Nucleotides

Last updated: 2021 Jul 2
Total hit(s): 7
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Original Article
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Phylogenetic analysis of a sub-lineage of SARS-CoV-2 Alpha variant (B.1.1.7) showed that this lineage emerged through sequential acquisitions of mutation in the membrane (M:V70L) in November 2020 followed by the novel spike mutation (S:D178H) in February 2021. SARS-CoV-2 viral sequencing should be carried on a widespread scale to detect new mutations of concern.
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 		Pre-print ( medRXiv )
Date of Publishing 2021 May 18
Title Rapidly emerging SARS-CoV-2 B.1.1.7 sub-lineage in the United States of America with spike protein D178H and membrane protein V70L mutations
Impact factor
N/A
Date of Entry 2021 Jul 2

The evolutionary tree analysis shows the sequential occurrence of characteristics mutations in the B.1.1.7 variant. The B.1.1.7 lineage belongs to the L1 subclade
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 		Pre-print ( bioRXiv )
Date of Publishing 2021 May 01
Title Evolutionary insights into a non-coding deletion of SARS-CoV-2 B.1.1.7
Impact factor
N/A
Date of Entry 2021 Jul 2

Phylogenetic analysis showed that the B.1.526 isolates can be branched into 3 sub-lineages, with 2 major lineages B.1.526-E484K and B.1.526-S477N containing A701V mutation and one smaller sub-lineage B.1.526-S477n containing Q957R mutation. Phylogenetic analyses of genomes containing a deletion (9bp deletion 106-108) in the non-spike region (ORF1a- nsp6) along with mutation A2262G clearly distinguishes the parent clade into B.1.526 variant and related viruses.
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 		Pre-print ( medRXiv )
Date of Publishing 2021 Apr 15
Title A Novel and Expanding SARS-CoV-2 Variant, B.1.526, Identified in New York
Impact factor
N/A
Date of Entry 2021 Jul 2

The new VOI detected in 3 incoming travelers from Tanzania revealed identical genomes and presented highly divergent sequences within the A lineage (PANGO lineage B.1.351). These mutations are also present in other VOCs/VOIs like 501Y.V2/B.1.351, B.1.1.7, B.1.525 and C.16; and are suggested to be evolving under positive selection.
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 		Pre-print ( medRXiv )
Date of Publishing 2021 Apr 04
Title A novel variant of interest of SARS-CoV-2 with multiple spike mutations detected through travel surveillance in Africa
Impact factor
N/A
Date of Entry 2021 Jul 2

The phylogenetic analysis of the West Coast variants against the B.1.232 and B.1.243 lineages showed the mutations in S protein. The West Coast variants were differentiated by mutations at ORF1b:P976L(B.1.427) and ORF1a:I4205V(B.1.429). 1099 positive samples were derived from 12,124 tests.
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 		33688689
(medRxiv)
PMID
33688689
Date of Publishing: 2021 Mar 3
Title Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco
Author(s) namePeng J, Mann SA et al.
Journal medRxiv
Impact factor
- n/a -
Citation count: 1
Date of Entry 2021 Jul 2

Phylogenetic studies showed the unusual accumulation of substitutions in the genome and relatively higher growth rate compared to other circulating lineages because of increased transmissibility(R) rather than shorter generation time Limitations : data analyzed did not entirely represent SARS-CoV-2 infections, the analysis was simple using parsimonious assumptions, the spatiotemporal correlation containing infectious disease data was not explicitly modelled.
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 		doi
Date of Publishing 2021 Jan 04
Title Transmission of SARS-CoV-2 Lineage B.1.1.7 in England: Insights from linking B.1.1.7 in England: Insights from linking epidemiological and genetic data
Impact factor
N/A
Date of Entry 2021 Jul 2

Population genetic analysis and phylodynamic analysis using global SARS-CoV-2 phylogenies suggests that 614G increases in frequency relative to 614D in a way that suggests a selective advantage. No indication on higher COVID-19 mortality or clinical severity was observed but 614G variant is related to higher viral load and younger age of patients. Phylogenetic clusters of another variant, 614N, the independent origins of which suggest that this variant is also transmissible. There are only four other regions on the spike protein with 3 consecutive polymorphisms (S26, S846, S1228, and S1252) Limitation - selective advantage may also be due to a random founder effect.
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 		33275900
(Cell)
PMID
33275900
Date of Publishing: 2020 Nov 19
Title Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity
Author(s) nameVolz E, Hill V et al.
Journal Cell
Impact factor
27.35
Citation count: 412
Date of Entry 2021 Jul 2