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Table 1 Study collection and characteristics of the strains

From: Non-typeable pneumococci circulating in Portugal are of cps type NCC2 and have genomic features typical of encapsulated isolates

CCa

Strain

Year

PFGE

MLST

Antibiotype (non susceptible to)b

CSP/ComDc

Capsular region RFLP

Capsular region sequenced

Analysis by CGH

344

PT944

2001

NT1

344

PG, Ery, Da, Tet, SXT

2/2

A

Yes

Yes

 

LGST142

2000

NT1

344

Ery, Da, Tet, SXT

2/2

A

No

No

 

PT191

2001

NT1

344

PG, Ery, Da, Tet, SXT

2/2

A

No

No

 

PT3412b

2002

NT1

344

Ery, Da, Tet, SXT

2/nd

A

No

No

 

PT998

2001

NT1

344

PG, Ery, Tet, SXT

2/nd

A

No

No

 

LGST214

2000

ND

344

Ery, Tet, SXT

2/nd

A

No

No

 

DCC2367

1999

NT1

344

PG, Tet, SXT

2/2

F

Yes

No

 

PT389

2001

NT1

344

PG, Tet, SXT

2/nd

F

No

No

 

PT4427a

2002

NT1

344

PG, Ery, Tet, SXT

2/nd

H

Yes

No

 

WL212

2001

NT1

1619

PG, Ery, Da, SXT

2/2

A

No

Yes

 

PT5899

2007

NT1

5220

PG, Ery, Tet, SXT

2/nd

nd

No

Yes

 

DCC635

1997

NT2

344

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

WL992

2002

NT3

344

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

PT2987

2002

NT4

344

PG, Ery, Da, Tet, SXT

2/nd

A

No

No

 

PT2293b

2001

NT4

344

PG, Ery, Da, Tet, SXT

2/2

E

Yes

Yes

 

PT6317

2007

NT5

344

PG, Ery, Da, Tet, SXT

2/nd

nd

No

Yes

 

PT5838b

2007

NT6

344

Ery, Da, Tet, SXT

2/nd

nd

No

Yes

 

WL1514

2003

NT7

344

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

PT6318

2007

NT7

4586

PG, Ery, Da, Tet, SXT

2/nd

nd

No

Yes

 

PT5269

2006

NT8

344

PG, Ery, Da, Tet, SXT

2/nd

nd

No

Yes

 

DCC2879

1999

NT9

897

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

PT1571b

2001

NT10

344

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

PT5727

2006

NT11

344

PG, Ery, Da, Tet, SXT

2/nd

nd

No

Yes

 

PT5082a

2003

NT22

344

PG, Ery, Da, Tet, SXT

2/nd

I

No

No

 

WL598

2001

NT25

344

PG, Tet, SXT

2/nd

F

No

No

 

DCC1795

1998

NT26

1541

PG, Ery, Da, Tet, SXT

2/2

A

No

Yes

 

DCC2435p

1999

ND

344

Ery, Da, Tet, SXT

2/nd

A

No

No

1156

PT268

2001

NT21

1156

PG, Ery, Da, Tet, SXT

1/nd

A

No

No

 

PT6210

2007

NT21

4583

PG, Ery, Da, Tet, SXT

1/nd

nd

No

Yes

 

PT2687b

2001

NT22

1156

PG, Ery, Da, Tet, SXT

1/nd

A

No

No

 

PT5561

2006

NT22

1156

PG, Ery, Da, Tet, SXT

1/nd

nd

No

Yes

 

PT4014

2002

NT22

1153

PG, Ery, Da, Tet, SXT

1/1

C

No

Yes

 

PT4222

2002

NT24

1156

PG, Ery, Da, Tet, SXT

1/1

A

No

No

 

PT5002

2003

NT24

1156

Ery, Da, Tet

1/1

A

No

Yes

 

PT1493

2001

NT24

1617

PG, SXT

1/1

A

Yes

Yes

 

WL352.1

2001

NT24

1703

PG, SXT

1/1

A

No

Yes

 

PT3201

2002

NT24

1153

PG, Ery, Da, Tet, SXT

1/1

C

Yes

Yes

 

PT6209b

2007

NT24

4583

PG, Ery, Da, Tet

1/nd

nd

No

Yes

 

PT2322

2001

ND

1153

PG, Ery, Da, Tet, SXT

1/nd

C

No

No

320

PT1804b

2001

NT19

888

PG, SXT

1/1

A

Yes

Yes

1540*

PT1718

2001

NT12

1540

SXT

1/4

A

Yes

Yes

1278*

PT4812

2003

NT22

1278

PG, SXT

1/1

A

Yes

Yes

941

DCC2787

1999

NT13

941

SXT

2/2

B

Yes

Yes

 

WL165b

2001

NT13

1704

 

2/2

B

No

Yes

 

DCC2648

1999

NT14

941

SXT

2/2

B

No

Yes

448

WL850a

2002

NT15

448

 

2/2

B

Yes

Yes

 

WL1084

2002

NT15

448

 

2/2

B

No

No

 

PT2417

2001

NT15

448

PG, SXT

2/nd

B

No

No

 

WL108

2001

NT16

448

 

2/nd

nd

No

Yes

1618

PT673

2001

NT17

1618

PG, Ery

1/1

D

Yes

Yes

 

WL402.1b

2001

NT17

1618

PG, Ery, Da, Tet, SXT

1/1

D

No

Yes

1705*

WL977

2002

NT23

1705

PG, SXT

1/1

G

Yes

Yes

  1. a – clonal complex (CC); singleton (*); b – penicillin G (PG), erythromycin (Ery), clindamycin (Da), tetracycline (Tet), and trimethoprim sulfamethoxazole (SXT); c – ComD2 had an E151K substitution and ComD4 had an M77I and an E151K substitutions, both outside the sensor domain of ComD; nd – not determined.