Serological Evidence of SARS-CoV-2 Exposure in Domestic Dogs and Cats, Thailand: Detection of SARS-CoV-2 Omicron Variant in Dogs Living in COVID-19-Positive Households

Table 4

Genetic mutation of spike gene of SARS-CoV-2 Omicron variant (BA.2) from dog and owner and reference viruses.

Virus

Variant

Accession #

Country

Host

Date

T19R/I

24−27del

A67V

69−70del

T95I

G142D

143−145del

Wuhan-Hu-1

Wild type

NC_045512.2

China

Human

Dec-19

T

LPPA

A

HV

T

G

no del

Delta

Delta (B.1.617.2)

Human

Dec-20

R

LPPA

A

HV

T/I

G/D

no del

CU27791

Delta (B.1.617.2.85)

EPI_ISL_5315539

Thailand

Dog

Sep-21

R

LPPA

A

HV

I

G

no del

CU27516

Delta (B.1.617.2.30)

EPI_ISL_5320246

Thailand

Cat

Jul-21

R

LPPA

A

HV

T

G

no del

Omicron BA.1

Omicron (B.1.1.529 + BA.1)

Human

Nov-21

T

LPPA

V

del

I

D

del

Omicron BA.2

Omicron (B.1.1.529 + BA.2)

Human

Dec-21

I

S

A

HV

T

D

no del

Omicron BA.4

Omicron (B.1.1.529 + BA.4)

Human

Jan-22

I

S

A

del

T

D

no del

Omicron BA.5

Omicron (B.1.1.529 + BA.5)

Human

Jan-22

I

S

A

del

T

D

no del

SUAT_19

Omicron (B.1.1.529 + BA.1.17)

EPI_ISL_11580576

Spain

Cat

Jan-22

T

LPPA

V

del

I

D

del

TX-014776-001

Omicron (B.1.1.529 + BA.2.3.4)

EPI_ISL_13101428

USA

Dog

Apr-22

I

S

A

HV

T

D

no del

CU28424

Omicron (B.1.1.529 + BA.2)

Thailand

Dog

Mar-22

I

S

A

HV

T

D

no del

CUh10001

Omicron (B.1.1.529 + BA.2)

Thailand

Human

Mar-22

I

S

A

HV

T

D

no del

Virus

Variant

NL211I

V213G

214 ins

G339D

S371L/F

S373P

S375F

T376A

D405N

R408S

K417N

Wuhan-Hu-1

Wild type

NL

V

no ins

G

S

S

S

T

D

R

K

Delta

Delta (B.1.617.2)

NL

V

no ins

G

S

S

S

T

D

R

K/N

CU27791

Delta (B.1.617.2.85)

NL

V

no ins

G

S

S

S

T

D

R

K

CU27516

Delta (B.1.617.2.30)

NL

V

no ins

G

S

S

S

T

D

R

K

Omicron BA.1

Omicron (B.1.1.529 + BA.1)

I

V

EPE

D

L

P

F

T

D

R

N

Omicron BA.2

Omicron (B.1.1.529 + BA.2)

NL

G

no ins

D

F

P

F

A

N

S

N

Omicron BA.4

Omicron (B.1.1.529 + BA.4)

NL

G

no ins

D

F

P

F

A

N

S

N

Omicron BA.5

Omicron (B.1.1.529 + BA.5)

NL

G

no ins

D

F

P

F

A

N

S

N

SUAT_19

Omicron (B.1.1.529+BA.1.17)

I

V

EPE

D

L

P

F

T

D

R

N

TX-014776-001

Omicron (B.1.1.529 + BA.2.3.4)

NL

G

no ins

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

CU28424

Omicron (B.1.1.529 + BA.2)

NL

G

no ins

D

F

P

F

A

N

S

N

CUh10001

Omicron (B.1.1.529 + BA.2)

NL

G

no ins

D

F

P

F

A

N

S

N

Virus

Variant

N440K

G446S

L452R

S477N

T478K

E484A

F486V

Q493R

G496S

Q498R

N501Y

Y505H

Wuhan-Hu-1

Wild type

N

G

L

S

T

E

F

Q

G

Q

N

Y

Delta

Delta (B.1.617.2)

N

G

R

S

K

E

F

Q

G

Q

N

Y

CU27791

Delta (B.1.617.2.85)

N

G

R

S

K

E

F

Q

G

Q

N

Y

CU27516

Delta (B.1.617.2.30)

N

G

R

S

K

E

F

Q

G

Q

N

Y

Omicron BA.1

Omicron (B.1.1.529 + BA.1)

K

S

L

N

K

A

F

R

S

R

Y

H

Omicron BA.2

Omicron (B.1.1.529 + BA.2)

K

G

L

N

K

A

F

R

G

R

Y

H

Omicron BA.4

Omicron (B.1.1.529 + BA.4)

K

G

R

N

K

A

V

Q

G

R

Y

H

Omicron BA.5

Omicron (B.1.1.529 + BA.5)

K

G

R

N

K

A

V

Q

G

R

Y

H

SUAT_19

Omicron (B.1.1.529 + BA.1.17)

K

S

L

N

K

A

F

R

S

R

Y

H

TX-014776-001

Omicron (B.1.1.529 + BA.2.3.4)

N/A

N/A

N/A

N/A

N/A

A

F

R

G

R

Y

H

CU28424

Omicron (B.1.1.529 + BA.2)

N

G

L

N

K

A

F

R

G

R

Y

H

CUh10001

Omicron (B.1.1.529+BA.2)

N

G

L

N

K

A

F

R

G

R

Y

H

Virus

Variant

T547K

D614G

H655Y

N679K

P681H

N764K

D796Y

N856K

Q954H

N969K

L981F

Wuhan-Hu-1

Wild type

T

D

H

N

P

N

D

N

Q

N

L

Delta

Delta (B.1.617.2)

T

G

H

N

R

N

D

N

Q

N

L

CU27791

Delta (B.1.617.2.85)

T

G

H

N

R

N

D

N

Q

N

L

CU27516

Delta (B.1.617.2.30)

T

G

H

N

R

N

D

N

Q

N

L

Omicron BA.1

Omicron (B.1.1.529 + BA.1)

K

G

Y

K

H

K

Y

K

H

K

F

Omicron BA.2

Omicron (B.1.1.529 + BA.2)

T

G

Y

K

H

K

Y

N

H

K

L

Omicron BA.4

Omicron (B.1.1.529 + BA.4)

T

G

Y

K

H

K

Y

N

H

K

L

Omicron BA.5

Omicron (B.1.1.529+ BA.5)

T

G

Y

K

H

K

Y

N

H

K

L

SUAT_19

Omicron (B.1.1.529 + BA.1.17)

K

G

Y

K

H

K

Y

K

H

K

F

TX-014776-001

Omicron (B.1.1.529 + BA.2.3.4)

T

G

N/A

N/A

N/A

K

Y

N

H

K

L

CU28424

Omicron (B.1.1.529 + BA.2)

T

G

Y

K

H

K

Y

N

H

K

L

CUh10001

Omicron (B.1.1.529 + BA.2)

T

G

Y

K

H

K

Y

N

H

K

L

Viruses characterized in this study.