Attenuation of a Highly Pathogenic Porcine Deltacoronavirus Strain CZ2020 by a Serial Passage In Vitro

Table 2

Amino acid and nucleotide changes among PDCoV: CZ2020, CZ2020-F80, and CZ2020-F100.

Genomic regions	Nucleotide^a				Amino acid^b
	Position	CZ2020	F80	F100	Position	CZ2020	F80	F100
5’UTR (1–539)	—^c	—	—	—	—	—	—	—
ORF1a (540–11,408)	6170	C	T	T	1877	—	—	—
	6939	C	T	T	2134	Leu	Phe	Phe
	11,198	T	C	C	3553	—	—	—
ORF1ab (540-11,408, 11,408-19,336)	17,009	G	A	A	5491	Gly	Ser	Ser
	18,423	C	T	T	5962	Ser	Leu	Leu
Spike (19,318–22,797)	19,735	A	A	C	140	Ile	Ile	Leu
	19,796	T	C	C	160	Phe	Ser	Ser
	19,837	C	T	T	174	Leu	Phe	Phe
	19,862	C	T	T	182	Thr	Ile	Ile
	19,894	G	C	C	193	Asp	His	His
	20,379	T	G	G	354	Asn	Lys	Lys
	21,542	G	C	C	742	Gly	Ala	Ala
	21,965	T	A	A	883	Met	Lys	Lys
	22,448	A	G	G	1044	Asn	Ser	Ser
	22,597	C	C	A	1094	Leu	Leu	Ile
Envelope (22,791–23,042)	22,831	A	G	G	14	Tyr	Cys	Cys
Membrane (23,035–23,688)	23,509	G	G	T	159	Asp	Asp	Tyr
NS6 (23,688–23,972)	—	—	—	—	—	—	—	—
Nucleocapsid (23,993–25,021)	—	—	—	—	—	—	—	—
3’UTR (25,022–25,402)	—	—	—	—	—	—	—	—

^aThe nucleotide position was corresponding to the PDCoV CZ2020 strain (GenBank accession No. OK546242). ^bSynonymous mutations were not shown; the amino acid positions were corresponding to each respective open reading frame. ^cNo nucleotide or amino acid change occurred.