Mutation


Last updated: 2021 Sep 13
Total hit(s): 10
Select item(s)
Key Findings
Comments
(You can add your comments too!)
Original Article
(hover to see details)
The D614G mutation was introduced into Spike-pseudotyped lentivirus and complete SARS-CoV-2 virus via site-directed mutagenesis. The D614G mutant was shown to be up to 8-fold more effective at infecting cells than wild-type. The Spike variants did not differ significantly in terms of ACE2 receptor binding, but the G614 variant is more resistant to proteolytic cleavage in vitro and in human cells than the D614. This could have an impact on the efficacy of immunizations based on spikes. The G614 variant was found to be ~2.5 fold more resistant to cleavage in the host cell than the D614 variant in cells expressing Spike by transient transfection. Virions with the G614 variant were seen to have less Spike cleavage compared to the D614 variant. No significant difference between Spike D614 and Spike G614 incorporation into pseudotyped lentiviral particles was observed.
32587969
(bioRxiv)
PMID
32587969
Date of Publishing: 2020 Jun 15
Title The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types
Author(s) name Daniloski Z, Guo X, Sanjana NE.
Journal bioRxiv
Impact factor
Its not a journal
Citation count: 2
Date of Entry 2021 Sep 13


The frequency of mutation in the spike of the Delta variant was assessed. Eight substitution mutations( T19R, G142D, R158G, L452R, T478K, D614G, P681R, D950N )and a deletion (156-157)were observed in the N-terminal domain, Receptor binding domain, and S2 regions of the SARS-CoV-2 Delta variant spike protein.
-
()
PMID
-
Date of Publishing: 2021 Jun 28
Title Reduced neutralisation of the Delta (B.1.617.2) SARS-CoV-2 variant of concern following vaccination
Date of Entry 2021 Sep 13


Three significant mutations (L452R, W152C and S13I) were identified in the spike protein of the California variant B.1.427/B.1.429 with no particular difference from non-variant lineages (B.1.427, B.1.429, other Clade 20C lineages). Two distinct lineages, B.1.427 and B.1.429 were identified in Clade 20C after Phylogenetic analysis.
33991487
(Cell)
PMID
33991487
Date of Publishing: 2021 Jun 24
Title Transmission, infectivity, and neutralization of a spike L452R SARS-CoV-2 variant
Author(s) nameDeng X, Garcia-Knight MA et al.
Journal Cell
Impact factor
27.35
Citation count: 6
Date of Entry 2021 Sep 13


Five patients with a travel history from the United Kingdom to India on December 22, 2020 who tested positive for SARS-CoV-2 had their samples sequenced. The difference in nucleotide proportion between the hCoV19/India/NIV P1 20203524/2020 and other GR clade SARS-CoV-2 sequences was 0.05 percent, indicating that isolate sequences differed. Four cases had low-grade fever with a mild headache from 2 days before testing of samples; while one case was asymptomatic. Clinical testing revealed all the samples to be positive for SARS-CoV-2.
33506252
(J Travel Med)
PMID
33506252
Date of Publishing: 2021 Feb 23
Title Isolation and characterization of the new SARS-CoV-2 variant in travellers from the United Kingdom to India: VUI-202012/01 of the B.1.1.7 lineage
Author(s) nameYadav PD, Nyayanit DA et al.
Journal J Travel Med
Impact factor
2.08
Citation count: 1
Date of Entry 2021 Aug 6


Out of 229 samples analysed, 2 different frameshift deletions were detected giving rise to 2 new variants. 6 sequences had a 34 nucleotide deletion (D34) at position 27267-27300 and 1 sequence had a 26 nucleotide deletion (D26) at position 27267- 27292. Both these deletions are in the open reading frame 6 (ORF6) of SARS CoV-2. These deletions have not been updated on the CoV-GLUE resource
33399033
(Emerg Microbes Infect)
PMID
33399033
Date of Publishing: 2021 Jan 5
Title Characterization of SARS-CoV-2 ORF6 deletion variants detected in a nosocomial cluster 1 during routine genomic surveillance, Lyon, France
Author(s) nameQuéromès G, Destras G et al.
Journal Emerg Microbes Infect
Impact factor
5.84
Citation count: 1
Date of Entry 2021 Aug 6


Screening for H69/V70, associated with a S-gene target failure (SGTF) was used to detect VOC 202012/01 (lineage B.1.1.7). Other mutations co-occurring with H69/V70 including S: N501Y, S477N were also identified by whole-genome sequencing. "GISAID database - (GISAID accession numbers: EPI_ISL_582112, EPI_ISL_582120) This strategy cannot identify other VOCs without H69/V70 as the variant 501Y.V2 (South Africa)"
33478625
(Euro Surveill)
PMID
33478625
Date of Publishing: 2021 Jan
Title Two-step strategy for the identification of SARS-CoV-2 variant of concern 202012/01 and other variants with spike deletion H69V70, France, August to December 2020
Author(s) nameBal A, Destras G et al.
Journal Euro Surveill
Impact factor
7.37
Citation count: 1
Date of Entry 2021 Aug 6


The median Ct values of ORF and N-gene targets in the S-gene dropout samples was significanlty low when compared to samples with S-gene intact. This suggests high viral loads at the time of sampling.
-
()
PMID
-
Date of Publishing: 2020 Dec 27
Title S-variant SARS-CoV-2 is associated with significantly higher viral loads in samples tested by ThermoFisher TaqPath RT-PCR
Date of Entry 2021 Aug 6


Genomic characterization of the Alpha variant revealed the presence of a lot of distinct mutations. Mutations like N501Y which increases ACE2 receptor affinity, P681H, deletion at 69-70 which is linked to immune evasion. In addition to these, there are 6 synonymous mutations-5 in ORF1b and 1 in the M gene. S1/S2 furin cleavage site of SARS-CoV-2 is not found in closely related coronaviruses, promotes entry into respiratory epithelial cells and transmission in animal models. Both N501Y and P681H have been observed independently but not to our knowledge in combination before now.
-
()
PMID
-
Date of Publishing: 2020 Dec 21
Title Preliminary genomic characterisation of an emergent SARS-CoV-2 lineage in the UK defined by a novel set of spike mutations
Date of Entry 2021 Aug 6


An engineered decoy ACE2 receptor shows high affinity to the receptor-binding domain (RBDs) in the binding site of SARS- CoV Residues. A deep mutational scan of the RBD reveals they are mutationally tolerant. The N501Y mutation found in the RBD of the alpha variant increases affinity for the wildtype ACE2 by 20-fold but remains tightly bound to the engineered ACE2. Due to its high activity and favourable properties for manufacturing, sACE22.v2.4 can be a good drug candidate for preclinical development.
33398275
(bioRxiv)
PMID
33398275
Date of Publishing: 2020 Dec 21
Title An engineered decoy receptor for SARS-CoV-2 broadly binds 2 protein S sequence variants
Author(s) nameChan KK, Tan TJC et al.
Journal bioRxiv
Impact factor
Its not a journal
Citation count: 1
Date of Entry 2021 Aug 6


The enhanced transmissibility of viruses with deletions in the spike including, deletion H69/V7011, increases spike mediated infectivity by two-fold and stabilises other S gene mutations. This deletion mutation is usually followed by amino acid replacement in the spike (N501Y, N439K, Y453F)
-
()
PMID
-
Date of Publishing: 2020 Dec 21
Title Recurrent emergence and transmission of a SARS-CoV-2 Spike deletion H69/V7
Date of Entry 2021 Aug 6