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Table 4 Amino acid mutations detected in SARS-CoV-2 viruses collected from two family cluster cases in Yogyakarta and Central Java provinces

From: Molecular epidemiology of SARS-CoV-2 isolated from COVID-19 family clusters

Virus (Accession No.)

NSP2

NSP3

NSP4

NSP5

NSP12 (RdRp)

Amino acid position in each gene

247

256

321

299

822

231

12

248

323

892

Wuhan/19 (NC_045512.2)

V

T

Q

V

P

A

K

T

P

H

YO-UGM-10001 (EPI_ISL_576113)*

A

T

Q

V

L

A

R

I

L

H

YO-UGM-10002 (EPI_ISL_576114)*

V

I

Q

V

L

A

R

I

L

H

YO-UGM-10003 (EPI_ISL_576115)*

A

T

Q

V

L

A

R

I

L

H

YO-UGM-10004 (EPI_ISL_576116)**

V

T

Q

A

L

V

K

T

L

H

YO-UGM-10005 (EPI_ISL_576128)**

V

I

K

V

L

A

K

T

L

Y

YO-UGM-10006 (EPI_ISL_576130)**

V

I

K

V

L

A

K

T

L

Y

YO-UGM-10007 (EPI_ISL_632936)

V

T

Q

V

L

A

K

T

L

H

YO-UGM-781481 (EPI_ISL_516829)

V

T

Q

V

P

A

K

T

L

H

YO-UGM-202449 (EPI_ISL_516800)

V

T

Q

V

L

A

K

T

L

H

JT-UGM-202538 (EPI_ISL_525492)

V

T

Q

V

L

A

K

T

L

H

YO-UGM-200927 (EPI_ISL_516806)

V

T

Q

V

P

A

K

T

P

H

JT-UGM-47906 (EPI_ISL_576383)

V

T

Q

V

P

A

K

T

L

H

JT-UGM-47964 (EPI_ISL_610162)

V

T

Q

V

P

A

K

T

P

H

JT-UGM-48660 (EPI_ISL_610161)

V

T

Q

V

L

A

R

T

L

H

YO-UGM-00061 (EPI_ISL_575331)

V

T

Q

V

L

A

K

T

L

H

YO-UGM-48651 (EPI_ISL_632937)

V

T

Q

V

P

A

K

T

L

H

YO-UGM-107727 (EPI_ISL_576145)

V

T

Q

V

P

A

K

T

L

H

Virus (Accession No.)

NSP13

NSP14

Spike

NS3

N

  

Amino acid position in each gene

  

5

213

614

57

119

193

  

Wuhan/19 (NC_045512.2)

T

P

L

V

D

Q

A

S

  

YO-UGM-10001 (EPI_ISL_576113)*

T

P

L

A

G

H

S

I

  

YO-UGM-10002 (EPI_ISL_576114)*

T

P

L

A

G

H

S

I

  

YO-UGM-10003 (EPI_ISL_576115)*

T

P

L

A

G

H

S

I

  

YO-UGM-10004 (EPI_ISL_576116)**

I

L

L

V

G

H

A

S

  

YO-UGM-10005 (EPI_ISL_576128)**

T

P

F

V

G

H

A

S

  

YO-UGM-10006 (EPI_ISL_576130)**

T

P

F

V

G

H

A

S

  

YO-UGM-10007 (EPI_ISL_632936)

T

P

L

V

G

H

A

S

  

YO-UGM-781481 (EPI_ISL_516829)

T

P

L

V

G

H

A

S

  

YO-UGM-202449 (EPI_ISL_516800)

T

P

L

V

G

H

A

S

  

JT-UGM-202538 (EPI_ISL_525492)

T

P

L

V

G

H

A

S

  

YO-UGM-200927 (EPI_ISL_516806)

T

P

L

V

D

Q

A

S

  

JT-UGM-47906 (EPI_ISL_576383)

T

P

L

V

G

Q

A

S

  

JT-UGM-47964 (EPI_ISL_610162)

T

P

L

V

G

Q

A

S

  

JT-UGM-48660 (EPI_ISL_610161)

T

P

L

A

G

H

S

I

  

YO-UGM-00061 (EPI_ISL_575331)

T

P

L

V

G

H

A

S

  

YO-UGM-48651 (EPI_ISL_632937)

T

P

L

V

G

H

A

S

  

YO-UGM-107727 (EPI_ISL_576145)

T

P

L

V

G

Q

A

S

  
  1. Family clusters are indicated in asterisks: Case-1 (*) and Case-2 (**). In family cluster-1 and 2, variations in the amino acids of the NSP2 protein (V247A and T256I, and T256I and Q321K, respectively) were noted, but not in others. The virus samples isolated from fatal disease outcomes of family cluster-1 (YO-UGM-10001|EPI_ISL_576113 and YO-UGM-10003|EPI_ISL_576115) carried V247A mutation in the NSP2 protein, while those from the recovered patient (YO-UGM-10002|EPI_ISL_576114) did not. Bold, amino acids were different from their reference (Wuhan/19 [NC_045512.2])
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BMC Medical Genomics

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