Ten-Year Prevalence Trends of Phenotypically Identified Community-Associated Methicillin-Resistant Staphylococcus aureus Strains in Clinical Specimens.

BACKGROUND: Community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) strains were first detected in hospitals in Korea between the late 2000s and early 2010s. However, there is limited information regarding the prevalence of CA-MRSA strains among hospital isolates and their phenotypic changes over the last decade. We investigated the prevalence trend of CA-MRSA strains isolated from different clinical specimens and their phenotypic changes between September 2009 and September 2019.
METHODS: CA-MRSA strains were phenotypically identified by confirming their resistance to penicillin (PCN) and oxacillin (OXA) and evaluating their susceptibility to trimethoprim-sulfamethoxazole, rifampin, fusidic acid, tetracycline, and at least one of the following four antimicrobials: clindamycin (CLI), erythromycin (ERY), ciprofloxacin (CIP), and gentamicin (GEN). A CA-MRSA strain that exhibited resistance to ERY, CLI, CIP, or GEN was classified as having resistance pattern I, II, III, or IV, respectively, regardless of its resistance to other antimicrobial agents.
RESULTS: Of the 8,278 MRSA isolates identified in specimens obtained two days after admission, 1,385 (16.73%) were CA-MRSA strains. The prevalence of CA-MRSA strains increased from 12.2% to 26.6% (3.21% per period, P=0.05). Resistance type analysis revealed an increasing trend in the prevalence of PCN/OXA-resistant (1.84%; P=0.049) and PCN/OXA/ERY/CLI/CIP-resistant (0.98%; P=0.04) CA-MRSA strains and in resistance pattern III strains (2.08%; P=0.004).
CONCLUSIONS: The prevalence of CA-MRSA strains in Korea has increased significantly over the last decade, and CA-MRSA strains have gained phenotypic diversity beyond PCN/OXA-resistance, including antimicrobial resistance to non-β-lactams, especially CIP.

INTRODUCTION

Methicillin-resistant Staphylococcus aureus (MRSA) is one of the leading causative agents of hospital-acquired infections worldwide [1]. Community infection due to MRSA, first reported in the lates referred to as community-associated MRSA (CA-MRSA) infection. CA-MRSA has posed a significant public health challenge; it was initially detected in North America and Europe and subsequently in Korea in the mid-2000s [2, 3]. Unlike MRSA strains responsible for hospital-acquired infections, CA-MRSA strains are mostly susceptible to non-β-lactam antimicrobials owing to their small, resistance-conferring genomic complex (staphylococcal cassette chromosome mec type IV [SCCmec type IV]) that does not harbor resistance genes against non-β-lactams [2]. The prevalence of CA-MRSA strains has increased significantly since their detection, and these strains have recently spread to hospitals. In the United States, infections caused by USA300, a major CA-MRSA strain, have increased in hospitals, and serious infections caused by this strain, such as S. aureus bacteremia, even have altered clinical characteristics [4, 5]. Several studies have shown that infections caused by multilocus sequence typing (MLST) sequence type 72 (ST72), a major CA-MRSA strain in Korea, are increasing in hospitals in Korea compared with the late 2000s to early 2010s [6-8]. However, follow-up studies on the prevalence of CA-MRSA strains in hospitals after this period are limited. These strains have rarely been investigated using different types of clinical specimens; hence, further changes in the antimicrobial resistance patterns of CA-MRSA strains in hospitals need to be studied. The lack of relevant reports could be attributed to the fact that it is quite challenging to conduct genotyping experiments to differentiate CA-MRSA strains from hospital MRSA strains among numerous MRSA isolates obtained from various clinical specimens over a long period. Therefore, we phenotypically identified CA-MRSA strains based on previous studies [9-22] and antimicrobial resistance test (ART) results of isolates from various clinical specimens. Subsequently, we investigated the prevalence of and phenotypic changes in the CA-MRSA strains identified.

MATERIALS AND METHODS

Collection of study specimens

This retrospective study used reports of clinical S. aureus specimens identified using bacterial culture tests at Chung-Ang University Hospital, an 850-bed tertiary care center in Seoul, Korea, over the last 10 years (September 2009 to September 2019). The study was divided into five periods: period 1 (September 2009 to August 2011), period 2 (September 2011 to August 2013), period 3 (September 2013 to August 2015), period 4 (September 2015 to August 2017), and period 5 (September 2017 to September 2019). If a specimen was collected in the outpatient or emergency department or the interval between the date of admission and the date of specimen collection was less than two days, the infection was considered community-associated (CA). If the interval exceeded two days, it was considered hospital-acquired. During the study period, S. aureus strains were isolated from 16,048 clinical specimens, including 8,271 sputum (51.54%), 1,917 ear-nose-throat (ENT; 11.95%), 1,867 blood (11.63%), 755 urogenital (urine or vaginal discharge; 4.70%), 458 abscess fluid (2.85%) specimens, and 2,780 specimens from other sources (17.32%). Of these isolates, 11,266 (70.20%) were identified as MRSA; 1,527 (13.55%) were collected from community settings, and 9,739 (86.45%) were collected from hospital settings. Of the 9,739 hospital-acquired MRSA isolates, 8,278 (85.00%) obtained from clinically important specimens, such as sputum (N=6,091), blood (N=966), ENT (N=635), urogenital (N=371), and abscess fluid (N=215) specimens, were ultimately included in this study.

Definition of phenotypically identified CA-MRSA strains and their phenotypes

The phenotypic identification of CA-MRSA strains was based on the ART results of CA-MRSA strains previously reported in Korea (Table 1). Antimicrobial resistance to trimethoprim-sulfamethoxazole, rifampin, fusidic acid, and tetracycline has rarely been observed in Korean CA-MRSA strains; however, the resistance rates to erythromycin (ERY), clindamycin (CLI), ciprofloxacin (CIP), and gentamicin (GEN) ranged between 20.12% and 41.50% [9-22]. Therefore, the CA-MRSA strain phenotype was defined based on the following criteria: (1) resistance to penicillin (PCN) and oxacillin (OXA); (2) susceptibility to trimethoprim-sulfamethoxazole, rifampin, fusidic acid, and tetracycline; and (3) susceptibility to at least one of the following four non-β-lactams: ERY, CLI, CIP, and GEN. An isolate that satisfied the first two conditions and was resistant to all four non-β-lactams was not categorized as a CA-MRSA strain, because it was difficult to distinguish it from hospital-acquired MRSA strains. Based on our definition, MLST ST72 was considered a CA-MRSA strain, as its ART results (Supplemental Data Table S1) are similar to those of the isolates from previous studies listed in Table 1. The CA-MRSA strains were further classified into 15 categories based on the ART results; of these, the four major CA-MRSA phenotypes were PCN/OXA-resistance, PCN/OXA/CLI-resistance, PCN/OXA/CIP-resistance, and PCN/OXA/CLI/CIP-resistance. A CA-MRSA strain that was resistant to ERY, CLI, CIP, or GEN was classified as having resistance pattern I, II, III, or IV, respectively, regardless of its resistance to other antimicrobial agents (Table 2).

Table 1

Antimicrobial resistance patterns of CA-MRSA clinical isolates in Korea

Reference	Total (N)	Antimicrobial resistance (N)
		ERY	CLI	CIP	GEN	Fusidic acid	TET	RIF	TMP_SMX
Joo, et al. 2012 [9]	84	36	21			2
Shin, et al. 2016 [10]	36	16	0	1	11		5
Lee, et al. 2011 [11]	29	18	18				0
Ko, et al. 2008 [12]	18	12	7	3	9		3	0
Sung, et al. 2012 [13]	40	24	8	7	14		7	1	1
Kim, et al. 2008 [14]	25	14	14	0	2		1	0	0
Peck, et al. 2009 [15]	36	32	30	30	30		26	2	3
Bae, et al. 2010 [16]	42	25	2	3	6		3	0	1
Moon, et al. 2010 [17]	2	1	1	0	0		0	0	0
Kwon, et al. 2011 [18]	58			44			39
Park, et al. 2015 [19]	79	28	18	5	12	0		0	0
Bae, et al. 2019 [20]	16	4	4	4	4	2	1
Choi, et al. [22] (Unpublished data)	299	83	61	34	47	8	9	6	2
Overall resistance, N (%)	764	293/706 (41.50)	229/764 (29.97)	131/651 (20.12)	135/593 (22.77)	12/478 (2.51)	94/601 (15.64)	9/597 (1.51)	7/579 (1.21)

Abbreviations: CA-MRSA, community-associated methicillin-resistant Staphylococcus aureus; CLI, clindamycin; ERY, erythromycin; CIP, ciprofloxacin; GEN, Gentamycin; TET, Tetracycine; RIF, Rifampicin; TMP_SMX, trimethoprim/sulfamethoxazole.

Table 2

Phenotypes of CA-MRSA strains among HA-MRSA isolates

Type	Results of antimicrobial resistance tests						Isolates (N)
	PCN/OXA	ERY	CLI	CIP	GEN	Others
1	R	S	S	S	S	S	697
2	R	R	S	S	S	S	6
3	R	S	R	S	S	S	2
4	R	S	S	R	S	S	86
5	R	S	S	S	R	S	34
6	R	R	R	S	S	S	241
7	R	R	S	R	S	S	107
8	R	R	S	S	R	S	0
9	R	S	R	R	S	S	0
10	R	S	R	S	R	S	0
11	R	S	S	R	R	S	0
12	R	R	R	R	S	S	177
13	R	R	R	S	R	S	10
14	R	R	S	R	R	S	0
15	R	S	R	R	R	S	0
		Resistance pattern I[*] (N = 541)	Resistance pattern II[†] (N = 430)	Resistance pattern II[‡] (N = 370)	Resistance pattern IV[§] (N = 44)

*Resistance pattern I (ERY-R phenotypically identified CA-MRSA strains). †Resistance pattern II (CLI-R phenotypically identified CA-MRSA strains). ‡Resistance pattern III (CIP-R phenotypically identified CA-MRSA strains). §Resistance pattern IV (GEN-R phenotypically identified CA-MRSA strains).

Abbreviations: CA-MRSA, community-associated methicillin-resistant Staphylococcus aureus; HA-MRSA, hospital-acquired methicillin-resistant S. aureus; S, susceptible; R, resistant; PCN, penicillin; OXA, oxacillin; ERY, erythromycin; CLI, clindamycin; CIP, ciprofloxacin; GEN, gentamicin.

The study was exempted from review by the Institutional Review Board of Chung-Ang University Hospital, because no patient-identifiable information was collected and the data were analyzed anonymously.

Antimicrobial resistance testing

ART was conducted using Vitek 2 AST-P601 cards (bioMérieux, Inc., Marcy-l’Étoile, France) and MIC breakpoints according to the CLSI document M100 [23].

Statistical analysis

Statistical analysis was performed to evaluate the proportions of phenotypic changes among the CA-MRSA strains over the study period. Linear regression analysis was performed to determine the degree of change in the prevalence per period and whether the increasing or decreasing trend was statistically significant. Statistical analyses were performed using the SPSS software version 18.0 (SPSS Inc., Chicago, IL, USA), and P<0.05 was considered statistically significant.

RESULTS

Of the 8,278 isolates investigated, 1,385 (16.73%) were phenotypically categorized as CA-MRSA strains. CA-MRSA strains were most commonly detected in ENT specimens (208/635, 32.76%), followed by abscess fluid (59/215, 27.44%), blood (227/966, 23.50%), urogenital (58/371, 15.63%), and sputum (833/6,091, 13.68%). The most frequently isolated CA-MRSA strain phenotypes were PCN/OXA-resistance (N=697), PCN/OXA/ERY/CLI-resistance (N=241), PCN/OXA/ERY/CLI/CIP-resistance (N=177), and PCN/OXA/ERY/CIP-resistance (N=107) and 541, 430, 370, and 44 isolates exhibited resistance patterns I, II, III, and IV, respectively (Table 2).

The prevalence of CA-MRSA strains among hospital-acquired MRSA isolates showed an increasing trend from 12.2% (period 1) to 26.6% (period 5), with an increase of 3.21% per period (P=0.053). When analyzed by resistance type, an increasing trend was observed in the proportions of PCN/OXA-resistant (increase per period, 1.84%; P=0.049) and PCN/OXA/ERY/CLI/CIP-resistant CA-MRSA strains (increase per period, 0.98%; P=0.044) as well as in resistance pattern III strains (increase per period, 2.08%; P=0.004). However, the proportion of PCN/OXA/ERY/CLI-resistant CA-MRSA strains showed a decreasing trend (decrease per period, 0.70%; P=0.058; Fig. 1A). An increasing trend was observed in the proportions of CA-MRSA strains in the ENT (increase per period, 4.12%; P=0.019), sputum (increase per period, 3.28%; P=0.047), and blood (increase per period, 4.24%; P=0.064) specimens (Fig. 1B).

Fig. 1

Prevalence trends of CA-MRSA strains according to resistance type (A) and specimen type (B), of PCN/OXA-resistant (C) and resistance pattern III (D) CA-MRSA strains according to specimen type, and of PCN/OXA/ERY/CLI/CIP-resistant CA-MRSA strains (E) according to specimen type, among HA-MRSA isolates.

Abbreviations: MRSA, methicillin-resistant Staphylococcus aureus; CA-MRSA, community-associated MRSA; PCN, penicillin; OXA, oxacillin; ERY, erythromycin; CLI, clindamycin; CIP, ciprofloxacin; HA-MRSA, hospital-acquired MRSA; R1–4, resistance pattern I–IV; ENT, ear-nose-throat.

The increasing trend in the proportion of PCN/OXA-resistant CA-MRSA strains was observed in all specimen types [abscess fluid (increase per period, 5.00%; P=0.024), sputum (increase per period, 1.43%; P=0.043), urogenital (increase per period, 2.87%; P=0.047), and blood (increase per period, 4.32%; P=0.069) specimens], except ENT specimens (increase per period, 1.99%; P=0.153; Fig. 1C). An increasing trend in the proportion of resistance pattern III strains was observed in sputum (increase per period, 2.07%; P=0.029) and urogenital (increase per period, 1.54%; P=0.040) specimens (Fig. 1D). The majority of PCN/OXA/ERY/CLI/CIP-resistant CA-MRSA strains were isolated from sputum specimens (139 of 177, 78.53%), and an increasing trend (increase per period, 1.02%; P=0.051) in the proportion of these strains was also observed in sputum specimens (Fig. 1E).

DISCUSSION

The proportion of CA-MRSA strains among hospital-acquired MRSA isolates obtained from a tertiary care center showed an increasing trend over the last decade. This trend appears to have been caused by an increase in the prevalence of PCN/OXA-resistant CA-MRSA strains and various types of CIP-resistant CA-MRSA strains.

Clinical studies on CA-MRSA strains were first conducted in the late 2000s in Korea, mostly using blood and nasal specimens. A number of studies involving blood specimens reported that the CA-MRSA genotype accounted for 10–20% of isolates in hospital-acquired infections [17, 18, 21]. This is consistent with our results wherein phenotypically identified CA-MRSA strains accounted for 18.5% of hospital-acquired MRSA blood isolates during the period 1 (Fig. 1B). However, to date, no study has examined changes in the prevalence of CA-MRSA strains among hospital isolates using multiple specimens, such as abscess fluid, sputum, and urogenital specimens. To the best of our knowledge, this is the first study to phenotypically characterize CA-MRSA strains obtained from various clinical specimens to obtain crucial information regarding the prevalence of the CA-MRSA genotype in hospitals over a 10-year period.

We observed that the prevalence of CA-MRSA strains doubled from 12.20% to 26.60% in the last 10 years. This increasing trend was also observed for ENT, blood, and sputum specimens (Fig. 1B). Although a notably increasing trend in the prevalence of CA-MRSA strains was observed in abscess fluid and urogenital specimens (Fig. 1B) as well, this trend was not statistically significant, as the numbers of CA-MRSA strains detected in abscess fluid and urogenital specimens were considerably low (59 and 58, respectively). Taken together, this study revealed (based on indirect evidence) that the prevalence of CA-MRSA strains is increasing in Korean hospitals. Additionally, CA-MRSA strains were most commonly detected in ENT specimens, which is consistent with a report indicating that 50% of MRSA strains detected in nasal specimens of newly admitted patients in the late 2000s were of the ST72 genotype [8]. Our results differ from those of contemporary studies mainly conducted using blood specimens in that the proportion of CA-MRSA isolates found was not as high as previously reported [17, 18, 21]. The high proportion of CA-MRSA strains identified in ENT specimens suggests that the CA-MRSA genotype was initially introduced into hospitals through nasal carriage, with subsequent infection of other sites in the human body.

The ART pattern of ST72, which is the most prevalent CA-MRSA genotype, is known to be identical to that of the phenotypically identified PCN/OXA-resistant CA-MRSA strains [7]. Resistance to ERY, CLI, CIP, and GEN has been rarely reported in ST72 genotype strains [7]. Unexpectedly, we observed an increase in the proportion of PCN/OXA/ERY/CLI/CIP-resistant CA-MRSA, along with an increased number of strains with resistance pattern III during the study period. The increase in CIP resistance is considered a major contributor to the increase in the proportion of PCN/OXA/ERY/CLI/CIP-resistant strains with the decrease in the proportion of PCN/OXA/ERY/CLI-resistant strains. This result is also consistent with an increased proportion of resistance pattern III strains. These results indicate that the prevalence of CA-MRSA strains with CIP resistance is increasing with the overall increase in the prevalence of ST72 strains (PCN/OXA-resistant CA-MRSA), indicating increasing genotypic diversity of CA-MRSA strains. When the increase in resistance pattern III strains was analyzed according to specimen types, the prevalence of CIP-resistant strains significantly increased among isolates from sputum and urogenital specimens. This indicates that the proportion of CIP-resistant strains first increased in the community environment owing to the frequent use of CIP for the treatment of community-acquired pneumonia and urinary tract infections; subsequently, these strains were introduced into hospitals. Data from a recent study (unpublished) on a large prospective cohort of adult patients with S. aureus bacteremia conducted at a tertiary care center showed that the ST72/spa-t148 and ST8 genotypes exhibited greater CIP resistance than did other spa types of ST72 [22]. Therefore, it is necessary to determine whether the proportions of specific ST72 and ST8 spa types, including USA300, is increasing in the Korean hospital environment.

This study had a few significant limitations. First, we did not genotype the MRSA isolates in this study. Although phenotypic identification of CA-MRSA may not be as accurate as genotypic identification, collecting MRSA isolates from clinical specimens over a long study period followed by genotyping can be considerably challenging. However, the study design adopted in this study is advantageous in that it sheds light on the changes in the prevalence of CA-MRSA strains isolated from a wider range of clinical specimen types. Second, MRSA detection does not necessarily correspond to clinical MRSA infection, as the specimens used in this study, apart from the blood specimens, were not sterile. However, as MRSA colonization usually precedes MRSA infection, an overall increase in the proportion of CA-MRSA strains in clinical specimens has an adjunctive role in indicating an increase in the prevalence of CA-MRSA infection. Third, resistance to other antimicrobials, such as linezolid and tigecycline, may also be of interest [24], but was not investigated because it was not the focus of this study.

In conclusion, CA-MRSA strains were observed to be increasingly prevalent in a Korean hospital environment and to exhibit increased phenotypic diversity. Further genotypic studies on MRSA isolates are required to elucidate clonal changes in CA-MRSA strains and the sequent clinical impact on healthcare services.