- Research article
- Open Access
Multiresistant extended-spectrum β-lactamase-producing Enterobacteriaceae from humans, companion animals and horses in central Hesse, Germany
© Schmiedel et al.; licensee BioMed Central Ltd. 2014
- Received: 23 April 2014
- Accepted: 7 July 2014
- Published: 12 July 2014
Multiresistant Gram-negative bacteria producing extended-spectrum β-lactamases (ESBLs) are an emerging problem in human and veterinary medicine. This study focused on comparative molecular characterization of β-lactamase and ESBL-producing Enterobacteriaceae isolates from central Hesse in Germany. Isolates originated from humans, companion animals (dogs and cats) and horses.
In this study 153 (83.6%) of the human isolates (n = 183) and 163 (91.6%) of the animal isolates (n = 178) were confirmed as ESBL producers by PCR and subsequent sequencing of the PCR amplicons. Predominant ESBL subtypes in human and animal samples were CTX-M-15 (49.3%) and CTX-M-1 (25.8%) respectively. Subtype bla CTX-M-2 was found almost exclusively in equine and was absent from human isolates. The carbapenemase OXA-48 was detected in 19 ertapenem-resistant companion animal isolates in this study. The Plasmid-encoded quinolone resistance (PMQR) gene aac(‘6)-Ib-cr was the most frequently detected antibiotic- resistance gene present in 27.9% of the human and 36.9% of the animal ciprofloxacin-resistant isolates. Combinations of two or up to six different resistance genes (penicillinases, ESBLs and PMQR) were detected in 70% of all isolates investigated. The most frequent species in this study was Escherichia coli (74%), followed by Klebsiella pneumoniae (17.5%), and Enterobacter cloacae (4.2%). Investigation of Escherichia coli phylogenetic groups revealed underrepresentation of group B2 within the animal isolates.
Isolates from human, companion animals and horses shared several characteristics regarding presence of ESBL, PMQR and combination of different resistance genes. The results indicate active transmission and dissemination of multi-resistant Enterobacteriaceae among human and animal populations.
- Human isolates
- Animal isolates
- One Health concept
Extended-spectrum beta-lactamase (ESBL)-producing Enterobacteriaceae are isolated with increasing frequency from human and animal samples. In particular, the species Escherichia (E.) coli plays an important role as a source of the corresponding resistance genes . ESBLs genes are commonly plasmid-encoded and can easily be transmitted by conjugation to other bacteria, even across species barriers. In addition, various resistance genes are located in or close to mobile genetic elements such as insertion sequences and transposons . Lateral gene transfer and continuous DNA recombination make it extremely difficult to track transmission pathways of ESBL genes in bacterial populations. The transmission of ESBL-producing pathogens or ESBL genes between companion animals/livestock and owner/caretaker/consumer is currently a subject of intense and controversial discussion. Evidence has been presented for zoonotic spread [3, 4]. Several studies have addressed the risk of infection that could arise from keeping animals [5–7]. A recent study highlighted that the risk factors for ESBL carriage were travel to Greece or Africa within the last 12 months and keeping of pet animals, but not antibiotic consumption or recent hospitalization . Until now, it is still difficult to estimate the amount of exchange and even more difficult to define the risk for human and animal health and also food safety.
The focus of this study was a comparative investigation of 361 ESBL-producing Enterobacteriaceae isolates obtained from animals and human patients presenting at a veterinary clinic and a hospital, respectively, both serving a similar catchment area. The prevalence of β-lactamase-, particularly ESBL-producing bacteria in companion animal, horse and human isolates of clinical origin was examined. Resistance genes (β-lactamase and plasmid-mediated quinolone resistance (PMQR)) and E. coli phylogenetic groups were investigated using molecular methods.
This work sheds light on shared populations of ESBL-producing Enterobacteriaceae in symptomatic companion animals, horses and humans in the geographical region of middle Hesse, Germany.
A collection of 513 Enterobacteriaceae isolates resistant to one or more third-generation cephalosporins (200 human isolates and 313 animal isolates) was examined. Identification was done using in-house biochemical tests. In case of ambiguous results confirmation was done using API 20E. Prior to further analysis, all isolates were grown on MacConkey agar supplemented with cefotaxime (2 mg/l) to promote selection of β-lactamase producers and ensure selection of Enterobacteriaceae. Afterwards isolates were tested for possible ESBL production by double disc synergy test (DDST) according to EUCAST guidelines for resistance mechanisms . After performance of the DDST 183 human and 178 animal isolates were categorized as possible ESBL-producers and forwarded for a more detailed investigation. Isolates with a negative DDST result were not included in the study.
DDST-positive isolates from human clinical samples (n = 183) were taken from the strain collection of the Institute of Medical Microbiology, Giessen. Some of the isolates originate from routine screening for colonization with ESBL-producing Enterobacteriaceae at the University hospital Giessen. Additional isolates were collected from samples of clinically ill patients e.g. blood culture or urine samples in the same facility. All isolates were collected between 2009 and 2010. Approximately two-thirds of the human isolates originated from inpatients (n = 128) and one third were isolates from outpatients wards (n = 55).
DDST-positive isolates from animals (n = 178) were obtained during a survey for aerobic Gram-negative bacteria growing on MacConkey agar supplemented with cefotaxime (2 mg/l) among animal patients at the veterinary clinics of the Justus Liebig University (JLU) Giessen. All samples were clinically relevant infection related isolates. The isolates originated from horses (n = 100), dogs (n = 67) and cats (n = 11) and were collected between 2009 and 2011.
The study was approved by the ethics committee of medical faculty of the Justus Liebig University of Giessen and deemed exempt from informed consent.
Antibiotic susceptibility testing was done using the VITEK®2 compact system with AST N117 cards (Biomérieux) and Etest® stripes (Liofilchem®) containing ertapenem, cefepime, chloramphenicol and nalidixic acid. Results were evaluated according to CLSI guidelines for human pathogens (CLSI, 2012).
PCR primers used to detect β-lactamase genes, PMQR genes and E. coli phylogenetic groups
Sequence (5’ - 3’)
Size of product (bp)
Detection of Plasmid-encoded quinolone resistance (PMQR)
Detection for PMQR by PCR was performed on all isolates with a minimum inhibitory concentration (MIC) ≥ 1 μg/ml for ciprofloxacin (Human isolates: n = 140, animal isolates: n = 122). Oligonucleotide primers for detection of qnrA, qnrB, qnrC, qnrD, qnrS, qepA and aac(6’)-Ib were used [14–19]. Identification of the aac(6’)-Ib-cr variant was performed according to Jones et al. 2008 .
Phylogenetic groups of ESBL-producers
Distribution of E. coli phylogenetic groups was analysed by PCR targeting genes chuA, yjaA and the DNA fragment TSPE4.C2 to assign the strains to the groups A, B1, B2 and D according to Clermont et al. 2000 .
Analysis of resistance genes patterns
Information regarding the source of isolates, species and the resistance genes detected were assembled into an Excel file. The data was subsequently analysed using GENE-E  which enables the clustering of data with matrix visualization and analysis to support visual data exploration.
Overview of bacterial species
The majority of the isolates studied were E. coli (74%), followed by K. pneumoniae (17.5%) and Enterobacter cloacae (4.2%). Other species detected were Klebsiella oxytoca, Enterobacter intermedius, Citrobacter freundii, Providencia stuartii, Morganella morganii and Proteus mirabilis. The percentages of E. coli and K. pneumoniae isolates among the human and animal isolates were very similar.
All isolates (n = 361) were categorised as multidrug resistant (MDR) according to the international expert proposal for interim standard definitions for acquired resistance promoted by the ECDC . Both human (n = 183) and animal isolates (n = 178) revealed resistance against ampicillin and trimethoprim/sulfmethoxazole. Slight differences could be observed concerning the tested third generation cephalosporins ceftazidime, cefotaxime and cefepime. Of the human isolates 52.5% (n = 96) showed resistance against ceftazidime, 78.7% (n = 144) resistance against cefotaxime and 98.4% (n = 180) resistance against cefepime. Of the animal isolates 75.8% (n = 135) displayed resistance against ceftazidime and 99.4% (n = 177) to cefotaxime and cefepime. Of the human isolates 2.2% (n = 4), and 1.1% (n = 2) of the animal isolates revealed resistance against imipenem. Resistance against the other tested carbapenem (ertapenem) was detected in 24.5% (n = 45) of human isolates and in 19.7% (n = 35) of animal isolates. The aminoglycosides gentamicin and amikacin differed in their results. Only 5.1% (n = 9) of animal isolates exhibited resistance against amikacin, as compared to 14.8% (n = 27) of the human isolates. The resistance rates against gentamicin were higher in both cases with 35% (n = 64) in human isolates and 62.4% (n = 111) in animal isolates. High resistance rates in both groups were also revealed for the fluoroquinolone ciprofloxacin (76.5% (n = 140) of the human isolates and 68.5% (n = 122) of the animal isolates).
Distribution of β-lactamases
Distribution of β-lactamase genes in Enterobacteriaceae isolates (n = 361) of human and animal origin
Total no. of isolates
No. of isolates a
Non-ESBL gene bla TEM-1 was the most frequently identified β-lactamase gene among all investigated isolates. It was detected in 46.4% of the human isolates and in 64% of all animal isolates. It was present in 199 of 361 isolates (55%). The highest detection rates were observed in outpatients (58.2%), inpatients (41.4%), dog isolates (62.7%) and horse isolates (67%). TEM-52 was the only TEM-type ESBL that occurred in this study. It was identified in three isolates from human inpatients. Results are shown in Table 2.
Prevalence of bla SHV was 17.2% in human and 52.9% in animal K. pneumoniae. Bla SHV-1 was identified in 10.3% of the human and in 29.4% of the animal K. pneumoniae isolates. Several ESBL variants could be identified in addition (Table 2). Most of the latter isolates originated from dogs. Detected SHV-type ESBL genes were bla SHV-2, bla SHV-5, bla SHV-11 and bla SHV-28. Bla SHV-5 and bla SHV-11 were restricted to isolates from human inpatients. ESBL genes bla SHV-2 and bla SHV-28 were detected among the animal isolates only.
The presence of the penicillinase gene bla OXA-1 could be demonstrated in 30.1% of the human isolates. Among the animal isolates bla OXA-1 was identified in 41.6% of all strains. Detection rates were highest in isolates from dogs (59.7%), followed by cat (45.5%), outpatient (32.8%) and horse (29%) isolates. However, bla OXA-1 was also found in inpatient isolates (23.6%) (Table 2).
All carbapenem resistant isolates (human isolates: 45, animal isolates: 40) were tested for presence of the carbapenemase OXA-48. None of the tested human isolates harboured bla OXA-48. In contrast, 19 (5.3%) of the animal isolates harboured this gene. The isolates harbouring bla OXA-48 originated from dogs (16), cats (2) and a horse (Table 2).
Distribution of PMQR genes in ciprofloxacin-resistant isolates (n = 262) of human and animal origin
% of PMQR genes (no. of isolates)
No. of isolatesb
Total no. of isolates
Analysis of resistance gene patterns
Observed combinations of β-lactamase and PMQR genes according to bacterial species
Combination of resistance genesa
% of bacterial species (no. of isolates)
TEM Pen /CTX-M
TEM Pen /CTX-M/PMQR
TEM Pen /CTX-M/OXA Pen
TEM Pen /CTX-M/OXA Pen /PMQR
TEM Pen /SHV Pen /CTX-M/OXA Pen /PMQR
TEM Pen /SHV Pen /CTX-M/OXA Pen /OXA Carba /PMQR
TEM Pen /CTX-M/OXA Pen /OXA Carba /PMQR
CTX-M/OXA Pen /PMQR
TEM Pen /SHV Pen /OXA Carba /PMQR
No resistance gene detected
Single resistance gene
Total no. of isolates
Phylogenetic grouping of β-lactamase-producing E. coli
Distribution of E. coli phylogenetic groups among human and animal isolates (n = 267)
% of phylogenetic groups (no. of isolates)
No. of isolates
Total no. of isolates
The global spread of multi-resistant ESBL-producing Enterobacteriaceae can in part be explained by mobility of the resistance bearing genetic elements e.g. plasmids, transposons and insertion sequence elements. This fact is a major concern in terms of epidemiology and infection control. Transmission pathways between humans and animals are currently a subject of active discussion [8, 24, 25]. This study was designed to investigate the distribution of β-lactamases, particularly ESBL, and PMQR genes among isolates from human, companion animal and horse samples in a defined geographical area of Germany. The key question was whether similar resistance characteristics are currently present among both groups. Indeed, our studies here demonstrate that isolates from human and animal samples share numerous characteristics.
Antimicrobial susceptibility testing revealed common and disturbing patterns. High resistance rates for all β-lactams and other antibiotic classes were observed. In particular animal isolates harbouring resistance to the last-resort antibiotics ertapenem and impenem were detected. The results for ertapenem were particularly alarming, with 16.3% resistance among animal isolates and 24% among the human isolates. In Germany, the use of carbapenems in livestock animals is prohibited and its use for treating companion animals is strongly restricted. Nevertheless, almost all ertapenem resistant strains among the animal isolates (95.6%) originated from dogs and cats. This would suggest human to animal transmission of resistant strains by their owners. Alternatively, the use of carbapenems for treatment of companion animals cannot be excluded even though these pharmaceuticals are expensive and their use is uncommon even in pet animal practice. Carbapenemase activity in bacteria from companion animals and livestock has been already identified recently [26–28]. To investigate this phenomenon in more detail, all carbapenem resistant isolates from this study were tested for the presence of bla OXA-48. Surprisingly, a substantial difference could be observed regarding the molecular mechanisms underlying this resistance phenotype. None of the 45 tested human isolates was positive for bla OXA-48, though 26 (57.8%) were identified with a possible combination of an AmpC enzyme and porin deficiency. This mechanism has been observed previously in AmpC-producing K. pneumoniae by Shi et al. They stated that the combination of AmpC production and porin loss can result in reduced susceptibility to carbapenems . In contrast to these results, 19 (47.5%) of the 40 examined animal isolates harboured an OXA-48 carbapenemase.
Among 361 isolates resistant to one or more third generation cephalosporins 84% harboured a CTX-M type enzyme. Predominant ESBL genes in human and animal samples were bla CTX-M-15 and bla CTX-M-1. In the past bla CTX-M-15 was merely associated with isolates from humans  and CTX-M-1 was the major CTX-M subtype in cattle and pigs in Europe . In addition bla CTX-M-1 was also detected in companion animal and poultry isolates [32, 33]. In the meantime, attribution of the above-named CTX-M types as specific to either human or animal isolates is no longer tenable. An increasing number of studies have identified bla CTX-M-1 and bla CTX-M-15 in both populations [3, 34] and our study confirmed this development. Among our isolates bla CTX-M-15 was the most prevalent ESBL gene which occurred in approximately 50% of the strains investigated (human: 52.5%, animal: 46.1%). The number for bla CTX-M-1 was considerably lesser but this gene was still relatively frequently present (23%, 28.7%). Isolates collected from horses seemed to hold a special position since rates of bla CTX-M-1- and bla CTX-M-15-positive isolates were almost equal (bla CTX-M-1 37%; bla CTX-M-15 38%). Previous studies have mainly identified CTX-M-1 as the predominant ESBL subtype among horse isolates [35, 36], which is also the most common type among livestock. In Germany horses are mostly used as recreational animals, normally situated close to livestock or in livestock-like environments. However, they usually have closer contact to humans and in case of disease medical care for horses is much more intense than in agricultural animal species. This could be a possible explanation for the particularly high detection rates of bla CTX-M-15 reported here. Interestingly, bla CTX-M-2 was found almost exclusively in equine E. coli isolates and was not present among human isolates. A study from Belgium identified bla CTX-M-2 as major CTX-M subtype among diseased horses . These animals had received prolonged treatment with several antibiotics and the bla CTX-M-2 gene was part of the novel complex class 1 integron ISCR 1. Ferreira et al. could demonstrate the same linkage between bla CTX-M-2 and ISCR 1 however, within the chromosome of E. coli isolates from healthy broiler chickens in Brazil . Further investigation of the region surrounding the bla CTX-M-2 gene may be necessary to identify possible associations with ISCR 1 among the isolates examined in this work. However, the CTX-M-2 subtype is not restricted to animal or even horse isolates. It was previously found in Salmonella enterica isolates from the UK and E. coli isolates from Brazil originating from clinically ill human patients [39, 40].
Ciprofloxacin-resistant animal isolates (55.7%) showed higher prevalence of PMQR-encoding genes compared to human isolates (33.6%). In addition, four qnr-variants (qnrA, qnrB, qnrD and qnrS) were identified in the group of animal isolates, compared to only qnrB and qnrS among the human isolates. All identified qnr variants have already been identified in both groups, however no study is consistent with the results found here [41, 42].
Another interesting result is the low prevalence of bla SHV-1 among the K. pneumoniae isolates (10.3% of the human and in 29.4% of the animal K. pneumoniae isolates). Even though it is widely considered a plasmid-encoded enzyme, it has been found at high frequencies in K. pneumoniae. Further the bla SHV-1 origin is suspected in the chromosome of K. pneumoniae. As some authors indicate high frequencies of up to 90% in K. pneumoniae isolates, our data does not seem to fit into the picture . Yet there are other studies showing also low prevalences . Based on these data it could be a local phenomenon.
The β-lactamase genes bla SHV-1, bla SHV-5, bla SHV-11 and bla TEM-52 were restricted to isolates from inpatients. This fact could be explained by their ancestry, since these genes are frequently found in isolates from hospitals .
Combination of various resistance genes was the rule rather than the exception (Table 4). In 70.1% of all isolates two or more genes responsible for β-lactam or quinolone resistance were identified. Combinations of several β-lactamase genes are commonly observed regularly within genomes of Gram-negative bacterial pathogens [46, 47] and co-selection of β-lactamase genes and determinants for resistance against other antibiotics e.g. fluoroquinolones has been postulated as a possible mechanism responsible for the widespread distribution of those combined genes . The frequently observed combination of bla CTX-M-15 and aac(‘6)-Ib-cr could provide genetic support for this theory, which has been noted before [49, 50]. For this study the presence of bla OXA-48 in combination with at least two penicillinase genes e.g. TEM, SHV or OXA, a PMQR gene and even sometimes with a CTX-M gene is alarming. Even more worrying is the fact that almost all isolates identified with the OXA-48 carbapenemase originate from companion animals. However, other carbapenemases could be present among the human and animal isolates, which were not tested for. The carbapenem-resistant animal isolates were mainly K. pneumoniae and Enterobacter cloacae isolates. An unrelated study conducted in our geographic region also detected carbapenem-resistant Klebsiella spp. among isolates from dogs .
E. coli and K. pneumoniae are the main species associated with β-lactamase production among isolates resistant to third generation cephalosporins in Germany and other members of the European Union . Data from this study underlines this predominance of both bacterial species as a carrier of ESBL-encoding resistance genes with 74% E. coli and 17.5% K. pneumoniae isolates in total. Interestingly, the phylogenetic group B2 was strongly underrepresented among the ESBL-E. coli isolates from animals. Compared to the human isolates (26.2%) it was only present in 2.4%. The origins of primary sample material could provide an explanation for this discrepancy. Several studies suggest dominance of certain phylogenetic groups in particular specimen and types of infection [52, 53]. Zhang et al. demonstrated clustering of phylogenetic group B2 among urinary E. coli isolates from human patients . The fact that 53% of the human isolates in this study had been recovered from urine while only 19% were from rectal swabs suggests an association between higher numbers of B2-E. coli isolates and the urinary tract of humans. The main source for the animal isolates was faeces (51%) from animals suffering from enteritis, diarrhoea and colic. It is not known whether the ESBL isolates detected were indeed causative for the syndromes observed as they could also be commensal strains that were selectively isolated solely on the basis of their resistance phenotype. This could explain the strong presence of phylogenetic group A/B1 and almost complete lack of group B2. Nevertheless, the pathogenic potential of ESBL-encoding isolates remains uncertain and needs further research. Studies performed on E. coli harbouring β-lactamases revealed several virulence-associated traits such as toxins, fimbriae, siderophores, polysaccharide coatings and invasins [54, 55]. In addition, patients with bacteremic urinary tract infections (UTIs) caused by ESBL-producing Enterobacteriaceae also have prolonged hospitalization and higher antibiotic costs .
Our study has limitations with regard to the selection of isolates. Human isolates originate from screening of patients upon admission for carrier-status as well as from clinically ill patients, whereas animal isolates only derive from diseased animals. In addition, selection criteria for ESBL- or PMQR-carrying isolates might have introduced bias. A screening breakpoint of >1 mg/L is recommended for cefotaxime in accordance with the guidelines issued by EUCAST . Usage of the higher concentration of 2 mg/L might have led to loss of some ESBL types. PMQR-genes typically induce low-level quinolone-resistance with ciprofloxacin MIC of ≥ 0.25 μg/mL . For this reason some PMQR may not have been detected due to the MIC of 1 μg/mL used.
Notwithstanding, the study gives an overall view on current dissemination of ESBL-encoding Enterobacteriaceae isolates within the region investigated. Further studies should be directed to examining specific transmission pathways assessing the exchange between the human and animal populations in owner-pet studies. In order to address this aspect in more detail, simultaneous screening of pets and/or owners positive for ESBL-producing Enterobacteriaceae should be carried out in the future. Another important factor for possible transmission or spread is the environment. Multiresistant bacteria are isolated with increasing frequencies from soil or water and wildlife . Some studies implicate ESBL-producing E. coli already as a form of environmental pollution . Our findings are supported by other non-regional studies that confirm the data presented [4, 60, 61]. In line with this work several studies describe presence of ESBL producing Enterobacteriaceae among human and animal samples with dominance of the CTX-M subtype [1–3].
Other aspects such as the colonisation and persistence in humans, animals and the environment as well as host species adaption and interspecies transmissibility of the bacteria involved must be taken into account. As plasmids are epidemiologically relevant agents in ESBL transfer, their role and association with sequence types (STs) need to be examined. Transfer of similar plasmids from human to animal bacterial populations and vice versa has been shown in broilers and broiler farmers in the Netherlands  and suggest that a similar situation could also exist between pet and owner.
The results from this study substantiate the alarming occurrence and ongoing spread of various ESBL-producing, multiresistant Enterobacteriaceae strains in the human and animal populations within a defined geographic region in central Hesse, Germany. Our data confirm that companion animals represent novel reservoirs of carbapenemase-producing strains of K. pneumoniae and Enterobacter cloacae. The study strongly supports the One Health concept which expands interdisciplinary collaborations and communications in all aspects pertaining to the health care for humans and animals .
The study was approved by the ethics committee of medical faculty of the Justus Liebig University of Giessen (AZ: 95/11).
We thank Christina Gerstmann, Anja Schwanitz and David Dippel for excellent technical assistance.
This study was supported by grants from the Federal Ministry of Education and Research (BMBF, Germany) within the framework of the RESET research network (contract no. 01KI1013G) and the German Centre for Infection research (DZIF / grant number 8000 701–3 [HZI]) to TC and CI.
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