Detection and characterization of diverse alpha- and betacoronaviruses from bats in China

doi:10.1007/s12250-016-3727-3

. 2016 Feb;31(1):69-77.

doi: 10.1007/s12250-016-3727-3. Epub 2016 Feb 2.

Detection and characterization of diverse alpha- and betacoronaviruses from bats in China

Lin Xu¹, Fuqiang Zhang², Weihong Yang³, Tinglei Jiang⁴, Guanjun Lu⁴, Biao He¹, Xingyu Li¹, Tingsong Hu², Gang Chen², Yun Feng³, Yuzhen Zhang³, Quanshui Fan², Jiang Feng⁴, Hailin Zhang³, Changchun Tu^{5

6}

Affiliations

¹ Military Veterinary Institute, Academy of Military Medical Sciences, Changchun, 130122, China.
² Center for Disease Control and Prevention of Chengdu Military Region, Kunming, 650118, China.
³ Yunnan Institute of Endemic Diseases Control and Prevention, Dali, 671000, China.
⁴ School of Urban and Environmental Sciences, Northeast Normal University, Changchun, 130024, China.
⁵ Military Veterinary Institute, Academy of Military Medical Sciences, Changchun, 130122, China. changchun_tu@hotmail.com.
⁶ Jiangsu Co-innovation Center for Prevention and Control of Important, Animal Infectious Diseases and Zoonoses, Yangzhou, 225009, China. changchun_tu@hotmail.com.

PMID: 26847648
PMCID: PMC7090707
DOI: 10.1007/s12250-016-3727-3

Detection and characterization of diverse alpha- and betacoronaviruses from bats in China

Lin Xu et al. Virol Sin. 2016 Feb.

. 2016 Feb;31(1):69-77.

doi: 10.1007/s12250-016-3727-3. Epub 2016 Feb 2.

Authors

Affiliations

¹ Military Veterinary Institute, Academy of Military Medical Sciences, Changchun, 130122, China.
² Center for Disease Control and Prevention of Chengdu Military Region, Kunming, 650118, China.
³ Yunnan Institute of Endemic Diseases Control and Prevention, Dali, 671000, China.
⁴ School of Urban and Environmental Sciences, Northeast Normal University, Changchun, 130024, China.
⁵ Military Veterinary Institute, Academy of Military Medical Sciences, Changchun, 130122, China. changchun_tu@hotmail.com.
⁶ Jiangsu Co-innovation Center for Prevention and Control of Important, Animal Infectious Diseases and Zoonoses, Yangzhou, 225009, China. changchun_tu@hotmail.com.

PMID: 26847648
PMCID: PMC7090707
DOI: 10.1007/s12250-016-3727-3

Abstract

Bats have been implicated as important reservoir hosts of alpha- and betacoronaviruses. In this study, diverse coronaviruses (CoVs) were detected in 50 of 951 (positive rate 5.3%) intestinal specimens of eight bat species collected in four provinces and the Tibet Autonomous Region of China by pan-coronavirus RT-PCR screening. Based on 400-nt RNA-dependent RNA polymerase (RdRP) sequence analysis, eight belonged to genus Alphacoronavirus and 42 to Betacoronavirus. Among the 50 positive specimens, thirteen gave rise to CoV full-length RdRP gene amplification for further sequence comparison, of which three divergent sequences (two from a unreported province) were subjected to full genome sequencing. Two complete genomes of betacoronaviruses (JTMC15 and JPDB144) and one nearly-complete genome of alphacoronavirus (JTAC2) were sequenced and their genomic organization predicted. The present study has identified additional numbers of genetically diverse bat-borne coronaviruses with a wide distribution in China. Two new species of bat CoV, identified through sequence comparison and phylogenetic analysis, are proposed.

Keywords: Alphacoronavirus; Betacoronavirus; bats; diversity.

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References

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[1] Baez-Santos YM, John SES, Mesecar AD. The SARScoronavirus papain-like protease: Structure, function and inhibition by designed antiviral compounds. Anti Res. 2015;115:21–38. doi: 10.1016/j.antiviral.2014.12.015. - DOI - PMC - PubMed

[2] Baez-Santos YM, John SES, Mesecar AD. The SARScoronavirus papain-like protease: Structure, function and inhibition by designed antiviral compounds. Anti Res. 2015;115:21–38. doi: 10.1016/j.antiviral.2014.12.015. - DOI - PMC - PubMed

[3] Chu DKW, Peiris JSM, Chen H, Guan Y, Poon LLM. Genomic characterizations of bat coronaviruses (1A, 1B and HKU8) and evidence for co-infections in Miniopterus bats. J Gen Virol. 2008;89:1282–1287. doi: 10.1099/vir.0.83605-0. - DOI - PubMed

[4] Chu DKW, Peiris JSM, Chen H, Guan Y, Poon LLM. Genomic characterizations of bat coronaviruses (1A, 1B and HKU8) and evidence for co-infections in Miniopterus bats. J Gen Virol. 2008;89:1282–1287. doi: 10.1099/vir.0.83605-0. - DOI - PubMed

[5] Falcon A, Vazquez-Moron S, Casas I, Aznar C, Ruiz G, Pozo F, Perez-Brena P, Juste J, Ibanez C, Garin I, Aihartza J, Echevarria JE. Detection of alpha and betacoronaviruses in multiple Iberian bat species. Arch Virol. 2011;156:1883–1890. doi: 10.1007/s00705-011-1057-1. - DOI - PMC - PubMed

[6] Falcon A, Vazquez-Moron S, Casas I, Aznar C, Ruiz G, Pozo F, Perez-Brena P, Juste J, Ibanez C, Garin I, Aihartza J, Echevarria JE. Detection of alpha and betacoronaviruses in multiple Iberian bat species. Arch Virol. 2011;156:1883–1890. doi: 10.1007/s00705-011-1057-1. - DOI - PMC - PubMed

[7] Gao F, Ou HY, Chen LL, Zheng WX, Zhang CT. Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes. FEBS Letters. 2003;553:451–456. doi: 10.1016/S0014-5793(03)01091-3. - DOI - PMC - PubMed

[8] Gao F, Ou HY, Chen LL, Zheng WX, Zhang CT. Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes. FEBS Letters. 2003;553:451–456. doi: 10.1016/S0014-5793(03)01091-3. - DOI - PMC - PubMed

[9] Ge XY, Li JL, Yang XL, Chmura AA, Zhu GJ, 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. Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor. Nature. 2013;503:535–538. doi: 10.1038/nature12711. - DOI - PMC - PubMed

[10] Ge XY, Li JL, Yang XL, Chmura AA, Zhu GJ, 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. Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor. Nature. 2013;503:535–538. doi: 10.1038/nature12711. - DOI - PMC - PubMed

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Detection and characterization of diverse alpha- and betacoronaviruses from bats in China

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Detection and characterization of diverse alpha- and betacoronaviruses from bats in China

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