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. 2005 Jun;49(6):2237–2245. doi: 10.1128/AAC.49.6.2237-2245.2005

TABLE 2.

Phenotypic characteristics and changes in RpoB among the most prevalent RIF-resistant pneumococcal clones

PFGEa Isolate Serotype Site Yr Originb Resistance patternc Nucleotide polymorphisms at rpoBd Amino acid changes at RpoBe
Spain23F-1 Rif-7 23F HD 1991 Sputum PTCSxTR A516, V520, Q535, G551 D489N, R501H
Rif-14 23F HD 1993 Sputum PTCSxTR A516, V520, Q535, G551 H499N
Rif-22 23F HD 1994 Blood PTCSxTR A516, V520, Q535, G551 H499N
Rif-34 23F HGM 1996 Blood PTCEClSxTR A516, V520, Q535, G551 M488I, H499Y
Rif-35 23F HGM 1996 Blood PTCEClSxTR A516, V520, Q535, G551 M488I, H499Y
Rif-36 23F HGM 1996 Blood PTCEClSxTR A516, V520, Q535, G551 M488I, H499Y
Rif-38 23F HGM 1996 Blood PTCEClSxTR A516, V520, Q535, G551 M488I, H499Y
Rif-39 23F HGM 1996 Pus PTCEClSxTR A516, V520, Q535, G551 M488I, H499Y
Rif-63 23F HD 2001 Eye PTCEClSxTR A516, V520, Q535, G551 L506S
Rif-75 23F HUB 1995 Sputum PTEClSxTR A516, V520, Q535, G551, S498 H499N
Rif-76 23F HUB 1997 Sputum PTCSxTR A516, V520, Q535, G551 H499Y
Spain6B-2 Rif-40 6B HD 1996 Sputum PTCR A516, V520, Q535, G551 H499Y
Rif-42 6B HGM 1997 BAL PTEClSxTR I468, Q535 Q150R
Rif-18 6B HD 1994 Sputum PTEClR I468, Q535 D489G, L506V
Rif-19 6B HD 1994 Blood PTEClR I468, Q535 D489G, L506V
Rif-30 6B HD 1995 Blood PTEClR I468, Q535 D489G, L506V
Rif-17 6B HUB 1994 Sputum PTCEClSxTR I468, Q535 D489N, P537S
Rif-23 6B HUB 1995 Sputum PTCEClSxTR I468, Q535 H499Y
Rif-53 6B HD 1999 Sputum PTCEClSxTR I468, Q535 H499Y
Rif-13 6B HCA 1993 BPS PTCSxTR Y589F, I608V, I624V, N669D, Q671K, H499N
Spain9V-3 Rif-55 14f HCA 2000 Pleural PSxTR I468, Q535 D489V
Rif-1 9V HD 1990 Sputum PSxTR I468, Q535 H499Y
Spain14-5 Rif-15 14 HD 1993 Sputum PTCEClSxTR Y589F, H499N
Rif-16 14 HD 1993 Sputum PTCEClSxTR Y589F, H499N
Clone Cg Rif-2 19F HUB 1991 Sputum PTSxTR A474, V520, Q535 S481P, H499Y
Rif-3 19F HUB 1991 Sputum PTSxTR A474, V520, Q535 D489V
Rif-12 19F HD 1999 Eye PTCEClSxTR A474, V520, Q535 H499Y
Rif-28 19F HUB 1995 Sputum PCSxTR A474, V520, Q535 H499N
Rif-37 19F HGM 1996 Sputum PTEClSxTR A474, V520, Q535 H499N
Rif-31 19F HD 1995 Blood PTCSxTR Y589F, D489V
a

PFGE SmaI patterns.

b

BAL, bronchoalveolar wash specimen; BPS, bronchial protected catheter brush specimen.

c

P, resistant to penicillin (MIC, 0.12 to 4 μg/ml); T, resistant to tetracycline (MIC, ≥4 μg/ml); C, resistant to chloramphenicol (MIC, ≥8 μg/ml); E, resistant to erythromycin (MIC, ≥0.5 μg/ml); Cl, resistant to clindamycin (MIC, ≥0.5 μg/ml); SxT, resistant to trimethropin-sulfamethoxazole (MICs, ≥4/76 μg/ml); R, resistant to RIF (MIC, ≥4 μg/ml).

d

The RpoB regions sequenced were L42 to V175 and Q464 to T700. Nucleotide polymorphisms are indicated by the residue number; the changes observed were I468 (ATT instead ATC), A474 (GCG instead GCA), A516 (GCT instead GCC), V520 (GTA instead GTG), Q535 (GAG instead GAA), G551 (GGT instead GGA), and S498 (TCA instead TCT).

e

Residue changes involved in RIF resistance are showed in boldface, and double underlining indicates that the residue is located in a gene with a mosaic structure.

f

Capsular switching.

g

C, PFGE type related to serotype 19F with MLST type 89.