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Campylobacter

Campylobacter is a genus of Gram-negative, spiral-shaped bacteria that are a common cause of foodborne illness worldwide.
These bacteria are typically transmitted through the consumption of contaminated food or water, and can lead to gastrointestinal symtoms such as diarrhea, abdominal pain, and fever.
Campylobacter species are one of the most frequently reported bacterial causes of gastroenteritis, and research is ongoing to better understand their epidemiology, detection, and prevention.
Leveraging AI-driven platforms like PubCompare.ai can help streamline Campylobacter research and improve reproducibility by locating the best protocols from scientific literature, preprints, and patents.

Most cited protocols related to «Campylobacter»

We have expanded the Reference Gene Catalog8 (link) to include genetic elements related to stress response and virulence genes; these expansions can be visualized in the Reference Gene Catalog Browser (https://www.ncbi.nlm.nih.gov/pathogens/refgene/). One reason we expanded AMRFinderPlus is to understand the linkages between AMR genes and stress response and virulence genes in food-borne pathogens; thus, the stress response and virulence genes included in the Reference Gene Catalog are composed primarily of E. coli-related genes derived primarily from González-Escalona et al.23 (link) as well as BacMet24 (link), but also have been supplemented by manual curation efforts for other taxa. Stx gene nomenclature adopts the system of Scheutz et al.25 (link) and the intimin (eae) gene nomenclature uses existing designations in the literature26 (link),27 (link). Genes are incorporated only if there is literature supporting the function of that protein or closely related sequences that meet the identification criteria. As a major focus of our work is to improve NCBI’s Pathogen Detection system16 (link), we excluded genes that belonged to organisms not deemed clinically relevant. To remove ‘housekeeping’ proteins that were universally found in one or more taxa in the Pathogen Detection system, sequences were not included if they were found at a frequency of greater than 95% in a survey of 58,531 RefSeq bacterial assemblies belonging to any of the following species: Acinetobacter, Campylobacter, Citrobacter, Enterococcus, Enterobacter, Escherichia/Shigella, Klebsiella, Listeria, Salmonella, Staphylococcus, Pseudomonas, and Vibrio. If genes of particular interest in foodborne pathogens exceeded this threshold, they were excluded in the taxa where they appear to be nearly universal (see “Identifying genomic elements” below). In addition, genes with misidentified functions, such as copper-binding proteins that use copper as a co-factor yet do not confer resistance to copper, also were excluded. As we continue to expand the database, we use similar criteria when adding genes.
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Publication 2021
Acinetobacter Bacteria Bears Campylobacter Citrobacter Copper copper-binding protein Enterobacter Enterococcus Escherichia Escherichia coli factor A Food Gene Components Genome Components Klebsiella Linkage, Genetic Listeria Operator, Genetic Pathogenicity Proteins Pseudomonas Salmonella Shigella Staphylococcus Vibrio Virulence
For evaluation of assay performance, genomic materials or reference strains were obtained from American Tissue and Culture Collection (ATCC, Manassas, VA) or BEI resources for adenovirus 1, 5, 40 and 41, human cytomegalovirus, enterovirus 71, Epstein-Barr virus, Aeromonas hydrophila, Bacteroides fragilis, Campylobacter coli, Campylobacter upsalensis, Campylobacter hyointestinalis, Campylobacter jejuni, Helicobacter pylori, Listeria monocytogenes, Mycobacterium tuberculosis, Plesiomonas shigelloides, Salmonella enterica, Vibrio parahaemolyticus, Yersinia enterocolitica, Blastocystis hominis, Cryptosporidium hominis, Cryptosporidium meleagridis, Schistosoma mansoni. Cryptosporidium parvum and Encephalitozoon intestinalis were purchased from Waterborne Inc. (New Orleans, LA). PCR amplicons were generated from the relevant positive clinical samples for Ancyclostoma duodenale, Necator americanus, Strongyloides stercoralis, Cyclospora cayetanensis, Cystoisospora belli, and Enterocytozoon bieneusi. For comparison between stool and swab (FLOQSwabs; Copan Italia, Brescia, Italy), 129 consecutive swab samples were collected from children under five admitted for acute diarrhea in Haydom Lutheran Hospital, Tanzania. A matched stool sample from the same patient was obtained as soon as feasible within the same day. Raw stool samples were transported with a cold chain to the lab within 6 hours and stored at -80°C until testing. Swabs were stored at room temperature until testing. For comparison between different extraction methods and validation of the newly developed qPCR assays on clinical samples, we chose 246 archived stool samples collected in Tanzania, Bangladesh, Nepal, Pakistan, and India through the MAL-ED project (the Etiology, Risk Factors, and Interactions of Enteric Infections and Malnutrition and the Consequences for Child Health and Development [6 (link)]) in order to obtain specimens positive for 30 diverse enteropathogens. All sites including Haydom Global Health Institute, Tanzania, Aga Khan University, Pakistan, Armed Forces Research Institute of Medical Sciences, Thailand, International Centre for Diarrhoeal Disease Research, Bangladesh, Christian Medical College, India, received ethical approval from their respective governmental, local institutional, and collaborating institutional ethics review boards. Written informed consent was obtained from the parent or guardian of every child.
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Publication 2016
Adenovirus Infections Aeromonas hydrophila Bacteroides fragilis Biological Assay Blastocystis hominis Campylobacter Campylobacter coli Campylobacter hyointestinalis Campylobacter jejuni Child Children's Health Cryptosporidium Cryptosporidium parvum Cyclospora Diarrhea Encephalitozoon intestinalis Enterocytozoon bieneusi Enterovirus Infections Epstein-Barr Virus Feces Genome Helicobacter pylori Human Herpesvirus 5 Infection Legal Guardians Listeria monocytogenes Malnutrition Military Personnel Mycobacterium tuberculosis Necator americanus Parent Patients Plesiomonas shigelloides Salmonella enterica Schistosoma mansoni Strains Strongyloides stercoralis Tissues Vibrio parahaemolyticus Yersinia enterocolitica
Four of the most common foodborne pathogen species are Salmonella Enterica, Listeria Monocytogenes, Escherichia coli and Shigella, and Campylobacter. From SRA, we randomly selected 5500 read sets from these species sequenced on Illumina machines, sorted them by number of bases in reads, and dropped 250 runs each with lowest and highest base counts. The remaining 5000 reads sets used as the random set have 3306 Salmonella, 428 Listeria, 773 Escherichia, 148 Shigella, and 345 Campylobacter. These sets were used to test the contiguity of assemblies. Runs for the random set were done in an uncontrolled environment on compute farm. We note that the CPU times reported by the compute farm (data not shown) on these 5000 read sets corroborate the run time performance presented in Table 1.
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Publication 2018
Campylobacter Escherichia Escherichia coli Listeria Listeria monocytogenes Pathogenicity Salmonella Salmonella enterica Shigella
The cgMLST scheme was validated by identification of the 1,343 loci in 1,574 draft clinical C. jejuni (1,349) and C. coli (225) genomes, obtained from Europe and North America, available at pubmlst.org/campylobacter (Tables S3 and S5). These draft genome assemblies were chosen such that each had a total length of 2 Mb or less and fewer than 500 contigs. These criteria were instituted to minimize mixed cultures and poor-quality sequencing. Allele sequences of the cgMLST loci were automatically scanned, sequences were tagged, and alleles were assigned and incorporated into the sequence definition database allele library, using the BIGSdb autotagger facility. In a further validation step, the analysis was extended to include an additional 1,371 (total, 2,945) similarly chosen C. jejuni (718) and C. coli (653) isolates from animal and environmental sources available in the PubMLST database (Table S5).
The extent to which the cgMLST scheme accurately identified variation among genomes obtained from C. coli isolates belonging to clades 1, 2, and 3 was assessed by means of a neighbor-joining tree of seven-locus MLST concatenated-nucleotide data, reconstructed using MEGA 5.1 software (38 (link)), and by comparison with reference isolates (see Table S2 in the supplemental material). Clade 1 C. coli isolates are most commonly isolates from agricultural and clinical sources, whereas clades 2 and 3 are more frequently found in riparian environments (4 (link)).
The potential of this cgMLST scheme to distinguish potential outbreak isolates was investigated by comparison of 23 genomes obtained from a geographically isolated human population and 59 contemporaneous clinical C. jejuni genomes from Oxfordshire, UK, which had been previously analyzed by seven-locus MLST and wgMLST (13 (link)). Core-genome MLST types (cgST) were assigned to allelic profiles that had up to 100 missing alleles. Missing alleles were replaced in the profile by an “N.” A cgST was added to a single-linkage group if it was linked with at least one other member of that group with less than or equal to the threshold number of allelic differences, where the value N matched any other locus. Core genome STs were automatically assigned to single-linkage clusters, comprising isolates that differed at fewer than 5, 10, 25, 50, 100, or 200 cgMLST loci, as implemented in BIGSdb version 1.14.0. These allele-based isolate clusters were visualized in a minimum spanning tree using PHYLOViZ (39 (link)) and compared with those observed by phylogenetic analysis of the concatenated allele sequences of the 1,343 core loci.
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Publication 2017
Alleles Animals Campylobacter DNA Library Genome Homo sapiens Nucleotides Trees
An extensive literature review was conducted to identify studies (of designs presented above) that estimate ascertainment or reporting rates for salmonellosis and campylobacteriosis in European Union Member States (MS), plus European Free Trade Area (EFTA) countries Iceland, Norway and Switzerland and all other OECD countries. Articles were considered relevant if they: measured the sensitivity of reporting or reported the rate of UA, UR or UE; reported MFs, measured a new incidence or prevalence of infection from which a MF could be derived; or used any alternative methodology to correct surveillance or notification data. To identify appropriate studies, a literature review for each disease (salmonellosis and campylobacteriosis) and each pathogen (Salmonella spp. and Campylobacter spp.) was conducted in PubMed using the search terms: burden, cost-of-illness, cost of disease, cost-effectiv*, cost-analys*, cost-benefit, cost-utility, disability-adjusted, mathematical model*, multiplication factor*, multiplier*, outbreak*, prospective stud*, quality of life, quality-adjusted, serological stud*, serological survey*, serosurveillance, sero-surveillance, seroprevalence, statistical model*, telephone (*denotes any ending to the search term); linked by 'OR’. The search was restricted to articles written in English and to the years 1990–2011 since surveillance systems, reporting protocols and epidemiological patterns may have been different in the years preceding 1990, hence MFs would be less appropriate for adjusting current surveillance and notification data.
Following identification of these studies, MFs were either taken directly from the literature or derived where the proportion of underestimated, under-ascertained, or underreported cases was known (MF = 100/(percentage reported or ascertained or estimated), Figure 
1B). MFs for salmonellosis and campylobacteriosis were compared to gain an understanding of variation between and within countries when using different methods to estimate UR and UA.
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Publication 2014
Campylobacter Disabled Persons Europeans Hypersensitivity Infection Infection, Campylobacter pathogenesis Salmonella Salmonella Food Poisoning

Most recents protocols related to «Campylobacter»

All Campylobacter strains were examined using the uniplex PCR technique for VirB11, ciaB and iam virulence genes, which facilitate the invasion of Campylobacter inside host cells. Additionally, tetA and BlaOXA-61 antibiotic resistance genes for tetracyclins and extended-spectrum β-lactamases, respectively, were detected in all Campylobacter strains. In Supplementary Table 1, the primer sequence, cycle conditions, and predicted amplicon size are shown. Both PCR and electrophoresis were carried out as previously mentioned. Saline served as the negative control, and C. jejuni ATCC 33,560 and C. coli ATCC 33,559 served as the positive controls. 
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Publication 2023
Antibiotic Resistance, Microbial Campylobacter Cells Electrophoresis Genes Oligonucleotide Primers Saline Solution Strains Tetracycline Trientine Virulence
All biochemically verified isolates were subjected to PCR analysis for the detection of the 23S rRNA gene, which revealed the presence of thermotolerant Campylobacter spp., and then for the identification of the species, two differentiation genes (mapA for C. jejuni and ceuE gene for C. coli) were used. The QIAamp DNA Mini kit (Qiagen, Germany, GmbH) was used to extract DNA in accordance with the manufacturer's instructions. Briefly, 200 µl of the sample suspension was treated at 56 °C for 10 min with 10 µl of proteinase K and 200 µl of lysis solution. Then, 200 µl of 100% ethanol was added to the lysate after incubation. After that, the sample was washed and centrifuged in accordance with the manufacturer's instructions with the help of 100 µl of elution buffer, and DNA was extracted.
The oligonucleotide primers used in this study were provided by Metabion (Germany) (supplementary table 1). A 25-µl reaction containing 12.5 µl of Emerald-Amp Max PCR Master Mix (Takara, Japan), 1 µl of each primer at a 20 pmol concentration, 5.5 µl of water, and 5 µl of DNA template was used. Thermal cycler 2720 from Applied Biosystems was used to perform the reaction.
The PCR products were separated using 5 V/cm gradient electrophoresis on a 1.5% agarose gel (Applichem, Germany, GmbH) in 1 × TBE buffer at room temperature. Each gel slot had 20 µl of the product for gel analysis. The fragment sizes were calculated using the Generuler 100 bp ladder (Fermentas, Germany) and the Gelpilot 100 bp ladder (Qiagen, Gmbh, Germany). A gel documentation system (Alpha Innotech, Biometra) took pictures of the gel, and computer software was used to analyze the data.
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Publication 2023
Buffers Campylobacter Electrophoresis, Agar Gel Endopeptidase K Ethanol Genes Oligonucleotide Primers Ribosomal RNA Genes Thermotolerance Tris-borate-EDTA buffer
This study was conducted in Damietta Governorate on the Egyptian Mediterranean coast (northern east Nile Delta), Egypt through the period from October 2021 to March 2022. A total of 200 cloacal swabs were collected from migratory and broiler chicken birds. Broiler chickens were selected from poultry farms and live bird markets near which the migratory birds were hunted at the similar time points. One hundred samples were obtained from migratory birds and 100 from broiler chickens; 50 from 5 poultry farms (10 for each farm) with deep litter system and 50 from 3 live bird markets located in different regions inside Damietta Governorate. Five broiler poultry farms were chosen on the basis of their owners’ willingness to permit the samples collection. Broiler chicken birds from the farms and live bird markets were selected randomly. The map of Damietta Governorate was constructed to highlight the location of the selected broiler chicken farms and live bird markets in relation to the rest of Damietta (Supplementary Fig. 9). The migratory birds that were found near to the examined farms and live bird markets were trapped by net traps, sampled, marked (to ensure that each bird was only sampled once) and photographed to detect its species. The cotton swabs were aseptically collected on 2 ml of Bolton broth (Oxoid, UK) then labeled and transported within 1 h in an ice box at 4 °C to the Reference Laboratory for Veterinary Quality control on Poultry production to perform further examinations. All samples were incubated at 42 °C for 48 h under microaerophilic conditions. Isolation and identification of Campylobacter spp.
Each enriched sample was streaked onto modified charcoal cefoperazone deoxycholate agar (Oxoid, UK) with antibiotic solution (cefoperazone sodium salt; 0.032 g, amphotericin B; 0.01 g and water; 5 ml) and incubated at 42 °C for 48 h. The suspected colonies were identified by morphological characteristics and Gram staining [45 ]. The suspected isolates were subjected to standard biochemical procedures, including tests for hippurate, acetate hydrolysis and catalase [46 ].
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Publication 2023
Acetate Agar Amphotericin B Antibiotics Aves Campylobacter Catalase Cefoperazone Charcoal Chickens Deoxycholate Enterobacter Fowls, Domestic Gossypium Hartnup Disease hippurate Hydrolysis isolation Physical Examination Sodium, Cefoperazone Specimen Collection
The in vitro susceptibility of all confirmed Campylobacter strains was determined by using the disc diffusion method on Mueller–Hinton agar (Oxoid, UK) according to the guidelines of the Clinical and Laboratory Standards Institute (CLSI) [47 ]. Antimicrobial agent selection was based on the importance for both human and veterinary fields in addition to their antimicrobial mechanisms. Nine antibiotics belonging to five classes were selected. They included penicillin (AX; 20 μg and AM; 10 μg), macrolides (E; 15 μg), aminoglycosides (S; 10 μg and AK; 30 μg), tetracyclines (TE; 30 μg and DO; 30 μg), fluoroquinolones (NOR; 10 µg and CIP; 5 μg). All antimicrobial agents used in this study were purchased from Oxoid (England). C. jejuni ATCC 33,560 and C. coli ATCC 33,559 were used as control strains. MDR strains of Campylobacter are those that are resistant to three or more different classes of antimicrobials. Additionally, MARI for all Campylobacter isolates was calculated using the formula a/b (where "a" represents the number of antimicrobials to which an isolate was resistant and "b" represents the overall number of antimicrobials to which the isolate was exposed) [48 ].
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Publication 2023
Agar Aminoglycosides Antibiotics, Antitubercular Campylobacter Clinical Laboratory Services Diffusion Fluoroquinolones Homo sapiens Macrolides Microbicides Penicillins Strains Susceptibility, Disease Tetracyclines
STs were deduced from the genome assemblies using mlst (v2.16.1; https://github.com/tseemann/mlst) and assigned to pre-defined CCs on PubMLST [40 (link)] (https://pubmlst.org/campylobacter). The same database was used to calculate core-genome MLST (cgMLST) (Oxford scheme) on PubMLST [40 (link)]. The relationship between STs, phenotypic resistance, seasonality and the presence of pTet plasmid was assessed using Fisher’s exact test (GraphPad Prism 9.1.2). Source attribution patterns were assigned based on ST–ecotype associations described in recent publications [41–43 (link)]. Gene annotation was carried out from the draft assemblies using Prokka v.1.13 [44 (link)]. The presence of plasmids or prophages was inferred from the assemblies using MOB-suite v.2.0.1 [45 (link)]. The predicted plasmid sequences were used as queries in blastn with threshold values set to >80 % coverage and >95 % identity. The sequences of accession numbers CP017866 and CP014746 were used to define the predicted sequences as pTet and pVir, respectively. Pan-genome analyses were carried out using Roary v.3.12.0 [46 (link)] with an amino acid identity cut-off of 95 % and splitting homologous groups containing paralogues into groups of true orthologues. A summary of the pan-genome composition and visualization of gene diversity is provided in Fig. S1(a–c), available with the online version of this article.
In parallel, whole-genome SNP (wgSNP)-based alignments were built from trimmed reads using the Snippy v.4.3.6 pipeline (https://github.com/tseemann/snippy). The closed genome of strain C. jejuni subsp. jejuni NCTC 11168 (GenBank assembly accession no. GCA_000009085.1) was used as a reference in read mapping. Areas of putative recombination were removed from the resulting alignment using Gubbins v.2.2.0 [47 (link)] and default settings (five iterations and >3 base substitutions to identify a recombination event). Maximum-likelihood phylogenies were obtained from the recombination-removed alignments using the tree building option FastTree v2.1.4 [48 (link)]. The core-genome phylogeny was visualized using iTOL [49 (link)] and the pan-genome genes calculated in Roary were displayed alongside the recombination-removed phylogenetic tree using Phandango [50 (link)] (https://jameshadfield.github.io/phandango). Virulence gene detection was carried out using ABRicate (version 0.8.10; https://github.com/tseemann/abricate) equipped with VFDB (Virulence Factor Database) [51 (link)]. Hits with less than 80 % identity or coverage were filtered out of the analysis.
The PubMLST C. jejuni database was screened for the major flagellin protein, FlaA (encoded by the flaA gene). All 2058 deposited C. jejuni sequences classified as CC-257 (as of November 4th 2022) were searched for the presence of the flaA sequence by blastn [NCBI, National Institutes of Health (NIH)] analysis using the DNA sequence from C. jejuni strain NCTC 11168 as reference. Presence of the gene was determined by >90 % alignment and identity with the query sequence (E value=0). Finally, the presence of type VI secretion system (T6SS) genes, encoding a total of 13 core components (TagH, TssA–TssG, TssI–TssM), was assessed using previously published reference sequences [52 (link)] and the blastn tool. The presence of genes was defined as DNA identity and coverage of ≥90 %.
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Publication 2023
Amino Acids Campylobacter Ecotype Flagellin Gene Annotation Genes Genetic Diversity Genome Phenotype Plasmids prisma Prophages Proteins Recombination, Genetic Strains Trees Type VI Secretion Systems Virulence Virulence Factors

Top products related to «Campylobacter»

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The CampyGen is a compact and self-contained gas generator that produces a microaerophilic atmosphere suitable for the culture of Campylobacter species. It is designed to provide a controlled environment for the growth of these fastidious organisms in the laboratory setting.
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Bolton broth is a culture medium used for the enrichment and cultivation of microorganisms, particularly Campylobacter species. It is designed to support the growth and recovery of these organisms from various samples. The formulation of Bolton broth provides the necessary nutrients and growth factors required by Campylobacter species.
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The QIAamp DNA Mini Kit is a laboratory equipment product designed for the purification of genomic DNA from a variety of sample types. It utilizes a silica-membrane-based technology to efficiently capture and purify DNA, which can then be used for various downstream applications.
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Campylobacter selective supplement is a product designed to assist in the isolation and cultivation of Campylobacter species from clinical and food samples. It contains a combination of antimicrobial agents that inhibit the growth of competing organisms, allowing for the selective growth of Campylobacter.
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Defibrinated horse blood is a laboratory reagent used in various microbiological and diagnostic applications. It is prepared by collecting horse blood and removing the fibrin, resulting in a liquid blood product that can be used for culturing microorganisms, performing blood typing, and other laboratory procedures. The core function of defibrinated horse blood is to provide a reliable source of animal-derived blood for in vitro testing and analysis.
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Campylobacter growth supplement is a specialized media formulation designed to support the growth and cultivation of Campylobacter species in a laboratory setting. It provides essential nutrients and growth factors required for the optimal development of these fastidious bacteria.
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Modified charcoal-cefoperazone deoxycholate agar (mCCDA) is a culture medium used for the selective isolation and identification of Campylobacter species from food and environmental samples. The agar contains charcoal, cefoperazone, and deoxycholate, which inhibit the growth of competing microorganisms and facilitate the isolation of Campylobacter.
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Campylobacter blood-free selective agar base is a culture medium used for the isolation and identification of Campylobacter species from clinical and non-clinical samples. It is a selective and differential agar that supports the growth of Campylobacter while inhibiting the growth of other bacteria.
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Brucella broth is a culture medium used for the growth and isolation of Brucella species, which are the causative agents of the infectious disease brucellosis. It provides the necessary nutrients and growth factors required for the cultivation of these bacteria.
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Mueller-Hinton broth is a culture medium used for the growth and susceptibility testing of bacteria. It provides the necessary nutrients for the cultivation of a wide range of microorganisms. The broth is formulated to support the growth of non-fastidious bacteria and is commonly used in antimicrobial susceptibility testing.

More about "Campylobacter"

Campylobacter is a genus of spiral-shaped, Gram-negative bacteria that are a leading cause of foodborne illness worldwide.
These bacteria are commonly transmitted through the consumption of contaminated food or water, often leading to gastrointestinal symptoms such as diarrhea, abdominal pain, and fever.
Campylobacter species, particularly C. jejuni and C. coli, are among the most frequently reported bacterial causes of gastroenteritis.
Researchers are continually working to better understand the epidemiology, detection, and prevention of Campylobacter infections.
Advanced techniques like PCR (Polymerase Chain Reaction) and ELISA (Enzyme-Linked Immunosorbent Assay) are used for rapid and accurate identification of Campylobacter species.
Culture-based methods, such as the use of selective media like Campylobacter selective supplement, Modified charcoal-cefoperazone deoxycholate agar (mCCDA), and Campylobacter blood-free selective agar base, are also commonly employed.
Enrichment broths, like Bolton broth and Brucella broth, can enhance the recovery of Campylobacter from samples.
DNA extraction kits, such as the QIAamp DNA Mini Kit, facilitate the isolation of high-quality genetic material for downstream molecular analyses.
Additionally, antimicrobial susceptibility testing in Mueller-Hinton broth helps guide appropriate treatment strategies.
By leveraging AI-driven platforms like PubCompare.ai, researchers can streamline their Campylobacter studies, locate the best protocols from scientific literature, preprints, and patents, and improve the reproducibility and accuracy of their work.
This can lead to advancements in our understanding of Campylobacter epidemiology and the development of more effective prevention and control measures.
Whether you're investigating Campylobacter infections, exploring new detection methods, or seeking to optimize your research workflow, PubCompare.ai can be a valuable tool in your arsenal.
Harness the power of AI to enhance your Campylobacter research and achieve better results.