CPRMethicillin resistant coagulase-negative staphylococci isolated from South Korean ducks exhibiting tremor

Abstract

Background

We describe coagulase-negative staphylococci (CoNS) isolates collected from ducklings exhibiting tremor in South Korea over the period of 2010 to 2011. Screening of antimicrobial susceptibility and analysis of SCCmec elements of CoNS were also investigated.

Results

Staphylococcus cohnii was the most frequent staphylococcus (9 isolates) and S. sciuri (4 isolates), S. lentus (3 isolate), S. simulans (1 isolate) and S. epidermidis (1 isolate) were also detected. Among the 15 antimicrobials tested in this study, resistance against oxacillin (15 isolates, 83.3%) was most frequently observed, but only one isolate (SNUDS-1) possessed mecA. This isolate was shown to possess SCCmec type III; the type 3 ccr complex and the class A mec complex.

Conclusions

Based on these results, isolate SNUDS-1 was shown to possess SCCmec type III; the type 3 ccr complex and the class A mec complex. Although the SCCmec type III is not predominant in human, MR-CoNS (Methicillin resistance Coagulase-negative staphylococci) in food animals should be monitored to prevent the dissemination of antimicrobial resistance genes and resistant pathogens to the community.

Background

Coagulase-negative staphylococci (CoNS) are commensal bacterial species and opportunistic pathogens that can cause infections in human and animals [1]. CoNS are considered a reservoir of antimicrobial resistance since they usually possess various antimicrobial resistance-associated determinants [2]. Methicillin resistance (MR) is one of the most serious public health issues and can increase both the failure rate of antibiotic therapy and mortality rates in human diseases [3]. MR-CoNS were also found in animals with clinical infections. Van Duijkeren et al. detected MR Staphylococcus haemolyticus from cystitis, rhinitis, bronchitis and pyoderma in cats and dogs [4]. Fessler et al. [5] isolated different MR-CoNS species from bovine mastitis. However, MR-CoNS were rarely reported in avian disease, but rather usually reported from healthy birds [6].

The determinant of MR is mecA, which encodes a penicillin-biinding protein (PBP2a) that has a low affinity to beta-lactam antibiotics. This gene is located on the staphyloccoccal cassette chromosome mec (SCCmec) element, a genomic island ubiquitously disseminated among staphylococci [7]. The SCCmec element carries two essential parts, the mec gene complex consist of mecA and its regulator genes and the cassette chromosome recombinase (ccr) complex composed of recombinase genes. The regions other than those two complexes are designated junkyard (J) regions. The SCCmec element is typed by its mecA and ccr complex and the J regions, which define the subtype of the element [8]. Although the origin of the SCCmec elements remains unknown, it has been suggested that the SCCmec elements evolved in CoNS and then were horizontally transferred among different Staphylococcus species [9]. In particular, S. fleurettii, S. sciuri and S. vitulinus are suggested as a origin of the mecA element of SCCmec elements [10].

There is concern that CoNS in food animals can be disseminated to humans via the food production chain [11]. Furthermore, the SCCmec elements in MR-CoNS of food animals are transmissible to humans via food [12]. Therefore, screening the antimicrobial resistance and analysis of SCCmec elements of CoNS in food animals is important for public health. Despite the importance of such a screen, many researchers have only focused on MR S. aureus (MRSA), the most pathogenic staphylococci, and few data are available for MR-CoNS among the ducks. In this study, we isolated CoNS isolates from ducklings and investigated their antimicrobial susceptibility. In addition, the SCCmec element of the isolated MR-CoNS isolate was analyzed.

Methods

Bacterial isolation

Samples were collected from ducklings exhibiting clinical signs of listlessness, ataxia, tremors of the head and legs, and coma, originated from 4 different farms in South Korea over the period of 2010 to 2011. Swabs from the organs were streaked on 5% sheep blood agar and incubated for 24–48 hr at 37°C. After incubation, among the representative colony of the plate, one staphylococci-like colony was collected as described by Moon et al. [13]. The isolates were stored in tryptic soy broth (TSB; Difco, USA) with 10% glycerol at -80°C until used. College of Veterinary Medicine is certificated institution for experiments using laboratory animals and we carried out the experiment using ethical way. In this experiment, moribund samples were anesthetized according to the established rules approved by the Seoul National University Institutional Animal Care and Use Committee.

DNA extraction

Bacterial stock was sub-cultured on tryptic soy agar (TSA; Difco) at for 24–48 hr at 37°C and then single colony was sub-cultured in TSB for DNA extraction. Chromosomal DNA isolation was performed using the Wizard genomic DNA purification kit (Promega, Madison, USA) according to the manufacture’s instruction except using lysostaphin (0.5 mg/ml) and RNase (0.3 mg/ml) for the lysis step.

Bacterial identification

Bacterial species were confirmed by species-specific polymerase chain reaction (PCR) and sequencing analysis of the sodA gene for CNS as described by Poyart et al. [14]. Sequencing was carried out by the Macrogen Genomic Division, Korea. Analyzed sequence was aligned with full genome sequenced Staphylococcus species using the NCBI BLAST (http://blast.ncbi.nlm.nih.gov/) to confirm their species when the similarity was over 99%.

Antimicrobial susceptibility test

Antimicrobial susceptibility tests for staphylococcal isolates were carried out using the disk diffusion method according to the Clinical Laboratory Standard Institute guidelines [15,16]. Fifteen antimicrobials were used: cefoxitin, ciprofloxacin, clindamycin, erythromycin, gentamicin, linezolid, mupirocin, oxacillin, penicillin, quinupristin/dalfopristin, rifampicin, teicoplanin, tetracycline, trimethoprim/sulfamethoxazole and vancomycin. The minimum inhibitory concentration (MIC) of oxacillin was determined using the broth microdilution method [15,16]. Isolates that had a MIC ≥ 0.5 μg/ml were defined as oxacillin resistant isolates. For quality control, S. aureus ATCC25923 and S. aureus ATCC29213 were used for the disc diffusion tests and the microdilution test respectively.

Multiplex PCR

For detection of mecA, PCR followed by sequencing was performed as described by Zhang et al. [17]. For SCCmec element typing, the mec gene and ccr complexes were identified by multiplex PCR and subsequent sequencing as described by Kondo et al. [18], who detected the class A, B, C1 and C2 mec complex. Also, ccrA, ccrB and ccrC were detected as descrbed by Zong et al. [19] and Zong and Lu [20] and Pi et al. [21] (Table 1).

Table 1.

Primers used in this study

Primer	Nucleotide sequence * (5′-3′)	Target location	Reference
sodA
d1	CCITAYICITAYGAYGCIYTIGARCC	sodA	[14]
d2	ARRTARTAIGCRTGYTCCCAIACRTC
mec complex
mA7	ATATACCAAACCCGACAACTACA	mecA	[18]
mI6	CATAACTTCCCATTCTGCAGATG	mecI
IS7	ATGCTTAATGATAGCATCCGAATG	IS1272
IS2 (iS-2)	TGAGGTTATTCAGATATTTCGATGT	IS431
ccr complex
ccrA-UF1	AATGTGAHGTATTATGTTGYTA	ccrA	[20]
ccrA-UR1	GGTTCATTTTTDAARTAGAT
ccrA-UF2	AYTHCATCGYAAYYTGAAAAA	ccrA	[19]
ccrA-UR2	ACGDCCACARTAGTTAGGRTT
ccrA_up	TGCATTCATGTTTTGAGGAC	ccrA	[21]
ccrA_dw	CAATGTGACGTATTGTGTTG
ccrB-UF1	CGTGTATCAACDGAAATVCAA	ccrB	[20]
ccrB-UR1	CTTTATCACTTTTGAYWATTTC
ccrB_up	GTTCCTTTACCATGGACTTG	ccrB	[21]
ccrB_dw	CTAGAAGGCTACTATCAAGG
ccrC-UF1	GCAATGAAACGTCTATTACAA	ccrC1	[19]
ccrC-UR1	TTTCATCRATAACYAAATCA
28-24	GGAACAATCAGAGCGTGGA	ccrC2	[20]
28-26	ACGTTTCACAGCCCAATTTT

^*D: A, G or T; H: H, C or T; M: A or C; R: A or G; W: A or T; Y: C or T; V: A, C or G.

Results

Isolation and identification of CoNS

Organ samples (trachea, lung and brain tissue) were collected from 55 ducklings displaying clinical signs of tremors. A total of 18 isolates were collected from different animals and identified as CoNS (Table 2). The staphylococcal isolation rate was 32.7% and the most frequently isolated species was S. cohnii.

Table 2.

Coagulase-negative staphylococcal isolates isolated from duck with tremor

Isolate	Organ	Species	mecA	Antimicrobial resistant pattern *	Oxacillin
					MIC (μg/ml)	Interpretation
SNUDS-2	Brain	S. cohnii	-	Cef-Pen-Oxa-Cip-SxT	≥ 4	R
SNUDS-3	Brain	S. cohnii	-	Cef-Pen-Oxa-Cip	≥ 4	R
SNUDS-4	Brain	S. cohnii	-	Cef-Pen-Oxa-Cip	≥ 4	R
SNUDS-10	Brain	S. cohnii	-	Oxa-Cip	0.5	R
SNUDS-1	Brain	S. sciuri	+	Oxa-Cip-Tet	≥ 4	R
SNUDS-11	Brain	S. simulans	-	Cip-Cli-SxT	≤ 0.25	S
SNUDS-6	Brain	S. cohnii	-	Cef-Pen-Oxa-Tet	≥ 4	R
SNUDS-7	Brain	S. cohnii	-	Tet	≤ 0.25	S
SNUDS-8	Trachea	S. cohnii	-	Cef-Pen-Oxa-Tet	2	R
SNUDS-5	Lung	S. lentus	-	Oxa-Cli	0.5	R
SNUDS-9	Brain	S. sciuri	-	Cef-Pen-Oxa-Tet	2	R
SNUDS-13	Brain	S. cohnii	-	Oxa-Cip	0.5	R
SNUDS-14	Lung	S. cohnii	-	Oxa-Cip-Tet-SxT	0.5	R
SNUDS-12	Brain	S. lentus	-	Oxa-Cip-Cli-QDA –SxT	0.5	R
SNUDS-15	Brain	S. lentus	-	Cef-Pen-Oxa-Cip-Tet-SxT	2	R
SNUDS-16	Trachea	S. epidermidis	-	-	≤ 0.25	S
SNUDS-17	Brain	S. sciuri	-	Oxa-Cip-Ery-Cli	0.5	R
SNUDS-18	Brain	S. sciuri	-	Oxa-Cip-Ery-Cli-Tet-SxT	2	R

^*Cef: cefoxitin; Pen: penicillin; Oxa: oxacillin; Cip: ciprofloxacin; SxT: sulphamethoxazole/trimethoprim; Tet: tetracycline; Cli: clindamycin; QDA: quinupristin-dalfopristin; Ery: erythromycin.

Antimicrobial susceptibility and detection of mecA

Among the 15 antimicrobials tested in this study, resistance against oxacillin (15 isolates, 83.3%), ciprofloxacin (12 isolates, 66.7%) and cefoxitin (7 isolates, 38.9%) were most frequently observed (Table 2). Among the 15 oxacillin resistant isolates, 11 isolates showed resistance against more than three antimicrobials other than oxacillin. Despite the high oxacillin resistance rate, only one isolate (SNUDS-1, S. sciuri) carried mecA (Table 2). All isolates were susceptible against gentamicin, linezolid, mupirocin, quinopristin/dalfopristin, teicoplanin, trimethoprim/sulfamethoxazole and vancomycin.

SCCmec typing

SCCmec typing was performed on SNUDS-1. The amplicon size of the mec complex was 1,963 bp and 804 bp when the mA7, mI6, IS7 and IS2 (iS-2) primers were used. According to Kondo et al. [18], this means SNUDS-1 carried mecA, mecI and IS431 upstream of mecA but no IS1272. These features showed that SNUDS-1 possessed the class A mec complex.

The ccrA gene was successfully amplified from the genomic DNA of SNUDS-1 using primers for ccrA-UF1 and -UR1, ccrA-UF2 and -UR2 and ccrA_up and _dw pairs. The ccrB gene was also amplified with primers for ccrB-UF1 and -UR1 and ccrB_up and _dw pairs. However, the amplified products obtained using the primers for ccrC-UF1 and -UR1 and 28–24 and -26 pairs were determined as non-specific products by sequencing analysis. The amplified products obtained using ccrA-UF1 and -UR1 (1095 bp of final product) and ccrB-UF1 and -UR1 (1047 bp of final product) primers were sequenced and blast searched against other ccr genes using GenBank (http://blast.ncbi.nlm.nih.gov). The ccrA gene product was similar to the ccrA3 from the S. cohnii strain WC28 (Acc. No. GU370073.2) with a similarity of 94%. The sequence of the amplified ccrB showed the closest match to the sequences of the ccrB3 of S. sciuri strain MCS 24 (Acc. No. AB587080.1) with a similarity of 95%. Based on the combined results presented above, the isolate SNUDS-1 was shown to possess SCCmec type III; the type 3 ccr complex and the class A mec complex [19].

Discussion

CoNS have been frequently detected from food animals [12,22], but hardly reported in ducklings. In this study, staphylococci isolated from the organs of duckings with tremors, such as the brain, were investigated. Central nervous system signs in avian species are usually caused by virus and mycotoxin [23]. This can be explained by the fact that there is an unusual cause of tremors from septicaemia and systemic infection caused by bacteria and candida [24,25]. Also, the staphylococci isolated in this study might be result from a secondary infection of predisposed viral diseases. Other bacterial species except Staphylococci were not isolated from organ samples.

Antimicrobial resistant of food animals is a serious public health problem because of the possibility of dissemination of the antimicrobial resistant bacteria to humans via food [26]. In Korea, extensive studies were performed to investigate the methicillin resistance in major food animals such as bovine raw milk, beef, pork and chicken meat [27,28]. For ducks, however, there are few studies although the South Korean duck industry has been growing fast recently [29]. Moreover, the possibility of spread from ducks to humans may be higher than that from chickens due to unapparent infections and poor sanitary conditions [30].

In this study, mecA was detected from only one out of 15 isolates showing oxacillin resistant phenotype. Although 10 of the mecA-negative oxacillin resistant isolates had MIC ≤2 μg/ml, 4 isolates had MICs over 4 μg/ml as the mecA-positive isolate. There are unusual MR-CoNS that have a resistance mechanism other than the production of PBP2a, which have been reported as borderline methicillin-resistant strains [31]. Most of them are resistant to oxacillin due to their plasmid-borne determinants, including hyperproduced penicillinases, genes conferring resistance to cadmium, or other gene products [32,33]. It is also possible that these mecA-negative oxacillin resistant CoNS possessed mecA alleles, which could not be detected by the primers used in this study. According to Monecke et al., many CoNS strains of animal origin show diversity in mecA sequences and have a different impact on β-lactam resistance [34].

In this study, the mecA carrying isolate, SNUDS-1 was shown to be of the SCCmec type III. According to Zong et al. [18], the common types of SCCmec in MR-CoNS are II, III, IV and V and Type III is common and widely distributed in a variety staphylococcal species. There are plenty of ccr variants with nucleotide differences and the allotype is assigned based on 85% identity. Since many new types of ccr allotypes have been reported, especially in MR-CoNS, multiple pairs of primers for the ccr genes should be used to maximize the possibility of detection [35].

Although the SCCmec type III is not the predominant type in human, MR-CoNS in food animals should be monitored to prevent the dissemination of antimicrobial resistance genes and resistant pathogens to the community.

Conclusions

From this study, CoNS isolates from ducklings and their antimicrobial susceptibility were investigated. Resistance against oxacillin, ciprofloxacin and cefoxitin were most frequently observed and one strain carried the mecA gene which corresponds to a class A mec complex by SCCmec typing. Because of the possibility of dissemination of the antimicrobial resistant bacteria to human via the food processing chains, screening the antimicrobial resistance bacteria in duck industry should be performed further.

Abbreviations

Ccr: Cassette chromosome recombinase; CoNS: Coagulase-negative staphylococci; J: Junkyard; PBP2a: Penicillin-biinding protein; SCCmec: Staphyloccoccal cassette chromosome mec; TSB: Tryptic soy broth.

Competing interests

The authors declare that they have no competing interests.

Authors’ contributions

JEH has been involved in drafting the article and carried out collection of the samples and interpretation of the data. SYH conceived the study and participated in its design and coordination, and helped to draft the article. JJK participated in the discussion on the study design. SPS and JWJ involved collection of the samples. JYC, YHP and SCP helped to draft the manuscript. All authors read and approved the final manuscript. All authors read and approved the final article.

Acknowledgements

This research was supported by Basic Science Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (2013R1A1A2006794) and Bio-industry Technology Development Program, Ministry for Food, Agriculture, Forestry and Fisheries (IPET 110069–2), Republic of Korea.