Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

Korber, Bette; Fischer, Will; Gnanakaran, S.; Yoon, Hyejin; Theiler, James; Abfalterer, Werner; Hengartner, Nick; Giorgi, Elena E.; Bhattacharya, Tanmoy; Foley, Brian; Hastie, Kathryn M.; Parker, Matthew; Partridge, David G; Evans, Cariad; Freeman, Timothy M.; Silva, Thushan I. de; Angyal, Adrienne; Brown, Rebecca L.; Carrilero, Laura; Green, Luke R.; Groves, Danielle C.; Johnson, Katie; Keeley, Alexander J; Lindsey, Benjamin B.; Parsons, Paul J.; Raza, Mohammad; Rowland‐Jones, Sarah; Smith, Nikki; Tucker, Rachel; Wang, Dennis; Wyles, Matthew; McDanal, Charlene; Perez, Lautaro G.; Tang, Haili; Moon-Walker, Alex; Whelan, Sean P. J.; LaBranche, Celia C.; Saphire, Erica Ollmann; Montefiori, David C.

doi:10.1016/j.cell.2020.06.043

Cited by 3,811 publications

(5,025 citation statements)

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“…D614G change is caused by an A/G nucleotide mutation at position 23,403 in the reference strain 32 , this variant is being associated with higher viral loads and enhances viral effectivity in patients 8,32,33 despite the higher viral loads, G614 is neutralizing similarly as D614 by polyclonal antibody 32 . To date, this variant becomes the dominant form displacing the WT, according to the levels of mutation in the world, presented on the nextstrain database (www.nextstrain.org).…”

Section: Resultsmentioning

confidence: 99%

Structural insights into spike protein and its natural variants of SARS-CoV-2 found on Mexican population.

Sixto-López

Bello

Correa-Basurto

et al. 2020

Preprint

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The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a newly emerged coronavirus responsible for COVID-19; it becomes a pandemic since March 2020. To date, there are described three lineages of SARS-CoV-2 circulating worldwide, in Mexican population are found two of them, within this, we observed three variants of Spike (S) protein located at H49Y, D614G, and T573I. In order to understand if these mutations could affect the structural behavior of S protein of SARS-CoV-2, as well as the binding with three experimental describe inhibitors (Cepharanthine, Nelfinavir, and Hydroxychloroquine), molecular dynamic simulation and molecular docking were employed. It was found that in spite, these punctual mutations affect considerably the structural behavior of the S Protein, which also affect the binding of the inhibitors into their respective binding site. Thus, further experimental studies need to be done in order to explore if these affectations have an impact on drug-S protein binding and the possible clinical effect.

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Section: Resultsmentioning

confidence: 99%

Structural insights into spike protein and its natural variants of SARS-CoV-2 found on Mexican population.

Sixto-López

Bello

Correa-Basurto

et al. 2020

Preprint

View full text Add to dashboard Cite

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“…A previous study revealed the global transition of the SARS-CoV-2 spike protein from the original D614 to the G614 variant. 67 To be speci c, through March 1, 2020, the G614 variant was rare outside Europe; however, it increased in frequency worldwide by the end of March. 67 As the virus types and genetic mutations were different regionally and chronologically, [65][66][67] the in uence of SARS-CoV-2 on the olfactory epithelium may have differed according to virus type and genetic mutation.…”

Section: Discussionmentioning

confidence: 99%

Regional and chronological differences in prevalences of olfactory and gustatory dysfunction in coronavirus disease (COVID-19): a systemic review and meta-analysis

Kim

Han

et al. 2020

Preprint

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Olfactory and gustatory dysfunction are frequently reported in patients with coronavirus disease (COVID-19). However, the reported prevalence of olfactory and/or gustatory dysfunction varies widely, and the reason for the inter-study differences is unclear. Hence, in this meta-analysis, we performed subgroup analyses to investigate the factors that contribute to the inter-study variability in the prevalence of olfactory and gustatory dysfunction. Out of 943 citations, we included 55 eligible studies with 13,527 patients with COVID-19 for a systematic review. The overall pooled prevalences of olfactory and gustatory dysfunction were 51.4% and 47.5%, respectively, in the random-effect model. In subgroup analyses, the prevalences of olfactory and gustatory dysfunction were significantly different among four geographical regions (both P < 0.001, respectively). Although the prevalences of olfactory and gustatory dysfunction did not significantly differ according to the time of enrollment, the subgroup analyses including only studies from the same geographical region (Europe) revealed a significant difference in olfactory dysfunction according to the time of enrollment. The regional and chronological differences in the prevalences of olfactory and gustatory dysfunctions partly explain the wide inter-study variability.

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“…In this study, a high similarity was observed in tested strains collected at the early stage of COVID-19 outbreak when compared with reference strain (NC_045512). However, numerous novel mutations, such as S-D614G, were identi ed in current strains worldwide according to recent studies [21]. The increased genetic diversity of SARS-CoV-2 in human hosts over time cannot be neglected.…”

Section: Discussionmentioning

confidence: 99%

Basic epidemiological parameter values from data of real-world in mega-cities: the characteristics of COVID-19 in Beijing, China

Wang

Pan

Zhang

et al. 2020

Preprint

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Background. With the spread of SARS-CoV-2 worldwide, understanding the basic epidemiological parameter values of COVID-19 from real-world data in mega-cities is essential for disease prevention and control. Methods. To investigate the epidemiological parameters in SARS-CoV-2 infected cases in Beijing, we studied all confirmed cases and close contacts in Beijing from Jan 1st to Apr 3rd 2020. The epidemiological and virological characteristics of SARS-CoV-2 were analyzed.Results. A total of 602 cases were positive for SARS-CoV-2, including 585 confirmed patients and 17 asymptomatic infections. The imported cases were mainly from Wuhan initially and then from abroad. Among 585 confirmed case-patients, the median age was 39 years old. The mean incubation period was 6.3 days. The secondary attack rate among households was higher than social contacts (15.6 vs 4.6%). The secondary attack rate of healthcare workers (HCWs) was higher than non-HCWs’ (7.3 vs 4.2%). The basic reproduction number was 2.0, and the average serial interval was 7.6 days. No significant genetic variant was identified.Conclusions. The transmissibility of SARS-CoV-2 was relatively high, especially among households and from HCWs, which draws specific public health attention. So far, no evidence of widespread circulation of SARS-CoV-2 in communities in Beijing was found.

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Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

Cited by 3,811 publications

References 88 publications

Structural insights into spike protein and its natural variants of SARS-CoV-2 found on Mexican population.

Structural insights into spike protein and its natural variants of SARS-CoV-2 found on Mexican population.

Regional and chronological differences in prevalences of olfactory and gustatory dysfunction in coronavirus disease (COVID-19): a systemic review and meta-analysis

Basic epidemiological parameter values from data of real-world in mega-cities: the characteristics of COVID-19 in Beijing, China

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