Erratum: Probable Pangolin Origin of SARS-CoV-2 Associated with the COVID-19 Outbreak (Current Biology (2020) 30(7) (1346–1351.e2), (S0960982220303602), (10.1016/j.cub.2020.03.022));Probable Pangolin Origin of SARS-CoV-2 Associated with the COVID-19 Outbreak

Current Biology

Volumn 30, Issue 7, 2020, Pages 1346-1351.e2

  Zhang, Tao ^a   Wu, Qunfu ^a   Zhang, Zhigang ^a  

^a YUNNAN UNIVERSITY   (China)

Author keywords

COVID 19; origin; pangolin; SARS CoV 2

Indexed keywords

CORONAVIRUS SPIKE GLYCOPROTEIN; SPIKE GLYCOPROTEIN, COVID-19 VIRUS;

AMINO ACID SEQUENCE; ANIMAL; BAT; BETACORONAVIRUS; CHEMISTRY; CORONAVIRUS DISEASE 2019; CORONAVIRUS INFECTION; DISEASE CARRIER; GENETICS; ISOLATION AND PURIFICATION; MALAYSIA; PANDEMIC; PHYLOGENY; PLACENTAL MAMMAL; SEQUENCE ALIGNMENT; SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS 2; VIROLOGY; VIRUS GENOME; VIRUS PNEUMONIA;

AMINO ACID SEQUENCE; ANIMALS; BETACORONAVIRUS; CHIROPTERA; CORONAVIRUS INFECTIONS; DISEASE RESERVOIRS; EUTHERIA; GENOME, VIRAL; MALAYSIA; PANDEMICS; PHYLOGENY; PNEUMONIA, VIRAL; SEQUENCE ALIGNMENT; SPIKE GLYCOPROTEIN, CORONAVIRUS;

EID: 85082188927     PISSN: 09609822     EISSN: 18790445     Source Type: Journal    
DOI: 10.1016/j.cub.2020.03.063     Document Type: Erratum

References (27)

1. Liu, P., Chen, W., Chen, J.-P., Viral metagenomics revealed sendai virus and coronavirus infection of Malayan Pangolins (Manis javanica). Viruses, 11, 2019, 979.
2. Li, W., Shi, Z., Yu, M., Ren, W., Smith, C., Epstein, J.H., Wang, H., Crameri, G., Hu, Z., Zhang, H., et al. Bats are natural reservoirs of SARS-like coronaviruses. Science 310 (2005), 676–679.
3. Zhou, P., Yang, X.-L., Wang, X.-G., Hu, B., Zhang, L., Zhang, W., Si, H.-R., Zhu, Y., Li, B., Huang, C.-L., et al. A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature, 2020, 10.1038/s41586-020-2012-7 Published online February 3, 2020.
4. Cui, J., Li, F., Shi, Z.-L., Origin and evolution of pathogenic coronaviruses. Nat. Rev. Microbiol. 17 (2019), 181–192.
5. Huang, C., Wang, Y., Li, X., Ren, L., Zhao, J., Hu, Y., Zhang, L., Fan, G., Xu, J., Gu, X., et al. Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Lancet 395 (2020), 497–506.
6. Wu, F., Zhao, S., Yu, B., Chen, Y.-M., Wang, W., Song, Z.-G., Hu, Y., Tao, Z.-W., Tian, J.-H., Pei, Y.-Y., et al. A new coronavirus associated with human respiratory disease in China. Nature, 2020, 10.1038/s41586-020-2008-3 Published online February 3, 2020.
7. Abecasis, G.R., Altshuler, D., Auton, A., Brooks, L.D., Durbin, R.M., Gibbs, R.A., Hurles, M.E., McVean, G.A., 1000 Genomes Project Consortium. A map of human genome variation from population-scale sequencing. Nature 467 (2010), 1061–1073.
8. Albertsen, M., Hugenholtz, P., Skarshewski, A., Nielsen, K.L., Tyson, G.W., Nielsen, P.H., Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes. Nat. Biotechnol. 31 (2013), 533–538.
9. Lole, K.S., Bollinger, R.C., Paranjape, R.S., Gadkari, D., Kulkarni, S.S., Novak, N.G., Ingersoll, R., Sheppard, H.W., Ray, S.C., Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J. Virol. 73 (1999), 152–160.
10. Xiao, K., Zhai, J., Feng, Y., Zhou, N., Zhang, X., Zou, J.-J., Li, N., Guo, Y., Li, X., Shen, X., et al. Isolation and characterization of 2019-nCoV-like coronavirus from Malayan pangolins. bioRxiv, 2020, 10.1101/2020.02.17.951335.
11. Lam, T.T.-Y., Shum, M.H.-H., Zhu, H.-C., Tong, Y.-G., Ni, X.-B., Liao, Y.-S., Wei, W., Cheung, W.Y.-M., Li, W.-J., Li, L.-F., et al. Identification of 2019-nCoV related coronaviruses in Malayan pangolins in southern China. bioRxiv, 2020, 10.1101/2020.02.13.945485.
12. Tortorici, M.A., Veesler, D., Structural insights into coronavirus entry. Rey, F.A., (eds.) Advances in Virus Research, 2019, Academic Press, 93–116.
13. Ge, X.-Y., Li, J.-L., Yang, X.-L., Chmura, A.A., Zhu, G., Epstein, J.H., Mazet, J.K., Hu, B., Zhang, W., Peng, C., et al. Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor. Nature 503 (2013), 535–538.
14. Wong, S.K., Li, W., Moore, M.J., Choe, H., Farzan, M., A 193-amino acid fragment of the SARS coronavirus S protein efficiently binds angiotensin-converting enzyme 2. J. Biol. Chem. 279 (2004), 3197–3201.
15. Yan, R., Zhang, Y., Li, Y., Xia, L., Guo, Y., Zhou, Q., Structural basis for the recognition of the SARS-CoV-2 by full-length human ACE2. Science, 2020, 10.1126/science.abb2762 Published online March 4, 2020.
16. Millet, J.K., Whittaker, G.R., Host cell entry of Middle East respiratory syndrome coronavirus after two-step, furin-mediated activation of the spike protein. Proc. Natl. Acad. Sci. USA 111 (2014), 15214–15219.
17. Coutard, B., Valle, C., de Lamballerie, X., Canard, B., Seidah, N.G., Decroly, E., The spike glycoprotein of the new coronavirus 2019-nCoV contains a furin-like cleavage site absent in CoV of the same clade. Antiviral Res., 176, 2020, 104742.
18. Hoffmann, M., Kleine-Weber, H., Schroeder, S., Krüger, N., Herrler, T., Erichsen, S., Schiergens, T.S., Herrler, G., Wu, N.-H., Nitsche, A., et al. SARS-CoV-2 cell entry depends on ACE2 and TMPRSS2 and is blocked by a clinically proven protease inhibitor. Cell, 2020, 10.1016/j.cell.2020.02.052 Published online March 4, 2020.
19. Millet, J.K., Whittaker, G.R., Host cell proteases: critical determinants of coronavirus tropism and pathogenesis. Virus Res. 202 (2015), 120–134.
20. Bolger, A.M., Lohse, M., Usadel, B., Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30 (2014), 2114–2120.
21. Langmead, B., Salzberg, S.L., Fast gapped-read alignment with Bowtie 2. Nat. Methods 9 (2012), 357–359.
22. Li, D., Liu, C.-M., Luo, R., Sadakane, K., Lam, T.-W., MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph. Bioinformatics 31 (2015), 1674–1676.
23. Camacho, C., Coulouris, G., Avagyan, V., Ma, N., Papadopoulos, J., Bealer, K., Madden, T.L., BLAST+: architecture and applications. BMC Bioinformatics, 10, 2009, 421.
24. Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., 1000 Genome Project Data Processing Subgroup. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25 (2009), 2078–2079.
25. Edgar, R.C., MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32 (2004), 1792–1797.
26. Talavera, G., Castresana, J., Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol. 56 (2007), 564–577.
27. Kumar, S., Stecher, G., Li, M., Knyaz, C., Tamura, K., MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol. Biol. Evol. 35 (2018), 1547–1549.