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Research Article

Viromes and surveys of RNA viruses in camel-derived ticks revealing transmission patterns of novel tick-borne viral pathogens in Kenya

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Pages 1975-1987 | Received 16 Jul 2021, Accepted 23 Sep 2021, Published online: 17 Oct 2021

References

  • Dantas-Torres F, Chomel BB, Otranto D. Ticks and tick-borne diseases: a One health perspective. Trends Parasitol. 2012;28(10):437–446.
  • Kilpatrick AM, Randolph SE. Drivers, dynamics, and control of emerging vector-borne zoonotic diseases. lancet (London. England. 2012;380(9857):1946–1955.
  • Moutailler S, Valiente Moro C, Vaumourin E, et al. Co-infection of ticks: the rule rather than the exception. PLoS Negl Trop Dis. 2016 Mar;10(3):e0004539.
  • Yu X-J, Liang M, Zhang S-Y, et al. Fever with thrombocytopenia associated with a novel bunyavirus in China. N Engl J Med. 2011 Mar;364:1523–1532.
  • Savage HM, Godsey MS, Lambert A, et al. First detection of heartland virus (bunyaviridae: phlebovirus) from field collected arthropods. Am J Trop Med Hyg. 2013 Sep;89(3):445–452.
  • Wang ZD, Wang B, Wei F, et al. A new segmented virus associated with human febrile illness in China. N Engl J Med. 2019;380(22):2116–2125.
  • Webster CL, Waldron FM, Robertson S, et al. The discovery, distribution, and evolution of viruses associated with drosophila melanogaster. PLoS Biol. 2015;13(7):e1002210.
  • Ma J, Lv XL, Zhang X, et al. Identification of a new orthonairovirus associated with human febrile illness in China. Nat Med. 2021 Mar;27(3):434–439.
  • Mansfield KL, Jizhou L, Phipps LP, et al. Emerging tick-borne viruses in the twenty-first century. Front Cell Infect Microbiol. 2017;7:298.
  • Li C, Shi M, Tian J, et al. Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses. Elife. 2015;4(4):e05378.
  • Harvey E, Rose K, Edena J-S, et al. Extensive diversity of RNA viruses in Australian ticks. J Virol. 2018;93:e01358–18.
  • Maruyama SR, Castro-Jorge LA, Ribeiro J, et al. Characterisation of divergent flavivirus NS3 and NS5 protein sequences detected in Rhipicephalus microplus ticks from Brazil. Mem Inst Oswaldo Cruz. 2013;109(1):38–50.
  • Brinkmann A, Dincer E, Polat C, et al. A metagenomic survey identifies tamdy orthonairovirus as well as divergent phlebo-, rhabdo-, chu- and flavi-like viruses in anatolia, Turkey. Ticks Tick Borne Dis. 2018 Jul;9(5):1173–1183.
  • Tufts DM, Sameroff S, Tagliafierro T, et al. A metagenomic examination of the pathobiome of the invasive tick species, haemaphysalis longicornis, collected from a New York City borough, USA. Ticks Tick Borne Dis. 2020;11(6):101516.
  • Tokarz R, Williams SH, Sameroff S, et al. Virome analysis of amblyomma americanum, dermacentor variabilis, and Ixodes scapularis ticks reveals novel highly divergent vertebrate and invertebrate viruses. J Virol. 2014;88(19):11480–11492.
  • Lwande OW, Irura Z, Tigoi C, et al. Seroprevalence of Crimean Congo hemorrhagic fever virus in Ijara District, Kenya. Vector Borne Zoonotic Dis. 2012 Sep;12(9):727–732.
  • Fares W, Dachraoui K, Cherni S, et al. Tick-borne encephalitis virus in Ixodes ricinus (acari: ixodidae) ticks, Tunisia. Ticks Tick Borne Dis. 2021 Jan;12(1):101606.
  • Balinandi S, von Bromssen C, Tumusiime A, et al. Serological and molecular study of Crimean-Congo hemorrhagic fever virus in cattle from selected districts in Uganda. J Virol Methods. 2021 Apr;290:114075.
  • Wasfi F, Dowall S, Ghabbari T, et al. Sero-epidemiological survey of Crimean-Congo hemorrhagic fever virus in Tunisia. Parasite. 2016;23:10.
  • Mangombi JB, Roqueplo C, Sambou M, et al. Seroprevalence of Crimean-Congo hemorrhagic fever in domesticated animals in northwestern Senegal. Vector Borne Zoonotic Dis. 2020 Oct;20(10):797–799.
  • Rahden P, Adam A, Mika A, et al. Elevated human Crimean-Congo hemorrhagic fever virus seroprevalence in khashm el girba, eastern Sudan. Am J Trop Med Hyg. 2019 Jun;100(6):1549–1551.
  • Chiuya T, Masiga DK, Falzon LC, et al. Tick-borne pathogens, including Crimean-Congo haemorrhagic fever virus, at livestock markets and slaughterhouses in western Kenya. Transbound Emerg Dis. 2020 Dec 5;3:2429–2445.
  • Bente DA, Forrester NL, Watts DM, et al. Crimean-Congo hemorrhagic fever: history, epidemiology, pathogenesis, clinical syndrome and genetic diversity. Antiviral Res. 2013 Oct;100(1):159–189.
  • Messina JP, Pigott DM, Golding N, et al. The global distribution of Crimean-Congo hemorrhagic fever. T Roy Soc Trop Med H. 2015 Aug;109(8):503–513.
  • Dunster L, Dunster M, Ofula V, et al. First documentation of human Crimean-Congo hemorrhagic fever, Kenya. Emerg Infect Dis. 2002;8(9):1005–1006.
  • Sang R, Lutomiah J, Koka H, et al. Crimean-Congo hemorrhagic fever virus in hyalommid ticks, northeastern Kenya. Emerg Infect Dis. 2011 Aug;17(8):1502–1505.
  • Tigoi C, Lwande O, Orindi B, et al. Seroepidemiology of selected arboviruses in febrile patients visiting selected health facilities in the lake/river basin areas of Lake baringo, Lake naivasha, and Tana River, Kenya. Vector Borne Zoonotic Dis. 2015 Feb;15(2):124–132.
  • Sang R, Onyango C, Gachoya J, et al. Tickborne arbovirus surveillance in market livestock, Nairobi, Kenya. Emerg Infect Dis. 2006 Jul;12(7):1074–1080.
  • Lambert AJ, Velez JO, Brault AC, et al. Molecular, serological and in vitro culture-based characterization of bourbon virus, a newly described human pathogen of the genus thogotovirus. J Clin Virol. 2015 Dec;73:127–132.
  • Lwande OW, Lutomiah J, Obanda V, et al. Isolation of tick and mosquito-borne arboviruses from ticks sampled from livestock and wild animal hosts in Ijara District, Kenya. Vector Borne Zoonotic Dis. 2013 Sep;13(9):637–642.
  • Kobayashi D, Ohashi M, Osei JHN, et al. Detection of a novel putative phlebovirus and first isolation of Dugbe virus from ticks in Accra, Ghana. Ticks Tick Borne Dis. 2017 Jun;8(4):640–645.
  • Shi J, Shen S, Wu H, et al. Metagenomic profiling of viruses associated with Rhipicephalus microplus ticks in yunnan province, China. Virol Sin. 2021 Aug;36(4):623–635.
  • Li B, Dewey CN. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics. 2011 Aug;12(12):232.
  • Li P, Piao Y, Shon HS, et al. Comparing the normalization methods for the differential analysis of Illumina high-throughput RNA-Seq data. BMC Bioinformatics. 2015 Oct 28;16(347).
  • Ginestet C. Ggplot2: elegant graphics for data analysis. J R Stat Soc Ser Stat Soc. 2011;174:245–245.
  • Hofler D, Nicklas W, Mauter P, et al. A bead-based multiplex assay for the detection of DNA viruses infecting laboratory rodents. PLoS One. 2014;9(5):e97525.
  • Zhang W, Zheng XS, Agwanda B, et al. Serological evidence of MERS-CoV and HKU8-related CoV co-infection in Kenyan camels. Emerg Microbes Infect. 2019;8(1):1528–1534.
  • Burbelo PD, Ching KH, Klimavicz CM, et al. Antibody profiling by Luciferase immunoprecipitation systems (LIPS). J Vis Exp. 2009 Oct 7;32:1549.
  • Pettersson JH, Shi M, Bohlin J, et al. Characterizing the virome of Ixodes ricinus ticks from Northern Europe. Sci Rep. 2017 Sep 7;7(1):10870.
  • Shi M, Lin XD, Tian JH, et al. Redefining the invertebrate RNA virosphere. Nature. 2016 Dec 22;540(7634):539–543.
  • Sameroff S, Tokarz R, Charles RA, et al. Viral diversity of tick species parasitizing cattle and dogs in Trinidad and Tobago. Sci Rep. 2019 Jul 18;9(1):10421.
  • Lodha A, Silva N, Petric M, et al. Human torovirus: a new virus associated with neonatal necrotizing enterocolitis. Acta Paediatr. 2005 Aug;94(8):1085–1088.
  • Cavanagh D, Horzinek M. Genus torovirus assigned to the coronaviridae. Arch Virol. 1993 Feb;128:395–396.
  • Ommeh S, Zhang W, Zohaib A, et al. Genetic evidence of Middle East respiratory syndrome coronavirus (MERS-Cov) and widespread seroprevalence among camels in Kenya. Virol Sin. 2019 Feb;33(6):484–492.
  • Muturi M, Akoko J, Nthiwa D, et al. Serological evidence of single and mixed infections of rift valley fever virus, brucella spp. and coxiella burnetii in dromedary camels in Kenya. PLoS Negl Trop Dis. 2021 Mar;15(3):e0009275.
  • Shi CY, Beller L, Debouttel W, et al. Stable distinct core eukaryotic viromes in different mosquito species from Guadeloupe, using single mosquito viral metagenomics. Microbiome. 2019 Aug 28;7(1):121.