literature

SARS_CoV_2 mutation literature information.

Comprehensive annotations of the mutational spectra of SARS-CoV-2 spike protein: a fast and accurate pipeline.

PMID: 32954666 2021 Transboundary and emerging diseases

Abstract: The infamous D614G variant has spread worldwide with ever-rising dominance and across regions with different climatic conditions alongside L5F and D936Y mutants, which have been documented throughout all regions and climate zones, respectively.

Result: Among these replacements, aa residues at position 5 (L5F) and 614 (D614G) were found to be the common in Asia, Europe, North America, South America, Africa and Australia (Figure 5b).

Figure: We found two core shared aa mutations at residue position 5 (L5F) and 614 (D614G) in Asia, Europe, Africa, Australia, North America and South America, and two core shared mutations at residue positions of 614 (D614G) and 936 (D936Y

Temporal increase in D614G mutation of SARS-CoV-2 in the Middle East and North Africa.

PMID: 33495741 2021 Heliyon

Introduction: Other mutations in the S gene have also been reported, with the most frequent including: D936Y/H, P1263L, and L5F.

Discussion: Other amino acid replacements that were found in the study included Q677H (found only in Egypt), and L5F found in three different countries (Oman, Egypt, and Morocco).

Discussion: The L5F replacement is located in the signal peptide domain of the spike glycoprotein and might be related to recurring sequencing errors.

Analysis of SARS-CoV-2 mutations in the United States suggests presence of four substrains and novel variants.

PMID: 33589648 2021 Communications biology

Result: We found that the other high-frequency S protein mutation L5F is independent of mutation D614G.

Emergence and Expansion of the SARS-CoV-2 Variant B.1.526 Identified in New York.

PMID: 33655278 2021 medRxiv

Introduction: 2A) that initially lacked the L5F, D253G, and E484K mutations.

Introduction: Nearly all of the newly identified B.1.526 variants have a set of common mutations in the spike protein: L5F, T95I, D253G, E484K, D614G, and A701V.

SARS-CoV-2 variants combining spike mutations and the absence of ORF8 may be more transmissible and require close monitoring.

PMID: 33676232 2021 Biochemical and biophysical research communications

Abstract: Although less frequent, HV69-70del and L5F spike mutations occurred in the background of six different ORF8 nonsense mutations.

Result: For example, a variant with five spike mutation, three of relevance (L5F, HV69-70del and D614G), was found associated with E59stop in a sample from Poland (EPI_ISL_732828).

Result: The spike L5F mutation was also observed in the background of six different ORF8 nonsense mutations.

Pan-India novel coronavirus SARS-CoV-2 genomics and global diversity analysis in spike protein.

PMID: 33758785 2021 Heliyon

Result: Among all the variations, twelve (L5F, L8V, L18F, R21I, L54F, N439K, D614G, A829T, A879S, D936Y, G1124V, P1263L) were dominant (greater than 1000 genomes) (Figure 6).

Result: Only 2 (R21I, L54F) were located at N-terminal domain (NTD), 3 variations were found in signal peptide (L5F, L8V, L18F).

Mutational analysis of structural proteins of SARS-CoV-2.

PMID: 33778179 2021 Heliyon

Result: The second and third prominent mutation was nonpolar aliphatic to an aromatic amino acid, L5F and L54F, each observed in 68 isolates.

Comparative analysis of mutational hotspots in the spike protein of SARS-CoV-2 isolates from different geographic origins.

PMID: 33778182 2021 Gene reports

Discussion: Furthermore, a recent study has suggested that the prevalent D614G and combined with other mutations such as L5F, V341I, K458R, I472V, D936Y, and S943T are more infectious.

SARS-CoV-2 Variant of Concern 202012/01 Has about Twofold Replicative Advantage and Acquires Concerning Mutations.

PMID: 33804556 2021 Viruses

Result: The second most prevalent is L5F (658 genomes) localized in the signal peptide of spike.

Spike protein mutational landscape in India during the complete lockdown phase: Could Muller's ratchet be a future game-changer for COVID-19?

PMID: 33905891 2021 Infection, genetics and evolution

Result: In this ancestor 2 clade, several variants (L5F, T22I, L54F, G261S, T572I, E583D, Q677H, A706S, H1083Q) indicated their stability in the population via mutating further, giving rise to additional variants.

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