Coexistence of multiple coronaviruses in several bat colonies in an abandoned mineshaft (original) (raw)
References
Anthony SJ, Ojeda-Flores R, Rico-Chavez O, Navarrete-Macias I, Zambrana-Torrelio CM, Rostal MK, Epstein JH, Tipps T, Liang E, Sanchez-Leon M, Sotomayor-Bonilla J, Aguirre AA, Avila-Flores R, Medellin RA, Goldstein T, Suzan G, Daszak P, Lipkin WI. 2013. Coronaviruses in bats from Mexico. J Gen Virol, 94: 1028–1038. ArticlePubMed CentralCASPubMed Google Scholar
Baker ML, Schountz T, Wang LF. 2013. Antiviral immune responses of bats: a review. Zoonoses Public Health, 60: 104–116. ArticleCASPubMed Google Scholar
Bruckova M, McIntosh K, Kapikian AZ, Chanock RM. 1970. The adaptation of two human coronavirus strains (OC38 and OC43) to growth in cell monolayers. Proc Soc Exp Biol Med, 135: 431–435. ArticleCASPubMed Google Scholar
Cavanagh D, Britton P. 2012. Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses. Family Coronaviridae. In: International Committee on Taxonomy of Viruses. Andrew M.Q. King MJA, Eric B. Carstens, and Elliot J. Lefkowitz (eds). Cambridge: Academic Press Elsevier, pp. 770–792. Google Scholar
Chu DK, Peiris JS, Chen H, Guan Y, Poon LL. 2008. Genomic characterizations of bat coronaviruses (1A, 1B and HKU8) and evidence for co-infections in Miniopterus bats. J Gen Virol, 89: 1282–1287. ArticleCASPubMed Google Scholar
Chu DK, Poon LL, Chan KH, Chen H, Guan Y, Yuen KY, Peiris JS. 2006. Coronaviruses in bent-winged bats (Miniopterus spp.). J Gen Virol, 87: 2461–2466. ArticleCASPubMed Google Scholar
Corman VM, Ithete NL, Richards LR, Schoeman MC, Preiser W, Drosten C, Drexler JF. 2014. Rooting the phylogenetic tree of Middle East respiratory syndrome coronavirus by characterization of a conspecific virus from an African bat. J Virol, 88: 11297–11303. ArticlePubMed CentralPubMed Google Scholar
De Benedictis P, Marciano S, Scaravelli D, Priori P, Zecchin B, Capua I, Monne I, Cattoli G. 2013. Alpha and lineage C beta-CoV infections in Italian bats. Virus Genes, 48: 366–371. ArticlePubMed Google Scholar
de Souza Luna LK, Heiser V, Regamey N, Panning M, Drexler JF, Mulangu S, Poon L, Baumgarte S, Haijema BJ, Kaiser L, Drosten C. 2007. Generic detection of coronaviruses and differentiation at the prototype strain level by reverse transcription-PCR and nonfluorescent low-density microarray. J Clin Microbiol, 45: 1049–1052. ArticlePubMed CentralPubMed Google Scholar
Drexler JF, Corman VM, Wegner T, Tateno AF, Zerbinati RM, Gloza-Rausch F, Seebens A, Muller MA, Drosten C. 2011. Amplification of emerging viruses in a bat colony. Emerg Infect Dis, 17: 449–456. ArticlePubMed CentralCASPubMed Google Scholar
Drexler JF, Gloza-Rausch F, Glende J, Corman VM, Muth D, Goettsche M, Seebens A, Niedrig M, Pfefferle S, Yordanov S, Zhelyazkov L, Hermanns U, Vallo P, Lukashev A, Muller MA, Deng H, Herrler G, Drosten C. 2010. Genomic characterization of severe acute respiratory syndrome-related coronavirus in European bats and classification of coronaviruses based on partial RNA-dependent RNA polymerase gene sequences. J Virol, 84: 11336–11349. ArticlePubMed CentralCASPubMed Google Scholar
Ge XY, Li JL, Yang XL, Chmura AA, Zhu G, Epstein JH, Mazet JK, Hu B, Zhang W, Peng C, Zhang YJ, Luo CM, Tan B, Wang N, Zhu Y, Crameri G, Zhang SY, Wang LF, Daszak P, Shi ZL. 2013. Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor. Nature, 503: 535–538. ArticleCASPubMed Google Scholar
Geldenhuys M, Weyer J, Nel LH, Markotter W. 2013. Coronaviruses in South african bats. Vector Borne Zoonotic Dis, 13: 516–519. ArticlePubMed Google Scholar
Goes LG, Ruvalcaba SG, Campos AA, Queiroz LH, de Carvalho C, Jerez JA, Durigon EL, Davalos LI, Dominguez SR. 2013. Novel bat coronaviruses, Brazil and Mexico. Emerg Infect Dis, 19: 1711–1713. ArticlePubMed CentralPubMed Google Scholar
Gouilh MA, Puechmaille SJ, Gonzalez JP, Teeling E, Kittayapong P, Manuguerra JC. 2011. SARS-Coronavirus ancestor's foot-prints in South-East Asian bat colonies and the refuge theory. Infect Genet Evol, 11: 1690–1702. ArticlePubMed Google Scholar
Graham RL, Donaldson EF, Baric RS. 2013. A decade after SARS: strategies for controlling emerging coronaviruses. Nat Rev Microbiol, 11: 836–848. ArticleCASPubMed Google Scholar
Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser (Oxf), 41: 95–98. CAS Google Scholar
Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics, 17: 754–755. ArticleCASPubMed Google Scholar
Irwin DM, Kocher TD, Wilson AC. 1991. Evolution of the Cytochrome-B Gene of Mammals. J Mol Evol, 32: 128–144. ArticleCASPubMed Google Scholar
Kusanagi K, Kuwahara H, Katoh T, Nunoya T, Ishikawa Y, Samejima T, Tajima M. 1992. Isolation and serial propagation of porcine epidemic diarrhea virus in cell cultures and partial characterization of the isolate. J Vet Med Sci, 54: 313–318. ArticleCASPubMed Google Scholar
Lai MMC, Perlman S, Anderson LJ. 2007. Coronaviridae. In: Fields Virology, Knipe DM, Howley PM (eds). Philadephia: Lippincott Williams & Wilkins, pp. 1305–1336. Google Scholar
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. 2007. Clustal W and Clustal X version 2.0. Bioinformatics, 23: 2947–2948. ArticleCASPubMed Google Scholar
Lau SK, Li KS, Tsang AK, Lam CS, Ahmed S, Chen H, Chan KH, Woo PC, Yuen KY. 2013. Genetic characterization of Betacoronavirus lineage C viruses in bats reveals marked sequence divergence in the spike protein of pipistrellus bat coronavirus HKU5 in Japanese pipistrelle: implications for the origin of the novel Middle East respiratory syndrome coronavirus. J Virol, 87: 8638–8650. ArticlePubMed CentralCASPubMed Google Scholar
Lau SK, Li KS, Tsang AK, Shek CT, Wang M, Choi GK, Guo R, Wong BH, Poon RW, Lam CS, Wang SY, Fan RY, Chan KH, Zheng BJ, Woo PC, Yuen KY. 2012. Recent transmission of a novel alphacoronavirus, bat coronavirus HKU10, from Leschenault's rousettes to pomona leaf-nosed bats: first evidence of interspecies transmission of coronavirus between bats of different suborders. J Virol, 86: 11906–11918. ArticlePubMed CentralCASPubMed Google Scholar
Lau SK, Woo PC, Li KS, Huang Y, Tsoi HW, Wong BH, Wong SS, Leung SY, Chan KH, Yuen KY. 2005. Severe acute respiratory syndrome coronavirus-like virus in Chinese horseshoe bats. Proc Natl Acad Sci U S A, 102: 14040–14045. ArticlePubMed CentralCASPubMed Google Scholar
Lau SKP, Woo PCY, Li KSM, Huang Y, Wang M, Lam CSF, Xu HF, Guo RT, Chan KH, Zheng BJ, Yuen KY. 2007. Complete genome sequence of bat coronavirus HKU2 from Chinese horseshoe bats revealed a much smaller spike gene with a different evolutionary lineage from the rest of the genome. Virology, 367: 428–439. ArticleCASPubMed Google Scholar
Lelli D, Papetti A, Sabelli C, Rosti E, Moreno A, Boniotti MB. 2013. Detection of coronaviruses in bats of various species in Italy. Viruses, 5: 2679–2689. ArticlePubMed CentralPubMed Google Scholar
Li W, Shi Z, Yu M, Ren W, Smith C, Epstein JH, Wang H, Crameri G, Hu Z, Zhang H, Zhang J, McEachern J, Field H, Daszak P, Eaton BT, Zhang S, Wang LF. 2005. Bats are natural reservoirs of SARS-like coronaviruses. Science, 310: 676–679. ArticleCASPubMed Google Scholar
Luis AD, Hayman DTS, O'Shea TJ, Cryan PM, Gilbert AT, Pulliam JRC, Mills JN, Timonin ME, Willis CKR, Cunningham AA, Fooks AR, Rupprecht CE, Wood JLN, Webb CT. 2013. A comparison of bats and rodents as reservoirs of zoonotic viruses: are bats special? Proc Biol Sci, 280: 20122753. ArticlePubMed CentralPubMed Google Scholar
Macnaughton MR, Madge MH. 1978. The genome of human coronavirus strain 229E. J Gen Virol, 39: 497–504. ArticleCASPubMed Google Scholar
Martin DP, Williamson C, Posada D. 2005. RDP2: recombination detection and analysis from sequence alignments. Bioinformatics, 21: 260–262. ArticleCASPubMed Google Scholar
Mihindukulasuriya KA, Wu G, St Leger J, Nordhausen RW, Wang D. 2008. Identification of a novel coronavirus from a beluga whale by using a panviral microarray. J Virol, 82: 5084–5088. ArticlePubMed CentralCASPubMed Google Scholar
Pedersen NC, Black JW, Boyle JF, Evermann JF, McKeirnan AJ, Ott RL. 1984. Pathogenic differences between various feline coronavirus isolates. Adv Exp Med Biol, 173: 365–380. ArticleCASPubMed Google Scholar
Peiris JS, Lai ST, Poon LL, Guan Y, Yam LY, Lim W, Nicholls J, Yee WK, Yan WW, Cheung MT, Cheng VC, Chan KH, Tsang DN, Yung RW, Ng TK, Yuen KY. 2003. Coronavirus as a possible cause of severe acute respiratory syndrome. Lancet, 361: 1319–1325. ArticleCASPubMed Google Scholar
Poon LL, Chu DK, Chan KH, Wong OK, Ellis TM, Leung YH, Lau SK, Woo PC, Suen KY, Yuen KY, Guan Y, Peiris JS. 2005. Identification of a novel coronavirus in bats. J Virol, 79: 2001–2009. ArticlePubMed CentralCASPubMed Google Scholar
Quan PL, Firth C, Street C, Henriquez JA, Petrosov A, Tashmukhamedova A, Hutchison SK, Egholm M, Osinubi MO, Niezgoda M, Ogunkoya AB, Briese T, Rupprecht CE, Lipkin WI. 2010. Identification of a severe acute respiratory syndrome coronavirus-like virus in a leaf-nosed bat in Nigeria. MBio, 1. doi: 10.1128/mBio.00208-10. Google Scholar
Shi ZL. 2013. Emerging infectious diseases associated with bat viruses. Science China-Life Sciences, 56: 678–682. ArticlePubMed Google Scholar
Tang XC, Zhang JX, Zhang SY, Wang P, Fan XH, Li LF, Li G, Dong BQ, Liu W, Cheung CL, Xu KM, Song WJ, Vijaykrishna D, Poon LLM, Peiris JSM, Smith GJD, Chen H, Guan Y. 2006. Prevalence and genetic diversity of coronaviruses in bats from China. J Virol, 80: 7481–7490. ArticlePubMed CentralCASPubMed Google Scholar
Tong S, Conrardy C, Ruone S, Kuzmin IV, Guo X, Tao Y, Niezgoda M, Haynes L, Agwanda B, Breiman RF, Anderson LJ, Rupprecht CE. 2009. Detection of novel SARS-like and other coronaviruses in bats from Kenya. Emerg Infect Dis, 15: 482–485. ArticlePubMed CentralPubMed Google Scholar
van Boheemen S, de Graaf M, Lauber C, Bestebroer TM, Raj VS, Zaki AM, Osterhaus AD, Haagmans BL, Gorbalenya AE, Snijder EJ, Fouchier RA. 2012. Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans. MBio, 3. doi: 10.1128/mBio.00473-12. Google Scholar
van der Hoek L, Pyrc K, Jebbink MF, Vermeulen-Oost W, Berkhout RJ, Wolthers KC, Wertheim-van Dillen PM, Kaandorp J, Spaargaren J, Berkhout B. 2004. Identification of a new human coronavirus. Nat Med, 10: 368–373. ArticleCASPubMed Google Scholar
Wacharapluesadee S, Duengkae P, Rodpan A, Kaewpom T, Maneeorn P, Kanchanasaka B, Yingsakmongkon S, Sittidetboripat N, Chareesaen C, Khlangsap N, Pidthong A, Leadprathom K, Ghai S, Epstein JH, Daszak P, Olival KJ, Blair PJ, Callahan MV, Hemachudha T. 2015. Diversity of coronavirus in bats from Eastern Thailand. Virol J, 12: 57. ArticlePubMed CentralPubMed Google Scholar
Watanabe S, Masangkay JS, Nagata N, Morikawa S, Mizutani T, Fukushi S, Alviola P, Omatsu T, Ueda N, Iha K, Taniguchi S, Fujii H, Tsuda S, Endoh M, Kato K, Tohya Y, Kyuwa S, Yoshikawa Y, Akashi H. 2010. Bat Coronaviruses and Experimental Infection of Bats, the Philippines. Emerg Infect Dis, 16: 1217–1223. ArticlePubMed CentralCASPubMed Google Scholar
Woo PC, Lau SK, Chu CM, Chan KH, Tsoi HW, Huang Y, Wong BH, Poon RW, Cai JJ, Luk WK, Poon LL, Wong SS, Guan Y, Peiris JS, Yuen KY. 2005. Characterization and complete genome sequence of a novel coronavirus, coronavirus HKU1, from patients with pneumonia. J Virol, 79: 884–895. ArticlePubMed CentralCASPubMed Google Scholar
Woo PC, Lau SK, Lam CS, Lau CC, Tsang AK, Lau JH, Bai R, Teng JL, Tsang CC, Wang M, Zheng BJ, Chan KH, Yuen KY. 2012a. Discovery of seven novel Mammalian and avian coronaviruses in the genus deltacoronavirus supports bat coronaviruses as the gene source of alphacoronavirus and betacoronavirus and avian coronaviruses as the gene source of gammacoronavirus and deltacoronavirus. J Virol, 86: 3995–4008. ArticlePubMed CentralCASPubMed Google Scholar
Woo PC, Lau SK, Li KS, Poon RW, Wong BH, Tsoi HW, Yip BC, Huang Y, Chan KH, Yuen KY. 2006. Molecular diversity of coronaviruses in bats. Virology, 351: 180–187. ArticleCASPubMed Google Scholar
Woo PCY, Lau SKP, Huang Y, Yuen KY. 2009. Coronavirus Diversity, Phylogeny and Interspecies Jumping. Exp Biol Med (Maywood), 234: 1117–1127. ArticleCAS Google Scholar
Woo PCY, Lau SKP, Li KSM, Tsang AKL, Yuen KY. 2012b. Genetic relatedness of the novel human group C betacoronavirus to Tylonycteris bat coronavirus HKU4 and Pipistrellus bat coronavirus HKU5. Emerg Microb Infect, 1: e35. ArticleCAS Google Scholar
Wu ZQ, Yang L, Yang F, Ren XW, Jiang JY, Dong J, Sun LL, Zhu YF, Zhou HN, Jin Q. 2014. Novel Henipa-like Virus, Mojiang Paramyxovirus, in rats, China, 2012. Emerg Infect Dis, 20: 1064–1066. PubMed CentralPubMed Google Scholar
Yuan J, Hon CC, Li Y, Wang D, Xu G, Zhang H, Zhou P, Poon LL, Lam TT, Leung FC, Shi Z. 2010. Intraspecies diversity of SARS-like coronaviruses in Rhinolophus sinicus and its implications for the origin of SARS coronaviruses in humans. J Gen Virol, 91: 1058–1062. ArticleCASPubMed Google Scholar
Zaki AM, van Boheemen S, Bestebroer TM, Osterhaus AD, Fouchier RA. 2012. Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia. N Engl J Med, 367: 1814–1820. ArticleCASPubMed Google Scholar