry et al, 2021). The local prevalence of JMTV RNA in tick species such as Hae.…”

Section: Tick-and Vertebrate-associated Jingmenviruses Jingmen Tick V...mentioning

confidence: 99%

“…In fact, JMTV was found in high prevalence in R. microplus from China (53–63%), Brazil (25–67%), Trinidad and Tobago (6–46%), and the French Antilles (24–77%) over the years ( Maruyama et al, 2014 ; Qin et al, 2014 ; Souza et al, 2018 ; Pascoal et al, 2019 ; Sameroff et al, 2019 ; Temmam et al, 2019 ; Gondard et al, 2020 ; Guo J. J. et al, 2020 ; Kobayashi et al, 2021 ; Xu et al, 2021 ). However, the nature of the samples containing JMTV RNA extends beyond this species and includes 25 additional tick species from several genera, Rhipicephalus, Amblyomma, Dermacentor, Haemaphysalis, Hyalomma , and Ixodes ( Maruyama et al, 2014 ; Qin et al, 2014 ; Souza et al, 2018 ; Dinçer et al, 2019 , 2022 ; Jia et al, 2019 ; Meng et al, 2019 ; Pascoal et al, 2019 ; Sameroff et al, 2019 ; Temmam et al, 2019 ; Gondard et al, 2020 ; Guo J. J. et al, 2020 ; Gómez et al, 2020 ; Ternovoi et al, 2020b ; Xu et al, 2020 , 2021 ; Bratuleanu et al, 2021 ; Li et al, 2021 ; Shi et al, 2021 ; Ogola et al, 2022 ), as well as two mosquito species ( Qin et al, 2014 ; Parry et al, 2021 ). The local prevalence of JMTV RNA in tick species such as Hae.…”

Section: Tick- and Vertebrate-associated Jingmenvirusesmentioning

confidence: 99%

“…Since 2014, segmented flavi-like virus sequences have been detected worldwide. Some of these sequences share over 95% identity with JMTV (Kindia tick virus, Guangxi tick virus, Amblyomma virus, or Manych virus) and are therefore likely to all belong to the same species ( Jia et al, 2019 ; Ternovoi et al, 2020b ; Xu et al, 2020 ). Sequences from novel segmented flavi-like virus species have also been identified and grouped under the putative genus name Jingmenvirus .…”

Section: Tick- and Vertebrate-associated Jingmenvirusesmentioning

confidence: 99%

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Jingmenviruses: Ubiquitous, understudied, segmented flavi-like viruses

2022

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Jingmenviruses are a group of viruses identified recently, in 2014, and currently classified by the International Committee on Taxonomy of Viruses as unclassified Flaviviridae. These viruses closely related to flaviviruses are unique due to the segmented nature of their genome. The prototype jingmenvirus, Jingmen tick virus (JMTV), was discovered in Rhipicephalus microplus ticks collected from China in 2010. Jingmenviruses genomes are composed of four to five segments, encoding for up to seven structural proteins and two non-structural proteins, both of which display strong similarities with flaviviral non-structural proteins (NS2B/NS3 and NS5). Jingmenviruses are currently separated into two phylogenetic clades. One clade includes tick- and vertebrate-associated jingmenviruses, which have been detected in ticks and mosquitoes, as well as in humans, cattle, monkeys, bats, rodents, sheep, and tortoises. In addition to these molecular and serological detections, over a hundred human patients tested positive for jingmenviruses after developing febrile illness and flu-like symptoms in China and Serbia. The second phylogenetic clade includes insect-associated jingmenvirus sequences, which have been detected in a wide range of insect species, as well as in crustaceans, plants, and fungi. In addition to being found in various types of hosts, jingmenviruses are endemic, as they have been detected in a wide range of environments, all over the world. Taken together, all of these elements show that jingmenviruses correspond exactly to the definition of emerging viruses at risk of causing a pandemic, since they are already endemic, have a close association with arthropods, are found in animals in close contact with humans, and have caused sporadic cases of febrile illness in multiple patients. Despite these arguments, the vast majority of published data is from metagenomics studies and many aspects of jingmenvirus replication remain to be elucidated, such as their tropism, cycle of transmission, structure, and mechanisms of replication and restriction or epidemiology. It is therefore crucial to prioritize jingmenvirus research in the years to come, to be prepared for their emergence as human or veterinary pathogens.

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Section: Tick-and Vertebrate-associated Jingmenviruses Jingmen Tick V...mentioning

confidence: 99%

Section: Tick- and Vertebrate-associated Jingmenvirusesmentioning

confidence: 99%

Section: Tick- and Vertebrate-associated Jingmenvirusesmentioning

confidence: 99%

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Jingmenviruses: Ubiquitous, understudied, segmented flavi-like viruses

2022

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“…Representatives of JMV group were found in a number of ixodid tick species from several genera including Rhipicephalus, Haemaphysalis, Amblyomma, Ixodes, and Dermacentor [1][2][3][4][5]8,9]. JMVs were detected in China, Brazil, different parts of Europe, USA, Guinea, Turkey, Japan, Uganda, Lao People's Democratic Republic, Cambodia, and Trinidad and Tobago [4,7,[9][10][11][12][13][14][15][16]. In Russia, the Alongshan virus and the Yanggou tick virus were detected in Ixodes persulcatus, Ixodes ricinus, Dermacentor reticulatus, Dermacentor marginatus, Dermacentor nuttalli, and Haemaphysalis concinna ticks in different regions [3,8].…”

Section: Introductionmentioning

confidence: 99%

Integrated Jingmenvirus Polymerase Gene in Ixodes ricinus Genome

Morozkin

Makenov

Zhurenkova

et al. 2022

Viruses

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Members of the jingmenviruses group have been found in arthropods and mammals on all continents except Australia and Antarctica. Two viruses of this group were isolated from patients with fever after a tick bite. Using a nested RT-PCR assay targeting a jingmenvirus polymerase gene fragment, we screened ticks collected in seven regions of Russia and found that the abundant jingmenvirus-positive were of Ixodes ricinus species, with the prevalence ranging from 19.8% to 34.3%. In all cases, DNase/RNase treatment suggested that the detected molecule was DNA and subsequent next generation sequencing (NGS) proved that the viral polymerase gene was integrated in the I. ricinus genome. The copy number of the integrated polymerase gene was quantified by qPCR relative to the ITS2 gene and estimated as 1.32 copies per cell. At least three different genetic variants of the integrated polymerase gene were found in the territory of Russia. Phylogenetic analysis of the integrated jingmenvirus polymerase gene showed the highest similarity with the sequence of the correspondent gene obtained in Serbia from I. ricinus.

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“…JMTV has also been isolated from ticks, animals or humans in Kosovo [16], Trinidad and Tobago [17], Turkey [11] and the French Antilles, France, Lao People's Democratic Republic, and Cambodia [13]. Isolations of other JMTV-related viruses include Mogiana tick virus (MGTV) from R. microplus and cattle in Brazil [18,19], Kindia tick virus (KNTV) from R. geigyi in Guinea [20] and Yanggou tick virus (YGTV) from Dermacentor nuttalli in China [21]. Guaico Culex virus (GCXV) was isolated from a red colobus monkey in Uganda, which contains four segments with sequence similarity to the four segments of JMTV and an apparently optional fifth segment [22].…”

Section: Introductionmentioning

confidence: 99%

Proteomics Computational Analyses Suggest that the Envelope Glycoproteins of Segmented Jingmen Flavi-Like Viruses Are Class II Viral Fusion Proteins (β-Penetrenes) with Mucin-Like Domains

Garry

2020

Viruses

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Jingmen viruses are newly described segmented flavi-like viruses that have a worldwide distribution in ticks and have been associated with febrile illnesses in humans. Computational analyses were used to predict that Jingmen flavi-like virus glycoproteins have structural features of class II viral fusion proteins, including an ectodomain consisting of beta-sheets and short alpha-helices, a fusion peptide with interfacial hydrophobicity and a three-domain architecture. Jingmen flavi-like virus glycoproteins have a sequence enriched in serine, threonine, and proline at the amino terminus, which is a feature of mucin-like domains. Several of the serines and threonines are predicted be modified by the addition of O-linked glycans. Some of the glycoproteins are predicted to have an additional mucin-like domain located prior to the transmembrane anchor, whereas others are predicted to have a stem consisting of two alpha-helices. The flavivirus envelope protein and Jingmen flavi-virus glycoproteins may have diverged from a common class II precursor glycoprotein with a mucin-like domain or domains acquired after divergence.

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Complete Coding Genome Sequence for a Novel Multicomponent Kindia Tick Virus Detected from Ticks Collected in Guinea

Cited by 8 publications

References 7 publications

Jingmenviruses: Ubiquitous, understudied, segmented flavi-like viruses

Jingmenviruses: Ubiquitous, understudied, segmented flavi-like viruses

Integrated Jingmenvirus Polymerase Gene in Ixodes ricinus Genome

Proteomics Computational Analyses Suggest that the Envelope Glycoproteins of Segmented Jingmen Flavi-Like Viruses Are Class II Viral Fusion Proteins (β-Penetrenes) with Mucin-Like Domains

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