Characterization of Yersinia enterocolitica Biotype 1A Strains Isolated from Swine Slaughterhouses and Markets

Abstract

Yersinia enterocolitica is an important foodborne pathogen that causes illness in humans and animals. Y. enterocolitica is also the most heterogeneous species of the genus and is divided into distinct serotypes and over six biotypes. Y. enterocolitica biotype 1A strains are classically considered as nonpathogenic; however, some biotype 1A isolates have been considered as causative of gastrointestinal disease, yielding symptoms indistinguishable from those produced by pathogenic biotypes. Even after decades of isolation of clinical strains, the pathogenic mechanisms of these isolates are still not fully understood. In the present study, 122 Yersinia enterocolitica biotype 1A strains isolated from swine slaughterhouses and meat markets in Sao Paulo, Brazil, were characterized according to the presence of the virulence genes ail, virF, and ystA. A total of 94 strains were positive to at least one virulence gene (77.05%), and 67 were positive to all of them (54.92%). Twenty-two strains were submitted to PFGE genotyping resulting in 22 distinct pulsotypes, varying from 50% to 84% of genetic similarity. Any clustering tendency among pulsotypes related to origin, isolation site, or even virulence profile was not observed. The present study reports an important contamination of the environment in swine slaughterhouses, meat markets, and pork, by potentially virulent Y. enterocolitica biotype 1A.

1. Introduction

The Yersinia genus belongs to the Enterobacteriaceae family, and among its 15 species, Yersinia enterocolitica is the most prevalent cause of illness in humans and animals [1, 2]. It is an important foodborne pathogen, causing acute diarrhea, terminal ileitis, mesenteric lymphadenitis, and long-term sequelae that may follow the infection [1, 3]. Y. enterocolitica is also the most heterogeneous species of the genus, and it is divided into distinct serotypes and six biotypes [4]. Most of the pathogenic lineages belong to biotypes 1B, 2, 3, 4, and 5, while environmental strains considered nonpathogenic to humans and animals belong to biotype 1A [3, 5].

The virulence of pathogenic biotypes is attributed to the presence of plasmidial and chromosomal genes. The virulence plasmid of Yersinia (pYV) encodes adhesin A (YadA), Yersinia outer proteins (Yops) from the type III secretion system, and transcriptional regulator gene (virF) [6, 7]. The chromosomal virulence genes include invasin (inv), attachment and invasion locus (ail), Yersinia stable toxin A (ystA), and mucoid Yersinia factor A (myfA) [8]. Some of these factors are restricted to pathogenic pYV-bearing strains of Y. enterocolitica, such as ail, ystA, and myfA, while the inv gene is common to pathogenic and nonpathogenic strains [5].

Y. enterocolitica biotype 1A strains are classically considered as nonpathogenic, since they do not bear pYV plasmid and chromosomal virulence genes, such as ail, myfA, ystA, and the ysa locus [9–11]. However, some biotype 1A strains have been considered as causative of gastrointestinal disease, yielding symptoms indistinguishable from those produced by pathogenic biotypes [12, 13]. Infection by biotype 1A strains may persist for several weeks or months, and it is frequent for all age groups, in contrast to pYV-bearing strains, which are mostly recurrent in children [14, 15].

Biotype 1A yersiniae have been associated with nosocomial [16] and foodborne [17] outbreaks of gastrointestinal infection. It was also isolated from several animal species used in human nourishment [18, 19]. Even after decades of clinical strains isolation, the pathogenic mechanisms of these strains remain not fully understood. It has been detected that some clinical strains of biotype 1A bear homologous sequences to the ail, myfA, and ystA genes, which were considered to be restricted to pathogenic biotypes [5, 20–23].

Distinct techniques of genotyping presented a tendency to cluster biotype 1A strains, isolated from various sources into two clonal groups; both of them were represented by clinical and nonclinical isolates [24]. Falcão et al. [5] described the first biotype 1A food isolate in Brazil that bore the ail and ystA genes, and it was grouped closer to strains of human and animal clinical material by pulsed-field gel electrophoresis (PFGE) technique. The aim of this study was to characterize Yersinia enterocolitica biotype 1A isolated from swine slaughterhouses and markets in São Paulo, Brazil.

2. Material and Methods

2.1. Culture Collection Strains

The following strains were used as positive and negative controls for biochemical and PCR tests: Yersinia enterocolitica O:3 biotype 4 (MyO—SW/897/63), Y. enterocolitica O:8 biotype 1B (P311—WF—Albany, USA), Y. enterocolitica O:9 biotype 2 (My79—Nilhén, Sweden), Y. pseudotuberculosis—IAL1791, Y. frederiksenii—CIP8029, and Y. kristensenii—CIP9993, all of them from the Laboratory of Bacterial Zoonoses, Bacteriology Department of Oswaldo Cruz Institute, RJ, Brazil (IOC/FIOCRUZ).

2.2. Sampling and Microbiological Analysis

A total of 12 collects were carried out between 2007 and 2008 in two swine slaughterhouses and two respective markets in São Paulo State, Brazil. A total of 792 samples were collected, including 480 swabs from tonsils and tongue, 120 swabs from slaughterhouse environment points, 72 swabs from market environment points, and 120 pork fragments. Tonsils and tongue and environment swabs were performed using sterile sponges (Whirl-Pak Speci-Sponge bag—NASCO, EUA—11.5 cm × 23 cm), hydrated with 20 ml of Letheen Broth (Difco/BBL, Detroit, MI, USA). From each environmental site (wall, table, or floor), a 100 cm² area was also collected. Samples were kept under refrigeration until laboratory processing.

The samples were processed with cold enrichment with phosphate-buffered saline, sorbitol, and bile salts number 3 (Difco/BBL, Detroit, MI, USA) for 10 to 12 days. An aliquot of the broth (10 μL) was treated with potassium hydroxide (KOH), and then a loopful was plated onto MacConkey (Difco/BBL, Detroit, MI, USA) and cefsulodin-irgasan-novobiocin (CIN) agar (Difco/BBL, Detroit, MI, USA). Plates were incubated for 24 h at 30°C, under aerobic conditions. At least five colonies presenting suggestive morphology were selected from each selective agar for biochemical identification, including the Kligler iron and Christensen urea tests, fermentation of sucrose, rhamnose, and melibiose.

Strains positive to biochemical identification were biotyped according to the reduced biotyping schema proposed by Souza et al. [2]. Strains classified as Y. enterocolitica biotype 1A were submitted to the virulence gene detection through PCR and genotyping by PFGE.

2.3. DNA Preparation and Virulence Genes Detection

An aliquot of 1 mL of Yersinia enterocolitica fresh culture in brain heart infusion—BHI (Difco/BBL, Detroit, MI, USA)—was harvested by centrifugation at 4,000 ×g for 5 min. The pellet was submitted to DNA extraction, based on the method described by Boom et al. [25]. The DNA samples were amplified by simultaneous detection of the ail, virF, and ystA genes, as described by Lambertz and Danielsson-Tham [26]. Amplification was carried out in a 50 μL reaction mixture, containing 5 μL of DNA template, 1.5 mM of MgCl₂, 200 mM of each dNTP, 20 ρmol of each primer and 1 U of Taq DNA polymerase, 1X PCR buffer, and ultrapure water.

Amplification conditions were as follows: an initial denaturation at 94°C for 3 min, followed by 30 cycles of denaturation at 94°C for 30 s, annealing at 60°C for 1 min, and extension at 72°C for 1 min, with a final extension at 72°C for 5 min. PCR products were separated in 2% agarose gel stained with BlueGreen (LGC Biotecnologia, São Paulo, Brazil) and identified using 100 bp DNA Ladder.

2.4. PFGE Typing

Twenty-two pure colonies of Y. enterocolitica 1A with different origins and virulence profiles were submitted for PFGE genotyping. DNA was extracted from 6 mL of overnight culture as previously described [5].

The DNA was digested for 4 h with 6 U NotI (New England BioLabs Inc., Ipswich, MA, USA), and the restriction fragments were separated on a 1.0% pulsed-field-certified agarose (Bio-Rad Laboratories, CA, USA) in 0.5X Tris-borate EDTA (TBE) using a CHEF-DRIII system (Bio-Rad Laboratories). Pulse times were ramped from 1 to 18 s over 20 h, using an electric field of 6 V/cm, at a 120° angle at 14°C. The gels were stained with SYBR Safe (Invitrogen Corporation, CA, USA) for 40 min and photographed under UV transillumination. DNA fragments were identified using Lambda DNA-PFGE marker (New England BioLabs Inc., USA).

2.5. Statistical Analysis

The levels of relatedness of the strains were determined by comprehensive pairwise comparison of restriction fragment sizes, using Dice coefficient. Mean values obtained from Dice coefficients were employed in UPGMA, using BioNumeric 6.6 (Applied Maths) to generate dendrograms. For PFGE analysis, strains were considered as part of different subtypes, when differing by four or more bands.

3. Results

From the 792 samples collected, 442 Y. enterocolitica strains were recovered and bioserotyped. Out of these, 92 were identified as Y. enterocolitica 1A/nontypeable (20.81%), 10 Y. enterocolitica 1A/O:5a (2.26%), 18 Y. enterocolitica 1A/O:5b (4.07%), one Y. enterocolitica 1A/O:7 (0.23%), and one Y. enterocolitica 1A/O:6 (0.23%). The other 320 (72.40%) strains were identified as bioserotype 4/O:3. All 122 biotype 1A strains were isolated from pork, markets, or slaughterhouses environments (Table 1). None of the tonsils and tongue swabs were positive to Y. enterocolitica 1A isolation; only Y. enterocolitica 4/O:3 was found in these samples (data not shown).

Table 1.

Distribution of Yersinia enterocolitica 1A  biotype according to sample origin and isolation site.

	Slaughterhouse 1		Slaughterhouse 2		Market 1		Market 2
	Animal*	Envir.**	Animal	Envir.	Pork	Envir.	Pork	Envir.
1A/NT	0	1	2	18	4	2	22	43
1A/O:5a	0	1	0	2	1	1	2	3
1A/O:5b	0	6	0	2	0	1	4	5
1A/O:6	0	1	0	0	0	0	0	0
1A/O:7	0	0	0	0	0	0	0	1
Total	0	9	2	22	5	4	28	52

*Tonsils and tongue swab; **environment.

A higher occurrence of Y. enterocolitica biotype 1A in the environment of production line 2 (slaughterhouse and market 2) was observed, with predominance of nontypeable strains (Table 1). Pork originated from this production line also presented a higher contamination by Y. enterocolitica biotype 1A, especially in relation to nontypeable strains (78.57%; 22/28). Production line 1 presented a lower contamination by biotype 1A; market 1 presented the lowest recovery of yersiniae with isolation of only 9 strains of Y. enterocolitica biotype 1A.

Research on virulence genes revealed, at electrophoresis, that positive strains presented a 454 bp band to the ail gene, 700 bp to virF, and 145 bp to the ystA gene. From the 122 strains of Y. enterocolitica biotype 1A, 77.05% were positive to at least one virulence gene, and 54.92% were positive to all of them (Table 2). Most of nontypeable strains were positive to all three virulence genes or just presented the virF gene. Y. enterocolitica 1A serotypes O:5a and O:5b presented a lower variation of virulence genes than nontypeable strains, with a high frequency of positivity to the virF, ail, and ystA genes. The serotypes O:6 and O:7 were negative to all genes analysed.

Table 2.

Virulence gene profiles generated by multiplex PCR in Yersinia enterocolitica 1A biotype.

	Virulence gene profile		1A/NT	1A/O:5a	1A/O:5b	1A/O:7	1A/O:6	Total
virF +	ail +	ystA +	44	7	16	—	—	67
virF −	ail +	ystA +	3	—	1	—	—	4
virF +	ail −	ystA +	1	—	—	—	—	1
virF +	ail +	ystA −	1	—	1	—	—	2
virF +	ail −	ystA −	17	—	—	—	—	17
virF −	ail −	ystA +	1	—	—	—	—	1
virF −	ail +	ystA −	2	—	—	—	—	2
virF −	ail −	ystA −	23	3	—	1	1	28
Total			92	10	18	1	1	122

PFGE genotyping resulted in 22 distinct pulsotypes varying from 50% to 84% of genetic similarity. Pulsotypes presented a greater genetic heterogeneity, as demonstrated by the dendrogram in Figure 1. Any clustering tendency among pulsotypes related to origin, isolation site, or even virulence profile was not observed. Persistent pulsotypes in sequential collects and samples were not detected.

Figure 1.

Dendrogram showing comparison of Y. enterocolitica biotype 1A strains through PFGE.

4. Discussion

From the six biotypes of Y. enterocolitica, biotype 1A is the most heterogeneous, and its most common serotypes are O:5, O:6,30, O:6,31, O:7,8, and O:10, as well as nontypeable strains [11]. It is a ubiquitous biotype that has been isolated from distinct types of environment, such as soil and various sources of water and food, including vegetables and animal products, and it was also isolated from different animal species [18, 27–29]. In this study, Y. enterocolitica biotype 1A was isolated from different environmental sites (wall, table, and floor) of swine slaughterhouses and markets and also from pork. Contamination of animal (tonsils and tongue) was detected in only one of the slaughterhouses studied and in a low percentage.

Serotype O:5 and nontypeable strains were the most prevalent among the samples analyzed, which is compliant with the literature [11]. On punctual collects, serotypes O:6 and O:7 strains were also detected. Persistency of the serotypes over the sequential collects, or their continuity among production lines was not observed. These facts, as well as the low frequency of animal contamination, suggest that the source of environmental contamination is probably external to the production line, such as employees or even water and other fomites. The ubiquitous nature of this biotype allows it to be carried to the food processing industry environment, thus contaminating the food intended for consumption and representing a risk to consumers health.

The genetic heterogeneity of pulsotypes also confirm the possibility of external contamination sources to the environment of the slaughterhouses and markets, since persistency of specific pulsotypes over the production lines or sequential collects was not detected. The diversity of biotype 1A PFGE profiles was expected and corroborates the literature that classifies this biotype as the most heterogeneous, with strains of the same serotype presenting considerable genetic diversity, whereas pathogenic pYV-bearing bioserotypes are usually considered relatively stable [11, 30, 31].

The characteristic avirulence of Y. enterocolitica biotype 1A strains is traditionally conditioned to the absence of important virulence genes, as well as to the high prevalence of this biotype strains in the environment and in healthy animals [11]. Nevertheless, the isolation of this biotype among clinical samples from diarrheic patients still intrigues many researchers as to the pathogenic potential of these strains. In the present study, plasmidial and chromosomal virulence genes were detected in environmental and pork strains of Y. enterocolitica biotype 1A.

From the virulence genes studied, plasmidial gene virF is considered rarely present in Y. enterocolitica biotype 1A strains [22]; it was detected, however, in 71.31% (87/122) of the analyzed strains. Zheng et al. [32] also reported a high frequency of the virF gene among biotype 1A yersiniae, which contradicts the findings of Bhagat and Virdi [22] and the typical classification of nonpathogenic biotype 1A that lacks plasmidial genes [9–11].

The chromosomal genes ail and ystA were also found with high frequency in the studied strains. The yst genes, which originate heat-stable enterotoxins, such as Yst-a and Yst-b, have been previously described in Y. enterocolitica biotype 1A strains [5, 32, 33], although it has been suggested that these genes may be nonfunctional in some biotype 1A strains [11]. Nevertheless, Singh and Virdi [33] reported that Yst-b can be produced in the ileum environment, thus suggesting that it can be an important virulence factor for Y. enterocolitica biotype 1A strains.

The ail gene has been described as a stable virulence marker that has a high correlation with virulent Y. enterocolitica [34]. For this reason, detection methods based on the ail gene have been developed [35, 36]. However, there have been previous reports of sporadic biotype 1A strains positive to ail-specific PCR, such as the present study [5, 21, 23, 37]. Therefore, if the use the of ail gene alone as a detection method for pathogenic Y. enterocolitica continues, there is risk of misidentification of pathogenic bioserotypes and the continuity of subnotification of virulent biotype 1A strains [23].

The present study reported an important contamination of the environment of swine slaughterhouses and markets by Y. enterocolitica biotype 1A. This contamination was not introduced by animal, as reported previously; it is probably due to external contamination from environment or carried by the employees. Even though the continuity of serotypes or pulsotypes over the production lines was not detected, the magnitude of market and pork contamination represents a risk to the consumers' health. This risk is confirmed and amplified by the high frequency of positive strains to the virulence genes virF, ail, and ystA, which can present pathogenic potential to humans.