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Article

Prevalence, Diversity, and Virulence of Campylobacter Carried by Migratory Birds at Four Major Habitats in China

by
Shanrui Wu
1,
Ru Jia
2,
Ying Wang
1,
Jie Li
1,
Yisong Li
1,
Lan Wang
1,
Yani Wang
1,
Chao Liu
1,
Elena M. Jia
3,
Yihua Wang
2,
Guogang Zhang
2 and
Jie Liu
1,*
1
School of Public Health, Qingdao University, Qingdao 266073, China
2
Key Laboratory of Biodiversity Conservation of National Forestry and Grassland Administration, Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Beijing 100091, China
3
School of Science, Hong Kong University of Science and Technology, Hong Kong 999077, China
*
Author to whom correspondence should be addressed.
Pathogens 2024, 13(3), 230; https://doi.org/10.3390/pathogens13030230
Submission received: 15 February 2024 / Revised: 2 March 2024 / Accepted: 4 March 2024 / Published: 6 March 2024
(This article belongs to the Section Bacterial Pathogens)
Browse Figures
Versions Notes

Abstract

:
Campylobacter species, especially C. jejuni and C. coli, are the main zoonotic bacteria causing human gastroenteritis. A variety of Campylobacter species has been reported in wild birds, posing a potential avian–human transmission pathway. Currently, there has been little surveillance data on Campylobacter carriage in migratory birds in China. In the current work, fresh fecal droppings from individual migratory birds were collected at four bird wintering/stopover sites in China from May 2020 to March 2021. Nucleic acid was extracted and tested for Campylobacter with PCR-based methods. Overall, 73.8% (329/446) of the samples were positive for Campylobacter, demonstrating location and bird host specificity. Further speciation revealed the presence of C. jejuni, C. coli, C. lari, C. volucris, and an uncharacterized species, which all harbored a variety of virulence factors. Phylogenetic analysis performed on concatenated 16S rRNA-atpA-groEL genes elucidated their genetic relationship, demonstrating both inter- and intra-species diversity. The wide distribution and high diversity of Campylobacter spp. detected in migratory birds in China indicated potential transmission across territories. The existence of virulence factors in all of these species highlighted their public health importance and the necessity of monitoring and controlling Campylobacter and other pathogens carried by migratory birds.

1. Introduction

As one of the major global causes of diarrheal diseases, Campylobacter has been considered the most widespread zoonotic agent of human gastroenteritis in the world [1,2]. Campylobacter is also one of the most prevalent pathogens identified from foodborne disease in developed countries, and although epidemiological data are incomplete, Campylobacter infection has been detected to varying degrees in developing countries [3,4,5,6]. In its estimate of the worldwide burden of foodborne illnesses, the WHO estimated that foodborne Campylobacter spp. caused more than 95 million illnesses, 21,374 deaths, and nearly 2,142,000 DALYs10 in 2010 [7,8]. As is well known, the most prevalent species associated with campylobacteriosis are Campylobacter jejuni and Campylobacter coli. Notably, other Campylobacter species of clinical significance have been identified, including Campylobacter concisus, Campylobacter lari, Campylobacter upsaliensis [6], and Campylobacter ureolyticus [9,10]. In addition to common gastroenteritis, Campylobacter is also associated with a number of immunoreactive complications, such as Guillain-Barre syndrome and Miller-Fisher syndrome, as well as brain abscess, meningitis, bacteremia, septicemia, endocarditis, myocarditis, reactive arthritis, and clinical manifestations leading to reproductive tract complications, which often occur in immunocompromised people, such as the elderly and children [11,12,13].The important and extensive clinical significance of Campylobacter is being increasingly recognized.
Birds, especially migratory birds, have long played an important role in the spatial transmission of zoonosis diseases, e.g., avian flu [14]. Birds can indirectly spread pathogens via feces, by contaminating water, and by carrying ticks, etc. [15,16,17,18,19]. As a typical zoonotic bacterial pathogen, Campylobacter is widely detected and researched in wild and domestic animals, particularly poultry and livestock, such as chicken, pigs, cattle, sheep, and the corresponding food products [20,21,22,23]. A variety of migratory birds have also been found to be excellent vectors and reservoirs of Campylobacter [24,25,26]. There are nine migratory bird migration routes in the world, three of which pass through China. In other words, most of the land in China is on one of these important global bird migration routes [27]. However, little is known about pathogen carriage in the migratory birds in China.
Xizang, Qinghai, Heilongjiang, and Hebei are part of the most important breeding and stopover grounds for many migratory birds in China. In the current work, we investigated the prevalence and diversity of Campylobacter species in these regions and further characterized their virulence and genetic traits.

2. Materials and Methods

2.1. Sample Collection

A total of 446 fresh fecal dropping samples from migratory birds were collected at four bird wintering/stopover sites in China, namely Xingkai Lake in Heilongjiang, Cangzhou in Hebei, Longbao Reserve in Qinghai, and counties along the Yarlung Tsangpo River in Xizang from May 2020 to March 2021, preserved in the transport medium (0.9% NaCl, 0.2 g/L penicillin, 2 g/L streptomycin sulfate, 20% glycerol), and stored at −80 °C until testing.

2.2. Total Nucleic Acid Extraction

Nucleic acid was extracted with a Viral DNA/RNA Extraction kit (Tianlong Technology Co., LTD, Xi’an, China) or QIAamp Fast DNA Stool Mini Kit (Qiagen, Hilden, Germany) following the manufacturer’s instructions, with pretreatment as described previously [28]. External controls (Phocine herpesvirus and MS2 bacteriophage) were spiked into each sample to monitor the extraction and amplification efficiency. One extraction blank was included per batch of extractions to rule out laboratory contamination.

2.3. Detection and Speciation of Campylobacter spp.

PCR assays were adapted or modified from publications as appropriate or developed and validated as needed (Supplemental Table S1, with references and indications if the assay was modified or newly designed). TaqMan-probe-based real-time PCR targeting 23S rRNA and conventional 16S PCR followed by gel electrophoresis were used for detection of the Campylobacter genus [29]. Speciation was performed via PCR amplicon sequencing of 16S, atpA, and groEL (also known as cpn60) [30,31]. C. jejuni and C. coli were differentiated and quantified with species-specific qPCR targeting hipO and glyA, respectively [28].
The TaqMan probe-based PCR reaction contained 2× AgPath buffer (AgPath-IDTM one step RT-PCR kit, Thermo Fisher Scientific, Carlsbad, CA 92008, USA), 25× AgPath Enzyme mix, primers and probes at final concentrations of 900 nM and 250 nM, respectively, and template DNA. The qPCR cycling condition was set as 95 °C for 10 min, 45 cycles at 95 °C for 15 s, and 60 °C for 1 min.
The conventional PCR reaction included 2× Taq Plus Mater mix II (Vazyme, Nanjing, China), 400 nM forward and reverse primers, DNA template, and nuclease-free water. PCR was performed with the following conditions: initial denaturation at 95 °C for 3 min, 45 cycles at 95 °C for 15 s, 55~60 °C for 20 s (annealing temperature varied by target, see Table S1), and 72 °C for 60 s, and a final extension at 72 °C for 10 min. The PCR products were examined via gel electrophoresis, followed by amplicon sequencing (Sangon, Qingdao, China).

2.4. Detection of Anti-Microbial Resistance (AMR)

Samples positive for Campylobacter were tested for two Campylobacter specific ARGs with qPCR, i.e., gyrA T86I for C. jejuni resistance to fluoroquinolone and 23S A2075G for macrolide resistance in Campylobacter species (Supplemental Table S1) [29]. The qPCR conditions were the same as above.

2.5. Detection of Virulence Genes

The Virulence Factor Database (VFDB) was used to determine the consensus virulence genes among the different Campylobacter species, including C. jejuni, C. coli, C. lari, and C. volucris. Species-specific primers were designed or modified from publications [28,32] (Table S1). Seven known virulence genes (cdtA, cdtB, cdtC, cadF, ciaB, cheY, flaA) associated with Campylobacter toxin, adherence, invasion, and motility, respectively, were tested via PCR on C. jejuni, C. coli, C. lari, and C. volucris positives. VFDB was also used to predict the putative virulence-associated genes of the strain RM12651 (NCBI accession number CP059600), with an e-value cutoff set at 1 × 10−5, identity at 40%, and the query coverage at 50%. The genes identified were further compared with those from four Campylobacter species (C. jejuni—genome assembly: ASM1336377v1, ASM2434966v1; C. coli—genome assembly: ASM973039v1, ASM148384v1; C. lari—genome assembly: ASM824502v1, ASM1920v1, ASM81640v1; C. volucris—genome assembly: ASM434504V1, ASM824504v1) and classified into two categories, i.e., common among the 5 species or unique to RM12651. Four genes from the common set and three from the unique set were selected for PCR primer design and testing, with the same conditions as above.

2.6. Identification of Migratory Bird Types

The bird types observed were recorded during fecal dropping collection. For precise identification, the mitochondrial cytochrome oxidase subunit I gene (COI) was amplified with the primers specifically designed for birds [33] with modifications to expand the detection scope to accommodate the bird types in the current study. The amplicons were sequenced.

2.7. Statistical Analyses

A chi-square test or Fisher’s exact probability method was performed to compare the prevalence of Campylobacter detection and the presence of virulence genes between regions or migratory birds. SPSS software, version 26.0, was used for the analysis. Two-tailed p values were calculated, and values of 0.05 were considered statistically significant.

3. Results

3.1. Migratory Bird Types Included in the Current Study

Based on the observation during the sample collection, the bird populations in Heilongjiang, Xizang, and Qinghai were relatively unitary, i.e., predominantly Anser albifrons or Anser fabalis in Heilongjiang and Anser indicus in Qinghai and Xizang. A random selection of 146 samples was tested with COI PCR, and the sequencing results confirmed the previously recorded bird types. Hebei, on the other hand, had diverse species of migratory birds exclusively requiring COI determination. The migratory bird types identified included Anatidae, Laridae, Scolopacidae, Charadriidae, Recurvirostridae, Phalacrocoracidae, etc. (Table S2).

3.2. Prevalence of Campylobacter in Different Regions and Birds

A sample was considered Campylobacter-positive when either 23S rRNA qPCR was positive or the 16S rRNA amplicon yielded correct sequences. Campylobacter spp. was detected in 73.8% (329/446) of the fecal dropping samples. The detection in Heilongjiang (41/43, 95.3%) and Hebei (80/87, 92.0%) was higher than that in Xizang (171/266, 64.3%, p < 0.008) and Qinghai (37/50, 74.0%, p < 0.008). A subset of 168 samples was further subjected to speciation. As shown in Table 1, five species, including C. jejuni (22, 13.1%), C. coli (3, 1.8%), C. lari (13, 7.7%), C. volucris (5, 3.0%), and an unknown Campylobacter species (94, 56.0%), showing 100% identity to RM12651 (NCBI accession number CP059600), were identified with the combination of 16S rRNA, atpA, and groEL amplicon sequencing. Species-specific qPCRs for C. jejuni and C. coli were performed to further differentiate the two species and quantify the bacterial load of C. jejuni and C. coli to be in the magnitude of 106 and 105 per gram of fecal droppings, respectively. In addition, 20.8% (35/168) of the samples were not speciated or indistinguishable among C. novaezeelandiae, C. armoricus, C. peloridis, and C. volucris. C. jejuni/C. coli was mostly detected in Xizang (22/25), except for one C. jejuni isolate in Heilongjiang and two in Hebei. C. lari (10/13) and C. volucris (4/5) were mainly detected in Hebei. 16S rRNA, atpA, and groEL sequencing results all indicated an unknown Campylobacter species, matching the sequences of NCBI accession number CP059600 through BLAST. This unknown species has been reported in North American regions and was found to be the predominant Campylobacter in Anser fabalis/Anser albifrons of Heilongjiang and Anser indicus of Xizang and Qinghai in the current study (Table 1).

3.3. Phylogenetic Analysis across Campylobacter Species in the Four Habitats

Phylogenetic analysis based on concatenated 16S rRNA—atpA—groEL genes demonstrated diversity across Campylobacter species at different habitats. Based on the similarity to known species, the samples were divided into five groups, i.e., C. canadensis, C. jejuni, C. coli, C. volucris, and C. lari. Most of the Campylobacter identified in this study formed a distinct cluster, showing sequence similarity to RM12651 (NCBI accession number CP059600), which was closely related to C. canadensis. The unspeciated samples were grouped into one cluster separated from Campylobacter on the phylogenetic tree based on 16S alone (Figure S1). The sample No. 974, positive for the glyA gene, was more closely related to Campylobacter jejuni on the 16S phylogenetic tree but turned out to be clustered with Campylobacter coli based on the concatenated 16S rRNA—atpA—groEL gene (Figure 1 and Figure S1), which apparently improved the differentiation among species.

3.4. Detection of Virulence Genes in Known Campylobacter Species

Species-specific primers were designed for the interrogated virulence factors. The specificity of the assays was confirmed via PCR amplicon sequencing. All the samples carried at least one of the seven virulence genes, while all seven virulence genes were detected in at least one sample of the four Campylobacter species, i.e., C. jejuni, C. coli, C. lari, and C. volucris (Table S2; Figure 2). Of the 14 combinations (Figure 2), 36.4% (12/33) of the specimens possessed all seven virulence factors, six of which were positive for C. lari from Hebei. Among C. jejuni positives, the Campylobacter flagella motility factor genes flaA and cheY were positive in 14 (93.3%) and 13 (86.7%) samples, respectively. For toxin genes, 76.5% of C. jejuni positives tested positive for cdtA and cdtB, while only 23.5% were positive for cdtC. The adherence gene cadF and invasion gene ciaB were possessed by 70.6% and 80.0% of C. jejuni. Two of three C. coli tested positive for cdtA, cdtB, cheY, and flaA, while one was positive for cdtC and cadF. All C. coli positive samples tested positive for ciaB. The genes cdtA, cdtB, cdtC, cadF, ciaB, cheY, and flaA were detected in more than 81% of C. lari samples, while all carried flaA. Moreover, 50% of C. volucris samples were positive for cdtB and cdtC, 75.0% for cdtA and flaA, and 100.0% for cadF, ciaB, and cheY (Table S3).
Only one (4.5%, 1/22) of the C. jejuni positive samples was found to carry a gyrA 86I mutation, associated with fluoroquinolone resistance, and both were from Xizang. No 23S 2075G mutation associated with macrolide resistance was detected (n = 92).

3.5. Putative Virulence Determinants of Campylobacter sp. RM12651-like Samples

One hundred and forty-two genes in the genome of Campylobacter sp. RM12651 met the criteria based on VFDB, involved in exotoxin, adhesion, invasion, motility, LOS synthesis, and LpS synthesis (Table S4). It was worth noting that cytolethal distending toxin (CDT) was not found in the genome of RM12651. Compared to C. jejuni, C. coli, C. lari, and C. voluvris, 129 genes were common to the five species, while 13 genes were unique to the RM12651 genome. PCRs targeting the consensus virulence genes, i.e., cadF, ciaB, cheY, flaA, and three uniquely identified in RM12651, i.e., gluP, hlyB, and pgiB, were developed and tested on RM12651-like samples (Tables S4–S6). All 73 samples tested carried at least one of these genes (Figure 3). The detection rates of the seven genes were all above 72.0%, with cdaF, gluP, and pgiB in Xizang significantly higher than those in Qinghai (p < 0.016) possessing the same migratory bird type. The prevalence of pgiB in Qinghai was also lower than in Heilongjiang (Figure 3a, p < 0.016). As shown with the Venn diagrams of Figure 3b, most (38/73, 52.1%) of the samples were positive for all seven genes, covering all four areas of this study (Figure 3b)

4. Discussion

This study evaluated the prevalence, diversity, and virulence of Campylobacter from migratory birds in the habitats in Xizang, Qinghai, Heilongjiang, and Hebei. Campylobacter was widely detected in migratory birds in these regions, including the known pathogenic species (C. jejuni, C. coli, C. lari, and C. volucris), which demonstrated a location- or host-specific distribution. C. jejuni and C. coli were mainly found in Anser indicus in Xizang at 7.1% (19/266) and 1.1 (3/266) detection rates, respectively, while C. lari and C. volucris were mainly in Hebei at 21.3% (10/47) and 8.5% (4/47), respectively. C. lari was detected exclusively from Charadriiformes, including Chroicocephalus ridibundus, Numenius arquata, and Charadrius alexandrinus. Three of the five cases of C. volucris were from Phalacrocorax carbo, with the remaining two unknown. Due to the availability of the samples, 40.8% (182/446) samples were not tested further for 16S rRNA, which most likely underestimated the detection of Campylobacter and Campylobacter species. The overall Campylobacter prevalence in our study was higher than in other reports on wild birds from Beijing, China (11.0%), South Korea (6.0%), Santa Fe, Argentina (24.0%), and Sandhill Crane at the Central Platte River, USA (48.0%) [24,26,34,35]. However, these studies mostly focused on C. jejuni, C. coli, and C. lari, for which detection in our study was relatively lower.
RM12651-like Campylobacter sp. appeared to be the predominant Campylobacter species in the Anser genus. The detection rate of Campylobacter spp. in Heilongjiang (21/43, p < 0.008) was significantly higher than that in Xizang (50/266), Qinghai (14/50), and Hebei (8/87). On one hand, this reflected the differential distribution in bird species. Heilongjiang is mainly dominated by Anser albifrons/fabalis, whereas Xizang and Qinghai are dominated by Anser indicus, and Hebei, with a variety of birds, is dominated by Charadriiformes. On the other hand, this revealed the impact of the geographic location of Heilongjiang. Xingkai Lake is located in the center of the East Asian–Australian Migration Route, which enables increased contact with migratory birds from the United States, Canada, or other areas. This Campylobacter species was originally isolated from fecal samples of Canada geese in California, USA. Phylogenetic analyses of putative new taxa based on the atpA allele showed that 10 unknown isolates, including strain RM12651, clustered into a single branch, indicating the likelihood of a new Campylobacter species [24,36]. Our samples were clustered with RM12651 on the 16S rRNA, atpA, and groEL phylogenetic trees, which was most closely related to Campylobacter canadensis but separated from other known species. To our knowledge, this is the first report on RM12651-like Campylobacter outside of the Americas. A further genome-wide analysis is required to demonstrate the possible transmission pathways across continents and the evolutionary relationships. As little has been known about Campylobacter carriage in the migratory birds in China, interestingly but not surprisingly, a separate group of Campylobacter was also identified in the current work, indicating another potential emerging species.
The presence of virulence factors has been widely used to evaluate bacterial pathogenicity. At least one of the seven assayed virulence genes was carried by the Campylobacter positives interrogated. Cytolethal distending toxin (CDT), produced by Campylobacter, can cause the arrest of different cells, where its toxicity needs the complex of cdtA, cdtB, and cdtC [12]. All three toxin genes were detected in 36.4% (12/33) of the samples, with cdtC as the main limiting factor. Despite the fact that CDT was not predicted in the RM12651 genome, hlyB, a toxin-related gene with 45.8% identity to Escherichia coli, was detected in 72.6% of RM12651-like samples. CadF and flpA, two microbial surface components recognizing adhesive matrix molecules (MSCRAMMs), have been shown to be independently required to adhere to fibronectin and further deliver the Campylobacter infection antigen (Cia) effector proteins, which in turn are required to invade the host cell [37,38]. A high percentage (84.3%, 59/70) of the co-existence of ciaB and cadF genes was detected, including in the samples positive for RM12651-like Campylobacter. The connection among the motility, chemotaxis, and virulence of C. jejuni has long been appreciated, such as flaA and cheY [38,39]. The detection rate for these two genes was over 86%. Further work is needed to verify their pathogenicity.
The impact of bird migration on the transmission of pathogens has been extensively studies, mostly focusing on Avian Flu [40]. For Campylobacter, either wild birds or domestic poultry may serve as reservoirs through continuous propagation and toleration, with the absence of clinical signs of infection. Anser indicus mainly forages in farmland, mixed with black-necked cranes (Grus nigricollis) and Ruddy Shelduck (Tadorna ferruginea), where they feed on Poaceae Barnhart, such as the grains left after harvest, like barley and wheat [41]. According to satellite transmitters, Anser indicus flies south from Mongolia and Qinghai to spend the winter in the Yarlung Zangbo River basin of Xizang and India every autumn [42]. As an important corridor in the migration zone of the East Asian–Australian migratory bird migration route, Xingkai Lake is an essential stopover breeding site for cranes, Anatidae, such as Anser albifrons and Anser fabalis, and shorebirds [43,44]. Carex and rice sprouts from meadows, paddy fields, and mudflats are the main food source of Anser albifrons [45]. Anser albifrons and Anser fabalis tend to overwinter at Poyang Lake in Jiangxi and travel to Russia via Heilongjiang to breed. In contrast, gulls have a more diverse habitat, including the ocean, and often congregate at sites, such as landfills, to forage, with fish and insects as their main food source [46]. Chroicocephalus ridibundus, the main species in Hebei, usually departs from Yunnan every year and travels via Hebei to Russia to breed. Migratory birds can thus serve as asymptomatic vectors for the transmission of Campylobacter, as well as other pathogenic microorganisms. The existence of different birds, including poultry, and animals, either wild or domestic, in the same space, or sharing the same contaminated water source and other environmental elements may increase the chance of mutual infection and spreading. For humans, the highest risk of campylobacteriosis has been proven to come from the consumption of contaminated meat from chicken and other poultry [9]. Additionally, direct contact with animals, most likely domestic animals, or other fecal–oral routes can lead to the acquisition of Campylobacter. Humans also have a low infection dose of Campylobacter, at about 500. In the current study, the bacterial loads of C. jejuni and C. coli were quantified with qPCR to be 106 and 105 per gram of fecal droppings, respectively. Therefore, it is not surprising that exposure to contaminated wild bird droppings in playgrounds has been identified as a new environmental source of campylobacteriosis, especially for children [47]. The active long-term surveillance of Campylobacter in wild and domestic animals and the relevant environment is of great importance to understand the transmission pathways and to further provide guidance on cutting down the potential transmission from the wild sources to farms or directly to humans.
Based on the preliminary phylogenetic analysis (Figure 1), Campylobacter jejuni identified in this study clustered with the known isolate from a human source, while all the other species seemed to be closely related to the strains isolated from animal sources. A more vigorous sequence comparison is required to characterize their genetic relationships. Meanwhile, concerning the high prevalence and wide distribution of these Campylobacter species, particularly the uncharacterized RM12651-like species, surveillance in people with potential exposure would be of great significance for determine the clinical or public health relevance. With high sensitivity and specificity, multiplex real-time PCR can be developed based on the current findings and utilized for the quick screening of these Campylobacter species in humans, domestic animals, and the environment.
The main limitation of the current study is that bacterial culture was not feasible because of the use of antibiotics during sample collection and storage as the standard procedure for avian flu studies. Therefore, similar to a large number of studies using molecular methods, which do not discriminate the viability of the pathogens, PCR detection alone may overestimate the potential health risk. Moreover, this has hindered the genomic analysis of the uncharacterized RM12651-like species. Instead, metagenomic sequencing is ongoing with the intention to confirm its relationship with the RM12651 strain. The lack of isolates also prevented us from characterizing the antimicrobial resistance, as it has been cumbersome to interpret the detection of ARGs in complexed specimens [29]. However, we were able to interrogate the Campylobacter-specific AMR targets associated with fluoroquinolone and macrolide resistance, respectively. Fluoroquinolones, aminoglycosides, and macrolides are the most commonly used drugs for the treatment of human campylobacteriosis. These antibiotics are also frequently applied to food animals, such as poultry, to control bacterial infections on farms to improve the animals’ growth [32,48,49]. The potential role of migratory birds in the transfer of antibiotic resistance genes and antibiotic-resistant bacteria has gradually attracted attention [50,51,52,53], including drug resistant Campylobacter. Another limitation was that temporal variation and seasonality of Campylobacter carriage by migratory birds were not evaluated due to the availability of the samples. Studies have shown the detection of certain pathogens associated with the seasonal migration of wild birds or animals, such as highly pathogenic avian influenza H5N8 [40] and Kyasanur forest disease virus [54]. Such information would improve the targeted prevention and control of diseases.
A further assessment and investigation of health risks resulting from the carriage of Campylobacter, in particular emerging species, and other pathogens by migratory birds is needed. Once confirmed, appropriate measures, such as plant-mediated biofilters [55], may be taken to attenuate these bacteria in the corresponding environments with a one health approach.

Supplementary Materials

The following supporting information can be downloaded at: https://www.mdpi.com/article/10.3390/pathogens13030230/s1, Table S1: Primer sequences used in this study [2,29,31,32,36,56,57]; Table S2: Distribution of Campylobacter detected in different migratory bird species at the four habitats; Table S3: Detection of virulence genes in the five Campylobacter species; Table S4: Presumptive RM12651 virulence genes identified by BLAST analysis of protein sequences. Subject sequences are predominantly from C. jejuni, C. coli, C. lari, and C. volucris (see Materials and Methods); Table S5: Presumptive RM12651 virulence genes shared with C. jejuni, C. coli, C. lari, and C. volucris; Table S6: Presumptive RM12651 virulence genes unique to C. jejuni, C. coli, C. lari, and C. volucris; Figure S1: Phylogenetic analysis based on the 16S rRNA gene in different habitats and migratory birds.

Author Contributions

Conceptualization, J.L. (Jie Liu) and G.Z.; methodology, S.W., R.J., J.L. (Jie Li), Y.L. and L.W.; Software, Y.L.; validation, S.W.; formal analysis, S.W. and J.L. (Jie Liu); investigation, S.W., R.J., Y.W. (Ying Wang), J.L. (Jie Li), L.W., Y.W. (Yani Wang), C.L., E.M.J. and Y.W. (Yihua Wang); resources, G.Z. and Y.W. (Yihua Wang); data curation, S.W. and J.L. (Jie Liu); writing—original draft preparation, S.W. and J.L. (Jie Liu); writing—review and editing, S.W., R.J., Y.W. (Ying Wang), J.L. (Jie Li), Y.L., L.W., Y.W. (Yani Wang), C.L., E.M.J., Y.W. (Yihua Wang), G.Z. and J.L. (Jie Liu); supervision, J.L. (Jie Liu); project administration, J.L. (Jie Liu); funding acquisition, G.Z. and J.L. (Jie Liu). All authors have read and agreed to the published version of the manuscript.

Funding

This research was funded by the National Natural Science Foundation of China (No. 32070530 to G.Z.), National Key Research and Development Program of China (No. 2021YFC0863400 to J.L. (Jie Liu)), and National Natural Science Foundation for Youth (No. 32100002 to Y.L.).

Institutional Review Board Statement

Not applicable.

Informed Consent Statement

Not applicable.

Data Availability Statement

The sequences generated and presented in this study have been deposited in NCBI GenBank, with the accession numbers PP333242 through PP333389 assigned. The information for the sequences used for virulence factor prediction is presented in the Supplementary Material. The raw data are available upon request from the corresponding author.

Acknowledgments

The authors would like to thank Yuxin Zheng from Qingdao University, China, for his valuable guidance and support, the staff from the Chinese Academy of Forestry that were involved in fecal sample collection and transportation, and HuanWan Testing Consulting Co., Ltd., Qingdao, China, for assisting with sample treatment.

Conflicts of Interest

The authors declare no conflicts of interest. The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript; or in the decision to publish the results.

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Pathogens 13 00230 g001
Figure 1. Phylogenetic analysis based on the 16S rRNA—atpA—groEL gene in different habitats and migratory birds. Fasttree was used to construct the tree. Helicobacter was used as an outgroup. The figure was prepared with iTOL (Interactive Tree of Life). Different colors in the two columns represent different regions and birds, respectively. The Bootstrap value is displayed only when it was <0.7.
Figure 1. Phylogenetic analysis based on the 16S rRNA—atpA—groEL gene in different habitats and migratory birds. Fasttree was used to construct the tree. Helicobacter was used as an outgroup. The figure was prepared with iTOL (Interactive Tree of Life). Different colors in the two columns represent different regions and birds, respectively. The Bootstrap value is displayed only when it was <0.7.
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Figure 2. Upset of Campylobacter (C. jejuni, C. coli, C. lari, C. volucris) with respect to the detection of different virulence genes.
Figure 2. Upset of Campylobacter (C. jejuni, C. coli, C. lari, C. volucris) with respect to the detection of different virulence genes.
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Figure 3. Virulence genes detected in RM12651-like Campylobacter sp. (a) Prevalence of virulence-associated genes predicted from the Campylobacter Sp. RM12651 genome at the three sites. ** means p < 0.05; *** means p < 0.005. Hebei was not shown due to the small sample size of RM12651-like Campylobacter. (b) Venn diagram of the distribution of the virulence genes.
Figure 3. Virulence genes detected in RM12651-like Campylobacter sp. (a) Prevalence of virulence-associated genes predicted from the Campylobacter Sp. RM12651 genome at the three sites. ** means p < 0.05; *** means p < 0.005. Hebei was not shown due to the small sample size of RM12651-like Campylobacter. (b) Venn diagram of the distribution of the virulence genes.
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Table 1. Distribution of Campylobacter species at the four habitat sites.
Table 1. Distribution of Campylobacter species at the four habitat sites.
Campylobacter SpeciesDetection Rate16S IdentityRegion
Xizang (n = 82)Qinghai (n = 14)Heilongjiang (n = 25)Hebei (n = 47)
Campylobacter sp. (RM12651)94 (56.0%)100.0 (100.0, 100.0)5114218
C. jejuni #22 (13.1%)100.0 (99.8–100.0)19-12
C. coli #3 (1.8%)100.0 (NA)3---
C. lari13 (7.7%)100.0 (99.8–100.0)3--10
C. volucris5 (3.0%)100.0 (99.8–100.0)1--4
C. novaezeelandiae/armoricus/peloridis/volucris *8 (4.8%)100.0 (99.7–100.0)---8
Uncultured bacterium clone *17 (10.1%)99.6 (97.3–100.0)4 13
Others10 (6.0%)97.5 (96.6–98.2)5 32
* Indistinguishable with 16S rRNA, atpA, or groEL sequencing. # One C. coli isolate was mixed with Campylobacter sp. (RM12651); three C. jejuni isolates were mixed with Campylobacter sp. (RM12651). NA: Not applicable.
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Wu, S.; Jia, R.; Wang, Y.; Li, J.; Li, Y.; Wang, L.; Wang, Y.; Liu, C.; Jia, E.M.; Wang, Y.; et al. Prevalence, Diversity, and Virulence of Campylobacter Carried by Migratory Birds at Four Major Habitats in China. Pathogens 2024, 13, 230. https://doi.org/10.3390/pathogens13030230

AMA Style

Wu S, Jia R, Wang Y, Li J, Li Y, Wang L, Wang Y, Liu C, Jia EM, Wang Y, et al. Prevalence, Diversity, and Virulence of Campylobacter Carried by Migratory Birds at Four Major Habitats in China. Pathogens. 2024; 13(3):230. https://doi.org/10.3390/pathogens13030230

Chicago/Turabian Style

Wu, Shanrui, Ru Jia, Ying Wang, Jie Li, Yisong Li, Lan Wang, Yani Wang, Chao Liu, Elena M. Jia, Yihua Wang, and et al. 2024. "Prevalence, Diversity, and Virulence of Campylobacter Carried by Migratory Birds at Four Major Habitats in China" Pathogens 13, no. 3: 230. https://doi.org/10.3390/pathogens13030230

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