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Molecular Analysis of Antimicrobial Resistance Mechanisms in N-Gono
Molecular Analysis of Antimicrobial Resistance Mechanisms in N-Gono
2
0066-4804/11/$12.00 doi:10.1128/AAC.00788-10
Copyright © 2011, American Society for Microbiology. All Rights Reserved.
The reported incidence of gonococcal infections has in- sociated with reduced susceptibility to the extended-spectrum
creased in Canada over the last 11 years (1997 to 2008), from cephalosporins have been described (1, 54).
15 cases to 38 cases per 100,000 (41). Coupled with this in- Resistance to penicillin (PENr) in N. gonorrhoeae can be
crease, antimicrobial resistance in Neisseria gonorrhoeae has mediated by the plasmid-encoded TEM-1 -lactamase or by
continued to emerge worldwide, limiting empirical treatment mutations in chromosomal genes. A recent study summarizes
regimens for the disease. Since the 1980s, a rapid rise in resis- the stepwise transfer of PENr from a resistant to a susceptible
tance to penicillin (PEN) and tetracycline (TET) led to the strain (62). In addition to reduced affinity of PBP 2, increased
discontinuation of their use for the treatment of gonococcal efflux pump activity (MtrCDE, by mutations in the promoter
infections. More recently, the emergence of clinical isolates of region or in its repressor, MtrR), and impermeability (outer
N. gonorrhoeae resistant to ciprofloxacin (CIP) has been re- membrane proteins PIA and PIB), mutations in PBP 1 and
ported globally (2, 4, 13, 57, 58). During 2006, 28% of N. PilQ secretin have also been involved in the acquisition of
gonorrhoeae isolates were resistant to ciprofloxacin in Ontario, high-level chromosomally mediated PENr (44, 61). In addition
Canada (38). Clinical strains displaying intermediate suscepti- to these mutations, ESCrs strains have mosaic structures in the
bility or resistance to azithromycin (AZM) are now emerging transpeptidase-encoding domain of PBP 2 (3, 26, 27, 28, 35, 48,
(9, 18, 19, 32, 40, 46, 60). 56, 62). Some of these genetic modifications (derepressed ef-
Extended-spectrum cephalosporins (ESC) (ceftriaxone and flux and impermeability), as well as target mutations (ribo-
cefixime) are recommended as the first-line treatment of gono- somal protein S10, encoded by the rpsJ gene), reduce the
coccal infections in Canada and the United States; azithromy- susceptibility of the bacteria to tetracycline, whereas their com-
cin, spectinomycin, and the fluoroquinolones are second-line bination and/or the expression of the tet(M) gene confer high-
options (6, 7, 42). While resistance of N. gonorrhoeae to ex- level TETr (21, 22, 33). Ciprofloxacin resistance in gonococci
tended-spectrum cephalosporins has not been described, re- has been attributed mainly to chromosomal mutations in the
duced susceptibility (ESCrs) has led to considerable concern, target of the compound, in a region named the quinolone
particularly in Japan (24, 25, 28, 50, 59). Clinical failures as- resistance-determining region (QRDR) of the parC and gyrA
genes, which encode the ParC and GyrA subunits of topoisom-
erase IV and DNA gyrase, respectively (5, 51). Reduced intra-
* Corresponding author. Mailing address: Ontario Agency for cellular drug accumulation was also suggested for CIPr isolates
Health Protection and Promotion, Public Health Laboratory Branch,
81 Resources Road, Toronto, ON, Canada M9P 3T1. Phone: (416)
(49, 51). Spectinomycin resistance (SPTr) was associated with
235-6136. Fax: (416) 235-6281. E-mail: roberto.melano@oahpp.ca. point mutations in the 16S rRNA genes (20). There is limited
䌤
Published ahead of print on 22 November 2010. information describing the molecular bases of macrolide resis-
703
704 ALLEN ET AL. ANTIMICROB. AGENTS CHEMOTHER.
tance in gonococci. Although macrolide resistance mediated by strains F, G, K, L, N, O, and P of the 2008 WHO N. gonorrhoeae reference strain
ribosomal methylation or mutations has been described, in- panel were used as quality control strains (52). The presence of -lactamase
activity was tested using nitrocefin.
creased activity of the MtrCDE efflux pump is the most com- Molecular studies. Previously described targets related to resistance or re-
mon mechanism responsible for the phenotype (8, 11, 12, 34, duced susceptibility to the antimicrobials tested were studied (Table 1). DNA
43, 53, 55, 60). extracts of each isolate were prepared by boiling a 1-l loop of each isolate in
Although the incidence of gonococcal infections is increas- lysis buffer (1% Triton X-100, 0.5% Tween 20, 1 mM EDTA, 10 mM Tris-HCl,
pH 8). After centrifugation, 2 l of these supernatants was used per PCR. The
ing, the use of nucleic acid amplification testing reduced the
primers used for PCR amplification are detailed in Table 1. PCRs were per-
number of samples collected for culture, limiting the availabil- formed using standard conditions or conditions previously described (Table 1).
ity of bacterial isolates for phenotypic studies (e.g., antimicro- DNA samples were stored at ⫺20°C. All the amplicons were sequenced with the
bial resistance testing). However, urgent monitoring of local same specific primers used for PCR under the BigDye terminator methodology
resistance patterns in N. gonorrhoeae and the underlying mech- in a model 3130xl DNA sequence analyzer (Applied Biosystem/Perkin-Elmer,
Foster City, CA). The nucleotide and deduced amino acid sequences were
anisms is required to effectively guide treatment recommenda- analyzed with the Vector NTI analysis software package (version 10.3.0; Invitro-
tions. Since there are no updated surveillance data about gen Corp.). Searches of sequences were performed with the BLAST program,
antimicrobial resistance in N. gonorrhoeae from Ontario, Can-
TABLE 2. In vitro activities of 7 antimicrobial agents against N. gonorrhoeae clinical isolates (n ⫽ 149)
L421P WT d
G120K, A121D Deletion A WT WT ⫺ 0 6
L421P WT A121G Deletion A WT WT ⫺ 2 2
L421P WT G120K, A121N Deletion A WT WT ⫺ 1 3
L421P WT G120K, A121D WT G45D WT ⫺ 3 0
WT WT WT Insertion T WT WT ⫺ 2 0
L421P WT G120D, A121G Deletion A G45D WT ⫹ 0 1
L421P WT G120K, A121G Deletion A WT WT ⫹ 0 1
L421P Mosaic G120K, A121N Deletion A WT WT ⫺ 0 1
L421P WT WT Deletion A G45D WT ⫺ 0 1
L421P WT WT Deletion A WT WT ⫺ 1 0
L421P WT G120D, A121G WT A39T WT ⫹ 0 1
⫹
Total 12 18
a nS
PEN , isolates resistant or with intermediate resistance to penicillin based on amino acid alterations in PBP 1 and 2, porins PIA/B, the repressor MtrR, the secretin
PilQ, mutations in the mtrR promoter, and the presence of the -lactamase TEM-1.
b
⫺, absent; ⫹, present.
c
I, intermediate resistance (MIC, 0.12 to 1 g/ml); R, resistant (MIC, ⱖ2 g/ml), according to CLSI breakpoints for PEN.
d
WT,wild type.
single mutants and 1 A39T/R44H double mutant). Twenty- Resistance to CIP. CIPr was observed in 42 isolates (28.2%,
seven isolates with a single adenine deletion and 3 with a single MICs ranging from 3 to ⬎32 g/ml) (Table 2). Just 2 isolates
thymine insertion in the mtrR promoter gene were also de- presented intermediate MIC values (CIPi). Thirty-two out of
tected. Although mutations in porins PIA/B and the derepres- 44 isolates (72.7%) were also TETr, and the remaining 12
sion of the MtrCDE efflux pump are common resistance mech- isolates displayed a TETi phenotype. Just 17 isolates were also
anisms for both penicillin and tetracycline, only 17 out of 38 PENr (38.6%), and the remainder were PENi. All 44 of these
TETr isolates were PENr, as well. Most of these TETr isolates isolates were studied at the molecular level.
showed single amino acid mutations in the ribosomal protein The CIPr phenotype was mainly due to simultaneous chro-
S10 (V57M; n ⫽ 31). This substitution, which can specifically mosomal mutations in gyrA and parC QRDRs (n ⫽ 39; 92.3%
reduce the affinity of tetracycline for its target, was described as of them were GyrAS91F-D95G ParCS87R) (Table 6). One CIPr
increasing the MIC of tetracycline 3- to 4-fold independently (MIC, 6 g/ml) and 1 CIPi isolates presented a double muta-
of the bacterial genetic background (22). The combination of tion in the gyrA QRDR (GyrAS91F-D95G), whereas the other
mutations affecting the tetracycline target (ribosomal protein CIPi isolate was wild type for both genes. Unexpectedly, 2 CIPr
S10), antibiotic influx (porins PIA/B), and efflux (derepression isolates (MICs, 12 and 32 g/ml) were wild type for gyrA and
of the MtrCDE efflux pump) are the most important mecha- parC QRDRs, as well as the mtrR gene/promoter and the porin
nisms of TETr in this collection. PIB. These isolates remain under study.
TABLE 4. N. gonorrhoeae isolates with reduced susceptibility to CFM and CRO (n ⫽ 14)a
MIC (g/ml) PBP 1 PBP 2 mtrR No. of
Porin PIB (porB) MtrR ST
PEN CFM CRO (ponA) pattern promoter isolates
FIG. 2. Deduced amino acid sequences of PBP 2 from 14 ESCrs N. gonorrhoeae isolates found in this study compared with the sequence from
the wild-type strain LM306 (GenBank accession no. M32091). Active sites are highlighted in gray. The numbers of isolates with each pattern are
shown in parentheses. The periods represent amino acid residues identical to those of LM306; the dashes are blanks. PBP 2 type XXXIV, GenBank
accession number ADE22248; XXXV, ZP_04719537; XXXVI, ZP_04723776.
708
VOL. 55, 2011 ANTIMICROBIAL RESISTANCE IN N. GONORRHOEAE, ONTARIO 709
S10 Porins PIA/B mtrR No. of isolates with MIC (g/ml) of:
MtrR TetMb
(rpsJ) (por IA/IB) promoter 2 4 16 32 64
Total 30 1 2 4 1
a
Classified by amino acid alterations in riboprotein S10, porins PIA/B, mutations in the mtrR promoter and repressor MtrR, and the presence of TetM. CLSI
breakpoints for TET: susceptible, ⱕ0.25 g/ml; intermediate, 0.5 to 1 g/ml; resistant, ⱖ2 g/ml.
b
⫺, absent; ⫹, present.
Reduced susceptibility to macrolides. Thirty-four isolates sible mutations in the mtrR gene/promoter and riboproteins L4
were identified with MICs of ⱖ2 g/ml for ERY (22.8%). and L22 (rplD and rplV genes) were tested in all the isolates
These isolates were designated ERYrs (Table 2). Low azithro- with ERYrs. Moreover, mutations in the 4 copies of the 23S
mycin MIC values (0.25 to 0.5 g/ml) were observed in all the rRNA genes identified in N. gonorrhoeae were analyzed, as
ERYrs isolates (data not shown). However, considering the well, using the strategy described by Farrell and colleagues (16,
European Committee of Antimicrobial Resistance Testing 17). Briefly, a common primer inside the 4 copies of the 23S
breakpoints for azithromycin (susceptible, ⱕ0.25; resistant, rRNA genes and specific external primers close to each of
⬎0.5) and previous studies suggesting that MICs for azithro- them were designed from the complete N. gonorrhoeae
mycin of 0.25 to 1 g/ml indicate reduced susceptibility to the NCCP11945 genome (accession number NC_011035). Using
macrolide, all the ERYrs isolates were designated AZMrs, as the amplicons obtained in these first PCRs as DNA templates,
well (14, 15, 43, 60). nested PCRs were performed using common primers internal
Three different mechanisms involved in macrolide resistance to the 23S rRNA gene (including the peptidyltransferase loop
were described in N. gonorrhoeae: efflux systems (30, 45), mod- in domain V) to identify point mutations associated with mac-
ification of the ribosomal target by methylases (43), and ribo- rolide resistance (Table 1).
somal modification by point mutations in the macrolide targets Of all the genes searched by PCR, only ermB was detected in
(18, 19, 34). Here, the presence of 23S rRNA methylases 1 isolate. PCR and sequencing analyses did not detect muta-
(ermA, ermB, ermC, and ermF genes), a plasmid-mediated ef- tions in the riboproteins L4 and L22. A unique point mutation
flux pump (mefA/E genes), macrolide 2⬘-phosphotransferase (transition C2403U by N. gonorrhoeae numbering [C2417U by
(mphA gene), ERY esterases (ereA and ereB genes), and pos- E. coli numbering]) in domain V of the 23S ribosomal subunit
Total 1 1 2 2 4 2 7 5 3 2 15
a
Classified by amino acid alteration patterns in the QRDRs of ParC and GyrA subunits. CLSI breakpoints for CIP: susceptible, ⱕ0.6 g/ml; intermediate, 0.12 to
0.5 g/ml; resisstant, ⱖ1 g/ml.
710 ALLEN ET AL. ANTIMICROB. AGENTS CHEMOTHER.
TABLE 7. Classification of ERYrs N. gonorrhoeae each ST were not related. On the other hand, 4/5 isolates
isolates (n ⫽ 34)a harboring tbpB allele 35 (1 isolate with ST546, ST1634,
mtrR No. of ST3551, and ST3570) were associated with resistance to 2 or
MtrR
promoter isolatesb more different antimicrobials (ST546 and ST3570 are closely
Deletion A WT 26 related, with 6 point mutations of difference between their
Insertion T WT 3 porA/B alleles). Resistance to 2 or more antimicrobials was
WT G45D 2 also observed in isolates harboring tbpB allele 49 (4/8 isolates
WT A39T, R44H 1 belonging to ST3550, ST3569, and ST3590; the first 2 are
WT WT 2
closely related, with just 2 point mutations of difference be-
Total 34 tween their porA/B alleles), allele 110 (8/14 isolates from
a
ST2569, ST3553, and the previously mentioned ST1407 and
Based on amino acid alterations in the MtrR repressor and mutations in the
mtrR promoter. ST3158), and allele 801 (2/2 isolates belonging to ST3561 and
b
All isolates displayed MICs ⱖ 2 g/ml. ST3563, both closely related, with just 2 point mutations of
difference between their porA/B alleles).
Conf. Antimicrob. Agents Chemother. American Society for Microbiology, level tetracycline resistance in Neisseria gonorrhoeae is the result of acquisi-
Washington, DC. tion of streptococcal tetM determinant. Antimicrob. Agents Chemother.
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in Neisseria gonorrhoeae in England and Wales. J. Antimicrob. Chemother. 34. Ng, L. K., I. Martin, G. Liu, and L. Bryden. 2002. Mutations in 23S rRNA
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10. Clinical and Laboratory Standards Institute. 2008. Performance standards Agents Chemother. 46:3020–3025.
for antimicrobial susceptibility testing, 18th informational supplement. CLSI 35. Ohnishi, M., et al. 2010. Spread of a chromosomal cefixime-resistant penA
document M100-S18. Clinical and Laboratory Standards Institute, gene among different Neisseria gonorrhoeae lineages. Antimicrob. Agents
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Volume 55, no. 2, p 703–712, 2011. Page 707: the “PBP 2 pattern” column of Table 4 is incorrect and should appear as shown below.
TABLE 4 N. gonorrhoeae isolates with reduced susceptibility to CFM and CRO (n ⫽ 14)a
MIC (g/ml)
No. of
PEN CFM CRO Porin PIB (porB) PBP 1 (ponA) PBP 2 pattern mtrR promoter MtrR ST isolates
2 0.25 0.125 G120K, A121D L421P XXXVI Deletion A WT 225 1
2 0.25 0.125 WT L421P XXXV Deletion A G45D 299 1
1 0.25 0.125 G120K, A121N WT XXXIV Deletion A WT 3158 3
1 0.125 0.125 WT WT XXXVII Deletion A WT 546 1
0.5 0.125 0.125 G120K, A121N WT XXXVIII Deletion A WT 3596 1
1 0.125 0.063 G120K, A121N L421P XXXIV Insertion T WT 3158 1
1 0.125 0.063 G120K, A121N L421P XXXIV Deletion A WT 3158 1
2 0.125 0.063 G120K, A121N L421P XXXIV Deletion A WT 3570 1
2 0.125 0.063 A121S L421P XXXIV Deletion A WT 3116 1
1 0.125 0.063 G120K, A121N L421P XXXIV Deletion A WT 3563 1
1 0.125 0.063 WT WT XXXVI WT WT 51 1
0.5 0.125 0.032 WT WT XXXIV Deletion A WT 3553 1
a
Classified by -lactam MICs, amino acid alterations in porin PIB, PBP 1 and 2, repressor MtrR and mutations in the mtrR promoter.
Page 706, right column, line 24: “The most common PBP 2 type found in this study was the sequence pattern XXXVIII (9/13 isolates,
5 of them belonging to ST3158)” should read “The most common PBP 2 type found in this study was the sequence pattern XXXIV (9/14
isolates, 5 of them belonging to ST3158).”
Page 708, Figure 2: in the upper left portion of the figure, the PBP 2 patterns and numbers of isolates should be XXXIV (9), XXXV (1),
XXXVI (2), XXXVII (1), and XXXVIII (1).
632 aac.asm.org Antimicrobial Agents and Chemotherapy p. 632 January 2014 Volume 58 Number 1