Citation: Zijun Yang, Hao Wang, Shixing Yang, Xiaochun Wang, Quan Shen, Likai Ji, Jian Zeng, Wen Zhang, Haiyan Gong, Tongling Shan. Virome diversity of ticks feeding on domestic mammals in China .VIROLOGICA SINICA, 2023, 38(2) : 208-221.  http://dx.doi.org/10.1016/j.virs.2023.02.001

Virome diversity of ticks feeding on domestic mammals in China

  • Ticks are considered the second most common pathogen vectors transmitting a broad range of vital human and veterinary viruses. From 2017 to 2018, 640 ticks were collected in eight different provinces in central and western China. Six species were detected, including H.longicornis, De.everestianus, Rh.microplus, Rh.turanicus, Rh.sanguineous, and Hy.asiaticum. Sixty-four viral metagenomic libraries were constructed on the MiSeq Illumina platform, resulting in 13.44 G (5.88×107) of 250-bp-end reads, in which 2,437,941 are viral reads. We found 27 nearly complete genome sequences, including 16 genome sequences encoding entire protein-coding regions (lack of 3' or 5' end non-coding regions) and complete viral genomes, distributed in the arboviral family (Chuviridae, Rhabdoviridae, Nairoviridae, Phenuiviridae, Flaviviridae, Iflaviridae) as well as Parvoviridae and Polyomaviridae that cause disease in mammals and even humans. In addition, 13 virus sequences found in Chuviridae, Nairoviridae, Flaviviridae, Iflaviridae, Hepeviridae, Parvoviridae, and Polyomaviridae were identified as belonging to a new virus species in the identified viral genera. Besides, an epidemiological survey shows a high prevalence (9.38% and 15.63%) of two viruses (Ovine Copiparvovirus and Bovine parvovirus 2) in the tick cohort.

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    1. Anderson, J.F., Magnarelli, L.A., 2008. Biology of ticks. Infect. Dis. Clin. 22, 195-215.

    2. Baǧcı, C., Patz, S., Huson, D.H., 2021. Diamond+megan:fast and easy taxonomic and functional analysis of short and long microbiome sequences. Current protocols 1, e59.

    3. Buchfink, B., Xie, C., Huson, D.H., 2015. Fast and sensitive protein alignment using diamond. Nat. Methods 12, 59-60.

    4. Polyomaviridae Study Group of the International Committee on Taxonomy of V, Calvignac-Spencer, S., Feltkamp, M.C., Daugherty, M.D., Moens, U., Ramqvist, T., Johne, R., Ehlers, B., 2016. A taxonomy update for the family polyomaviridae. Arch.Virol. 161, 1739-1750.

    5. Carter, J.J., Daugherty, M.D., Qi, X., Bheda-Malge, A., Wipf, G.C., Robinson, K., Roman, A., Malik, H.S., Galloway, D.A., 2013. Identification of an overprinting gene in merkel cell polyomavirus provides evolutionary insight into the birth of viral genes. Proc. Natl. Acad. Sci. U.S.A. 110, 12744-12749.

    6. Chong, J., Liu, P., Zhou, G., Xia, J., 2020. Using microbiomeanalyst for comprehensive statistical, functional, and meta-analysis of microbiome data. Nat. Protoc. 15, 799-821.

    7. Cotmore, S.F., Agbandje-McKenna, M., Canuti, M., Chiorini, J.A., Eis-Hubinger, A.-M., Hughes, J., Mietzsch, M., Modha, S., Ogliastro, M., Pénzes, J.J., Pintel, D.J., Qiu, J., Soderlund-Venermo, M., Tattersall, P., Tijssen, P., Ictv Report, C., 2019. Ictv virus taxonomy profile:parvoviridae. J. Gen. Virol. 100, 367-368.

    8. Dehhaghi, M., Kazemi Shariat Panahi, H., Holmes, E.C., Hudson, B.J., Schloeffel, R., Guillemin, G.J., 2019. Human tick-borne diseases in Australia. Front. Cell. Infect.Microbiol. 9, 3.

    9. Delogu, F., Kunath, B.J., Evans, P.N., Arntzen, M.O., Hvidsten, T.R., Pope, P.B., 2020.Integration of absolute multi-omics reveals dynamic protein-to-rna ratios and metabolic interplay within mixed-domain microbiomes. Nat. Commun. 11, 4708.

    10. Dhariwal, A., Chong, J., Habib, S., King, I.L., Agellon, L.B., Xia, J., 2017.Microbiomeanalyst:a web-based tool for comprehensive statistical, visual and metaanalysis of microbiome data. Nucleic Acids Res. 45, W180-W188.

    11. Dong, Z., Yang, M., Wang, Z., Zhao, S., Xie, S., Yang, Y., Liu, G., Zhao, S., Xie, J., Liu, Q., Wang, Y., 2021. Human tacheng tick virus 2 infection, China, 2019. Emerg. Infect.Dis. 27, 594-598.

    12. Edgar, R.C., 2004. Muscle:multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797.

    13. Fagrouch, Z., Sarwari, R., Lavergne, A., Delaval, M., de Thoisy, B., Lacoste, V., Verschoor, E.J., 2012. Novel polyomaviruses in south american bats and their relationship to other members of the family polyomaviridae. J. Gen. Virol. 93, 2652-2657.

    14. Feng, H., Shuda, M., Chang, Y., Moore, P.S., 2008. Clonal integration of a polyomavirus in human merkel cell carcinoma. Science (New York, N.Y.) 319, 1096-1100.

    15. Garrison, A.R.,, Alkhovsky capital A CeCssChCoCvCeCkCiCsiCcESCiC, Avsic-Zupanc, T., Bente, D.A., Bergeron, E., Burt, F., Di Paola, N., Ergunay, K., Hewson, R., Kuhn, J.H., Mirazimi, A., Papa, A., Sall, A.A., Spengler, J.R., Palacios, G., Consortium, I.R., 2020. Ictv virus taxonomy profile:Nairoviridae. J. Gen. Virol. 101, 798-799.

    16. Getange, D., Bargul, J.L., Kanduma, E., Collins, M., Bodha, B., Denge, D., Chiuya, T., Githaka, N., Younan, M., Fevre, E.M., Bell-Sakyi, L., Villinger, J., 2021. Ticks and tickborne pathogens associated with dromedary camels (camelus dromedarius) in northern Kenya. Microorganisms 9, 1414.

    17. Gong, S., He, B., Wang, Z., Shang, L., Wei, F., Liu, Q., Tu, C., 2015. Nairobi sheep disease virus rna in ixodid ticks, China, 2013. Emerg. Infect. Dis. 21, 718-720.

    18. Huelsenbeck, J.P., Ronquist, F., 2001. Mrbayes:bayesian inference of phylogenetic trees. Bioinformatics 17, 754-755.

    19. Huson, D.H., Auch, A.F., Qi, J., Schuster, S.C., 2007. Megan analysis of metagenomic data. Genome Res. 17, 377-386.

    20. Jaenson, T.G., Jaenson, D.G., Eisen, L., Petersson, E., Lindgren, E., 2012. Changes in the geographical distribution and abundance of the tick ixodes ricinus during the past 30 years in Sweden. Parasites Vectors 5, 8.

    21. Jia, N., Wang, J., Shi, W., Du, L., Sun, Y., Zhan, W., Jiang, J.-F., Wang, Q., Zhang, B., Ji, P., Bell-Sakyi, L., Cui, X.-M., Yuan, T.-T., Jiang, B.-G., Yang, W.-F., Lam, T.T.-Y., Chang, Q.-C., Ding, S.-J., Wang, X.-J., Zhu, J.-G., Ruan, X.-D., Zhao, L., Wei, J.-T., Ye, R.-Z., Que, T.C., Du, C.-H., Zhou, Y.-H., Cheng, J.X., Dai, P.-F., Guo, W.-B., Han, X.-H., Huang, E.-J., Li, L.-F., Wei, W., Gao, Y.-C., Liu, J.-Z., Shao, H.-Z., Wang, X., Wang, C.-C., Yang, T.-C., Huo, Q.-B., Li, W., Chen, H.-Y., Chen, S.-E., Zhou, L.-G., Ni, X.-B., Tian, J.-H., Sheng, Y., Liu, T., Pan, Y.-S., Xia, L.-Y., Li, J., Zhao, F., Cao, W.-C., 2020. Large-scale comparative analyses of tick genomes elucidate their genetic diversity and vector capacities. Cell 182, 1328-1340.

    22. Johne, R., Buck, C.B., Allander, T., Atwood, W.J., Garcea, R.L., Imperiale, M.J., Major, E.O., Ramqvist, T., Norkin, L.C., 2011. Taxonomical developments in the family polyomaviridae. Arch. Virol. 156, 1627-1634.

    23. Jupatanakul, N., Sim, S., Dimopoulos, G., 2014. The insect microbiome modulates vector competence for arboviruses. Viruses 6, 4294-4313.

    24. Katoh, K., Standley, D.M., 2013. Mafft multiple sequence alignment software version 7:improvements in performance and usability. Mol. Biol. Evol. 30, 772-780.

    25. Kernif, T., Leulmi, H., Raoult, D., Parola, P., 2016. Emerging tick-borne bacterial pathogens. Microbiol. Spectr. 4, 295-310.

    26. King, A.M.Q., Lefkowitz, E., Adams, M.J., EbuhbgcbiaK, Carstens, 2012. Virus Taxonomy:Ninth Report of the International Committee on Taxonomy of Viruses, Part II. Elsevier Science, pp. 1221-1234.

    27. Kosoy, O.I., Lambert, A.J., Hawkinson, D.J., Pastula, D.M., Goldsmith, C.S., Hunt, D.C., Staples, J.E., 2015. Novel thogotovirus associated with febrile illness and death, United States, 2014. Emerg. Infect. Dis. 21, 760-764.

    28. Krasteva, S., Jara, M., Frias-De-Diego, A., Machado, G., 2020. Nairobi sheep disease virus:a historical and epidemiological perspective. Front. Vet. Sci. 7, 419.

    29. Krumbholz, A., Bininda-Emonds, O.R., Wutzler, P., Zell, R., 2009. Phylogenetics, evolution, and medical importance of polyomaviruses. Infect. Genet. Evol.:journal of molecular epidemiology and evolutionary genetics in infectious diseases 9, 784-799.

    30. Labuda, M., Nuttall, P.A., 2004. Tick-borne viruses. Parasitology S221-S245.

    31. Lasecka, L., Baron, M.D., 2014. The molecular biology of nairoviruses, an emerging group of tick-borne arboviruses. Arch. Virol. 159, 1249-1265.

    32. Li, C.X., Shi, M., Tian, J.H., Lin, X.D., Kang, Y.J., Chen, L.J., Qin, X.C., Xu, J., Holmes, E.C., Zhang, Y.Z., 2015. Unprecedented genomic diversity of rna viruses in arthropods reveals the ancestry of negative-sense rna viruses. Elife 4, e05378.

    33. Li, J., Kelly, P., Guo, W., Zhang, J., Yang, Y., Liu, W., Wang, C., 2020. Molecular detection of rickettsia, hepatozoon, ehrlichia and sftsv in goat ticks. Veterinary Parasitology, Regional Studies and Reports 20, 100407.

    34. Li, H., Zhang, L.K., Li, S.F., Zhang, S.F., Wan, W.W., Zhang, Y.L., Xin, Q.L., Dai, K., Hu, Y.Y., Wang, Z.B., Zhu, X.T., Fang, Y.J., Cui, N., Zhang, P.H., Yuan, C., Lu, Q.B., Bai, J.Y., Deng, F., Xiao, G.F., Liu, W., Peng, K., 2019. Calcium channel blockers reduce severe fever with thrombocytopenia syndrome virus (sftsv) related fatality.Cell Res. 29, 739-753.

    35. Lindquist, L., Vapalahti, O., 2008. Tick-borne encephalitis. Lancet 371, 1861-1871.

    36. Liu, X., Zhang, X., Wang, Z., Dong, Z., Xie, S., Jiang, M., Song, R., Ma, J., Chen, S., Chen, K., Zhang, H., Si, X., Li, C., Jin, N., Wang, Y., Liu, Q., 2020. A tentative tamdy orthonairovirus related to febrile illness in northwestern China. In:Clinical Infectious Diseases, vol. 70. an official publication of the Infectious Diseases Society of America, pp. 2155-2160.

    37. Lu, S., Wang, J., Chitsaz, F., Derbyshire, M.K., Geer, R.C., Gonzales, N.R., Gwadz, M., Hurwitz, D.I., Marchler, G.H., Song, J.S., Thanki, N., Yamashita, R.A., Yang, M., Zhang, D., Zheng, C., Lanczycki, C.J., Marchler-Bauer, A., 2020. Cdd/sparcle:the conserved domain database in 2020. Nucleic Acids Res. 48, D265-D268.

    38. Ma, J., Lv, X.-L., Zhang, X., Han, S.-Z., Wang, Z.-D., Li, L., Sun, H.-T., Ma, L.-X., Cheng, Z.-L., Shao, J.-W., Chen, C., Zhao, Y.-H., Sui, L., Liu, L.-N., Qian, J., Wang, W., Liu, Q., 2021. Identification of a new orthonairovirus associated with human febrile illness in China. Nat. Med. 27, 434-439.

    39. Marczinke, B.I., Nichol, S.T., 2002. Nairobi sheep disease virus, an important tick-borne pathogen of sheep and goats in africa, is also present in asia. Virology 303, 146-151.

    40. Meng, F., Ding, M., Tan, Z., Zhao, Z., Xu, L., Wu, J., He, B., Tu, C., 2019. Virome analysis of tick-borne viruses in heilongjiang province, China. Ticks and tick-borne diseases 10, 412-420.

    41. Moens, U., Calvignac-Spencer, S., Lauber, C., Ramqvist, T., Feltkamp, M.C.W., Daugherty, M.D., Verschoor, E.J., Ehlers, B., Ictv Report, C., 2017. Ictv virus taxonomy profile:polyomaviridae. J. Gen. Virol. 98, 1159-1160.

    42. Moming, A., Yue, X., Shen, S., Chang, C., Wang, C., Luo, T., Zhang, Y., Guo, R., Hu, Z., Zhang, Y., Deng, F., Sun, S., 2018. Prevalence and phylogenetic analysis of crimeanCongo hemorrhagic fever virus in ticks from different ecosystems in xinjiang, China.Virol. Sin. 33, 67-73.

    43. Moradpour, D., Penin, F., 2013. Hepatitis c virus proteins:from structure to function. Curr. Top. Microbiol. Immunol. 369, 113-142.

    44. Parola, P., Raoult, D., 2001. Ticks and Tickborne Bacterial Diseases in Humans:an Emerging Infectious Threat, vol. 32. Clinical infectious diseases:an official publication of the Infectious Diseases Society of America, pp. 897-928.

    45. Peñalver, E., Arillo, A., Delclòs, X., Peris, D., Grimaldi, D.A., Anderson, S.R., Nascimbene, P.C., Pérez-de la Fuente, R., 2017. Ticks parasitised feathered dinosaurs as revealed by cretaceous amber assemblages. Nat. Commun. 8, 1924-1936.

    46. Ramirez, J.L., Souza-Neto, J., Torres Cosme, R., Rovira, J., Ortiz, A., Pascale, J.M., Dimopoulos, G., 2012. Reciprocal tripartite interactions between the aedes aegypti midgut microbiota, innate immune system and dengue virus influences vector competence. PLoS Neglected Trop. Dis. 6, e1561.

    47. Rivers, T.M., Schwentker, F.F., 1934. Louping ill in man. J. Exp. Med. 59, 669-685.

    48. Ronquist, F., Teslenko, M., van der Mark, P., Ayres, D.L., Darling, A., Hohna, S., Larget, B., Liu, L., Suchard, M.A., Huelsenbeck, J.P., 2012. Mrbayes 3.2:efficient bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61, 539-542.

    49. Shao, L., Pang, Z., Fu, H., Chang, R., Lin, Z., Lv, A., Wang, S., Kong, X., Luo, M., Liu, X., Yu, X., Liu, L., Niu, G., 2020. Identification of recently identified tick-borne viruses(dabieshan tick virus and sftsv) by metagenomic analysis in ticks from shandong province, China. J. Infect. 81, 973-978.

    50. Shi, M., Lin, X.D., Tian, J.H., Chen, L.J., Chen, X., Li, C.X., Qin, X.C., Li, J., Cao, J.P., Eden, J.S., Buchmann, J., Wang, W., Xu, J., Holmes, E.C., Zhang, Y.Z., 2016a. Redefining the invertebrate rna virosphere. Nature 540, 539-543.

    51. Shi, M., Lin, X.D., Vasilakis, N., Tian, J.H., Li, C.X., Chen, L.J., Eastwood, G., Diao, X.N., Chen, M.H., Chen, X., Qin, X.C., Widen, S.G., Wood, T.G., Tesh, R.B., Xu, J., Holmes, E.C., Zhang, Y.Z., 2016b. Divergent viruses discovered in arthropods and vertebrates revise the evolutionary history of the flaviviridae and related viruses.J. Virol. 90, 659-669.

    52. Shi, J., Hu, Z., Deng, F., Shen, S., 2018. Tick-borne viruses. Virol. Sin. 33, 21-43.

    53. Shi, J., Shen, S., Wu, H., Zhang, Y., Deng, F., 2021. Metagenomic profiling of viruses associated with rhipicephalus microplus ticks in yunnan province, China. Virol. Sin. 36, 623-635.

    54. Siddell, S.G., Walker, P.J., Lefkowitz, E.J., Mushegian, A.R., Adams, M.J., Dutilh, B.E., Gorbalenya, A.E., Harrach, B., Harrison, R.L., Junglen, S., Knowles, N.J., Kropinski, A.M., Krupovic, M., Kuhn, J.H., Nibert, M., Rubino, L., Sabanadzovic, S., Sanfacon, H., Simmonds, P., Varsani, A., Zerbini, F.M., Davison, A.J., 2019.Additional changes to taxonomy ratified in a special vote by the international committee on taxonomy of viruses (october 2018). Arch. Virol. 164, 943-946.

    55. Simmonds, P., Becher, P., Bukh, J., Gould, E.A., Meyers, G., Monath, T., Muerhoff, S., Pletnev, A., Rico-Hesse, R., Smith, D.B., Stapleton, J.T., Ictv Report, C., 2017. Ictv virus taxonomy profile:flaviviridae. J. Gen. Virol. 98, 2-3.

    56. Sukumaran, B., Narasimhan, S., Anderson, J.F., DePonte, K., Marcantonio, N., Krishnan, M.N., Fish, D., Telford, S.R., Kantor, F.S., Fikrig, E., 2006. An ixodes scapularis protein required for survival of anaplasma phagocytophilum in tick salivary glands. J. Exp. Med. 203, 1507-1517.

    57. Tanca, A., Abbondio, M., Palomba, A., Fraumene, C., Manghina, V., Cucca, F., Fiorillo, E., Uzzau, S., 2017. Potential and active functions in the gut microbiota of a healthy human cohort. Microbiome 5, 79.

    58. Temmam, S., Chrétien, D., Bigot, T., Dufour, E., Petres, S., Desquesnes, M., Devillers, E., Dumarest, M., Yousfi, L., Jittapalapong, S., Karnchanabanthoeng, A., Chaisiri, K., Gagnieur, L., Cosson, J.-F., Vayssier-Taussat, M., Morand, S., Moutailler, S., Eloit, M., 2019. Monitoring silent spillovers before emergence:a pilot study at the tick/human interface in Thailand. Front. Microbiol. 10, 2315.

    59. Tijsse-Klasen, E., Koopmans, M.P., Sprong, H., 2014. Tick-borne pathogen-reversed and conventional discovery of disease. Front. Public Health 2, 73.

    60. Tokarz, R., Sameroff, S., Tagliafierro, T., Jain, K., Williams Simon, H., Cucura, D.M., Rochlin, I., Monzon, J., Carpi, G., Tufts, D., Diuk-Wasser, M., Brinkerhoff, J., Lipkin, W.I., Pipas James, M., 2018. Identification of novel viruses in amblyomma americanum, dermacentor variabilis, and ixodes scapularis ticks. mSphere 3, e00614-17.

    61. Tsergouli, K., Karampatakis, T., Haidich, A.B., Metallidis, S., Papa, A., 2020. Nosocomial infections caused by crimean-Congo haemorrhagic fever virus. J. Hosp. Infect. 105, 43-52.

    62. Valles, S.M., Chen, Y., Firth, A.E., Guerin, D.M.A., Hashimoto, Y., Herrero, S., de Miranda, J.R., Ryabov, E., Ictv Report, C., 2017. Ictv virus taxonomy profile:Iflaviridae. J. Gen. Virol. 98, 527-528.

    63. Wagner, J.T., Howe, D.K., Estes, S., Denver, D.R., 2020. Mitochondrial DNA variation and selfish propagation following experimental bottlenecking in two distantly related caenorhabditis briggsae isolates. Genes 11, 77.

    64. Walker, A.R., Bouattour, A., Camicas, J.-L., Estrada-Pena, A., Horak, I.G., Latif, A.A., Pegram, R.G., Preston, P.M., 2003. Ticks of Domestic Animals in Africa:A Guide to Identification of Species, Edinburgh (Scotland) Bioscience Reports pp. 1-44.

    65. Walker, P.J., Firth, C., Widen, S.G., Blasdell, K.R., Guzman, H., Wood, T.G., Paradkar, P.N., Holmes, E.C., Tesh, R.B., Vasilakis, N., 2015. Evolution of genome size and complexity in the rhabdoviridae. PLoS Pathog. 11, e1004664.

    66. Walker, P.J., Blasdell, K.R., Calisher, C.H., Dietzgen, R.G., Kondo, H., Kurath, G., Longdon, B., Stone, D.M., Tesh, R.B., Tordo, N., Vasilakis, N., Whitfield, A.E., Ictv Report, C., 2018. Ictv virus taxonomy profile:rhabdoviridae. J. Gen. Virol. 99, 447-448.

    67. Wang, B., Tan, X.F., Thurmond, S., Zhang, Z.M., Lin, A., Hai, R., Song, J., 2017. The structure of zika virus ns5 reveals a conserved domain conformation. Nat. Commun. 8, 14763-14768.

    68. Wang, H., Ling, Y., Shan, T., Yang, S., Xu, H., Deng, X., Delwart, E., Zhang, W., 2019a. Gut virome of mammals and birds reveals high genetic diversity of the family microviridae. Virus Evolution 5, vez013.

    69. Wang, Z.D., Wang, B., Wei, F., Han, S.Z., Zhang, L., Yang, Z.T., Yan, Y., Lv, X.L., Li, L., Wang, S.C., Song, M.X., Zhang, H.J., Huang, S.J., Chen, J., Huang, F.Q., Li, S., Liu, H.H., Hong, J., Jin, Y.L., Wang, W., Zhou, J.Y., Liu, Q., 2019b. A new segmented virus associated with human febrile illness in China. N. Engl. J. Med. 380, 2116-2125.

    70. Wu, J., Bera, A.K., Kuhn, R.J., Smith, J.L., 2005. Structure of the flavivirus helicase:implications for catalytic activity, protein interactions, and proteolytic processing.J. Virol. 79, 10268-10277.

    71. Xia, H., Hu, C., Zhang, D., Tang, S., Zhang, Z., Kou, Z., Fan, Z., Bente, D., Zeng, C., Li, T., 2015. Metagenomic profile of the viral communities in rhipicephalus spp. Ticks from yunnan, China. PLoS One 10, e0121609.

    72. Xu, L., Guo, M., Hu, B., Zhou, H., Yang, W., Hui, L., Huang, R., Zhan, J., Shi, W., Wu, Y., 2021. Tick virome diversity in hubei province, China, and the influence of host ecology. Virus Evolution 7, veab089.

    73. Yadav, P.D., Vincent, M.J., Khristova, M., Kale, C., Nichol, S.T., Mishra, A.C., Mourya, D.T., 2011. Genomic analysis reveals nairobi sheep disease virus to be highly diverse and present in both africa, and in India in the form of the ganjam virus variant. Infect. Genet. Evol. 11, 1111-1120.

    74. Zhang, W., Li, L., Deng, X., Kapusinszky, B., Pesavento, P.A., Delwart, E., 2014. Faecal virome of cats in an animal shelter. J. Gen. Virol. 95, 2553-2564.

    75. Zhang, W., Li, L., Deng, X., Blumel, J., Nubling, C.M., Hunfeld, A., Baylis, S.A., Delwart, E., 2016. Viral nucleic acids in human plasma pools. Transfusion 56, 2248-2255.

    76. Zhang, W., Yang, S., Shan, T., Hou, R., Liu, Z., Li, W., Guo, L., Wang, Y., Chen, P., Wang, X., Feng, F., Wang, H., Chen, C., Shen, Q., Zhou, C., Hua, X., Cui, L., Deng, X., Zhang, Z., Qi, D., Delwart, E., 2017. Virome comparisons in wild-diseased and healthy captive giant pandas. Microbiome 5, 90.

    77. Zhang, Y.-Z., Shi, M., Holmes, E.C., 2018a. Using metagenomics to characterize an expanding virosphere. Cell 172, 1168-1172.

    78. Zhang, Y., Shen, S., Fang, Y., Liu, J., Su, Z., Liang, J., Zhang, Z., Wu, Q., Wang, C., Abudurexiti, A., Hu, Z., Zhang, Y., Deng, F., 2018b. Isolation, characterization, and phylogenetic analysis of two new crimean-Congo hemorrhagic fever virus strains from the northern region of xinjiang province, China. Virol. Sin. 33, 74-86.

    79. Yoshii, K., Song, J.Y., Park, S.B., Yang, J., Schmitt, H.J., 2017. Tick-borne encephalitis in Japan, Republic of Korea and China. Emerg. Microb. Infect. 6, e82.

    80. Zhang, Y.Z., Chen, Y.M., Wang, W., Qin, X.C., Holmes, E.C., 2019. Expanding the rna virosphere by unbiased metagenomics. Annu Rev Virol 6, 119-139.

    81. Zhao, B., Yi, G., Du, F., Chuang, Y.C., Vaughan, R.C., Sankaran, B., Kao, C.C., Li, P., 2017.Structure and function of the zika virus full-length ns5 protein. Nat. Commun. 8, 14762-14770.

    82. Zhao, L., Li, J., Cui, X., Jia, N., Wei, J., Xia, L., Wang, H., Zhou, Y., Wang, Q., Liu, X., Yin, C., Pan, Y., Wen, H., Wang, Q., Xue, F., Sun, Y., Jiang, J., Li, S., Cao, W., 2020a.Distribution of haemaphysalis longicornis and associated pathogens:analysis of pooled data from a China field survey and global published data. Lancet Planet.Health 4, e320-e329.

    83. Zhao, T., Gong, H., Shen, X., Zhang, W., Shan, T., Yu, X., Wang, S.J., Cui, L., 2020b.Comparison of viromes in ticks from different domestic animals in China. Virol. Sin. 35, 398-406.

    84. Zhao, G.P., Wang, Y.X., Fan, Z.W., Ji, Y., Liu, M.J., Zhang, W.H., Li, X.L., Zhou, S.X., Li, H., Liang, S., Liu, W., Yang, Y., Fang, L.Q., 2021. Mapping ticks and tick-borne pathogens in China. Nat. Commun. 12, 1075-1087.

    85. Zhao, M., Yue, C., Yang, Z., Li, Y., Zhang, D., Zhang, J., Yang, S., Shen, Q., Su, X., Qi, D., Ma, R., Xiao, Y., Hou, R., Yan, X., Li, L., Zhou, Y., Liu, J., Wang, X., Wu, W., Zhang, W., Shan, T., Liu, S., 2022. Viral metagenomics unveiled extensive communications of viruses within giant pandas and their associated organisms in the same ecosystem. Sci. Total Environ. 820, 153317.

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    Virome diversity of ticks feeding on domestic mammals in China

      Corresponding author: Wen Zhang, z0216wen@yahoo.com
      Corresponding author: Haiyan Gong, gonghaiyan@shvri.ac.cn
      Corresponding author: Tongling Shan, shantongling@shvri.ac.cn
    • a. Shanghai Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Shanghai, 200241, China;
    • b. Department of Microbiology, School of Medicine, Jiangsu University, Zhenjiang, 212013, China;
    • c. Department of Clinical Laboratory, Huai'an Hospital, Xuzhou Medical University, Huai'an, 223002, China;
    • d. Center of Clinical Laboratory, The First Affiliated Hospital of Soochow University, Suzhou, 215006, China

    Abstract: Ticks are considered the second most common pathogen vectors transmitting a broad range of vital human and veterinary viruses. From 2017 to 2018, 640 ticks were collected in eight different provinces in central and western China. Six species were detected, including H.longicornis, De.everestianus, Rh.microplus, Rh.turanicus, Rh.sanguineous, and Hy.asiaticum. Sixty-four viral metagenomic libraries were constructed on the MiSeq Illumina platform, resulting in 13.44 G (5.88×107) of 250-bp-end reads, in which 2,437,941 are viral reads. We found 27 nearly complete genome sequences, including 16 genome sequences encoding entire protein-coding regions (lack of 3' or 5' end non-coding regions) and complete viral genomes, distributed in the arboviral family (Chuviridae, Rhabdoviridae, Nairoviridae, Phenuiviridae, Flaviviridae, Iflaviridae) as well as Parvoviridae and Polyomaviridae that cause disease in mammals and even humans. In addition, 13 virus sequences found in Chuviridae, Nairoviridae, Flaviviridae, Iflaviridae, Hepeviridae, Parvoviridae, and Polyomaviridae were identified as belonging to a new virus species in the identified viral genera. Besides, an epidemiological survey shows a high prevalence (9.38% and 15.63%) of two viruses (Ovine Copiparvovirus and Bovine parvovirus 2) in the tick cohort.

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