Circulation of Alphacoronavirus, Betacoronavirus and Paramyxovirus in Hipposideros bat species in Zimbabwe

Infection, Genetics and Evolution

Volumn 58, Issue , 2018, Pages 253-257

  Bourgarel, Mathieu ^a,b   Pfukenyi, Davies M ^c   Boué, Vanina ^d   Talignani, Loïc ^d   Chiweshe, Ngoni ^a   Diop, Fodé ^d   Caron, Alexandre ^a,e   Matope, Gift ^c   Missé, Dorothée ^d   Liégeois, Florian ^d  

^a CIRAD   (France)

^b UNIV MONTPELLIER   (France)

^c UNIVERSITY OF ZIMBABWE   (Zimbabwe)

^d University de Montpellier   (France)

^e EDUARDO MONDLANE UNIVERSITY   (Mozambique)

Author keywords

Bat; Coronavirus; Emerging infectious diseases; Paramyxovirus; Phylogeny; Zimbabwe

Indexed keywords

CYTOCHROME B; RNA DIRECTED RNA POLYMERASE;

AGAR GEL ELECTROPHORESIS; ALPHACORONAVIRUS; ARTICLE; BAT; BETACORONAVIRUS; BIODIVERSITY; BIOINFORMATICS; DISEASE SURVEILLANCE; FECES ANALYSIS; GENE AMPLIFICATION; GENE SEQUENCE; HEALTH IMPACT ASSESSMENT; HUMAN; HUMAN IMPACT (ENVIRONMENT); INFECTION PREVENTION; MARBURGVIRUS; NONHUMAN; PARAMYXOVIRIDAE; PHYLOGENY; POLYMERASE CHAIN REACTION; PREVALENCE; REVERSE TRANSCRIPTION; RNA EXTRACTION; SARS CORONAVIRUS; STRUCTURAL GENE; VIRUS GENE; VIRUS INFECTION; VIRUS TRANSMISSION; ANIMAL; CLASSIFICATION; COMMUNICABLE DISEASE; CORONAVIRUS INFECTION; GENETIC VARIATION; GENETICS; MOLECULAR EVOLUTION; PARAMYXOVIRUS INFECTION; VETERINARY MEDICINE; VIROLOGY; VIRUS GENOME; ZIMBABWE;

ALPHACORONAVIRUS; ANIMALS; BETACORONAVIRUS; CHIROPTERA; COMMUNICABLE DISEASES, EMERGING; CORONAVIRUS INFECTIONS; EVOLUTION, MOLECULAR; GENETIC VARIATION; GENOME, VIRAL; PARAMYXOVIRIDAE; PARAMYXOVIRIDAE INFECTIONS; PHYLOGENY; ZIMBABWE;

EID: 85040341375     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2018.01.007     Document Type: Article

References (34)

1. Anthony, S.J., Johnson, C.K., Greig, D.J., Kramer, S., Che, X., Wells, H., Hicks, A.L., Joly, D.O., Wolfe, N.D., Daszak, P., Karesh, W., Lipkin, W.I., Morse, S.S., Consortium, P., Mazet, J.A.K., Goldstein, T., Global patterns in coronavirus diversity. Virus Evol., 3(vex012), 2017.
2. Audsley, M.D., Marsh, G.A., Lieu, K.G., Tachedjian, M., Joubert, D.A., Wang, L.F., Jans, D.A., Moseley, G.W., The immune evasion function of J and Beilong virus V proteins is distinct from that of other paramyxoviruses, consistent with their inclusion in the proposed genus Jeilongvirus. J. Gen. Virol. 97 (2016), 581–592.
3. Bingham, J., Javangwe, S., Sabeta, C.T., Wandeler, A.I., Nel, L.H., Report of isolations of unusual lyssaviruses (rabies and Mokola virus) identified retrospectively from Zimbabwe. J. S. Afr. Vet. Assoc. 72 (2001), 92–94.
4. Brierley, L., Vonhof, M.J., Olival, K.J., Daszak, P., Jones, K.E., Quantifying global drivers of zoonotic bat viruses: a process-based perspective. Am. Nat. 187 (2016), E53–64.
5. Brook, C.E., Dobson, A.P., Bats as ‘special’ reservoirs for emerging zoonotic pathogens. Trends Microbiol. 23 (2015), 172–180.
6. Chu, D.K., Leung, C.Y., Gilbert, M., Joyner, P.H., Ng, E.M., Tse, T.M., Guan, Y., Peiris, J.S., Poon, L.L., Avian coronavirus in wild aquatic birds. J. Virol. 85 (2011), 12815–12820.
7. Corman, V.M., Baldwin, H.J., Tateno, A.F., Zerbinati, R.M., Annan, A., Owusu, M., Nkrumah, E.E., Maganga, G.D., Oppong, S., Adu-Sarkodie, Y., Vallo, P., da Silva Filho, L.V., Leroy, E.M., Thiel, V., van der Hoek, L., Poon, L.L., Tschapka, M., Drosten, C., Drexler, J.F., Evidence for an ancestral Association of Human Coronavirus 229E with bats. J. Virol. 89 (2015), 11858–11870.
8. Drexler, J.F., Corman, V.M., Muller, M.A., Maganga, G.D., Vallo, P., Binger, T., Gloza-Rausch, F., Cottontail, V.M., Rasche, A., Yordanov, S., Seebens, A., Knornschild, M., Oppong, S., Adu Sarkodie, Y., Pongombo, C., Lukashev, A.N., Schmidt-Chanasit, J., Stocker, A., Carneiro, A.J., Erbar, S., Maisner, A., Fronhoffs, F., Buettner, R., Kalko, E.K., Kruppa, T., Franke, C.R., Kallies, R., Yandoko, E.R., Herrler, G., Reusken, C., Hassanin, A., Kruger, D.H., Matthee, S., Ulrich, R.G., Leroy, E.M., Drosten, C., Bats host major mammalian paramyxoviruses. Nat. Commun., 3, 2012, 796.
9. Foggin, C.M., Atypical rabies virus in cats and a dog in Zimbabwe. Vet. Rec., 110, 1982, 338.
10. Foley, N.M., Thong, V.D., Soisook, P., Goodman, S.M., Armstrong, K.N., Jacobs, D.S., Puechmaille, S.J., Teeling, E.C., How and why overcome the impediments to resolution: lessons from rhinolophid and hipposiderid bats. Mol. Biol. Evol. 32 (2015), 313–333.
11. Gouilh, M.A., Puechmaille, S.J., Gonzalez, J.P., Teeling, E., Kittayapong, P., Manuguerra, J.C., SARS-Coronavirus ancestor's foot-prints in South-East Asian bat colonies and the refuge theory. Infect. Genet. Evol. 11 (2011), 1690–1702.
12. Guindon, S., Dufayard, J.F., Lefort, V., Anisimova, M., Hordijk, W., Gascuel, O., New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst. Biol. 59 (2010), 307–321.
13. Hayman, D.T., Bowen, R.A., Cryan, P.M., McCracken, G.F., O'Shea, T.J., Peel, A.J., Gilbert, A., Webb, C.T., Wood, J.L., Ecology of zoonotic infectious diseases in bats: current knowledge and future directions. Zoonoses Public Health 60 (2013), 2–21.
14. Kocher, T.D., Thomas, W.K., Meyer, A., Edwards, S.V., Paabo, S., Villablanca, F.X., Wilson, A.C., Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers. Proc. Natl. Acad. Sci. U. S. A. 86 (1989), 6196–6200.
15. Kumar, S., Stecher, G., Tamura, K., MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33 (2016), 1870–1874.
16. Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R., Thompson, J.D., Gibson, T.J., Higgins, D.G., Clustal W and Clustal X version 2.0. Bioinformatics 23 (2007), 2947–2948.
17. Li, W., Shi, Z., Yu, M., Ren, W., Smith, C., Epstein, J.H., Wang, H., Crameri, G., Hu, Z., Zhang, H., Zhang, J., McEachern, J., Field, H., Daszak, P., Eaton, B.T., Zhang, S., Wang, L.F., Bats are natural reservoirs of SARS-like coronaviruses. Science 310 (2005), 676–679.
18. Milne, I., Lindner, D., Bayer, M., Husmeier, D., McGuire, G., Marshall, D.F., Wright, F., TOPALi v2: a rich graphical interface for evolutionary analyses of multiple alignments on HPC clusters and multi-core desktops. Bioinformatics 25 (2009), 126–127.
19. Monadjem, A., Taylor, P.J., Cotterill, P.D.F., Schoeman, M.C., Bats of Southern and Central Africa: A Biogeographic and Taxonomic Synthesis. 2010, Book, Wits University Press.
20. Morse, S.S., Mazet, J.A., Woolhouse, M., Parrish, C.R., Carroll, D., Karesh, W.B., Zambrana-Torrelio, C., Lipkin, W.I., Daszak, P., Prediction and prevention of the next pandemic zoonosis. Lancet 380 (2012), 1956–1965.
21. Pauly, M., Pir, J.B., Loesch, C., Sausy, A., Snoeck, C.J., Hubschen, J.M., Muller, C.P., Novel alphacoronaviruses and paramyxoviruses Cocirculate with type 1 and severe acute respiratory system (SARS)-related Betacoronaviruses in Synanthropic bats of Luxembourg. Appl. Environ. Microbiol., 83, 2017.
22. Masters, S.P., Perlman, S., Coronaviridae. Fields Virology, Sixth Ed., 2013, Lippincott Williams & Wilkins, Philadelphia, 825–858.
23. Peterson, A.T., Lash, R.R., Carroll, D.S., Johnson, K.M., Geographic potential for outbreaks of Marburg hemorrhagic fever. Am. J. Trop. Med. Hyg. 75 (2006), 9–15.
24. Pfefferle, S., Oppong, S., Drexler, J.F., Gloza-Rausch, F., Ipsen, A., Seebens, A., Muller, M.A., Annan, A., Vallo, P., Adu-Sarkodie, Y., Kruppa, T.F., Drosten, C., Distant relatives of severe acute respiratory syndrome coronavirus and close relatives of human coronavirus 229E in bats, Ghana. Emerg. Infect. Dis. 15 (2009), 1377–1384.
25. Plowright, R.K., Eby, P., Hudson, P.J., Smith, I.L., Westcott, D., Bryden, W.L., Middleton, D., Reid, P.A., McFarlane, R.A., Martin, G., Tabor, G.M., Skerratt, L.F., Anderson, D.L., Crameri, G., Quammen, D., Jordan, D., Freeman, P., Wang, L.F., Epstein, J.H., Marsh, G.A., Kung, N.Y., McCallum, H., Ecological dynamics of emerging bat virus spillover. Proc. Biol. Sci., 282, 2015, 20142124.
26. Pol Scientific, http://www.protocol-online.org/prot/Protocols/RNAlater-3999.html, 1999.
27. Quan, P.L., Firth, C., Street, C., Henriquez, J.A., Petrosov, A., Tashmukhamedova, A., Hutchison, S.K., Egholm, M., Osinubi, M.O., Niezgoda, M., Ogunkoya, A.B., Briese, T., Rupprecht, C.E., Lipkin, W.I., Identification of a severe acute respiratory syndrome coronavirus-like virus in a leaf-nosed bat in Nigeria. MBio, 1, 2010.
28. 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., MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst. Biol. 61 (2012), 539–542.
29. Simmons, N.B., Evolution. An Eocene big bang for bats. Science 307 (2005), 527–528.
30. Smith, I., Wang, L.F., Bats and their virome: an important source of emerging viruses capable of infecting humans. Curr. Opin. Virol. 3 (2013), 84–91.
31. Smith, C.S., de Jong, C.E., Meers, J., Henning, J., Wang, L., Field, H.E., Coronavirus infection and diversity in bats in the Australasian region. EcoHealth 13 (2016), 72–82.
32. Tong, S., Chern, S.W., Li, Y., Pallansch, M.A., Anderson, L.J., Sensitive and broadly reactive reverse transcription-PCR assays to detect novel paramyxoviruses. J. Clin. Microbiol. 46 (2008), 2652–2658.
33. Tracer, 2003. v1.6. Available online: http://tree.bio.ed.ac.uk/software/tracer/.
34. Wu, Z., Yang, L., Ren, X., Zhang, J., Yang, F., Zhang, S., Jin, Q., ORF8-related genetic evidence for Chinese horseshoe bats as the source of human severe acute respiratory syndrome coronavirus. J. Infect. Dis. 213 (2016), 579–583.