SARS-CoV-2 Genomes From Oklahoma, United States.

Frontiers in Genetics
Sai NarayananAkhilesh Ramachandran

Abstract

Genomic sequencing has played a major role in understanding the pathogenicity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). With the current pandemic, it is essential that SARS-CoV-2 viruses are sequenced regularly to determine mutations and genomic modifications in different geographical locations. In this study, we sequenced SARS-CoV-2 from five clinical samples obtained in Oklahoma, United States during different time points of pandemic presence in the state. One sample from the initial days of the pandemic in the state and four during the peak in Oklahoma were sequenced. Previously reported mutations including D614G in S gene, P4715L in ORF1ab, S194L, R203K, and G204R in N gene were identified in the genomes sequenced in this study. Possible novel mutations were also detected in the S gene (G1167V), ORF1ab (A6269S and P3371S), ORF7b (T28I), and ORF8 (G96R). Phylogenetic analysis of the genomes showed similarity to other SARS-CoV-2 viruses reported from across the globe. Structural characterization indicates that the mutations in S gene possibly influences conformational flexibility and motion of the spike protein, and the mutations in N gene are associated with disordered linker region within the nucleoca...Continue Reading

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Datasets Mentioned

BETA
MN908947.3
GISAID

Methods Mentioned

BETA
GISAID
PCR
X-ray

Software Mentioned

Nanopolish
FastTree
MUSCLE aligner
MEGA
PyMOL
CHARMM
VIGOR4
Canu
MUSCLE
minimap2

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