Literature DB >> 35600556

Tracing enterococci persistence along a pork production chain from feed to food in China.

Jianfei Zhao1, Rui Liu1, Yanpeng Sun1, Xiaojun Yang1, Junhu Yao1.   

Abstract

The prevalence and transmission of vancomycin-resistant Enterococcus (VRE) in enterococci being as probiotics has been neglected in the scientific literature. The application of enterococci in feed, food and health products may cause VRE transmission through the food chain. This study evaluated phenotypic resistance of Enterococcus species to 20 antibiotics along a pork production chain from feed to food. It also assessed the genetic diversity of Enterococcus faecium isolates. A total of 510 samples (feed, n = 70; swine manure, n = 400; swine carcasses, n = 20, and retail pork, n = 20) were collected in Beijing, China. A total of 328 enterococci isolates with 275 E. faecium and 53 Enterococcus faecalis were identified using 16 S rRNA. Antimicrobial susceptibility to all enterococci isolates was conducted using the K-B method for 20 antibiotics from 9 categories. Multilocus sequence typing (MLST) was conducted on the E. faecium isolates to survey the dissemination of enterococci in the pig industry. The results showed that only 26 enterococci isolates were sensitive to the 20 antibiotics, while half of the isolates (164/328) had acquired multi-drug resistance. The resistant rate to furazolidone was 68.60%, followed by 42.99% to tetracycline. One vancomycin-resistant E. faecium isolates were isolated from feed origin and 2 from manure origin, with minimum inhibitory concentrations to vancomycin of 1,024, 64, and 64 μg/mL, respectively. The MLST outcomes showed that the 275 E. faecium isolates belonged to 11 sequence types (ST) including ST40, ST60, ST94, ST160, ST178, ST296, ST361, ST695, ST726, ST812 and ST1014. The ST of the feed-sourced VRE was ST1014, while the 2 manure-sourced VRE was ST69. ST1014 evolved from ST78, which was the dominant clonal complex in most cities of China, leading to the spreading of VRE. These findings revealed the potential safety hazards of commercial probiotic enterococci in China and showed that there is a risk of the VRE horizontally transferring from feed to food.
© 2022 Chinese Association of Animal Science and Veterinary Medicine. Publishing services by Elsevier B.V. on behalf of KeAi Communications Co. Ltd.

Entities:  

Keywords:  Antimicrobial resistance; Multilocus sequence typing; Vancomycin-resistant enterococci

Year:  2022        PMID: 35600556      PMCID: PMC9092396          DOI: 10.1016/j.aninu.2022.01.005

Source DB:  PubMed          Journal:  Anim Nutr        ISSN: 2405-6383


Introduction

The enterococci species are widespread in the environment and are the colonizers of the gastrointestinal tract in humans and other animals. Preceding studies have documented enterococci's advantages in promoting the absorption of nutrients and improving immunity, thus maintaining the balance of intestinal flora. Therefore, they have been used as probiotics for decades in both humans and farm animals (Arias and Murray, 2012; Thacker, 2013; Mallo et al., 2010). However, even though they have probiotic characteristics, enterococci have already been known to cause endocarditis, pelvic infections, neonatal infections, and urinary tract infections (Miller et al., 2014). Enterococcus faecium and Enterococcus faecalis are the 2 species most frequently associated with a range of enterococcal diseases in clinical settings, which account for one-third of whole nosocomial infections through the world (Miller et al., 2014; Weigel et al., 2003). Antibiotic growth promoters have been applied in livestock industries throughout the world for the past half century. Long-term feeding of food animals with subclinical doses of antibiotics has engendered multi-drug resistance bacteria. This is a threat to public health, as the resistant genes are contagious at every period of the food supply chain (Jahan et al., 2015). Previous studies have confirmed that multi-drug resistant Enterococci from animal sources can donate their resistant genes intraspecific and interspecific, and the risk of infections in humans may soon be a reality (Hammerum et al., 2017; Klare et al., 1995). In China, although many researchers have investigated the antimicrobial resistance of enterococci of swine source, they have ignored the risk of antimicrobial resistance of enterococci spreading through the pig production chain. This study tracked enterococci isolates following the feed, pig farm, slaughterhouse and retail market chain in Beijing, China. Antimicrobial susceptibility of all isolates to antibiotics was conducted using 20 antibiotics from 9 categories. Multilocus sequence typing (MLST) was also conducted to explore the linkage between enterococci species isolated from different stages along the chain, and to provide the information concerning the antimicrobial resistance of enterococci in the pig production chain.

Materials and methods

Specimen collection

Four pig farms dispersed in 4 Beijing districts (Changping, Miyun, Shunyi and Chaoyang) were chosen for this study. A total of 510 samples (feed, n = 70; swine manure, n = 400; swine carcasses, n = 20, and retail pork, n = 20) were collected on the 4 pig farms in this study. The swine manure was obtained from the rectum. A long cotton swab wetted with normal saline was inserted into the anus of pigs with a twist of about 5 cm to obtain an appropriate amount of fresh feces. Pork samples were collected from slaughterhouses corresponding to the 4 pig farms and retail markets. All the samples were numbered, packed in aseptic bags, stored in a freezer, and transferred to the lab for further treatment within 2 h (Li et al., 2019).

Separation and identification of the enterococci species

For feed and meat samples, enterococci enrichment was performed by adding 25 g specimen into 250 mL of the buffered peptone water. The samples were vortexed as well as incubated at 37 °C for 24 h. Afterwards, 1 mL of the concentrate was added to 9 mL of bile esculin azide broth, which was then incubated at 37 °C for about 24 h. The broth's color change from transparent dark brown to opaque black was a sign of enterococci. An enrichment ring was drawn on a bile esculin azide agar (BEAA) plate which was incubated at 37 °C for 24 h. Regarding feed additive specimens, 1 g or 1 mL of the specimen was solubilized in 9 mL of physiological saline. After that a ring around the liquid solution was painted on the plate of BEAA, following by incubating at 37 °C for 24 h. For stool samples, a loop around the solution was drawn on a plate of BEAA, and the samples were incubated at 37 °C about 24 h. When the incubation was over, the round clones with black rings on the BEAA plate were inspected for enterococci. The presence of enterococci was confirmed by PCR using universal primers 27 F (5′-AGAGTTTGATCCTGGCTCAG-3′) together with 1492 R (5′-AGAGTTTGATCCTGGCTCAG-3′) (Li et al., 2019). Two × Accurate Taq PCR master mix plus dye was purchased from AG (Accurate Biotechnology, Changsha, China).

Antimicrobial susceptibility analysis

According to The Sanford Guide to Antimicrobial Therapy (43rd Edition), 20 antibiotics (Table 1) from 9 categories commonly used in human and veterinary clinics were selected for detection. All PCR-confirmed enterococci isolates were analyzed for antimicrobial resistance in the light of the clinical together with Laboratory Standards Institute (CLSI) method of disk diffusion. Each separation was vaccinated with 1 mL of physiological saline, which was sterilized by the addition of 3 to 5 colonies applied with a cotton bud from an overnight development on brain heart infusion (BHI) culture medium to suit the McFarland turbidity visual standard of 0.5. The liquid of bacteria was uniformly put onto the face without Mueller-Hinton (MH, Oxoid, UK) plates of agar making a use of a cotton bud. Every plate had 5 antimicrobial disks (Beijing Tiantan, China) pasted to it, incubating at 37 °C for about 24 h. The diameters of the inhibition circles were gauged to the nearest millimeter and assessed considering the CLSI standards (2017) together with preceding research. Enterococcus faecalis ATCC 29212 acted as the control isolates of quality (Li et al., 2019). The minimum inhibitory concentration of the antimicrobial resistant isolates to antibiotics was measured as described in the CLSI standards (2017). The diameter range of the inhibition ring for the quality control bacteria was used as the test quality control standard. Only when the quality control isolates are sensitive to all the tested drugs can the test be judged to be effective.
Table 1

Names, abbreviations, and drug concentrations of 20 antibiotics in this study.

CatalogueNo.Name of drugsAbbreviationDrug concentration per piece, μg
Glycopeptides1VancomycinVA30
2TeicoplaninTCL30
Rifamycin3RifampicinRA5
Amphenicols4ChloramphenicolC30
β-Lactams5AmpicillinAM10
6PiperacillinPIP100
7CefamedinCZ30
8PenicillinP10 IU
9MeropenemMPN10
10AmoxicillinAMX10
Quinolones11OfloxacinOFL5
12CiprofloxacinCIP5
13GatifloxacinGTF5
Aminoglycoside14GentamicinGM10
Tetracycline15TetracyclineTE30
16MinocyclineMNO30
Macrolides17ErythromycinE15
18KitasamycinKIA15
Nitrofurans19NitrofurantoinFT300
20FurazolidoneFU300
Names, abbreviations, and drug concentrations of 20 antibiotics in this study.

DNA extraction

Whole-cell DNA from enterococci isolates was extracted with a Wizard Genomic DNA Purification Kit (Promega, USA), following the manufacturer's instructions.

Multilocus sequence typing

To study the genetic heterogeneity which belongs to Enterococcus isolated isolates, MLST analysis was performed. The primers and protocols specified on the MLST website (http://pubmlst.org/efaecium/) were used to amplify 7 housekeeping genes: glucose-6-phosphate dehydrogenase (gdh), phosphoribosylaminoimidazol carboxylase ATPase subunit (purK), phosphate ATP-binding cassette transporter (pstS), ATP synthase, alpha subunit (atpA), glyceraldehyde-3-phosphate dehydrogenase (gyd), adenylate kinase (adk), d-alanine:d-alanine ligase (ddl). Amplicons have a purification with Wizard SV Gel together with a PCR Clean-Up System (Promega, USA). Cleaned parts were sequenced from both ends making use of the di-deoxy chain terminator way, as well as V3.1 Bigdye terminator chemistry. Two strands of every fragment were sequenced not less than one time. The consequences of sequencing reactions were analyzed on 3700 or 3730 ABI sequencing machines (Applied Biosystems, USA). Allele together with sequence type (ST) assignments were processed at the public and accessible database named Escherichia coli MLST at http://mlst.ucc.ie/mlst/dbs/Ecoli/. Phylogenetic inferences, which are relevant to ancestral allelic profiles, together with isolate interrelatedness were processed with eBURST version 3 (http://eburst.mlst.net/). Sequence type complexes were defined with eBURST as groups sharing not less than six identical alleles as well as bootstrapping with 1,000 specimens (Li et al., 2019).

Results

Enterococci species incidence

A total of 328 enterococci isolates were isolated out of 510 samples, with 275 E. faecium isolates (53.92%, 275/510) and 53 E. faecalis isolates (10.39%, 53/510). Among the 70 samples of feed origin, 29 enterococci isolates were isolated, with an isolation rate of 41.43%. These 29 isolates contained 27 E. faecium isolates and 2 E. faecalis isolates. Among the 400 samples of manure origin, 251 enterococci isolates were isolated, with an isolation rate of 62.75%. These 251 isolates contained 238 E. faecium isolates and 13 E. faecalis isolates. Among the 40 samples of slaughterhouse and retail origin, 48 enterococci isolates were isolated, with an isolate rate of 120%. These 48 isolates contained 10 E. faecium isolates and 38 E. faecalis isolates. The Enterococcus casseliflavus, Enterococcus gallinarum or other enterococci isolates were not isolated.

Antimicrobial susceptibility

All 328 enterococci isolates (275 E. faecium, named Efm1 to Efm275; 53 E. faecalis, named Efs1 to Efs53) were subjected to antimicrobial susceptibility testing to 20 antimicrobial agents belonging to 9 antimicrobial classes. For the 29 enterococci isolates of feed origin, only 2 E. faecium isolates, Efm2 and Efm3 were sensitive to all 20 antibiotics; the other 27 isolates were resistant to at least one antibiotic, with a resistance rate of 93.10%. Twenty-six out of 29 (89.66%) isolates were resistant to furazolidone, and 7 out of 26 (24.24%) isolates were resistant to cefamedin (Table 2).
Table 2

Resistance status of enterococci isolates of feed source to the 20 antibiotics. 1

IsolatesAntibiotics2
VATCLRACAMPIPCZPMPNAMXOFLCIPGTFGMTEMNOEKIAFTFU
Efm1RR
Efm2
Efm3
Efm4RRRRRRRRRRRRRRR
Efm5IIR
Efm6RIR
Efm7IR
Efm8IR
Efm9R
Efm10RR
Efm11RRIR
Efm12IR
Efm13IIR
Efm14IIR
Efm15R
Efm16IRRR
Efm17RIR
Efm18IRIR
Efm19IIR
Efm20R
Efm21IIR
Efm22RR
Efm23IR
Efm24IR
Efm25IIR
Efm26IR
Efm27IR
Efs1IIR
Efs2RRRIRRRR

Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; ∖, sensitive; R, resistant; I, intermediate.

The abbreviations of antibiotics are defined in Table 1.

Resistance status of enterococci isolates of feed source to the 20 antibiotics. 1 Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; ∖, sensitive; R, resistant; I, intermediate. The abbreviations of antibiotics are defined in Table 1. Among the 251 enterococci isolates of manure origin, only 6 (Efm31, Efm66, Efm175, Efm235, Efm265 and Efs12) were sensitive to all 20 antibiotics; the other 245 isolates were resistant to at least one antibiotic, with a resistant rate of 97.61% (245/251). One hundred and sixty out of the 245 separations had resistance to least to 3 kinds of antibiotics, and therefore could be considered multi-drug resistant isolates. The resistance rates to furazolidone tetracycline and erythromycin were 196, 122 and 117 isolates, which were 78.09%, 52.19% and 48.61%, respectively (Table 3).
Table 3

Resistance status of enterococci isolates of pig manure to the 20 antibiotics. 1

IsolatesAntibiotics2
VATCLRACAMPIPCZPMPNAMXOFLCIPGTFGMTEMNOEKIAFTFU
Efm28RRRR
Efm29RRRR
Efm30RRR
Efm31
Efm32RRRRR
Efm33R
Efm34RRRRR
Efm35RRRRRRR
Efm36RR
Efm37IRRRRRR
Efm38RR
Efm39RRRRRR
Efm40II
Efm41RRRR
Efm42RRRR
Efm43RRRRRRR
Efm44RRRRRR
Efm45RRRR
Efm46RRRRRRR
Efm47RRRRR
Efm48RIRRRR
Efm49RRRRRRR
Efm50IR
Efm51RR
Efm52RRRRR
Efm53RRRRR
Efm54IRRRRR
Efm55RRRR
Efm56RRRRRR
Efm57RRRRIRRR
Efm58RRRRRRR
Efm59RRRIRRR
Efm60RRRRRRR
Efm61RRIRRRRR
Efm62RRRRRRRRR
Efm63RIRRR
Efm64R
Efm65RRRRIRR
Efm66
Efm67IRRIIRR
Efm68RRRRR
Efm69RRRRRRRR
Efm70RIRRR
Efm71RRRRRRRR
Efm72R
Efm73RRRRR
Efm74IRRR
Efm75RRRRR
Efm76IR
Efm77RRRRRRRRRR
Efm78RRRRR
Efm79RRRR
Efm80RRRRRR
Efm81RRRRRR
Efm82RRRRRR
Efm83RRRIRRIR
Efm84RRRRRR
Efm85RRRRRR
Efm86RRRRRR
Efm87RRIR
Efm88IRRR
Efm89RRIR
Efm90RRR
Efm91RRRR
Efm92RRRRRRR
Efm93RRIRIRR
Efm94RRRRRR
Efm95RRRRRIR
Efm96RRRRRIR
Efm97RRRRR
Efm98RRRRR
Efm99RRR
Efm100RRRRRR
Efm101IRRRRR
Efm102RRRRR
Efm103RRRRR
Efm104RRRR
Efm105RRIR
Efm106IRRR
Efm107RRR
Efm108R
Efm109RRRR
Efm110RIR
Efm111RRR
Efm112R
Efm113IR
Efm114IRR
Efm115RRR
Efm116IR
Efm117RR
Efm118RR
Efm119R
Efm120RR
Efm121RIR
Efm122RR
Efm123RR
Efm124R
Efm125R
Efm126RR
Efm127RR
Efm128RR
Efm129IR
Efm130R
Efm131R
Efm132RRRRR
Efm133RRRRRRR
Efm134RRR
Efm135RRRR
Efm136RIR
Efm137RRR
Efm138RRR
Efm139RRR
Efm140RRR
Efm141R
Efm142RR
Efm143RRRRRRR
Efm144RRRRRRR
Efm145RRR
Efm146R
Efm147IRR
Efm148R
Efm149R
Efm150RR
Efm151RRRR
Efm152IR
Efm153RIRR
Efm154RRRR
Efm155RRR
Efm156R
Efm157RI
Efm158RRRR
Efm159RRR
Efm160RR
Efm161RRRRR
Efm162RRR
Efm163RRR
Efm164R
Efm165RRRRR
Efm166RIRR
Efm167RRRRR
Efm168RRRR
Efm169RRRRR
Efm170RR
Efm171RR
Efm172RRR
Efm173RRIRRR
Efm174RRR
Efm175
Efm176R
Efm177R
Efm178R
Efm179IR
Efm180RRRR
Efm181RRRRR
Efm182RRRR
Efm183R
Efm184RR
Efm185RRRRR
Efm186RIRR
Efm187IRRIRRRR
Efm188R
Efm189RRR
Efm190RRR
Efm191RR
Efm192RRR
Efm193RRRIIRRRR
Efm194R
Efm195IRRIRRRR
Efm196IIIRRRRR
Efm197RRRRR
Efm198RR
Efm199IR
Efm200RRRRRRR
Efm201IIRRRRR
Efm202RRRRRRR
Efm203RRRRRRR
Efm204RRRRRRR
Efm205RRRRR
Efm206RRRRR
Efm207RR
Efm208RRRRR
Efm209RRRRR
Efm210RRRRRRRRR
Efm211IRR
Efm212RRRRRR
Efm213RRRRRRRRR
Efm214RR
Efm215IRRR
Efm216RRRRRR
Efm217RRRRRR
Efm218RR
Efm219RRRRR
Efm220RRRRR
Efm221RRR
Efm222RRRRRR
Efm223RRRRRR
Efm224RRRR
Efm225RRRRRRRR
Efm226RRRRRR
Efm227RRRRRR
Efm228RRRRRR
Efm229IRRRRRR
Efm230RR
Efm231R
Efm232RRRR
Efm233RRRRR
Efm234RRRRRRRRRR
Efm235
Efm236RRRRRR
Efm237IRRRR
Efm238RIIRRRR
Efm239RRRRR
Efm240RRRRRRR
Efm241IR
Efm242RRRRRR
Efm243IIRRRR
Efm244RR
Efm245R
Efm246RRR
Efm247RR
Efm248RRRRR
Efm249RR
Efm250RRRRR
Efm251RR
Efm252RRRR
Efm253RRRRR
Efm254RRRRR
Efm255RRR
Efm256RRR
Efm257RRR
Efm258RIR
Efm259RRRR
Efm260RRRR
Efm261RRRR
Efm262RIRR
Efm263
Efm264RRRRRRR
Efm265
Efm266RR
Efs3RRR
Efs4R
Efs5IIR
Efs6RRR
Efs7R
Efs8RRRRRR
Efs9RRRR
Efs10RRRRRR
Efs11RRI
Efs12
Efs13IRRRRR
Efs14RR
Efs15RR

Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; ∖, sensitive; R, resistant; I, intermediate.

The abbreviations of antibiotics are defined in Table 1.

Resistance status of enterococci isolates of pig manure to the 20 antibiotics. 1 Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; ∖, sensitive; R, resistant; I, intermediate. The abbreviations of antibiotics are defined in Table 1. For the 48 enterococci isolates of slaughterhouse and retail origin, 18 (Efm273, Efm274, Efm275, Efs25, Efs26, Efs28, Efs29, Efs30, Efs31, Efs32 Efs37, Efs40, Efs41, Efs43, Efs46, Efs47, Efs50, and Efs53) were sensitive to all 20 antibiotics; the other 30 isolates were resistant to at least 1 antibiotic, with a resistance rate of 62.50% (Table 4).
Table 4

Resistance status of enterococci isolates of pork source to the 20 antibiotics.

IsolatesAntibiotics2
VATCLRACAMPIPCZPMPNAMXOFLCIPGTFGMTEMNOEKIAFTFU
Efm1267RRRRR
Efm268RRRR
Efm269R
Efm270R
Efm271RRR
Efm272I
Efm273
Efm274
Efm275
Efm276RR
Efs16IRR
Efs17
Efs18RRRRRRR
Efs19RI
Efs20RIRR
Efs21RI
Efs22
Efs23R
Efs24RR
Efs25
Efs26
Efs27R
Efs28
Efs29
Efs30
Efs31
Efs32
Efs33R
Efs34
Efs35RR
Efs36R
Efs37
Efs38R
Efs39R
Efs40
Efs41
Efs42R
Efs43
Efs44R
Efs45R
Efs46
Efs47
Efs48R
Efs49R
Efs50
Efs51R
Efs52R
Efs53

Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; sensitive; R, resistant; I, intermediate.

The abbreviations of antibiotics are defined in Table 1.

Resistance status of enterococci isolates of pork source to the 20 antibiotics. Efm, Enterococcus faecium separations; Efs, Enterococcus faecalis isolates; sensitive; R, resistant; I, intermediate. The abbreviations of antibiotics are defined in Table 1. Overall, only 26 (9.93%) of the enterococci separations were susceptible to the whole 20 antibiotics. The other 328 enterococci isolates had resistance to at least one antibiotic, with a resistance rate of 92.07%. Accordingly, 164 of the enterococci isolates were resistant to at least three categories of antibiotics, meaning that the multi-drug resistance rate was 50% (164/328). The highest resistant rate was to furazolidone at 68.60% (225/328), followed by tetracycline (42.99%, 141/328), erythromycin (40.55%, 133/328), kitasamycin (35.98%, 118/328), gentamicin (33.23%, 109/328), and cefazolin (31.71%, 104/328) (Fig. 1).
Fig. 1

Resistant rate of 328 enterococci isolates to 20 antibiotics. Resistant rate = the number of resistant bacteria/total number of bacteria. VA = vancomycin; TCL = teicoplanin; RA = rifampicin; C = chloramphenicol; AM = ampicillin; PIP = piperacillin; CZ = cefamedin; P = penicillin; MPN = meropenem; AMX = amoxicillin; OFL = ofloxacin; CIP = ciprofloxacin; GTF = gatifloxacin; GM = gentamicin; TE = tetracycline; MNO = minocycline; E = erythromycin; KIA = kitasamycin; FT = nitrofurantoin; FU = furazolidone.

Resistant rate of 328 enterococci isolates to 20 antibiotics. Resistant rate = the number of resistant bacteria/total number of bacteria. VA = vancomycin; TCL = teicoplanin; RA = rifampicin; C = chloramphenicol; AM = ampicillin; PIP = piperacillin; CZ = cefamedin; P = penicillin; MPN = meropenem; AMX = amoxicillin; OFL = ofloxacin; CIP = ciprofloxacin; GTF = gatifloxacin; GM = gentamicin; TE = tetracycline; MNO = minocycline; E = erythromycin; KIA = kitasamycin; FT = nitrofurantoin; FU = furazolidone. Three vancomycin-resistant E. faecium isolates were detected. One Enterococcus (VRE), Efm4, was isolated from feed origin; and the other 2 VRE isolates, Efm62 and Efm77, were isolated from manure origin. The MIC of the three VRE isolates were 1,024, 64, and 64 μg/mL, separately. The MLST analysis identified that the 275 E. faecium isolates could be classified into 11 ST. These were ST40, ST60, ST94, ST160, ST178, ST296, ST361, ST695, ST726, ST812 and ST1014. One VRE isolates Efm4 from the feed origin is ST1014, which is the first time that a relatively new ST type has been isolated from feed origin; the two VER isolates Efm62 and Efm77 from pig origin are both ST695 (Fig. 2). It is worth noting that ST1014 evolved out of ST78, with only one gene encoded differently in the housekeeping gen pstS. This indicated the close genetic relationship between the 2 ST.
Fig. 2

The eBURST analysis of multi-locus sequence typing of Enterococcus faecium isolates. Each node represents one sequence type (ST), and the corresponding ST is given beside the node. The size of each node is proportional to the number of isolates within each ST. Blue and orange circles represent primary group and subgroup founders, respectively. The longer the lines between nodes, the more distant the genetic relationship. Green numbers represent ST detected only in feed, pink numbers represent ST found only in pig manure, and black numbers represent ST found in food and pig manure or pork.

The eBURST analysis of multi-locus sequence typing of Enterococcus faecium isolates. Each node represents one sequence type (ST), and the corresponding ST is given beside the node. The size of each node is proportional to the number of isolates within each ST. Blue and orange circles represent primary group and subgroup founders, respectively. The longer the lines between nodes, the more distant the genetic relationship. Green numbers represent ST detected only in feed, pink numbers represent ST found only in pig manure, and black numbers represent ST found in food and pig manure or pork.

Discussion

In recent years, numerous antibiotics have not only been applied to prevent and treat animal diseases, but also to promote animal growth and improve feed conversion ratios (FCR) all over the world (Yu et al., 2018; Zeyner and Boldt, 2006; Li et al., 2019). However, the issues caused by antibiotic abuse have been severe due to flawed laws and a lack of supervision. A preceding study conducted by Zhu et al. (2013) illustrated that 149 resistant genes were identified by bacterial resistance analysis from pig manure and nearby soil in three pig farms with over a thousand pigs. Sixty-three of the drug-resistant genes were at least 192 times as abundant as those of the non-anti-culture control, with some as high as 28,000 times (Zhu et al., 2013). Antibiotic-resistant bacteria in farms have become a common phenomenon, and a critical public health concern. Animal antibiotic risk assessment, comprehensive monitoring, and risk assessment of foodborne pathogen resistance is still needed. Enterococci are not only normal porcine intestinal commensal bacteria, but also conventional lactic acid bacteria type probiotics. E. faecium together with E. faecalis already have been widely applied as probiotics in the animal husbandry industry. Hu et al. (2019) have shown that E. faecium interventions will cause different changes in the gut microbiota, and the addition of 1.2 × 106 CFU/g E. faecium in the reduced antibiotics diet will not affect the growth performance of weaned piglets (Hu et al., 2019). Matsumoto et al. have reported that adding E. faecium isolate EC-12 to the diet can reduce the diarrhea score and improve pig productivity (Matsumoto et al., 2021). However, certain E. faecium together with E. faecalis isolates are also conditional pathogens. With the broad application of novel antimicrobial agents in clinical practice, enterococcus has acquired new drug-resistance under the pressure of drug selection, and the spectrum of drug resistance has become increasingly complex. Several previous studies have shown that enterococci are “drug-resistant gene banks” and are associated with the risk of spreading through the food chain (Li (2019)). In the current research, we found that the multi-drug resistance issues were severe and that the multi-drug resistant bacteria rate was high. Among the 328 enterococci isolates from the pig industry chain, 92.07% of the isolates were drug-resistant, and 50% were multidrug-resistant. Among the 20 antibiotics, furazolidone had the highest resistance rate 68.60% (225/328). As early as 2002, the Ministry of Agriculture and Rural Affairs of the People's Republic of China listed furazolidone as a forbidden veterinary drug. However, this study showed that the resistance rate of enterococci to furazolidone is still high. This reflects the reality that resistance genes can exist for a long time in the breeding environment and even in animals. The resistant isolates of tetracycline are mostly pathogenic bacteria such as Salmonella, Streptococcus and Haemophilus, but 42.99% of the enterococci in this study were resistant to tetracycline. Kitasamycin (KIA) can be used to treat humans and animals. There are not many existing reports on its drug resistance, and most of it focuses on mycoplasma resistance or induced drug resistance. Natural isolates are rarely resistant to KIA. In this study, the resistant rate of enterococci to KIA was found to be 35.98% (118/328). The overall resistance of enterococcus is serious. Moreover, 1 VRE isolate and 2 VRE isolates were isolated from the feed source and the pig manure source, respectively. This suggests that VRE has appeared in the pig industry chain and may have diffused further. Reports of Enterococcus carrying drug-resistant genes in farms have also been common in recent years (Founou et al., 2016; Lei et al., 2021). More VRE is found in Europe animals than in the USA. This is due to the extensive use of “avoparcin” in Europe feed which can promote the growth of livestock (Terkuran et al., 2019). Our results showed that VRE is also present in feed products. This exacerbates concerns over VRE entering animals via feed and ultimately endangering their health. However, urgent questions remain. What is the relationship between VRE in feed products and pathogenic VRE in hospitals? Does VRE spread from in-hospital isolates? Is there homology between drug resistance genes? Thus, the molecular typing of VRE isolates is necessary to reveal the epidemiological principles and transmission mechanism of VRE in the pig industry chain. Under ideal conditions, probiotics that were used in food together with feed creation should not include any transferable resistance genes. They should also be susceptible to all pathogen relevant antibiotics (Werner et al., 2008). The European Food Safety Authority suggests that antibiotic resistance genes (ARG), which have bacterial isolates harboring transferable, or virulence factors should not be applied in animal feeds, fermented foods, or probiotic products for humans (Perreten et al., 1997; Zhu et al., 2013). The possibility of ARG transmission in the digestive tracts of animals, or even humans, is now a major concern in the application of probiotics. Unfortunately, in most countries, ARG screening before production and application is not a standard procedure in foods and feed industries. Without rigorous assessment, the probable danger that comes from horizontal transfer of resistance genes provides a veritable cliff-hanger, because consumption is large while monitoring is lacking. In this investigation, MLST was conducted to evaluate ST diversity from E. faecium isolates. One VRE isolates from the feed origin is ST1014, which shared close affinities with ST78. The dominant clone complex is ST78 in the most Chinese cities, which led to the spreading of VRE. Furthermore, in the year 2013, the first report of ST1014 VRE was isolated in a hospital in Shandong province (Yan et al., 2016). Although no evidence has demonstrated a straight relationship between those isolated isolates together with Efm4 in our study, the potential affiliation between ST1014 and ST78 still rang alarms over the safety of probiotic enterococci applied in feed and food. This indicates that VRE has appeared in the pig breeding industry chain and may have spread even further.

Conclusions

Taken together, the findings indicate that Enterococcus drug resistance in the pig industry chain is serious. This suggests that antibiotic resistant pathogens are proliferating. This is a public health concern for both humans and other animals. The drug-resistant isolates accounted for 92.07% (302/328) of the isolated isolates, and the multi-drug resistant isolates accounted for 50% (164/328) of the isolated isolates.

Author contributions

Jianfei Zhao: Methodology, Software, Formal analysis, Data curation, Writing – original draft. Rui Liu: Methodology. Yanpeng Sun: Formal analysis. Xiaojun Yang: Writing – review & editing, Supervision. Junhu Yao: Supervision, Project administration, Funding acquisition.

Declaration of competing interests

We declare that we have no financial and personal relationships with other people or organizations that can inappropriately influence our work, and there is no professional or other personal interest of any nature or kind in any product, service and/or company that could be construed as influencing the content of this paper.
  18 in total

1.  Horizontal transfer of antibiotic resistance from Enterococcus faecium of fermented meat origin to clinical isolates of E. faecium and Enterococcus faecalis.

Authors:  Musarrat Jahan; George G Zhanel; Richard Sparling; Richard A Holley
Journal:  Int J Food Microbiol       Date:  2015-01-21       Impact factor: 5.277

Review 2.  The rise of the Enterococcus: beyond vancomycin resistance.

Authors:  Cesar A Arias; Barbara E Murray
Journal:  Nat Rev Microbiol       Date:  2012-03-16       Impact factor: 60.633

Review 3.  Hox genes and regional patterning of the vertebrate body plan.

Authors:  Moises Mallo; Deneen M Wellik; Jacqueline Deschamps
Journal:  Dev Biol       Date:  2010-05-07       Impact factor: 3.582

4.  vanA-mediated high-level glycopeptide resistance in Enterococcus faecium from animal husbandry.

Authors:  I Klare; H Heier; H Claus; R Reissbrodt; W Witte
Journal:  FEMS Microbiol Lett       Date:  1995-01-15       Impact factor: 2.742

5.  Effects of a probiotic Enterococcus faecium strain supplemented from birth to weaning on diarrhoea patterns and performance of piglets.

Authors:  A Zeyner; E Boldt
Journal:  J Anim Physiol Anim Nutr (Berl)       Date:  2006-02       Impact factor: 2.130

6.  Diverse and abundant antibiotic resistance genes in Chinese swine farms.

Authors:  Yong-Guan Zhu; Timothy A Johnson; Jian-Qiang Su; Min Qiao; Guang-Xia Guo; Robert D Stedtfeld; Syed A Hashsham; James M Tiedje
Journal:  Proc Natl Acad Sci U S A       Date:  2013-02-11       Impact factor: 11.205

Review 7.  Mechanisms of antibiotic resistance in enterococci.

Authors:  William R Miller; Jose M Munita; Cesar A Arias
Journal:  Expert Rev Anti Infect Ther       Date:  2014-10       Impact factor: 5.091

Review 8.  Emergence and spread of vancomycin resistance among enterococci in Europe.

Authors:  G Werner; T M Coque; A M Hammerum; R Hope; W Hryniewicz; A Johnson; I Klare; K G Kristinsson; R Leclercq; C H Lester; M Lillie; C Novais; B Olsson-Liljequist; L V Peixe; E Sadowy; G S Simonsen; J Top; J Vuopio-Varkila; R J Willems; W Witte; N Woodford
Journal:  Euro Surveill       Date:  2008-11-20

9.  Horizontal transfer of vanA between probiotic Enterococcus faecium and Enterococcus faecalis in fermented soybean meal and in digestive tract of growing pigs.

Authors:  Ning Li; Haitao Yu; Hongbin Liu; Yuming Wang; Junyan Zhou; Xi Ma; Zheng Wang; Chengtao Sun; Shiyan Qiao
Journal:  J Anim Sci Biotechnol       Date:  2019-04-12

10.  Alternatives to antibiotics as growth promoters for use in swine production: a review.

Authors:  Philip A Thacker
Journal:  J Anim Sci Biotechnol       Date:  2013-09-14
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.