Diversity and evolution of viral pathogen community in cave nectar bats (eonycteris spelaea)

Viruses

Volumn 11, Issue 3, 2019, Pages

  Mendenhall, Ian H ^a   Wen, Dolyce Low Hong ^a,b   Jayakumar, Jayanthi ^a   Gunalan, Vithiagaran ^c   Wang, Linfa ^a   Mauer Stroh, Sebastian ^c,d   Su, Yvonne C F ^a   Smith, Gavin J D ^a,e,f  

^a DUKE NUS MEDICAL SCHOOL   (Singapore)

^b NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^c BIOINFORMATICS INSTITUTE   (Singapore)

^d NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^e Academy of Medicine Singapore   (Singapore)

^f DUKE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Adenovirus; Bunyavirus; Flavivirus; Herpesvirus; Metaviromics; Papillomavirus; Paramyxovirus; Parvovirus; Picornavirus; Polyomavirus; Poxvirus; Reovirus; Rotavirus; Southeast Asia

Indexed keywords

ADENOVIRIDAE; ANIMAL EXPERIMENT; ARTICLE; BAT; EONYCTERIS SPELAEA; FECES ANALYSIS; FLAVIVIRIDAE; HIGH THROUGHPUT SEQUENCING; MAXIMUM LIKELIHOOD METHOD; NEXT GENERATION SEQUENCING; NONHUMAN; PAPILLOMAVIRIDAE; PARAMYXOVIRIDAE; PARVOVIRIDAE; PHYLOGENY; PICORNAVIRIDAE; POLYMERASE CHAIN REACTION; POLYOMAVIRIDAE; REOVIRIDAE; RNA EXTRACTION; SANGER SEQUENCING; SPECIES DIVERSITY; URINALYSIS; VIRUS INFECTION; VIRUS SHEDDING; VIRUS TRANSMISSION; ANIMAL; FECES; GENETIC VARIATION; GENETICS; HERPESVIRIDAE; MOLECULAR EVOLUTION; PATHOGENICITY; SOUTHEAST ASIA; URINE; VETERINARY MEDICINE; VIROLOGY; VIRUS; VIRUS GENOME;

ADENOVIRIDAE; ANIMALS; ASIA, SOUTHEASTERN; CHIROPTERA; EVOLUTION, MOLECULAR; FECES; GENETIC VARIATION; GENOME, VIRAL; HERPESVIRIDAE; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; PARAMYXOVIRIDAE; PHYLOGENY; VIRUS DISEASES; VIRUSES;

EID: 85062940984     PISSN: None     EISSN: 19994915     Source Type: Journal    
DOI: 10.3390/v11030250     Document Type: Article

References (90)

1. 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. Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses. Elife 2015, 4. [CrossRef] [PubMed]
2. Beerenwinkel, N.; Gunthard, H.F.; Roth, V.; Metzner, K.J. Challenges and opportunities in estimating viral genetic diversity from next-generation sequencing data. Front Microbiol. 2012, 3, 329. [CrossRef] [PubMed]
3. VanDevanter, D.R.; Warrener, P.; Bennett, L.; Schultz, E.R.; Coulter, S.; Garber, R.L.; Rose, T.M. Detection and analysis of diverse herpesviral species by consensus primer PCR. J. Clin. Microbiol. 1996, 34, 1666-1671. [PubMed]
4. Vijgen, L.; Moes, E.; Keyaerts, E.; Li, S.; Van Ranst, M. A pancoronavirus RT-PCR assay for detection of all known coronaviruses. Methods Mol. Biol. 2008, 454, 3-12. [CrossRef] [PubMed]
5. 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. 2008, 46, 2652-2658. [CrossRef] [PubMed]
6. Prachayangprecha, S.; Schapendonk, C.M.; Koopmans, M.P.; Osterhaus, A.D.; Schurch, A.C.; Pas, S.D.; Van der Eijk, A.A.; Poovorawan, Y.; Haagmans, B.L.; Smits, S.L. Exploring the potential of next-generation sequencing in detection of respiratory viruses. J. Clin. Microbiol. 2014, 52, 3722-3730. [CrossRef] [PubMed]
7. Volpicella, M.; Leoni, C.; Costanza, A.; Fanizza, I.; Placido, A.; Ceci, L.R. Genome walking by next generation sequencing approaches. Biology 2012, 1, 495-507. [CrossRef] [PubMed]
8. Marston, D.A.; McElhinney, L.M.; Ellis, R.J.; Horton, D.L.; Wise, E.L.; Leech, S.L.; David, D.; De Lamballerie, X.; Fooks, A.R. Next generation sequencing of viral RNA genomes. BMC Genomics 2013, 14, 444. [CrossRef] [PubMed]
9. Bialasiewicz, S.; McVernon, J.; Nolan, T.; Lambert, S.B.; Zhao, G.; Wang, D.; Nissen, M.D.; Sloots, T.P. Detection of a divergent Parainfluenza 4 virus in an adult patient with influenza like illness using next-generation sequencing. BMC Infect. Dis. 2014, 14, 275. [CrossRef] [PubMed]
10. Radford, A.D.; Chapman, D.; Dixon, L.; Chantrey, J.; Darby, A.C.; Hall, N. Application of next-generation sequencing technologies in virology. J. Gen. Virol. 2012, 93, 1853-1868. [CrossRef]
11. Matranga, C.B.; Andersen, K.G.; Winnicki, S.; Busby, M.; Gladden, A.D.; Tewhey, R.; Stremlau, M.; Berlin, A.; Gire, S.K.; England, E.; et al. Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses from clinical and biological samples. Genome Biol. 2014, 15, 519. [CrossRef]
12. Ge, X.; Li, Y.; Yang, X.; Zhang, H.; Zhou, P.; Zhang, Y.; Shi, Z. Metagenomic analysis of viruses from bat fecal samples reveals many novel viruses in insectivorous bats in China. J. Virol. 2012, 86, 4620-4630. [CrossRef] [PubMed]
13. He, B.; Li, Z.; Yang, F.; Zheng, J.; Feng, Y.; Guo, H.; Li, Y.; Wang, Y.; Su, N.; Zhang, F.; et al. Virome profiling of bats from Myanmar by metagenomic analysis of tissue samples reveals more novel Mammalian viruses. PLoS ONE 2013, 8, e61950. [CrossRef]
14. Wang, J.; Moore, N.E.; Murray, Z.L.; McInnes, K.; White, D.J.; Tompkins, D.M.; Hall, R.J. Discovery of novel virus sequences in an isolated and threatened bat species, the New Zealand lesser short-tailed bat (Mystacina tuberculata). J. Gen. Virol. 2015, 96, 2442-2452. [CrossRef] [PubMed]
15. Li, L.; Victoria, J.G.; Wang, C.; Jones, M.; Fellers, G.M.; Kunz, T.H.; Delwart, E. Bat guano virome: Predominance of dietary viruses from insects and plants plus novel mammalian viruses. J. Virol. 2010, 84, 6955-6965. [CrossRef] [PubMed]
16. Baker, K.S.; Leggett, R.M.; Bexfield, N.H.; Alston, M.; Daly, G.; Todd, S.; Tachedjian, M.; Holmes, C.E.; Crameri, S.; Wang, L.F.; et al. Metagenomic study of the viruses of African straw-coloured fruit bats: Detection of a chiropteran poxvirus and isolation of a novel adenovirus. Virology 2013, 441, 95-106. [CrossRef] [PubMed]
17. Yinda, C.K.; Zeller, M.; Conceicao-Neto, N.; Maes, P.; Deboutte, W.; Beller, L.; Heylen, E.; Ghogomu, S.M.; Van Ranst, M.; Matthijnssens, J. Novel highly divergent reassortant bat rotaviruses in Cameroon, without evidence of zoonosis. Sci. Rep. 2016, 6, 34209. [CrossRef] [PubMed]
18. Yuan, L.; Li, M.; Li, L.; Monagin, C.; Chmura, A.A.; Schneider, B.S.; Epstein, J.H.; Mei, X.; Shi, Z.; Daszak, P.; et al. Evidence for retrovirus and paramyxovirus infection of multiple bat species in china. Viruses 2014, 6, 2138-2154. [CrossRef] [PubMed]
19. He, B.; Feng, Y.; Zhang, H.; Xu, L.; Yang, W.; Zhang, Y.; Li, X.; Tu, C. Filovirus RNA in fruit bats, China. Emerg. Infect. Dis. 2015, 21, 1675-1677. [CrossRef] [PubMed]
20. Calisher, C.H.; Childs, J.E.; Field, H.E.; Holmes, K.V.; Schountz, T. Bats: Important reservoir hosts of emerging viruses. Clin. Microbiol. Rev. 2006, 19, 531-545. [CrossRef]
21. Hutson, A.M.; Mickleburgh, S.P. Microchiropteran Bats: Global Status Survey and Conservation Action Plan; IUCN: Gland, Switzerland, 2001; Volume 56.
22. Kunz, T.H.; Fenton, M.B. Bat Ecology; University of Chicago Press: Chicago, IL, USA, 2005.
23. Thomas, S.P.; Suthers, R.A. The physiology and energetics of bat flight. J. Exp. Biol. 1972, 57, 317-335.
24. Cooke, M.S.; Evans, M.D.; Dizdaroglu, M.; Lunec, J. Oxidative DNA damage: Mechanisms, mutation, and disease. FASEB J. 2003, 17, 1195-1214. [CrossRef] [PubMed]
25. Ahn, M.; Cui, J.; Irving, A.T.; Wang, L.F. Unique loss of the PYHIN Gene family in bats amongst mammals: Implications for Inflammasome sensing. Sci. Rep. 2016, 6, 21722. [CrossRef]
26. Zhou, P.; Tachedjian, M.; Wynne, J.W.; Boyd, V.; Cui, J.; Smith, I.; Cowled, C.; Ng, J.H.; Mok, L.; Michalski, W.P.; et al. Contraction of the type I IFN locus and unusual constitutive expression of IFN-alpha in bats. Proc. Natl. Acad. Sci. USA 2016, 113, 2696-2701. [CrossRef] [PubMed]
27. Xie, J.; Li, Y.; Shen, X.; Goh, G.; Zhu, Y.; Cui, J.; Wang, L.F.; Shi, Z.L.; Zhou, P. Dampened STING-dependent interferon activation in bats. Cell Host Microbe 2018, 23, 297-301. [CrossRef] [PubMed]
28. Francis, C.; Rosell-Ambal, G.; Tabaranza, B.; Carino, P.; Helgen, K.; Molur, S.; Srinivasulu, C. Eonycteris Spelaea. Available online: Http://dx.doi.org/10.2305/IUCN.UK.2008.RLTS.T7787A12850087.en (accessed on 4 June 2018).
29. Bumrungsri, S.; Sripaoraya, E.; Chongsiri, T.; Sridith, K.; Racey, P.A. The pollination ecology of durian (Durio zibethinus, Bombacaceae) in southern Thailand. J. Trop. Ecol. 2009, 25, 85-92. [CrossRef]
30. Bumrungsri, S.; Lang, D.; Harrower, C.; Sripaoraya, E.; Kitpipit, K.; Racey, P.A. The dawn bat, Eonycteris spelaea Dobson (Chiroptera: Pteropodidae) feeds mainly on pollen of economically important food plants in Thailand. Acta Chiropterol. 2013, 15, 95-104. [CrossRef]
31. Mendenhall, I.H.; Borthwick, S.; Neves, E.S.; Low, D.; Linster, M.; Liang, B.; Skiles, M.; Jayakumar, J.; Han, H.; Gunalan, V.; et al. Identification of a lineage D Betacoronavirus in Cave Nectar Bats (Eonycteris spelaea) in Singapore and an overview of lineage D reservoir ecology in SE Asian Bats. Transbound Emerg. Dis. 2017, 64, 1790-1800. [CrossRef]
32. Andrews, S. FastQC. Available online: Http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/ (accessed on 17 September 2015).
33. Bolger, A.M.; Lohse, M.; Usadel, B. Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics 2014, 30, 2114-2120. [CrossRef]
34. Buchfink, B.; Xie, C.; Huson, D.H. Fast and sensitive protein alignment using DIAMOND. Nat. Methods 2015, 12, 59-60. [CrossRef]
35. Huson, D.H.; Auch, A.F.; Qi, J.; Schuster, S.C. MEGAN analysis of metagenomic data. Genome Res. 2007, 17, 377-386. [CrossRef] [PubMed]
36. Wellehan, J.F., Jr.; Childress, A.L.; Marschang, R.E.; Johnson, A.J.; Lamirande, E.W.; Roberts, J.F.; Vickers, M.L.; Gaskin, J.M.; Jacobson, E.R. Consensus nested PCR amplification and sequencing of diverse reptilian, avian, and mammalian orthoreoviruses. Vet. Microbiol. 2009, 133, 34-42. [CrossRef]
37. Kearse, M.; Moir, R.; Wilson, A.; Stones-Havas, S.; Cheung, M.; Sturrock, S.; Buxton, S.; Cooper, A.; Markowitz, S.; Duran, C.; et al. Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 2012, 28, 1647-1649. [CrossRef] [PubMed]
38. Bininda-Emonds, O.R. transAlign: Using amino acids to facilitate the multiple alignment of protein-coding DNA sequences. BMC Bioinformat. 2005, 6, 156. [CrossRef] [PubMed]
39. Katoh, K.; Standley, D.M. MAFFT multiple sequence alignment software version 7: Improvements in performance and usability. Molec. Biol. Evol. 2013, 30, 772-780. [CrossRef] [PubMed]
40. Price, M.N.; Dehal, P.S.; Arkin, A.P. FastTree: Computing large minimum evolution trees with profiles instead of a distance matrix. Molec. Biol. Evol. 2009, 26, 1641-1650. [CrossRef] [PubMed]
41. Stamatakis, A. RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014, 30, 1312-1313. [CrossRef]
42. Bonning, B.C.; Miller, W.A. Dicistroviruses. Ann. Rev. Entomol. 2010, 55, 129-150. [CrossRef]
43. Laing, E.D.; Mendenhall, I.H.; Linster, M.; Low, D.H.W.; Chen, Y.; Yan, L.; Sterling, S.L.; Borthwick, S.; Neves, E.S.; Lim, J.S.L.; et al. Serologic evidence of fruit bat exposure to filoviruses, Singapore, 2011-2016. Emerg. Infect. Dis. 2018, 24, 114-117. [CrossRef] [PubMed]
44. Mendenhall, I.H.; Skiles, M.M.; Neves, E.S.; Borthwick, S.A.; Low, D.H.W.; Liang, B.; Lee, B.P.Y.; Su, Y.C.F.; Smith, G.J.D. Influence of age and body condition on astrovirus infection of bats in Singapore: An evolutionary and epidemiological analysis. One Health 2017, 4, 27-33. [CrossRef]
45. Queen, K.; Shi, M.; Anderson, L.J.; Tong, S. Other bt-borne viruses. In Bats and Viruses; Wang, L.-F., Cowled, C., Eds.; JohnWiley & Sons, Inc.: Hoboken, NY, USA, 2015; Chapter 9; pp. 217-247.
46. Yang, X.-L.; Zhang, Y.-Z.; Jiang, R.-D.; Guo, H.; Zhang, W.; Li, B.; Wang, N.; Wang, L.; Waruhiu, C.; Zhou, J.-H. Genetically diverse filoviruses in Rousettus and Eonycteris spp. bats, China, 2009 and 2015. Emerg. Infect. Dis. 2017, 23, 482. [CrossRef]
47. Yob, J.M.; Field, H.; Rashdi, A.M.; Morrissy, C.; Van der Heide, B.; Rota, P.; Bin Adzhar, A.; White, J.; Daniels, P.; Jamaluddin, A.; et al. Nipah virus infection in bats (order Chiroptera) in peninsular Malaysia. Emerg. Infect. Dis. 2001, 7, 439-441. [CrossRef] [PubMed]
48. Reuter, G.; Pankovics, P.; Gyongyi, Z.; Delwart, E.; Boros, A. Novel dicistrovirus from bat guano. Arch. Virol. 2014, 159, 3453-3456. [CrossRef] [PubMed]
49. Dacheux, L.; Cervantes-Gonzalez, M.; Guigon, G.; Thiberge, J.M.; Vandenbogaert, M.; Maufrais, C.; Caro, V.; Bourhy, H. A preliminary study of viral metagenomics of French bat species in contact with humans: Identification of new mammalian viruses. PloS ONE 2014, 9, e87194. [CrossRef] [PubMed]
50. Maeda, K.; Hondo, E.; Terakawa, J.; Kiso, Y.; Nakaichi, N.; Endoh, D.; Sakai, K.; Morikawa, S.; Mizutani, T. Isolation of novel adenovirus from fruit bat (Pteropus dasymallus yayeyamae). Emerg. Infect. Dis. 2008, 14, 347-349. [CrossRef] [PubMed]
51. Li, Y.; Ge, X.; Zhang, H.; Zhou, P.; Zhu, Y.; Zhang, Y.; Yuan, J.; Wang, L.F.; Shi, Z. Host range, prevalence, and genetic diversity of adenoviruses in bats. J. Virol. 2010, 84, 3889-3897. [CrossRef] [PubMed]
52. Osborne, J.; Rupprecht, C.; Olson, J.; Ksiazek, T.; Rollin, P.; Niezgoda, M.; Goldsmith, C.; An, U.; Nichol, S. Isolation of Kaeng Khoi virus from dead Chaerephon plicata bats in Cambodia. J. Gen. Virol. 2003, 84, 2685-2689. [CrossRef] [PubMed]
53. Weiss, S.; Witkowski, P.T.; Auste, B.; Nowak, K.; Weber, N.; Fahr, J.; Mombouli, J.-V.; Wolfe, N.D.; Drexler, J.F.; Drosten, C. Hantavirus in bat, sierra leone. Emerg. Infect. Dis. 2012, 18, 159. [CrossRef]
54. Mourya, D.; Yadav, P.; Basu, A.; Shete, A.; Patil, D.; Zawar, D.; Majumdar, T.; Kokate, P.; Sarkale, P.; Raut, C. Malsoor virus, a novel bat Phlebovirus is closely related to STFS and Heartland viruses. J. Virol. 2014, 88, 3605-3609. [CrossRef] [PubMed]
55. De Lamballerie, X.; Crochu, S.; Billoir, F.; Neyts, J.; De Micco, P.; Holmes, E.C.; Gould, E.A. Genome sequence analysis of Tamana bat virus and its relationship with the genus Flavivirus. J. Gen. Virol. 2002, 83, 2443-2454. [CrossRef]
56. Tajima, S.; Takasaki, T.; Matsuno, S.; Nakayama, M.; Kurane, I. Genetic characterization of Yokose virus, a flavivirus isolated from the bat in Japan. Virology 2005, 332, 38-44. [CrossRef] [PubMed]
57. Salaun, J.; Klein, J.; Hebrard, G. A new virus, Phnom-Penh bat virus, isolated in Cambodia from a short-nosed fruit bat, Cynopterus brachyotis angulatus. Ann. Microbiol. (Inst. Pasteur) 1974, 125, 485-495.
58. Janoska, M.; Vidovszky, M.; Molnar, V.; Liptovszky, M.; Harrach, B.; Benko, M. Novel adenoviruses and herpesviruses detected in bats. Vet. J. 2011, 189, 118-121. [CrossRef] [PubMed]
59. Wu, Z.; Ren, X.; Yang, L.; Hu, Y.; Yang, J.; He, G.; Zhang, J.; Dong, J.; Sun, L.; Du, J.; et al. Virome analysis for identification of novel mammalian viruses in bat species from Chinese provinces. J. Virol. 2012, 86, 10999-11012. [CrossRef] [PubMed]
60. 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.; et al. Bats host major mammalian paramyxoviruses. Nat. Commun. 2012, 3, 796. [CrossRef] [PubMed]
61. Kurth, A.; Kohl, C.; Brinkmann, A.; Ebinger, A.; Harper, J.A.; Wang, L.F.; Muhldorfer, K.; Wibbelt, G. Novel paramyxoviruses in free-ranging European bats. PLoS ONE 2012, 7, e38688. [CrossRef] [PubMed]
62. Anderson, D.E.; Marsh, G.A. Bat Paramyxoviruses. In Bats and Viruses; Wang, L.-F., Cowled, C., Eds.; John Wiley & Sons, Inc.: Hoboken, NY, USA, 2015; Chapter 4; pp. 99-126.
63. Tse, H.; Tsang, A.K.L.; Tsoi, H.W.; Leung, A.S.P.; Ho, C.C.; Lau, S.K.P.; Woo, P.C.Y.; Yuen, K.Y. Identification of a Novel Bat Papillomavirus by Metagenomics. PLoS ONE 2012, 7, e43986. [CrossRef] [PubMed]
64. Garcia-Perez, R.; Gottschling, M.; Wibbelt, G.; Bravo, I.G. Multiple evolutionary origins of bat papillomaviruses. Vet. Microbiol. 2013, 165, 51-60. [CrossRef]
65. Li, Y.; Ge, X.; Hon, C.C.; Zhang, H.; Zhou, P.; Zhang, Y.; Wu, Y.; Wang, L.F.; Shi, Z. Prevalence and genetic diversity of adeno-associated viruses in bats from China. J. Gen. Virol. 2010, 91, 2601-2609. [CrossRef] [PubMed]
66. Canuti, M.; Eis-Huebinger, A.M.; Deijs, M.; De Vries, M.; Drexler, J.F.; Oppong, S.K.; Muller, M.A.; Klose, S.M.; Wellinghausen, N.; Cottontail, V.M.; et al. Two novel parvoviruses in frugivorous New and Old World bats. PLoS ONE 2011, 6, e29140. [CrossRef]
67. Lau, S.K.; Woo, P.C.; Lai, K.K.; Huang, Y.; Yip, C.C.; Shek, C.T.; Lee, P.; Lam, C.S.; Chan, K.H.; Yuen, K.Y. Complete genome analysis of three novel picornaviruses from diverse bat species. J. Virol. 2011, 85, 8819-8828. [CrossRef] [PubMed]
68. Fagrouch, Z.; Sarwari, R.; Lavergne, A.; Delaval, M.; De Thoisy, B.; Lacoste, V.; Verschoor, E.J. Novel polyomaviruses in South American bats and their relationship to other members of the family Polyomaviridae. J. Gen. Virol. 2012, 93, 2652-2657. [CrossRef] [PubMed]
69. Misra, V.; Dumonceaux, T.; Dubois, J.; Willis, C.; Nadin-Davis, S.; Severini, A.; Wandeler, A.; Lindsay, R.; Artsob, H. Detection of polyoma and corona viruses in bats of Canada. J. Gen. Virol. 2009, 90, 2015-2022. [CrossRef] [PubMed]
70. Tao, Y.; Shi, M.; Conrardy, C.; Kuzmin, I.V.; Recuenco, S.; Agwanda, B.; Alvarez, D.A.; Ellison, J.A.; Gilbert, A.T.; Moran, D. Discovery of diverse polyomaviruses in bats and the evolutionary history of the Polyomaviridae. J. Gen. Virol. 2013, 94, 738-748. [CrossRef] [PubMed]
71. Emerson, G.L.; Nordhausen, R.; Garner, M.M.; Huckabee, J.R.; Johnson, S.; Wohrle, R.D.; Davidson, W.B.; Wilkins, K.; Li, Y.; Doty, J.B. Novel poxvirus in big brown bats, northwestern United States. Emerg. Infect. Dis. 2013, 19, 1002. [CrossRef] [PubMed]
72. O'Dea, M.A.; Tu, S.-L.; Pang, S.; De Ridder, T.; Jackson, B.; Upton, C. Genomic characterization of a novel poxvirus from a flying fox: Evidence for a new genus?. J. Gen. Virol. 2016, 97, 2363-2375. [CrossRef]
73. Pritchard, L.I.; Chua, K.B.; Cummins, D.; Hyatt, A.; Crameri, G.; Eaton, B.T.; Wang, L.F. Pulau virus; A new member of the Nelson Bay orthoreovirus species isolated from fruit bats in Malaysia. Arch. Virol. 2006, 151, 229-239. [CrossRef]
74. Thalmann, C.M.; Cummins, D.M.; Yu, M.; Lunt, R.; Pritchard, L.I.; Hansson, E.; Crameri, S.; Hyatt, A.; Wang, L.F. Broome virus, a new fusogenic Orthoreovirus species isolated from an Australian fruit bat. Virology 2010, 402, 26-40. [CrossRef] [PubMed]
75. Kohl, C.; Kurth, A. Bat Reoviruses. In Bats and Viruses; Wang, L.-F., Cowled, C., Eds.; John Wiley & Sons, Inc.: Hoboken, NY, USA, 2015; Chapter 8; pp. 203-215.
76. Yang, X.L.; Tan, B.; Wang, B.; Li, W.; Wang, N.; Luo, C.M.; Wang, M.N.; Zhang, W.; Li, B.; Peng, C.; et al. Isolation and identification of bat viruses closely related to human, porcine, and mink orthoreoviruses. J. Gen. Virol. 2015, 96, 3525-3531. [CrossRef]
77. 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. Evidence for an ancestral association of human coronavirus 229E with bats. J. Virol. 2015, 89, 11858-11870. [CrossRef] [PubMed]
78. 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 2013, 60, 2-21. [CrossRef]
79. Drexler, J.F.; Corman, V.M.; Wegner, T.; Tateno, A.F.; Zerbinati, R.M.; Gloza-Rausch, F.; Seebens, A.; Muller, M.A.; Drosten, C. Amplification of emerging viruses in a bat colony. Emerg. Infect. Dis. 2011, 17, 449-456. [CrossRef]
80. Drexler, J.F.; Geipel, A.; Konig, A.; Corman, V.M.; Van Riel, D.; Leijten, L.M.; Bremer, C.M.; Rasche, A.; Cottontail, V.M.; Maganga, G.D.; et al. Bats carry pathogenic hepadnaviruses antigenically related to hepatitis B virus and capable of infecting human hepatocytes. Proc. Natl. Acad. Sci. USA 2013, 110, 16151-16156. [CrossRef] [PubMed]
81. Drexler, J.F.; Seelen, A.; Corman, V.M.; Fumie Tateno, A.; Cottontail, V.; Melim Zerbinati, R.; Gloza-Rausch, F.; Klose, S.M.; Adu-Sarkodie, Y.; Oppong, S.K.; et al. Bats worldwide carry hepatitis E virus-related viruses that form a putative novel genus within the family Hepeviridae. J. Virol. 2012, 86, 9134-9147. [CrossRef] [PubMed]
82. Schneider-Schaulies, J. Cellular receptors for viruses: Links to tropism and pathogenesis. J. Gen. Virol. 2000, 81, 1413-1429. [CrossRef]
83. Woo, P.C.; Lau, S.K.; Chen, Y.; Wong, E.Y.; Chan, K.-H.; Chen, H.; Zhang, L.; Xia, N.; Yuen, K.-Y. Rapid detection of MERS coronavirus-like viruses in bats: Pote1ntial for tracking MERS coronavirus transmission and animal origin. Emerg. Microb. Infect. 2018, 7, 18. [CrossRef]
84. Widagdo, W.; Begeman, L.; Schipper, D.; Van Run, P.R.; Cunningham, A.A.; Kley, N.; Reusken, C.B.; Haagmans, B.L.; Van den Brand, J.M. Tissue distribution of the MERS-coronavirus receptor in bats. Sci. Rep. 2017, 7, 1193. [CrossRef]
85. Letko, M.; Miazgowicz, K.; McMinn, R.; Seifert, S.N.; Sola, I.; Enjuanes, L.; Carmody, A.; Van Doremalen, N.; Munster, V. Adaptive evolution of MERS-CoV to Species variation in DPP4. Cell Rep. 2018, 24, 1730-1737. [CrossRef]
86. Rose, T.M.; Schultz, E.R.; Henikoff, J.G.; Pietrokovski, S.; McCallum, C.M.; Henikoff, S. Consensus-degenerate hybrid oligonucleotide primers for amplification of distantly related sequences. Nucleic Acids Res. 1998, 26, 1628-1635. [CrossRef] [PubMed]
87. Lambert, C.; Braxton, C.; Charlebois, R.; Deyati, A.; Duncan, P.; La Neve, F.; Malicki, H.; Ribrioux, S.; Rozelle, D.; Michaels, B. Considerations for Optimization of High-throughput sequencing bioinformatics pipelines for virus detection. Viruses 2018, 10, 528. [CrossRef]
88. Hu, B.; Zeng, L.-P.; Yang, X.-L.; Ge, X.-Y.; Zhang, W.; Li, B.; Xie, J.-Z.; Shen, X.-R.; Zhang, Y.-Z.; Wang, N. Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus. PLoS Pathog. 2017, 13, e1006698. [CrossRef] [PubMed]
89. Hayman, D.T. Biannual birth pulses allow filoviruses to persist in bat populations. Proc. Biol. Sci. Royal Soc. 2015, 282, 20142591. [CrossRef] [PubMed]
90. Wen, M.; Ng, J.H.; Zhu, F.; Chionh, Y.T.; Chia, W.N.; Mendenhall, I.H.; Lee, B.P.-H.; Irving, A.T.; Wang, L.-F. Exploring the genome and transcriptome of the cave nectar bat Eonycteris spelaea with PacBio long-read sequencing. GigaScience 2018, 7, giy116. [CrossRef] [PubMed]