Alagaili AN, Briese T, Mishra N, Kapoor V, Sameroff SC, de Wit E, Munster VJ, Hensley LE, Zalmout IS, Kapoor A, Epstein JH (2014). Middle East respiratory syndrome coronavirus infection in dromedary camels in Saudi Arabia. MBio 5(4):e01482-14.
Crossref

Asim B, Uttaran B, Alok Kumar C, Devendra NT, Hasina B, Shanta D (2020). Emergence of Novel Coronavirus and COVID-19: Whether to stay or die out? Critical Reviews in Microbiology doi10.1080/1040841X.2020.1739001.

Chan JFW, Kok KH, Zhu Z, Chu H, To KK-W, Yuan S, Yuen K-Y (2020). Genomic characterization of the 2019 novel human‐pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan. Emerging Microbes and Infections 9:221‐236.
Crossref

Chan JFW, Lau SKP, To KKW, Cheng VCC, Woo PCY, Yuen K (2015). Middle East respiratory syndrome coronavirus: Another zoonotic betacoronavirus causing SARS‐like disease. Clinical Microbiology Reviews 28:465‐522.
Crossref

Changtai W, Zhongping L, Zixiang C, Xin H, Mengyuan X, Tengfei H, Zhenhua Z (2020). The establishment of reference sequence for SARS‐CoV‐2 and variation analysis. Journal of Medical Virology 92:667-674.
Crossref

Chen N, Zhou M, Dong X, Qu J, Gong F, Han Y, Yu T (2020). Epidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: A descriptive study. Lancet 395:507‐513.
Crossref

Chu DKW, Poon LLM, Gomaa MM, Shehata MM, Perera RA, Zeid DA, El Rifay AS, Siu LY, Guan Y, Webby RJ, Ali MA (2014). MERS coronaviruses in dromedary camels, Egypt. Emerging Infectious Diseases 20:1049‐1053.
Crossref

Coutard B, Valle C, de Lamballerie X, Canard B, Seidah NG, Decroly E (2020). The spike glycoprotein of the new coronavirus 2019-nCoV contains a furin-like cleavage site absent in CoV of the same clade. Antiviral Research 176:104742.
Crossref

Cui J, Li F, Shi ZL (2019). Origin and evolution of pathogenic coronaviruses. Nature Reviews Microbiology 17(3):181-192.
Crossref

Cyranoski D (2020). Did pangolins spread the China coronavirus to people?. Nature. 
Crossref

Eickmann M (2003). Phylogeny of the SARS Coronavirus. Science 302(5650):1504b-11505.
Crossref

Felsenstein J (1985). Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791.
Crossref

Forster P, Lucy F, Colin R, Michael F (2020). Phylogenetic network analysis of SARS-CoV-2 genomes. doi:10.1073/pnas.2004999117.
Crossref

Gorbalenya AE, Baker SC, Baric RS, de Groot RJ, Drosten C, Gulyaeva AA (2020). Severe acute respiratory syndrome-related coronavirus: The species and its viruses - A statement of the Coronavirus Study Group. 
Crossref

Grubaugh ND, Petrone ME, Holmes EC (2020). We shouldn't worry when a virus mutates during disease outbreaks. Nature Microbiology 5:529-530.
Crossref

Guan WJ, Ni Z, Hu Y, Liang W, Ou CQ, He Jx, Liu L, Shan H, Lei CL, Hui DSC, Du B, Li LJ, Zeng G, Kowk-Yung Y, Ru-chong C, Chun-li T, Tao W, Ping-yan C, Jie X, Shi-yue L, Jin-lin W, Zi-jing L, Yi-xiang P, Li W, Yong L, Ya-hua H, Peng P, Jian-ming W, Ji-yang L, Zhong C, Gang L, Zhi-jian Z, Shao-qin Q, Jie L, Chang-jiang Y, Shao-yong Z, Nan-shan Z (2019). Clinical characteristics of 2019 novel coronavirus infection in China. medRxiv. 2020:20020974. 
Crossref

Guan Y, Zheng BJ, He YQ, Liu XL, Zhuang ZX, Cheung CL, Luo SW, Li PH, Zhang LJ, Guan YJ, Butt KM (2003). Isolation and characterization of viruses related to the SARS coronavirus from animals in Southern China. Science 302(5643):276-278.
Crossref

Hall TA (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41:95-98.

Huang C, Wang Y, Li X, Ren, L., Zhao J, Hu Y, Zhang L, Fan G, Xu J, Gu X, Cheng Z (2020). Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Lancet 395:497‐506.
Crossref

Hurst KR, Koetzner CA, Masters PS (2013). Characterization of a critical interaction between the coronavirus nucleocapsid protein and nonstructural protein 3 of the viral replicase-transcriptase complex. Journal of Virology 87(16):9159-9172.
Crossref

Koyama T, Platt D, Parida L (2020). Variant analysis of COVID-19 genomes. Bull. World Health Organ. https://doi.org/10.2471/BLT.20.253591.
Crossref

Kumar S, Stecher G, Li M, Knyaz C, Tamura K (2018). MEGA X: Molecular Evolutionary Genetics Analysis across computing platforms. Molecular Biology and Evolution 35:1547-1549.
Crossref

Lam TTY, Shum MHH, Zhu HC, Tong YG, Ni XB, Liao YS, Wei W, Cheung WYM, Li WJ, Li LF, Leung GM, Holmes EC, Hu YL, Guan Y (2020). Identification of 2019-nCoV related coronaviruses in Malayan pangolins in southern China. bioRxiv.
Crossref

Lau SKP, Woo PCY, Li KSM, 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. Proceedings of the National Academy of Sciences of the United States of America 102:14040‐14045.
Crossref

Lefkowitz EJ, Dempsey DM, Hendrickson RC, Orton RJ, Siddell SG, Smith DB (2018). Virus taxonomy: The database of the International Committee on Taxonomy of Viruses (ICTV). Nucleic Acids Research 46(D1):D708-D717.
Crossref

Li W, Shi Z, Yu M, Wuze R, Craig S, Jonathan HE, Hanzhong W, Gary C, Zhihong H, Huajun Z, Jianhong Z, Jennifer M, Hume F, Peter D, Bryan TE, Shuyi Z, Lin-Fa W (2005). Bats are natural reservoirs of SARS‐like coronaviruses. Science 310:676‐679.
Crossref

Li X, Junjie Za, Qiang Z, Qing N, Yi L, Brian TF, Antoine C (2020a). Evolutionary history, potential intermediate animal host, and cross‐species analyses of SARS‐CoV‐2. Journal of Medical Virology.
Crossref

Li X, Wang W, Zhao X, Zai J, Zhao Q, Li Y, Chaillon A (2020b). Transmission dynamics and evolutionary history of 2019‐nCoV. Journal of Medical Virology. 
Crossref

Li X, Zai J, Wang X, Li Y (2020c). Potential of large 'first generation' human‐to‐human transmission of 2019‐nCoV. Journal of Medical Virology 92:448‐454.
Crossref

Lu R,Zhao X, Li J,Niu P, Yang B, Honglong W, Wenling W, Hao S, Baoying H, Na Z, Yuhai B, Xuejun M, Faxian Z, Liang W, Tao H, Hong Z, Zhenhong H, Weimin Z, Li Z, Jing C, Yao M, Ji W, Yang L, Jianying Y, Zhihao X, Jinmin M, William JL, Dayan W, Wenbo X, Edward CH, George FG,Guizhen W, Weijun C, Weifeng S, Wenjie T (2020). Genomic characterisation and epidemiology of 2019 novel coronavirus: Implications for virus origins and receptor binding. The Lancet 395(10224):565-574.
Crossref

Marra MA, Jones SJM, Astell CR, Holt RA, Brooks-Wilson A, Yaron SNB, Jaswinder K, Jennifer KA, Sarah AB1, Susanna YC, Alison C1, Shaun MC, Doug F, Noreen G, Obi LG, Stephen RL, Michael M, Helen M, Stephen BM, Pawan KP, Anca SP, Gordon AR, Jacqueline ES, Asim S, Duane ES, Jeff MS, George SY, Francis P, Anton A, Harvey A, Nathalie B, Kathy B, Timothy FB, Donnie B, Martin C, Michael D, Lisa F, Ramon F, Michael G, Michael G, Allen G, Steven J, Heinz F, Adrienne M, Amin K, Yan L, Susan N, Ute S, Graham AT, Shaun T, Robert V, Diane W, Brynn W, Robert CB, Mel K, Martin P, Danuta MS, Chris U, Rachel LR (2003). The genome sequence of the SARS-associated coronavirus. Science 300(5624):1399-1404.
Crossref

Müller MA, Corman VM, Jores J, Meyer B, Younan M, Liljander A, Bosch BJ, Lattwein E, Hilali M, Musa BE, Bornstein S, Drosten C (2014). MERS coronavirus neutralizing antibodies in camels, Eastern Africa, 1983‐1997. Emerging Infectious Diseases 20:2093‐2095.
Crossref

NCBI Repository (National Center for Biotechnology Information, U.S). National Library of Medicine 8600 Rockville Pike, Bethesda MD, 20894 USA. Available at https://www.ncbi.nlm.nih.gov.

Niemeyer D, Mösbauer K, Klein EM, Andrea S, Robert CM, Anna MM, Ronald D,Susan CB, Christian D, Marcel AM (2018). The papain-like protease determines a virulence trait that varies among members of the SARS-coronavirus species. PLoS Pathology 14(9):e1007296.
Crossref

Oostra M, de Haan CA, Rottier PJ (2007). The 29-nucleotide deletion present in human but not in animal severe acute respiratory syndrome coronaviruses disrupts the functional expression of open reading frame 8. Journal of Virology 81:13876-13888.
Crossref

Rota PA, Oberste MS, Monroe SS, Nix WA, Campagnoli R, Icenogle JP, Peñaranda S, Bankamp B, Maher K, Chen M-H, Tong S, Tamin A, Lowe L, Frace M, DeRisi JL, Chen Q, Wang D, Erdman DD, Peret TCT, Burns C, Ksiazek TG, Rollin PE, Sanchez A, Liffick S, Holloway B, Limor J, McCaustland K, Olsen-Rasmussen M, Fouchier R, Günther S, Osterhaus ADME, Drosten C, Pallansch MA, Anderson LJ, Bellini WJ (2003). Characterization of a novel coronavirus associated with severe acute respiratory syndrome. Science 300(5624):1394-1399.
Crossref

Rozhgar AK, Muhamad S, Mehmet O (2020). Genomic characterization of a novel SARS-CoV-2. 
Crossref

Saitou N, Nei M (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425.

Shi CS, Nabar NR, Huang NN, Kehrl JH (2019). SARS-Coronavirus Open Reading Frame-8b triggers intracellular stress pathways and activates NLRP3 inflammasomes. Cell Death Discovery 5;101.
Crossref

Song HD, Tu CC, Zhang GW, Sheng-Yue W, Kui Z, Lian-Cheng L, Qiu-Xia C, Yu-Wei G, Hui-Qiong Z, Hua X, Hua-Jun Z, Shur-Wern WC, Feng C, Chun-Ming P, Hua X, Sai-Juan C, Hui-Ming L, Duan-Hua Z, Yu-Fei L, Jian-Feng H, Peng-Zhe Q, Ling-Hui L, YQR, Wen-Jia L, Ye-Dong Y, Larry A, Ming W, Rui-Heng X, Xin-Wei W, Huan-Ying Z, Jin-Ding C, Guodong L, Yang G, Ming L, Ling F, Li-Yun J, Hui L, Fang C, Biao D, Li-Juan H, Jin-Yan L, Suxiang T, Xiangang K, Lin D, Pei H, Hua T, Andrea B, Xiao-Jing Y, Ottavia S, Zong-Ming G, Hai-Yan P, Wei-Zhong H, Jean-Claude M, Arnaud F, Antoine D, Neri N, Yi-Xue L Chung-I W, Guo-Ping Z (2005). Cross‐host evolution of severe acute respiratory syndrome coronavirus in palm civet and human. Proceedings of the National Academy of Sciences of the United States of America 102:2430‐2435. 
Crossref

Su S, Wong G, Shi W, Liu J, Lai ACK, Zhou J, Liu W, Bi Y, Gao GF (2016). Epidemiology, genetic recombination, and pathogenesis of coronaviruses. Trends Microbiology 24:490‐502.
Crossref

Wang M, Yan M, Xu H,Liang W, Kan B, Zheng B, Chen H, Zheng H, Xu Y, Zhang E, Wang H, Ye J, Li G, Li M, Cui Z, Liu Y-F, Guo R-T, Liu X-N, Zhan L-H, Zhou D-H, Zhao A, Hai R, Yu D, Guan Y, Xu J (2005). SARS‐CoV infection in a restaurant from palm civet. Emerging Infectious Diseases 11:1860‐1865.
Crossref

Woo CYP, Wang M, Lau SKP, Huifang X, Rosana WSP, Rongtong G, Beatrice HL W, Kai G, Hoi-Wah T, Yi H, Kenneth SML, Carol SFL, Kwok-Hung C, Bo-Jian Z, Kwok-Yung Y (2007). Comparative analysis of twelve genomes of three novel group 2c and group 2d coronaviruses reveals unique group and subgroup features. Journal of Virology 81(4):1574-1585.
Crossref

World Health Organization (WHO) (2020) Novel Coronavirus (COVID-19) Situational Reports. Available at 

View (30th April 2020, date last accessed).

Wrapp D, Wang N, Corbett KS, Goldsmith JA, Hsieh C-L, Abiona O, Graham BS, McLellan JS (2020). Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation. Science 367:1260-1263.
Crossref

Wu F, Zhao S, Bin Y, Yan-Mei C, Wen W, Zhi-Gang S, Yi H, Zhao-Wu T, Jun-Hua T, Yuan-Yuan P, Ming-Li Y, Yu-Ling Z, Fa-Hui D, Yi L, Qi-Min W, Jiao-Jiao Z, Lin X, Edward CH, Yong-Zhen Z (2020). A new coronavirus associated with human respiratory disease in China. Nature.
Crossref

Xiao K, Zhai J, Yaoyu F, Niu Z, Xu Z, Jie-Jian Z, Na L, Yaqiong G, Xiaobing L, Xuejuan S, Zhipeng Z, Fanfan S, Wanyi H, Yu L, Ziding Z, Rui-Ai C, Ya-Jiang W, Shi-Ming P, Mian H, Wei-Jun X, Qin-Hui C, Fang-Hui H, Yahong L, Wu C, Lihua X, Yongyi S (2020). Isolation and characterization of 2019-nCoV-like coronavirus from malayan pangolins. bioRxiv.
Crossref

Zhang T, Wu QF, Zhang ZG (2020). Pangolin homology associated with 2019-nCoV. bioRxiv.
Crossref

Zhou P, Yang X-L, Wang X-G, Hu B, Zhang L, Zhang W, Si H-R, Zhu Y, Li B, Huang C-L, Chen H-D, Chen J, Luo Y, Guo H, Jiang R-D, Liu M-Q, Chen Y, Shen X-R, Wang X, Zheng X-S, Zhao X, Chen Q-J, Deng F, Liu L-L, Yan B, Zhan F-X, Wang Y-Y, Xiao G-F, Shi Z-L (2020). A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature.
Crossref

Zhu N, Zhang D, Wenling W, Xingwang L, Bo Y, Jingdong S, Xiang Z, Baoying H, Weifeng S, Roujian L,Peihua N, Faxian Z, Xuejun M, Dayan W, Wenbo X, Guizhen W, George FG, Wenjie T (2020). A novel coronavirus from patients with pneumonia in China, 2019. The New England Journal of Medicine 382(8):727-733.
Crossref

Zuckerkandl E, Pauling L (1965). Evolutionary divergence and convergence in proteins. Edited in Evolving Genes and Proteins by Bryson V, Vogel HJ. Academic Press, New York. pp. 97-166.
Crossref