Table 1 Unique deletions observed in CDC sequence surveillance of Lineage B.1 MPXV from the U.S. in 2022

From: Patterns of genomic deletions in monkeypox virus during the 2022 outbreak in the United States

No.

Size#

Start#

End#

Cases^

Affected CDS^^

1

573

181,836

182,408

1

MPXVgp182: surface glycoprotein B21

2

600

2159

2758

1*

MPXVgp002: TNF receptor CrmB (2 copies)

194,446

195,045

3

640

135,539

136,178

1

MPXVgp137 (COP-A25L): A-type inclusion protein

MPXVgp138 (COP-A26L): IMV surface tubules major component

4

913

11,343

12,255

12*

MPXVgp010 (OPG023): ankyrin-like host range protein

5

1076

149,053

150,128

1

MPXVgp155 (COP-A44L): 3 beta-hydroxysteroid dehydrogenase/delta 5- > 4 isomerase

MPXVgp156 (COP-A45R): virion core protein

6

1120

8209

9328

1

MPXVgp007: IL-1 receptor antagonist

7

1192

1571

2762

1

MPXVgp001 (J1L/R) (2 copies): chemokine-binding protein

194,444

195,635

MPXVgp002: TNF receptor CrmB (2 copies)

8

1498

8211

9708

1

MPXVgp007: IL-1 receptor antagonist; MPXVgp008: zinc finger-like virulence factor

9

2350

176,519

178,868

2

MPXVgp178 (COP-B20R): Ankyrin-like protein

10

2475

155,787

158,261

1

Intergenic

11

2635

157,206

159,840

1

MPXVgp162 (COP-A55R): BTB Kelch-domain containing protein CRL complex

MPXVgp163 (COP-A56R): EEV envelope and cell membrane glycoprotein

12

2668

20,157

22,843

1

MPXVgp023 (COP-N1L): secreted virulence factor; MPXVgp024 (COP-N2L): alpha amanatin target

MPXVgp025 (COP-M1L): ankyrin-like; MPXVgp026 (COP-M2L): NFkB inhibitor

13

2727

12,546

15,272

1

MPXVgp010 (OPG023): ankyrin-like host range protein

MPXVgp011: ANK-containing protein; MPXVgp012: Type-I interferon resistance

14

3302

188,069

191,370

1

MPXVgp185: Toll-like receptor signaling inhibitor, Bcl-2 like

MPXVg187; MPXVgp188: ankyrin-like protein

15

3370

155,340

158,709

28**

MPXVgp161 (COP-A51R); MPXVgp162 (COP-A55R)

16

3493

173,232

176,724

2

MPXVgp177 (COP-B19R); MPXVgp178 (COP-B20R)

17

3852

170,150

174,001

1

MPXVgp172 − 175

18

4430

4222

8651

1

MPXVgp003 − 006

19

6469

189,436

195,504

1

MPXVgp185, 187 − 191

20

8207

2166

10,372

2

MPXVgp002 − 008

21

8534

447

8980

1

MPXVgp001 − 006

22

8745

14,958

23,702

1

MPXVgp012 − 016

23

10,727

181,067

191,793

2

MPXVgp181 − 182; 185, 187, 188

24

11,161

180,698

191,858

2

MPXVgp181, 182, 185, 187, 188

25

11,269

181,482

192,750

1

MPXVgp182(surface glycoprotein B21); 185, 187 − 189

26

12,664

173,168

185,831

1

MPXVgp175; 177 − 182(surface glycoprotein B21)

27

14,230

179,405

193,634

1

MPXVgp180 − 182; 187 − 189

28

14,410

182,032

196,441

1

MPXVgp182(surface glycoprotein B21); 185, 187 − 191

29

16,208

175,565

191,722

1

MPXVgp181, 182, 185, 187 − 191

30

16,415

178,827

195,241

1

MPXVgp180 − 182, 185, 187 − 190

31

21,576

1230

22,805

1

MPXVgp001 – 016; MPXVgp021 −26

  1. #Deletion size (bp) and start and end coordinates are relative to ON563414.3.
  2. ^Number of associated mpox cases
  3. ^^Predicted changes to coding sequences. Gene names are based on gene orthologs in the MPXV genome (designated MPXVgp) or Vaccinia virus Copenhagen (COP-). Additional details can be found in Table S1.
  4. *Additional sequences with mutation found in public databases.
  5. **Only six sequences sharing this deletion were observed through routine surveillance. An additional 22 sequences were observed by selectively sequencing and obtaining additional samples from Louisiana.
  6. No.: Deletion number.
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