Current methodologies and future direction of Campylobacter isolation and detection from food matrices, clinical samples, and the agricultural environment

Harrison, Lisa M.; Balan, Kannan V.; Hiett, Kelli L.; Babu, Uma S.

doi:10.1016/j.mimet.2022.106562

Cited by 7 publications

(9 citation statements)

References 91 publications

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“…CIDTs are easy to perform and give quick results, representing a critical improvement for clinical decision-making. However, by implementing these methods, the collection of isolates is no longer performed and has had a negative impact on public health surveillance in the detection of human clusters and the identification of potential sources [25].…”

Section: Discussionmentioning

confidence: 99%

Environmental dynamics of Campylobacter jejuni genotypes circulating in Luxembourg: what is the role of wild birds?

et al. 2023

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Campylobacter jejuni is the leading cause of bacterial gastroenteritis worldwide, but, unlike other foodborne pathogens, is not commonly reported as causing outbreaks. The population structure of the species is characterized by a high degree of genetic diversity, but the presence of stable clonally derived genotypes persisting in space and time, and potentially leading to diffuse outbreaks, has recently been identified. The spread of these recurring genotypes could be enhanced by wild birds, suspected to act as vectors for a wide range of microorganisms that can be transmissible to other animals or humans. This study assessed the genetic diversity of C. jejuni carriage in wild birds and surface waters to explore a potential link between these environments and the persistence over years of recurring lineages infecting humans in Luxembourg. These lineages corresponded to over 40 % of clinical isolates over a 4 year period from 2018 to 2021. While mainly exotic genotypes were recovered from environmental samples, 4 % of C. jejuni from wild birds corresponded to human recurring genotypes. Among them, a human clinical endemic lineage, occurring for over a decade in Luxembourg, was detected in one bird species, suggesting a possible contribution to the persistence of this clone and its multi-host feature. Whereas 27 % of wild birds were carriers of C. jejuni, confirming their role as spreader or reservoir, only three out of 59 genotypes overlapped with recurring human strains. While direct transmission of C. jejuni infection through wild birds remains questionable, they may play a key role in the environmental spreading of stable clones to livestock, and this issue merits further investigation.

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Section: Discussionmentioning

confidence: 99%

Environmental dynamics of Campylobacter jejuni genotypes circulating in Luxembourg: what is the role of wild birds?

et al. 2023

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“…However, culture-independent diagnostic methods, including mass-spectrometry, immunological detection methods, flow cytometry, or PCR are used to an increasing extent, which could lead to a lack of suitable reference genomes in future studies. Furthermore, these methods do not provide subsequent information for subtype analysis, molecular epidemiology, or for the detection of antibiotic resistances [ 10 ].…”

Section: Discussionmentioning

confidence: 99%

“…Most of the standard methods for detection of Campylobacter recommend incubation in selective enrichment broth [ 8 , 9 , 10 ]. However, enrichment cultures have some drawbacks: (i) the overgrowth of unwanted bacteria or missing of part of the Campylobacter populations; (ii) competition and fitness-based selection of part of the Campylobacter community to the detriment of others [ 11 , 12 ].…”

Section: Introductionmentioning

confidence: 99%

“…To avoid potential biases associated with enrichment culturing, passive-filtration methods (PFM) [ 13 ] can be applied that take advantage of the small shape and elevated motility of Campylobacter cells, inciting their passage through pores of filtration membranes while other bacteria are retained. For the identification of Campylobacter strains, microscopy and biochemical tests are the most common methods with confirmation by (multiplex) PCR [ 10 ]. Current molecular typing technologies, such as Multi-Locus Sequence Typing (MLST), Comparative Genomic Fingerprinting (CGF), or more recently, whole-genome sequencing, permit us to attribute groups of subtypes more and more tightly to specific hosts [ 14 , 15 , 16 ].…”

Section: Introductionmentioning

confidence: 99%

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Metagenomic Strain-Typing Combined with Isolate Sequencing Provides Increased Resolution of the Genetic Diversity of Campylobacter jejuni Carriage in Wild Birds

et al. 2023

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As the world’s leading cause of human gastro-enteritis, the food- and waterborne pathogen Campylobacter needs to be intensively monitored through a One Health approach. Particularly, wild birds have been hypothesized to contribute to the spread of human clinical recurring C. jejuni genotypes across several countries. A major concern in studying epidemiological dynamics is resolving the large genomic diversity of strains circulating in the environment and various reservoirs, challenging to achieve with isolation techniques. Here, we applied a passive-filtration method to obtain isolates and in parallel recovered genotypes from metagenomic sequencing data from associated filter sweeps. For genotyping mixed strains, a reference-based computational workflow to predict allelic profiles of nine extended-MLST loci was utilized. We validated the pipeline by sequencing artificial mixtures of C. jejuni strains and observed the highest prediction accuracy when including obtained isolates as references. By analyzing metagenomic samples, we were able to detect over 20% additional genetic diversity and observed an over 50% increase in the potential to connect genotypes across wild-bird samples. With an optimized filtration method and a computational approach for genotyping strain mixtures, we provide the foundation for future studies assessing C. jejuni diversity in environmental and clinical settings at improved throughput and resolution.

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“…[9][10][11] Foodborne cases of Campylobacter infection are primarily caused by raw milk, raw or undercooked poultry, and drinking water. 12,13 Enterohemorrhagic E. coli is associated with unpasteurized milk, undercooked meat, and fresh fruits and vegetables. 14 L. monocytogenes is found in unpasteurized milk products and various ready-to-eat foods and may thrive at refrigeration temperatures.…”

Section: Introductionmentioning

confidence: 99%

Nanomaterial-based biosensors for the detection of foodborne bacteria: a review

Zheng,

Jin,

Xiong

et al. 2023

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Current methodologies and future direction of Campylobacter isolation and detection from food matrices, clinical samples, and the agricultural environment

Cited by 7 publications

References 91 publications

Environmental dynamics of Campylobacter jejuni genotypes circulating in Luxembourg: what is the role of wild birds?

Environmental dynamics of Campylobacter jejuni genotypes circulating in Luxembourg: what is the role of wild birds?

Metagenomic Strain-Typing Combined with Isolate Sequencing Provides Increased Resolution of the Genetic Diversity of Campylobacter jejuni Carriage in Wild Birds

Nanomaterial-based biosensors for the detection of foodborne bacteria: a review

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