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. 2020 Aug 15;99(11):6055–6061. doi: 10.1016/j.psj.2020.06.087

Characteristics of linezolid-resistant Enterococcus faecalis isolates from broiler breeder farms

Sunghyun Yoon , Yeong Bin Kim , Kwang Won Seo , Jong Su Ha , Eun Bi Noh , Young Ju Lee ∗,1
PMCID: PMC7647823  PMID: 33142524

Abstract

Linezolid is an oxazolidinone class antibiotic used for treatment infections caused by various multidrug-resistant gram-positive pathogens including enterococci. However, recently, linezolid-resistant isolates in animals are considered as a human health hazard. In a broiler operation system, antimicrobial resistance can be transferred to the environment and commercial broiler via the fecal–oral route. Therefore, this study was conducted to investigate the prevalence and characteristics of linezolid-resistant Enterococcus faecalis (E. faecalis) from broiler parent stock in a broiler operation system. Among 297 E. faecalis isolates from 85 flocks in 8 broiler breeder farms, the prevalence of chloramphenicol- and linezolid-resistant isolates was 0 to 12.1% and 0 to 8.0%, respectively; however, there were no significant differences between farms. Therefore, a total of 14 (4.7%) chloramphenicol- and/or linezolid-resistant E. faecalis showed resistance to 7 or more antimicrobial classes. The drug-resistance gene optrA, which can confer resistance to linezolid, tedizolid, and phenicols, was found in 8 (2.69%) isolates, and 7 (2.36%) of the 8 optrA-positive isolates co-carried the phenicol exporter gene fexA. However, E. faecalis isolates from 3 of 8 broiler breeder farms only carried the optrA and/or fexA genes. As linezolid is one of the last antimicrobial treatments of choice for multidrug-resistant gram-positive pathogens including E. faecalis, the presence of antibiotic-resistant E. faecalis in broiler breeder farms should be monitored to prevent the introduction of linezolid-resistant strains to the food chain.

Key words: linezolid-resistant, optrA, broiler breeder, Enterococcus faecalis, antimicrobial resistance

Introduction

Enterococci are part of the normal microbiota of the gastrointestinal tract of animals and humans. However, the enterococci in animals may transfer their antimicrobial resistance genes to other animals or humans via the food chain (Ogier and Serror, 2008), and they are generally considered as a representative indicator of the antimicrobial resistance of gram-positive organisms (APQA, 2017). In particular, Enterococcus faecalis (E. faecalis) of animal origin seems to be a human health hazard as the isolates have been found to express the same phenotype in animals and humans (Hammerum, 2012), and the increasing prevalence of multidrug-resistant E. faecalis is a great concern in many countries (Diekema et al., 2019; Na et al., 2019).

Linezolid is the first oxazolidinone antibiotic widely used for treatment against a wide range of multidrug-resistant gram-positive pathogens including enterococci (Leong et al., 2018). It inhibits bacterial growth by suppressing bacterial protein synthesis via interaction with domain V of 23S ribosomal RNA (rRNA) (Aoki et al., 2002). The presence of linezolid-resistant enterococci in human isolates has been reported since 2001, shortly after the commercial use of linezolid in the United States in 2000 (Gonzales et al., 2001). Although linezolid is not used in food-producing animals, the resistance to this antimicrobial agent in animals has been reported in the United States (Tyson et al., 2018a), Europe (De Jong et al., 2019), and Asia (Tamang et al., 2017; Shang et al., 2019).

Linezolid resistance in gram-positive bacteria is usually the result of a point mutation of the genes coding for 23S rRNA (Bourgeois-Nicolaos et al., 2007; Ntokou et al., 2012). In addition, a multidrug-resistance gene, cfr, confers transferable resistance against oxazolidinones, phenicols, lincosamides, pleuromutilins, and streptogramin A by encoding an rRNA methyltransferase that methylates adenosine at base pair A2503 and inhibits ribose methylation at C2498 in the 23S rRNA (Kehrenberg et al., 2005; Long et al., 2006). Recently, a novel gene, optrA, from E. faecalis of human and animal origin was reported in China (Wang et al., 2015), Italy (Brenciani et al., 2016), Ireland, and Malaysia (Mendes et al., 2016). The optrA gene also confers resistance against linezolid, tedizolid, and phenicols and encodes for an ATP-binding cassette transporter (Wang et al., 2015).

A broiler operation system has a pyramidal structure with the grandparent stock at the top followed by parent-stock flocks that produce eggs for the production of commercial broiler. Consequently, antimicrobial resistance and drug resistance genes from the organisms isolated from breeder farms can be transferred to the environment and commercial broiler via the fecal–oral route through hatcheries (Kim et al., 2018). Therefore, this study was conducted to investigate the prevalence and characteristics of linezolid-resistant E. faecalis from broiler parent stock in the broiler operation system in Korea.

Materials and methods

Sample Collection

Fecal samples were collected from 86 flocks at 20 wk of age from 8 broiler breeder farms between 2016 and 2018. In accordance with the standards set by the National Poultry Improvement Plan (USDA, 2012), feces (approximately 10 g) were sampled in 5 different sites from each flock and transported to the laboratory in a cooler.

Bacterial Isolation

The fecal samples were individually inoculated into buffered peptone water (BD Biosciences, Sparks, MD) and incubated at 37°C for 18 to 24 h. Pre-enriched buffered peptone water was mixed with Enterococcosel broth (BD Biosciences) at a 1:10 ratio and incubated at 37°C for 18 to 24 h. The cultured Enterococcosel broth was streaked onto Enterococcosel agar (BD Biosciences) and incubated at 37°C overnight. At least 3 representative colonies on the Enterococcosel agar were selected, and E. faecalis was identified by PCR using primers targeted specifically on the PBP5 gene as previously described (del Mar Lleó et al., 1999). If isolates from the same origin showed the same antimicrobial susceptibility patterns, only 1 isolate was randomly chosen and included in the study.

Antimicrobial Susceptibility Testing

Antimicrobial susceptibility was assessed by determining the minimum inhibitory concentrations (MIC) for 16 antimicrobial agents by the broth microdilution method using the commercially available Sensititre panel KRVP2F (TREK Diagnostic Systems, West Sussex, UK) according to the manufacturer's instructions. The antimicrobial agents tested were ampicillin (≥16 ㎍/mL), chloramphenicol (CHL, ≥32 ㎍/mL), ciprofloxacin (≥1 ㎍/mL), daptomycin (≥8 ㎍/mL), erythromycin (ERY, ≥8 ㎍/mL), florfenicol (FFN, ≥16 ㎍/mL), gentamicin (≥16 ㎍/mL), kanamycin (≥16 ㎍/mL), linezolid (≥8 ㎍/mL), salinomycin (≥16 ㎍/mL), quinupristin/dalfopristin (≥4 ㎍/mL), streptomycin (≥1,000 ㎍/mL), tetracycline (TET, ≥16 ㎍/mL), tigecycline (TGC, ≥0.25 ㎍/mL), tylosin tartrate (TYLT, ≥32 ㎍/mL), and vancomycin (VAN, ≥32 ㎍/mL). For quality control in MIC determination, the reference strain E. faecalis ATCC 29212 was used. The MIC values were interpreted in accordance with the Clinical and Laboratory Standards Institute guidelines (CLSI, 2019). When the breakpoints were not available from the Clinical and Laboratory Standards Institute guidelines, the Danish Integrated Antimicrobial Resistance Monitoring and Research Programme (DANMAP, 2017) and the National Antimicrobial Resistance Monitoring System (NARMS, 2019) were applied for FFN, salinomycin, TGC, and TYLT, respectively. Multidrug resistance (MDR) was defined as acquired nonsusceptibility to at least 1 agent in 3 or more antimicrobial classes (Magiorakos et al., 2011).

Detection of Antimicrobial Resistance and Virulence Genes

The presence of genes conferring resistance to ERY (ermA, ermB, and mef), TET (tetL and tetM), and aminoglycoside-modifying enzyme (aac(6′)-Ie–aph(2″)-Ia and ant(6)-Ia) was investigated by PCR using primers and conditions as previously described (Aarestrup et al., 2000; Vakulenko et al., 2003; Sepúlveda et al., 2007; Cesare et al., 2013). The oxazolidinone and phenicol resistance gene optrA was investigated using primers as described by Wang et al. (2015). The MDR gene cfr, FFN resistance gene fexA, and genes encoding virulence factors such as collagen-binding protein (ace), aggregation substance (asa), cytolysin (cylA), E. faecalis endocarditis antigen (efaA), Enterococcal surface protein (esp), Gelatinase (gelE), and Hyaluronidase (hyl) were also detected using primers as previously described (Kehrenberg and Schwarz, 2006; Billström et al., 2008). The primers used in this study are shown in Table 1.

Table 1.

Primers used in this study.

Target gene Primers Sequence (5′-3′) Amplicon size (bp) Annealing temperature (°C) References
PBP5 PBP5F CATGCGCAATTAATCGG 444 55 (Lleo et al., 1999)
PBP5R CATAGCCTGTCGCAAAAC
optrA optrAF AGGTGGTCAGCGAACTAA 1,395 53 (Wang et al., 2015)
optrAR ATCAACTGTTCCCATTCA
cfr cfrF TGAAGTATAAAGCAGGTTGGGAGTCA 746 48 (Kehrenberg and Schwarz, 2006)
cfrR ACCATATAATTGACCACAAGCAGC
fexA fexAF GTACTTGTAGGTGCAATTACGGCTGA 1,272 58 (Kehrenberg and Schwarz, 2006)
fexAR CGCATCTGAGTAGGACATAGCGTC
ermA ermAF TAACATCAGTACGGATATTG 200 54 (Di Cesare et al., 2013)
ermAR AGTCTACACTTGGCTTAGG
ermB ermBF CCGAACACTAGGGTTGCTC 139 54 (Di Cesare et al., 2013)
ermBR ATCTGGAACATCTGTGGTATG
mef mefF AGTATCATTAATCACTAGTGC 348 54 (Di Cesare et al., 2013)
mefR TTCTTCTGGTACTAAAAGTGG
tetL tetlF ATAAATTGTTTCGGGTCGGTAAT 1,077 52 (Aarestrup et al., 2000)
tetlR AACCAGCCAACTAATGACAATGAT
tetM tetmF GTTAAATAGTGTTCTTGGAG 657 53 (Aarestrup et al., 2000)
tetmR CTAAGATATGGCTCTAACAA
aac(6″)Ie-aph(2″)-la aac6F CAGAGCCTTGGGAAGATGAAG 348 55 (Vakulenko et al., 2003)
aac6R CCTCGTGTAATTCATGTTCTGGC
ant(6)-Ia ant6IaF ACTGGCTTAATCAATTTGGG 577 55 (Sepúlveda et al., 2007)
ant6IaR GCCTTTCCGCCACCTCACCG
asa asa11 CACGCTATTACGAACTATGA 375 56 (Billström et al., 2008)
asa12 TAAGAAAGAACATCACCACGA
ace ace1 GGAATGACCGAGAACGATGGC 616 58 (Billström et al., 2008)
ace2 GCTTGATGTTGGCCTGCTTCCG
cyt I cyt I ACTCGGGGATTGATAGGC 688 56 (Billström et al., 2008)
cyt IIb GCTGCTAAAGCTGCGCTT
efaA efaA1 CGTGAGAAAGAAATGGAGGA 499 58 (Billström et al., 2008)
efaA2 CTACTAACACGTCACGAATG
Esp esp14 F AGATTTCATCTTTGATTCTTG 510 56 (Billström et al., 2008)
esp12 R AATTGATTCTTTAGCATCTGG
Gel gel11 TATGACAATGCTTTTTGGGAT 213 56 (Billström et al., 2008)
gel12 AGATGCACCCGAAATAATATA
Hyl hyln1 ACAGAAGAGCTGCAGGAAATG 276 56 (Billström et al., 2008)
hyln2 GACTGACGTCCAAGTTTCCAA

Conjugation Experiment

The transferability of plasmids carrying the optrA gene was assessed by the broth-mating protocol as described previously (Werner et al., 2008; Tamang et al., 2017) using rifampicin- and fusidic acid-resistant E. faecalis FA2-2 as the recipient strain and optrA-positive E. faecalis as the donor wild strain, respectively. Both the donor and recipient strains were inoculated with Brain Heart Infusion (BHI) broth (Becton Dickinson, Franklin Lakes, NJ) and incubated overnight at 37°C. The cultured bacteria were mated with a donor/recipient ratio of 1:4 (100 μL: 400 μL), and 100 μL of mixture was inoculated on BHI agar (Becton Dickinson) plates. The bacteria on the BHI agar plates were incubated overnight followed by suspension in 100 μL of phosphate-buffered saline. Then, the cells were inoculated on BHI agar plates, which were supplemented with 2 μg/mL linezolid, 25 μg/mL rifampicin, and 25 μg/mL fusidic acid to select putative transconjugants. All transconjugants were subjected to PCR to detect optrA genes to confirm conjugation, and the MIC were determined by antibiotic susceptibility tests.

Pulsed-Field Gel Electrophoresis

Pulsed-field gel electrophoresis (PFGE) was performed to analyze clonal relatedness among the optrA-positive E. faecalis isolates as previously described (Gambarotto et al., 2000). In brief, genomic DNA samples were digested with 50 U SmaI restriction enzyme in agarose plugs and separated by electrophoresis on 1.0% SeaKem Gold agarose (Lonza, Allendale, NJ) in 0.5 × Tris-Borate-EDTA buffer. The CHEF MAPPER apparatus (Bio-Rad Laboratories, Hercules, CA) was used to perform electrophoresis at 14°C for 20 h with the following parameters: initial switch time = 5.3 s, final switch time = 34.9 s, angle = 120, gradient = 6.0 V/cm, ramping factor = linear, and 14°C for 20 h. The results were analyzed using BioNumerics software, version 4.0 (Applied Maths, Sint-Martens-Latem, Belgium). The unweighted pair-group method with arithmetic average algorithm based on the Dice similarity index was used to calculate the relatedness of the PFGE results. E. faecalis isolates showing similarities of <85% were considered to be unrelated.

Statistical Analysis

The statistical package SPSS 23 (IBM SPSS Statistics for Windows, Armonk, NY) was used for statistical analysis. Chi-square tests were used to compare the prevalence of drug-resistant isolates between farms. Differences were considered significant at P < 0.05.

Results

Distribution of Antimicrobial Resistance

The distribution of the antimicrobial resistance of E. faecalis isolates is shown in Table 2. The prevalence of CHL- and linezolid-resistant isolates was 4.7% (0–12.1%) and 3.7% (0–8.0%), respectively, and all linezolid-resistant isolates showed CHL resistance. Although the E. faecalis from 5 of 8 (62.5%) broiler breeder farms showed linezolid resistance, there were no significant differences between farms. Among 297 E. faecalis isolates, 80 (26.9%) isolates showed MDR, and there were no significant differences between the 8 farms. However, all 14 CHL-resistant isolates showed MDR.

Table 2.

Distribution of linezolid-resistant Enterococcus faecalis from 8 broiler breeder farms.

Parameter Broiler breeder farms (no. of flocks)
A (5) B (8) C (15) D (18) E (10) F (12) G (8) H (10) Total (86) P-value
No. of E. faecalis 10 35 49 76 33 34 25 35 297
No. of MDR1 (%) 6 (60.0) 8 (22.9) 12 (24.5) 14 (18.4) 8 (24.2) 10 (29.4) 11 (44.0) 12 (34.3) 80 (26.9) 0.065
No. of chloramphenicol-resistance (%)2 0 (0.0) 1 (2.9) 0 (0.0) 5 (6.6) 4 (12.1) 0 (0.0) 3 (12.0) 1 (2.9) 14 (4.7) 0.079
No. of linezolid-resistance (%)3 0 (0.0) 1 (2.9) 0 (0.0) 5 (6.6) 2 (6.1) 0 (0.0) 2 (8.0) 1 (2.9) 11 (3.7) 0.400
1

MDR, multidrug resistance.

2

All chloramphenicol-resistant isolates showed multidrug resistance.

3

All linezolid-resistant isolates showed chloramphenicol-resistance, simultaneously.

Distribution of MDR Patterns

The MDR patterns of oxazolidinone- and/or phenicol-resistant E. faecalis isolates are shown in Table 3. A total of 14 CHL- and/or linezolid-resistant E. faecalis showed resistance to 7 antimicrobial classes. In particular, isolates showed the highest resistance to TET (100%), daptomycin (100%), and quinupristin/dalfopristin (100%), followed by ERY (85.7%), TYLT (85.7%), streptomycin (78.6%), ciprofloxacin (64.3%), FFN (64.3%), and kanamycin (50.0%). However, all isolates were susceptible to ampicillin, TGC, and VAN.

Table 3.

Multidrug resistance patterns of 14 oxazolidione-resistant and/or phenicol-resistant Enterococcus faecalis isolated from broiler breeder farms.

Strain Farm No. antimicrobial classes shown resistance Resistance pattern1
B-24-1 B 8 CHL-DAP-ERY-FFN-GEN-KAN-LZD-SYN-SAL-STR-TET-TYLT
D-28-2 D 7 CHL-DAP-ERY-FFN-GEN-KAN-LZD-SYN-STR-TET-TYLT
D-66-2 D 8 CHL-CIP-DAP-ERY-FFN-LZD-SYN-STR-TET-TYLT
D-28-1 D 8 CHL-CIP-DAP-ERY-FFN-KAN-LZD-SYN-STR-TET-TYLT
D-23-1 D 8 CHL-CIP-DAP-ERY-FFN-GEN-KAN-LZD-SYN-STR-TET-TYLT
D-30-1 D 8 CHL-CIP-DAP-ERY-FFN-GEN-KAN-LZD-SYN-STR-TET-TYLT
E-24-1 E 7 CHL-CIP-DAP-ERY-FFN-KAN-SYN-STR-TET-TYLT
E-60-1 E 7 CHL-CIP-DAP-ERY-FFN-LZD-SYN-TET-TYLT
E-60-2 E 8 CHL-CIP-DAP-ERY-FFN-LZD-SYN-STR-TET-TYLT
E-69-2 E 7 CHL-DAP-ERY-SYN-STR-TET-TYLT
G-12-1 G 7 CHL-DAP-ERY-SYN-STR-TET-TYLT
G-12-2 G 7 CHL-DAP-ERY-LZD-SYN-STR-TET-TYLT
G-14-2 G 7 CHL-CIP-DAP-FFN-KAN-LZD-SYN-TET
H-21-2 H 7 CHL-CIP-DAP-KAN-LZD-SYN-TET
1

Abbreviations: CHL, chloramphenicol; CIP, ciprofloxacin; DAP, daptomycin; ERY, erythromycin; FFN, florfenicol; GEN, gentamicin; KAN, kanamycin, LZD, linezolid; SYN, quinupristin/dalfopristin; SAL, salinomycin; STR, streptomycin; TET, tetracycline; TYLT, tylosin tartrate. CHL and LZD are marked in bold.

Characteristics of optrA-Positive E. faecalis by PCR and PFGE

The clonal relatedness and genetic characteristics of 8 optrA-positive isolates from 297 E. faecalis are shown in Figure 1. Among 8 optrA-positive isolates, 7 of them co-carried the phenicol exporter gene fexA. However, E. faecalis isolates from 3 of 8 broiler breeder farms only carried the optrA and/or fexA genes. A total of 8 optrA-positive E. faecalis isolates were divided into 4 pulsotypes with 85% similarity; however, 5 isolates from 1 farm (D-28-2, D-30-1, D-23-1, D-28-1, and D-66-2) were categorized into 3 different pulsotypes (I, III, IV). Although all 8 optrA-positive E. faecalis isolates showed MDR, none of the isolates carried the MDR gene cfr. However, these isolates carried virulence factor genes such as ace (100%, 8/8), efaA (100%, 8/8), gelE (100%, 8/8), and asa1 (87.5%, 7/8).

Figure 1.

Figure 1

Dendrogram of SmaI-PFGE patterns of 8 optrA-positive E. faecalis isolates. E. faecalis isolates showing similarities of <85% were considered to be unrelated. Underline indicated that was found in the transconjugant strains. aResistance gene cfr was tested but not detected. bLZD, linezolid; CHL, chloramphenicol; FFN, florfenicol; CIP, ciprofloxacin; DAP, daptomycin; ERY, erythromycin; GEN, gentamicin; KAN, kanamycin; SYN, quinupristin/dalfopristin; SAL, salinomycin; STR, streptomycin; TET, tetracycline; TYLT, tylosin tartrate. Abbreviations: MIC, minimum inhibitory concentrations.

Transferability by Conjugation

In the conjugation experiment, the optrA and fexA genes were transferred to 5 transconjugants (62.5%, 5/8) with several resistance- and virulence-related genes. The resistance genes related to aminoglycosides (aac(6′)-Ie–aph(2″)-Ia and ant(6)-Ia) were not detected from the transconjugants. The resistance genes related with macrolide (ermB) and TET (tetL and tetM) and virulence genes from the optrA-positive isolates (ace, asaI, efaA, and gelE) successfully transferred to the transconjugants.

Discussion

Methicillin-resistant Staphylococcus aureus and VAN-resistant enterococci are a serious threat to public health, and linezolid is considered to be one of the last lines of defense against methicillin-resistant Staphylococcus aureus and VAN-resistant enterococci. Patel et al. (2013) and Wang et al. (2014) reported that 0.4 and 0.98% of enterococci of human origin in Canada and China, respectively, showed linezolid resistance. Although 11 (3.7%) of 297 E. faecalis isolates showed resistance to linezolid in this study, the rate is lower than the previously reported prevalence of 5.7% among isolates from food-producing animals in China (Wang et al., 2015). However, in other studies, only 3 enterococci from 5,000 animal cecal samples and 0.16% of enterococci from food animals have been reported to exhibit linezolid resistance in the United States (Tyson et al., 2018b) and Korea (Tamang et al., 2017), respectively. The increasing rate of linezolid resistance in broiler breeder farms is problematic as commercial broiler may be affected in the pyramidal structure of the industry through hatcheries to hatcheries (Kim et al., 2019).

Although the exact mechanism of linezolid resistance has not been identified, Sierra et al. (2009) reported that modified bacterial membrane permeability or the overexpression of an efflux pump might be associated with linezolid resistance. Wang et al. (2015) indicated that the linezolid resistance gene optrA encodes an ATP-binding cassette transporter that can confer resistance to oxazolidinones and phenicols. In addition, Wang et al. (2015) and Tyson et al. (2018a) reported that plasmids carrying optrA co-carried the phenicol resistance determinant fexA in E. faecalis isolates from animals in China and the United States, respectively. In this study, all 11 linezolid-resistant isolates also showed co-resistance to CHL, and most of the optrA-positive isolates co-carried the phenicol exporter gene fexA (87.5%, 7/8) as previously reported (Wang et al., 2015; Na et al., 2019). Notably, optrA and fexA were successfully transferred to the transconjugants in this study. Furthermore, as the plasmids harboring optrA and fexA can carry additional resistance genes, they may contribute to the persistence and/or distribution of MDR genes even in the absence of oxazolidinones, resulting in selective pressure (Tamang et al., 2017). Although the MDR gene cfr also confers transferable resistance to linezolid (Kaminska et al., 2009), none of the isolates carried cfr in this study, which is consistent with previous studies (Wang et al., 2015; Na et al., 2019).

In this study, the occurrence of MDR was common; 26.9% (80/297) of E. faecalis isolates from breeder farms showed MDR. The prevalence of E. faecalis isolates with MDR from chicken and duck in Korea has been reported to be as high as 55.7 and 33.9%, respectively; however, the prevalence in the EU is much lower at 0.6% (De Jong et al., 2019; Na et al., 2019). Therefore, the high prevalence of E. faecalis with MDR in broiler breeder farms is of great concern considering that broiler breeders could be a source for the strains, and they could play a crucial role in the transmission and dissemination of strains with MDR in the broiler production pyramid.

Most E. faecalis isolates harbor common virulence genes including ace (100%, 8/8), asa1 asa1 (87.5%, 7/8), efaA (100%, 8/8), and gelE (100%, 8/8). Although these virulence genes do not necessarily cause diseases in hosts, they may contribute to the severity of the infection (Yılmaz and Özcengiz, 2017; Kim et al., 2019).

In PFGE analysis, 8 optrA-positive E. faecalis isolates were clustered into 4 pulsotypes. Surprisingly, 5 isolates from a farm consisted of 3 different pulsotypes. Although 3 of 5 isolates belonged to the same pulsotype, optrA-positive E. faecalis with different genetic characteristics might be distributed on the same farm.

Linezolid- and/or CHL-resistant E. faecalis isolates were detected in 5 of 8 farms, which is a matter of great concern. Although there were no significant differences in the prevalence of CHL- and linezolid-resistant isolates between farms, the increasing presence of CHL- and linezolid-resistant isolates in farms should be monitored periodically by surveillance programs such as the Linezolid Experience and Accurate Determination of Resistance (LEADER) program in the United States and the global Zyvox Annual Appraisal of Potency and Spectrum (ZAAPS) program in 33 countries including Korea (Mendes et al., 2014).

Acknowledgments

This work was supported by Korea Institute of Planning and Evaluation for Technology in Food, Agriculture and Forestry (IPET) through Agriculture, Food and Rural Affairs Convergence Technologies Program for Educating Creative Global Leader, funded by Ministry of Agriculture, Food and Rural Affairs (MAFRA; 716002-7).

Conflict of Interest Statement: The authors declare no conflict of interest.

References

  1. Aarestrup F.M., Agerso Y., Smidt P.G., Madsen M., Jensen L.B. Comparison of antimicrobial resistance phenotypes and resistance genes in Enterococcus faecalis and Enterococcus faecium from humans in the community, broilers, and pigs in Denmark. Diagn. Microbiol. Infect. Dis. 2000;37:127–137. doi: 10.1016/s0732-8893(00)00130-9. [DOI] [PubMed] [Google Scholar]
  2. Animal and Plant Quarantine Agency (APQA). Ministry of Food and Drug Safety; Republic of Korea: 2017. National Antimicrobial Resistance Monitoring Program. [Google Scholar]
  3. Aoki H., Ke L., Poppe S.M., Poel T.J., Weaver E.A., Gadwood R.C., Thomas R.C., Shinabarger D.L., Ganoza M.C. Oxazolidinone antibiotics target the P site on Escherichia coli ribosomes. Antimicrob. Agents Chemother. 2002;46:1080–1085. doi: 10.1128/AAC.46.4.1080-1085.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Billström H., Lund B., Sullivan Å., Nord C.E. International Journal of antimicrobial agents virulence and antimicrobial resistance in clinical Enterococcus faecium ଝ. Int. J. Antimicrob. Agents. 2008;32:374–377. doi: 10.1016/j.ijantimicag.2008.04.026. [DOI] [PubMed] [Google Scholar]
  5. Bourgeois-Nicolaos N., Massias L., Couson B., Butel M., Andremont A., Doucet-Populaire F. Dose Dependence of Emergence of resistance to linezolid in Enterococcus faecalis in Vivo. J. Infect. Dis. 2007;195:1480–1488. doi: 10.1086/513876. [DOI] [PubMed] [Google Scholar]
  6. Brenciani A., Morroni G., Vincenzi C., Manso E., Mingoia M., Giovanetti E., Varaldo P.E. Detection in Italy of two clinical Enterococcus faecium isolates carrying both the oxazolidinone and phenicol resistance gene optrA and a silent multiresistance gene cfr. J. Antimicrob. Chemother. 2016;71:1118–1119. doi: 10.1093/jac/dkv438. [DOI] [PubMed] [Google Scholar]
  7. Cesare A. Di, Luna G.M., Vignaroli C., Pasquaroli S., Tota S., Paroncini P., Biavasco F. Aquaculture can Promote the presence and spread of antibiotic-resistant enterococci in marine Sediments. PLoS One. 2013;8:1–8. doi: 10.1371/journal.pone.0062838. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Clinical and Laboratory Standards Institute (CLSI). Clinical and Laboratory Standards Institute; Wayne, PA: 2019. M100 Performance Standards for Antimicrobial Susceptibility Testing. [Google Scholar]
  9. DANMAP. National Food Institute; Copenhagen, Denmark: 2017. Use of Antimicrobial Agents and Occurrence of Antimicrobial Resistance in Bacteria from Food Animals, Food and Humans in Denmark. [Google Scholar]
  10. Diekema D.J., Hsueh P., Mendes R.E., Pfaller M.A., V Rolston K., Sader H.S., Jones R.N. The Microbiology of Bloodstream Infection : 20-Year Trends from the SENTRY antimicrobial surveillance program. Antimicrob. Agents Chemother. 2019;63:1–10. doi: 10.1128/AAC.00355-19. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Gambarotto K., Ploy M.-C., Turlure P., Grelaud C., Martin C., Bordessoule D., Denis F. Prevalence of vancomycin-resistant enterococci in fecal samples from Hospitalized Patients and Nonhospitalized controls in a cattle-Rearing Area of France. J. Clin. Microbiol. 2000;38:620–624. doi: 10.1128/jcm.38.2.620-624.2000. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Gonzales R.D., Schreckenberger P.C., Graham M.B., Kelkar S., DenBesten K., Quinn J.P. Infections due to vancomycin-resistant Enterococcus faecium resistant to linezolid. Lancet. 2001;357:1179. doi: 10.1016/S0140-6736(00)04376-2. [DOI] [PubMed] [Google Scholar]
  13. Hammerum A.M. Enterococci of animal origin and their significance for public health. Clin. Microbiol. Infect. 2012;18:619–625. doi: 10.1111/j.1469-0691.2012.03829.x. [DOI] [PubMed] [Google Scholar]
  14. De Jong A., Simjee S., Rose M., Moyaert H., El Garch F., Youala M., Butty P., Haag-Diergarten S., Klein U., Pellet T., Schiffer G., Serreyn P.J., Vila T. Antimicrobial resistance monitoring in commensal enterococci from healthy cattle, pigs and chickens across Europe during 2004-14 (EASSA Study) J. Antimicrob. Chemother. 2019;74:921–930. doi: 10.1093/jac/dky537. [DOI] [PubMed] [Google Scholar]
  15. Kaminska K.H., Purta E., Hansen L.H., Bujnicki J.M., Vester B., Long K.S. Insights into the structure, function evolution of the radical-SAM 23S rRNA methyltransferase Cfr that confers antibiotic resistance in bacteria. Nucleic Acids Res. 2009;38:1652–1663. doi: 10.1093/nar/gkp1142. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Kehrenberg C., Schwarz S. Distribution of florfenicol resistance genes fexA and cfr among chloramphenicol-resistant Staphylococcus isolates. Antimicrob. Agents Chemother. 2006;50:1156–1163. doi: 10.1128/AAC.50.4.1156-1163.2006. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Kehrenberg C., Schwarz S., Jacobsen L., Hansen L.H., Vester B. A new mechanism for chloramphenicol, florfenicol and clindamycin resistance: methylation of 23S ribosomal RNA at A2503. Mol. Microbiol. 2005;57:1064–1073. doi: 10.1111/j.1365-2958.2005.04754.x. [DOI] [PubMed] [Google Scholar]
  18. Kim Y. Bin, Seo H.J., Seo K.W., Jeon H.Y., Kim D.K., Kim S.W., Lim S., Lee Y.J. Characteristics of high-Level ciprofloxacin-resistant Enterococcus faecalis and Enterococcus faecium from retail chicken Meat in Korea. J. Food Prot. 2018;81:1357–1363. doi: 10.4315/0362-028X.JFP-18-046. [DOI] [PubMed] [Google Scholar]
  19. Kim Y. Bin, Seo K.W., Shim J.B., Son S.H., Noh E.B., Lee Y.J. Molecular characterization of antimicrobial-resistant Enterococcus faecalis and Enterococcus faecium isolated from layer parent stock. Poult. Sci. 2019;98:5892–5899. doi: 10.3382/ps/pez288. [DOI] [PubMed] [Google Scholar]
  20. Leong H.N., Kurup A., Tan M.Y., Kwa A.L.H., Liau K.H., Wilcox M.H. Management of complicated skin and soft tissue infections with a special focus on the role of newer antibiotics. Infect. Drug Resist. 2018;11:1959–1974. doi: 10.2147/IDR.S172366. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Long K.S., Poehlsgaard J., Kehrenberg C., Schwarz S., Vester B. The cfr rRNA methyltransferase confers resistance to phenicols, lincosamides, oxazolidinones, pleuromutilins, and streptogramin A antibiotics. Antimicrob. Agents Chemother. 2006;50:2500–2505. doi: 10.1128/AAC.00131-06. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Magiorakos A., Srinivasan A., Carey R.B., Carmeli Y., Falagas M.E., Giske C.G., Harbarth S., Hindler J.F. Multidrug-resistant, extensively drug-resistant and pandrug-resistant bacteria: an international expert proposal for interim standard definitions for acquired resistance. Clin. Microbiol. Infect. 2011;18:268–281. doi: 10.1111/j.1469-0691.2011.03570.x. [DOI] [PubMed] [Google Scholar]
  23. del Mar Lleó M., Tafi M.C., Signoretto C., Dal Cero C., Canepari P. Competitive polymerase chain reaction for quantification of nonculturable Enterococcus faecalis cells in lake water. FEMS Microbiol. Ecol. 1999;30:345–353. doi: 10.1111/j.1574-6941.1999.tb00662.x. [DOI] [PubMed] [Google Scholar]
  24. Mendes R.E., Hogan P.A., Jones R.N., Sader H.S., Flamm R.K. Surveillance for linezolid resistance via the Zyvoxw Annual Appraisal of Potency and Spectrum (ZAAPS) programme (2014): Evolving resistance mechanisms with stable susceptibility rates. J. Antimicrob. Chemother. 2016;71:1860–1865. doi: 10.1093/jac/dkw052. [DOI] [PubMed] [Google Scholar]
  25. Mendes R.E., Hogan P.A., Streit J.M., Jones R.N., Flamm R.K. Zyvox® Annual Appraisal of Potency and Spectrum (ZAAPS) program: report of linezolid activity over 9 years (2004-12) J. Antimicrob. Chemother. 2014;69:1582–1588. doi: 10.1093/jac/dkt541. [DOI] [PubMed] [Google Scholar]
  26. Na S.H., Moon D.C., Choi M.J., Oh S.J., Jung D.Y., Kang H.Y., Hyun B.H., Lim S.K. Detection of oxazolidinone and phenicol resistant enterococcal isolates from duck feces and carcasses. Int. J. Food Microbiol. 2019;293:53–59. doi: 10.1016/j.ijfoodmicro.2019.01.002. [DOI] [PubMed] [Google Scholar]
  27. National Antimicrobial Resistance Monitoring System (NARMS). US Department of Health and Human Services; Atlanta, GA: 2019. Antibiotic Resistance Threats in the United States. [Google Scholar]
  28. Ntokou E., Stathopoulos C., Kristo I., Dimitroulia E., Labrou M., Vasdeki A., Makris D., Zakynthinos E., Tsakris A., Pournaras S. Intensive care unit dissemination of multiple clones of linezolid-resistant Enterococcus faecalis and Enterococcus faecium. J. Antimicrob. Chemother. 2012;67:1819–1823. doi: 10.1093/jac/dks146. [DOI] [PubMed] [Google Scholar]
  29. Ogier J.C., Serror P. Safety assessment of dairy microorganisms: the Enterococcus genus. Int. J. Food Microbiol. 2008;126:291–301. doi: 10.1016/j.ijfoodmicro.2007.08.017. [DOI] [PubMed] [Google Scholar]
  30. Patel S.N., Memari N., Shahinas D., Toye B., Jamieson F.B., Farrell D.J. Linezolid resistance in Enterococcus faecium isolated in Ontario, Canada. Diagn. Microbiol. Infect. Dis. 2013;77:350–353. doi: 10.1016/j.diagmicrobio.2013.08.012. [DOI] [PubMed] [Google Scholar]
  31. Sepúlveda M.A., T H.B., D Y M., M S.M., Z R.Z., R G.G. Identificación molecular de enzimas modificantes de aminoglucósidos en cepas de Enterococcus spp. aisladas en hospitales de la Octava Región de Chile. Rev. Med. Chile. 2007;135:566–572. doi: 10.4067/s0034-98872007000500003. [DOI] [PubMed] [Google Scholar]
  32. Shang Y., Li D., Shan X., Schwarz S., Zhang S.M., Chen Y.X., Ouyang W., Du X.D. Analysis of two pheromone-responsive conjugative multiresistance plasmids carrying the novel mobile optra locus from Enterococcus faecalis. Infect. Drug Resist. 2019;12:2355–2362. doi: 10.2147/IDR.S206295. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Sierra J.M., Ortega M., Tarragó C., Albet C., Vila J., Terencio J., Guglietta A. Decreased linezolid uptake in an in vitro-selected linezolid-resistant Staphylococcus epidermidis mutant. J. Antimicrob. Chemother. 2009;64:990–992. doi: 10.1093/jac/dkp309. [DOI] [PubMed] [Google Scholar]
  34. Tamang M.D., Moon D.C., Kim S.R., Kang H.Y., Lee K., Nam H.M., Jang G.C., Lee H.S., Jung S.C., Lim S.K. Detection of novel oxazolidinone and phenicol resistance gene optrA in enterococcal isolates from food animals and animal carcasses. Vet. Microbiol. 2017;201:252–256. doi: 10.1016/j.vetmic.2017.01.035. [DOI] [PubMed] [Google Scholar]
  35. Tyson G.H., Nyirabahizi E., Crarey E., Kabera C., Lam C., Rice-Trujillo C., McDermott P.F., Tate H. Prevalence and antimicrobial resistance of enterococci isolated from retail meats in the United States, 2002 to 2014. Appl. Environ. Microbiol. 2018;84:1–9. doi: 10.1128/AEM.01902-17. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Tyson G.H., Sabo J.L., Hoffmann M., Hsu C.H., Mukherjee S., Hernandez J., Tillman G., Wasilenko J.L., Haro J., Simmons M., Wilson Egbe W., White P.L., Dessai U., McDermott P.F. Novel linezolid resistance plasmids in Enterococcus from food animals in the USA. J. Antimicrob. Chemother. 2018;73:3254–3258. doi: 10.1093/jac/dky369. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. USDA. USDA Animal and Plant Health Inspection Service (APHIS); Riverdale, MD: 2012. National Poultry Improvement Plan (NPIP) [Google Scholar]
  38. Vakulenko S.B., Donabedian S.M., Voskresenskiy A.M., Zervos M.J., Lerner S.A., Chow J.W. Multiplex PCR for detection of aminoglycoside resistance genes in enterococci. Antimicrob. Agents Chemother. 2003;47:1423–1426. doi: 10.1128/AAC.47.4.1423-1426.2003. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Wang L., He Y., Xia Y., Wang H., Liang S. Investigation of mechanism and molecular epidemiology of linezolid-resistant Enterococcus faecalis in China. Infect. Genet. Evol. 2014;26:14–19. doi: 10.1016/j.meegid.2014.05.001. [DOI] [PubMed] [Google Scholar]
  40. Wang Y., Lv Y., Cai J., Schwarz S., Cui L., Hu Z., Zhang R., Li J., Zhao Q., He T., Wang D., Wang Z., Shen Y., Li Y., Feßler A.T., Wu C., Yu H., Deng X., Xia X., Shen J. A novel gene, optrA, that confers transferable resistance to oxazolidinones and phenicols and its presence in Enterococcus faecalis and Enterococcus faecium of human and animal origin. J. Antimicrob. Chemother. 2015;70:2182–2190. doi: 10.1093/jac/dkv116. [DOI] [PubMed] [Google Scholar]
  41. Werner G., Coque T.M., Hammerum A.M., Hope R., Hryniewicz W., Johnson A., Klare I., Kristinsson K.G. Emergence and spread of vancomycin resistance among enterococci in Europe. Eurosurveillance. 2008;13:1–11. [PubMed] [Google Scholar]
  42. Yılmaz, Özcengiz G. Antibiotics: Pharmacokinetics, toxicity, resistance and multidrug efflux pumps. Biochem. Pharmacol. 2017;133:43–62. doi: 10.1016/j.bcp.2016.10.005. [DOI] [PubMed] [Google Scholar]

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