New SARS‐CoV‐2 variant of concern imported from the United Kingdom to Vietnam, December 2020

Manh, Dao Huy; Nguyen, Huy; Nguyen, Thinh V.; Nguyen, Anh Hoang; Luong, Quang Chan; Vu, Nhung H. P.; Pham, Hang; Nguyen, Thao N. T.; Thach, Dung H.; Nguyen, Lo V.; Bui, Luan V.; Nguyen, Hang Minh; Huynh, Loan K. T.; Nguyễn, Long Thanh; Cao, Thang M.; Pham, Quang Duy; Nguyen, Thuong Vu; Phan, Lan Trong

doi:10.1002/jmv.26908

Cited by 4 publications

(5 citation statements)

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“…In the alpha strain, spike protein mutations as N501Y substitution and deletion from 69 to 70, results in increased transmission rates of the virus to about 74% more than other variants. [ 15 ]…”

Section: Discussionmentioning

confidence: 99%

“…[ 46 ] According to Manh H. Dao, nucleocapsid proteins was mutated on D3 L, R203K, G204R, S235F and A220V in UK patients. [ 15 ] In Germany, SNP were found at each terminal of M-protein. [ 25 ] In Ireland, GGG-to-AAC mutation at the position 28881, 28882, 28883, 28821 were found[ 24 ] and in Philippines P80R, RG203KR mutations were reported in N region.…”

Section: Discussionmentioning

confidence: 99%

“…Missense mutation in ORF1a at the amino acid L3606F, T265I, L3083I and frameshift deletion (A3958_T3959delAT)[ 13 ] and also other mutations such as P314 L,[ 13 ] R52I, Y73C mutation in ORF8[ 15 ] were found in the United Kingdom. In Singapore, Δ382 deletion in ORF8 were found in the COVID-19 patients.…”

Section: Discussionmentioning

confidence: 99%

“…In the case of the UK, NSP3 mutated on M125I amino acid and NSP12 mutated on P323 L.[ 15 ] In Iran, mutations at NSP3 nucleotides are reported[ 30 ] NSP3 helps in the translation process of viral protein and suppress the synthesis of the host cell protein whereas NSP12 helps in RNA polymerase/replicase activity. [ 47 ]…”

Section: Discussionmentioning

confidence: 99%

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Update on geographical variation and distribution of SARS-nCoV-2: A systematic review

et al. 2021

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Update on geographical variation and distribution of SARS-nCoV-2: A systematic review

et al. 2021

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“…The question of establishing whether this strain is indeed more infectious or less virulent remains crucial with regards to virus evolution to less virulent forms [36]. In the meantime, the world is faced with the emergence of new variants [37][38][39][40][41][42][43][44][45][46][47][48][49][50].…”

Section: From the First To The Second Wavementioning

confidence: 99%

Simple Formulae, Deep Learning and Elaborate Modelling for the COVID-19 Pandemic

et al. 2022

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Predictive modelling of infectious diseases is very important in planning public health policies, particularly during outbreaks. This work reviews the forecasting and mechanistic models published earlier. It is emphasized that researchers’ forecasting models exhibit, for large t, algebraic behavior, as opposed to the exponential behavior of the classical logistic-type models used usually in epidemics. Remarkably, a newly introduced mechanistic model also exhibits, for large t, algebraic behavior in contrast to the usual Susceptible-Exposed-Infectious-Removed (SEIR) models, which exhibit exponential behavior. The unexpected success of researchers’ simple forecasting models provides a strong support for the validity of this novel mechanistic model. It is also shown that the mathematical tools used for the analysis of the first wave may also be useful for the analysis of subsequent waves of the COVID-19 pandemic.

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COVID-19 cases from the first local outbreak of SARS-CoV-2 B.1.1.7 variant in China presented more serious clinical features: a prospective, comparative cohort study

Song

Cui

et al. 2021

Preprint

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Background: The SARS-CoV-2 B.1.1.7 variant which was first identified in the United Kingdom (U.K.) has increased sharply in numbers worldwide and was reported to be more contagious. On January 17, 2021, a COVID-19 clustered outbreak caused by B.1.1.7 variant occurred in a community in Daxing District, Beijing, China. Three weeks prior, another non-variant (lineage B.1.470) COVID-19 outbreak occurred in Shunyi District, Beijing. This study aimed to investigate the clinical features of B.1.1.7 variant infection. Methods: A prospective cohort study was conducted on COVID-19 cases admitted to Ditan hospital since January 2020. Data of 74 COVID-19 cases from two independent COVID-19 outbreaks in Beijing were extracted as study subjects from a Cloud Database established in Ditan hospital, which included 41 Shunyi cases (Shunyi B.1.470 group) and 33 Daxing cases (Daxing B.1.1.7 group) that have been hospitalized since December 25, 2020 and January 17, 2021, respectively. We conducted a comparison of the clinical characteristics, RT-qPCR results and genomic features between the two groups. Findings: Cases from Daxing B.1.1.7 group (15 [45.5%] male; median age, 39 years [range, 30.5, 62.5]) and cases from Shunyi B.1.470 group (25 [61.0%] male; median age, 31 years [range, 27.5, 41.0]) had a statistically significant difference in median age (P =0.014). Seven clinical indicators of Daxing B.1.1.7 group were significantly higher than Shunyi B.1.470 group including patients having fever over 38℃ (14/33 [46.43%] in Daxing B.1.1.7 group vs. 9/41 (21.95%) in Shunyi B.1.470 group [P = 0 .015]), C-reactive protein ([CRP, mg/L], 4.30 [2.45, 12.1] vs. 1.80, [0.85, 4.95], [P = 0.005]), Serum amyloid A ([SAA, mg/L], 21.50 [12.50, 50.70] vs. 12.00 [5.20, 26.95], [P = 0.003]), Creatine Kinase ([CK, U/L]), 110.50 [53.15,152.40] vs. 70.40 [54.35,103.05], [P = 0.040]), D-dimer ([DD, mg/L], 0.31 [0.20, 0.48] vs. 0.24 [0.17,0.31], [P = 0.038]), CD4+ T lymphocyte ([CD4+ T, mg/L], [P = 0.003]) , and Ground-glass opacity (GGO) in lung (15/33 [45.45%] vs. 5/41 [12.20%], [P =0.001]). After adjusting for the age factor, B.1.1.7 variant infection was the risk factor for CRP (P = 0.045, Odds ratio [OR] 2.791, CI [1.025, 0.8610]), SAA (0.011, 5.031, [1.459, 17.354]), CK (0.034, 4.34, [0.05, 0.91]), CD4+ T ( 0.029, 3.31, [1.13, 9.71]), and GGO (0.005, 5.418, [1.656, 17.729]) of patients. The median Ct value of RT-qPCR tests of the N-gene target in the Daxing B.1.1.7 group was significantly lower than the Shunyi B.1.470 group (P=0.036). The phylogenetic analysis showed that only 2 amino acid mutations in spike protein were detected in B.1.470 strains while B.1.1.7 strains had 3 deletions and 7 mutations. Interpretation: Clinical features including a more serious inflammatory response, pneumonia and a possible higher viral load were detected in the cases infected with B.1.1.7 SARS-CoV-2 variant. It could therefore be inferred that the B.1.1.7 variant may have increased pathogenicity.

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New SARS‐CoV‐2 variant of concern imported from the United Kingdom to Vietnam, December 2020

Cited by 4 publications

References 3 publications

Update on geographical variation and distribution of SARS-nCoV-2: A systematic review

Update on geographical variation and distribution of SARS-nCoV-2: A systematic review

Simple Formulae, Deep Learning and Elaborate Modelling for the COVID-19 Pandemic

COVID-19 cases from the first local outbreak of SARS-CoV-2 B.1.1.7 variant in China presented more serious clinical features: a prospective, comparative cohort study

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