SARS-CoV-2

Liu, W.J., Liu, P., Lei, W. et al. Surveillance of SARS-CoV-2 at the Huanan Seafood Market. Nature (2023). https://doi.org/10.1038/s41586-023-06043-2

Zhang, Daoyu, Demaneuf, Gilles, Jones, Adrian, Massey, Steven E, Quay, Steven, Deigin, Yuri, & Nemzer, Louis. (2022). Zoonosis at the Huanan Seafood Market: A Critique. PREPRINT https://doi.org/10.5281/zenodo.7212687

Courtier-Orgogozo V, de Ribera FA. SARS-CoV-2 infection at the Huanan seafood market. Environ Res. 2022 Nov;214(Pt 1):113702. doi: 10.1016/j.envres.2022.113702. Epub 2022 Jun 22.

George Gao, William Liu, Peipei Liu et al. Surveillance of SARS-CoV-2 in the environment and animal samples of the Huanan Seafood Market, 25 February 2022, PREPRINT

DRASTIC Research, September 21, 2021
DRASTIC was made aware of documents provided by a whistleblower, which detail a grant proposal submitted to the Defense Advanced Research Projects Agency (DARPA) in 2018 by EcoHealth Alliance (EHA) in concert wIth the Wuhan Institute of Virology (WIV).

Contributor, Anonymous, Bostickson, Billy & Demaneuf, Gilles. (Feb 2021). An investigation into the WIV databases that were taken offline. 10.13140/RG.2.2.28029.08160. PREPRINT

WHO Country Mission
Terms of References for the China Part -- FINAL DRAFT
31 July 2020

Xu Y. Unveiling the Origin and Transmission of 2019-nCoV. Trends Microbiol. 2020 Apr;28(4):239-240. doi: 10.1016/j.tim.2020.02.001. Epub 2020 Feb 24.

Li X, Zai J, Wang X, Li Y. Potential of large "first generation" human-to-human transmission of 2019-nCoV. J Med Virol. 2020 Apr;92(4):448-454. doi: 10.1002/jmv.25693. Epub 2020 Feb 14.

Nishiura H, Linton NM, Akhmetzhanov AR. Initial Cluster of Novel Coronavirus (2019-nCoV) Infections in Wuhan, China Is Consistent with Substantial Human-to-Human Transmission. J Clin Med. 2020 Feb 11;9(2):488. doi: 10.3390/jcm9020488.

Zhou P, Yang XL, Wang XG, Hu B, Zhang L, Zhang W, Si HR, Zhu Y, Li B, Huang CL, Chen HD, Chen J, Luo Y, Guo H, Jiang RD, Liu MQ, Chen Y, Shen XR, Wang X, Zheng XS, Zhao K, Chen QJ, Deng F, Liu LL, Yan B, Zhan FX, Wang YY, Xiao GF, Shi ZL. A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature. 2020 Mar;579(7798):270-273. doi: 10.1038/s41586-020-2012-7. Epub 2020 Feb 3.

By Jon Cohen
Science Magazine: 26 Jan 2020

Chrispin Chaguza, Anne M. Hahn, Mary E. Petrone, Shuntai Zhou, David Ferguson, Mallery I. Breban, Kien Pham, Mario A. Peña-Hernández, Christopher Castaldi, Verity Hill, Wade Schulz, Ronald I. Swanstrom, Scott C. Roberts, Nathan D. Grubaugh. Accelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection, Cell Reports Medicine, 2023

Bendall EE, Callear AP, Getz A, Goforth K, Edwards D, Monto AS, Martin ET, Lauring AS. Rapid transmission and tight bottlenecks constrain the evolution of highly transmissible SARS-CoV-2 variants. Nat Commun. 2023 Jan 17;14(1):272.

Chatterjee S, Bhattacharya M, Nag S, Dhama K, Chakraborty C. A Detailed Overview of SARS-CoV-2 Omicron: Its Sub-Variants, Mutations and Pathophysiology, Clinical Characteristics, Immunological Landscape, Immune Escape, and Therapies. Viruses. 2023 Jan 5;15(1):167.

Dudouet P, Colson P, Aherfi S, Levasseur A, Beye M, Delerce J, Burel E, Lavrard P, Bader W, Lagier JC, Fournier PE, La Scola B, Raoult D. SARS-CoV-2 quasi-species analysis from patients with persistent nasopharyngeal shedding. Sci Rep. 2022 Nov 4;12(1):18721.

Hill V, Du Plessis L, Peacock TP, Aggarwal D, Colquhoun R, Carabelli AM, Ellaby N, Gallagher E, Groves N, Jackson B, McCrone JT, O'Toole Á, Price A, Sanderson T, Scher E, Southgate J, Volz E, Barclay WS, Barrett JC, Chand M, Connor T, Goodfellow I, Gupta RK, Harrison EM, Loman N, Myers R, Robertson DL, Pybus OG, Rambaut A. The origins and molecular evolution of SARS-CoV-2 lineage B.1.1.7 in the UK. Virus Evol. 2022 Aug 26;8(2):veac080.

Telenti A, Hodcroft EB, Robertson DL. The Evolution and Biology of SARS-CoV-2 Variants. Cold Spring Harb Perspect Med. 2022 May 27;12(5):a041390.

Voloch CM, da Silva Francisco R Jr, de Almeida LGP, Brustolini OJ, Cardoso CC, Gerber AL, Guimarães APC, Leitão IC, Mariani D, Ota VA, Lima CX, Teixeira MM, Dias ACF, Galliez RM, Faffe DS, Pôrto LC, Aguiar RS, Castiñeira TMPP, Ferreira OC, Tanuri A, de Vasconcelos ATR. Intra-host evolution during SARS-CoV-2 prolonged infection. Virus Evol. 2021 Sep 29;7(2):veab078.

Kemp SA, Collier DA, Datir RP, Ferreira IATM, Gayed S, Jahun A, Hosmillo M, Rees-Spear C, Mlcochova P, Lumb IU, Roberts DJ, Chandra A, Temperton N; CITIID-NIHR BioResource COVID-19 Collaboration; COVID-19 Genomics UK (COG-UK) Consortium; Sharrocks K, Blane E, Modis Y, Leigh KE, Briggs JAG, van Gils MJ, Smith KGC, Bradley JR, Smith C, Doffinger R, Ceron-Gutierrez L, Barcenas-Morales G, Pollock DD, Goldstein RA, Smielewska A, Skittrall JP, Gouliouris T, Goodfellow IG, Gkrania-Klotsas E, Illingworth CJR, McCoy LE, Gupta RK. SARS-CoV-2 evolution during treatment of chronic infection. Nature. 2021 Apr;592(7853):277-282.

Choi B, Choudhary MC, Regan J, Sparks JA, Padera RF, Qiu X, Solomon IH, Kuo HH, Boucau J, Bowman K, Adhikari UD, Winkler ML, Mueller AA, Hsu TY, Desjardins M, Baden LR, Chan BT, Walker BD, Lichterfeld M, Brigl M, Kwon DS, Kanjilal S, Richardson ET, Jonsson AH, Alter G, Barczak AK, Hanage WP, Yu XG, Gaiha GD, Seaman MS, Cernadas M, Li JZ. Persistence and Evolution of SARS-CoV-2 in an Immunocompromised Host. N Engl J Med. 2020 Dec 3;383(23):2291-2293.

Markov PV, Ghafari M, Beer M, Lythgoe K, Simmonds P, Stilianakis NI, Katzourakis A. The evolution of SARS-CoV-2. Nat Rev Microbiol. 2023 Jun;21(6):361-379.