Contributory role of SARS-CoV-2 genomic variations and life expectancy in COVID-19 transmission and low fatality rate in Africa

Egyptian Journal of Medical Human Genetics

Table 1 Recurrent mutations observed in the viral samples (N = 924 viral sequences)

S/N	SARS-CoV-2 region	Mutation observed	Occurrence
1	Spike protein; S1 domain	L18F	2
2		A222V	4
3		D614G	898
4	Spike protein; S2 domain	E780Q	2
5	Nucleocapsid phosphoprotein	P13L	2
6		R203K	602
7		G204R	602
8	ORF3 protein	Q57H	60
9	ORF3 protein	G251V	4
10	ORF8 protein	L84S	16
11	ORF1ab polyprotein; nsp2	T265I	26
12		D448del^a	6
13		I739V	3
14		P765S	3
15	ORF1ab polyprotein; nsp5	G3278S	73
16	ORF1ab polyprotein; nsp6	L3606F	45
17	ORF1ab polyprotein; RdRp	A4489V	3
18	ORF1ab polyprotein; RdRp	P4715L	898

Highly recurrent gene variants were observed in the spike, nucleocapsid, and ORF1ab, flagging these genome segments as SARS-CoV-2 mutational hotspots
^aKey: RdRp RNA dependent RNA polymerase. One letter code for corresponding amino acid: A alanine, D aspartic acid, G glycine, E glutamate, R arginine, K lysine, Q glutamine, H histidine, V valine, L leucine, S serine, T threonine, I isoleucine, P proline, and F phenylalanine