Campylobacter jejuni isolated from poultry meat in Brazil: in silico analysis and genomic features of two strains with different phenotypes of antimicrobial susceptibility

Würfel, Simone de Fátima Rauber; Jorge, Sérgio; Oliveira, Natasha Rodrigues de; Kremer, Frederico Schmitt; Sanchez, Christian Domingues; Campos, Vinícius Farias; Pinto, Luciano da Silva; Silva, Wladimir Padilha da; Dellagostin, Odir Antônio

doi:10.1007/s11033-019-05174-y

Cited by 11 publications

(7 citation statements)

References 38 publications

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“…The CRISPR-Cas system, which is encoded predominantly in the genomes of pathogenic bacteria that interact with eukaryotic hosts [40], was found to be present in the vast major-ity of the FQ-resistant C. jejuni isolates (95 out of 100) tested in this study, as determined by the PCR. All of these 95 isolates were shown to carry 35 bp long CRISPR repeat sequences ( Figure 4).…”

Section: Discussionmentioning

confidence: 78%

Distribution of CRISPR Types in Fluoroquinolone-Resistant Campylobacter jejuni Isolates

Adıgüzel

Goulart

et al. 2021

Pathogens

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To aid development of phage therapy against Campylobacter, we investigated the distribution of the clustered regularly interspaced short palindromic repeats (CRISPR) systems in fluoroquinolone (FQ)-resistant Campylobacter jejuni. A total of 100 FQ-resistant C. jejuni strains from different sources were analyzed by PCR and DNA sequencing to determine resistance-conferring mutation in the gyrA gene and the presence of various CRISPR systems. All but one isolate harbored 1–5 point mutations in gyrA, and the most common mutation was the Thr86Ile change. Ninety-five isolates were positive with the CRISPR PCR, and spacer sequences were found in 86 of them. Among the 292 spacer sequences identified in this study, 204 shared 93–100% nucleotide homology to Campylobacter phage D10, 44 showed 100% homology to Campylobacter phage CP39, and 3 had 100% homology with Campylobacter phage CJIE4-5. The remaining 41 spacer sequences did not match with any phages in the database. Based on the results, it was inferred that the FQ-resistant C. jejuni isolates analyzed in this study were potentially resistant to Campylobacter phages D10, CP39, and CJIE4-5 as well as some unidentified phages. These phages should be excluded from cocktails of phages that may be utilized to treat FQ-resistant Campylobacter.

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Section: Discussionmentioning

confidence: 78%

Distribution of CRISPR Types in Fluoroquinolone-Resistant Campylobacter jejuni Isolates

Adıgüzel

Goulart

et al. 2021

Pathogens

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“…50S L22 mutations were also detected in this data set, primarily in C. jejuni, but as the MIC sensitivity test results show in Figs 1 and 2, the 50S L22 (A103V) substitutions alone did not result in phenotypic resistance to azithromycin or erythromycin. Previous studies found this ribosomal L22 (A103V) point mutation in Campylobacter isolates with high resistance to erythromycin, although it was suspected the mutation alone had minimal direct involvement in the resistance phenotype [34,35]. This L22 mutation was shown to act synergistically with the CmeABC efflux pump to cause macrolide resistance [24,27,34,36].…”

Section: Plos Onementioning

confidence: 92%

“…The cmeABC sequence codes for the multidrug efflux complex located in the bacterial membrane. The presence of this efflux pump is essential for Campylobacter colonization in animal intestines which explains its presence in the isolates in this dataset [34]. The efflux pump can prompt resistance to structurally diverse compounds such as macrolides, quinolones, tetracyclines, ethidium bromide, and various detergents [37].…”

Section: Plos Onementioning

confidence: 93%

“…Previous studies found this ribosomal L22 (A103V) point mutation in Campylobacter isolates with high resistance to erythromycin, although it was suspected the mutation alone had minimal direct involvement in the resistance phenotype [34,35]. This L22 mutation was shown to act synergistically with the CmeABC efflux pump to cause macrolide resistance [24,27,34,36]. All isolates in this study carrying the 50S L22 mutation also contained cmeABC and cmeR (with variable percent genomic identity), indicating these carriers may have the potential to mount macrolide resistance under certain conditions.…”

Section: Plos Onementioning

confidence: 96%

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Antimicrobial resistance and interspecies gene transfer in Campylobacter coli and Campylobacter jejuni isolated from food animals, poultry processing, and retail meat in North Carolina, 2018–2019

et al. 2021

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The Center for Disease Control and Prevention identifies antimicrobial resistant (AMR) Campylobacter as a serious threat to U.S. public health due to high community burden, increased transmissibility, and limited treatability. The National Antimicrobial Resistance Monitoring System (NARMS) plays an important role in surveillance of AMR bacterial pathogens in humans, food animals and retail meats. This study investigated C. coli and C. jejuni from live food animals, poultry carcasses at production, and retail meat in North Carolina between January 2018-December 2019. Whole genome sequencing and bioinformatics were used for phenotypic and genotypic characterization to compare AMR profiles, virulence factors associated with Guillain-Barré Syndrome (GBS) (neuABC and cst-II or cst-III), and phylogenic linkage between 541 Campylobacter isolates (C. coli n = 343, C. jejuni n = 198). Overall, 90.4% (489/541) Campylobacter isolates tested positive for AMR genes, while 43% (233/541) carried resistance genes for three or more antibiotic classes and were classified molecularly multidrug resistant. AMR gene frequencies were highest against tetracyclines (64.3%), beta-lactams (63.6%), aminoglycosides (38.6%), macrolides (34.8%), quinolones (24.4%), lincosamides (13.5%), and streptothricins (5%). A total of 57.6% (114/198) C. jejuni carried GBS virulence factors, while three C. coli carried the C. jejuni-like lipooligosaccharide locus, neuABC and cst-II. Further evidence of C. coli and C. jejuni interspecies genomic exchange was observed in identical multilocus sequence typing, shared sequence type (ST) 7818 clonal complex 828, and identical species-indicator genes mapA, ceuE, and hipO. There was a significant increase in novel STs from 2018 to 2019 (2 in 2018 and 21 in 2019, p<0.002), illustrating variable Campylobacter genomes within food animal production. Introgression between C. coli and C. jejuni may aid pathogen adaption, lead to higher AMR and increase Campylobacter persistence in food processing. Future studies should further characterize interspecies gene transfer and evolutionary trends in food animal production to track evolving risks to public health.

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“…The advances of WGS generated by high throughput sequencing platforms has allowed the mass submission of genomes to public repositories in the last years [17,18]. Consequently, in silico studies from bacterial genomes have increased in the last few years, providing several possibilities in gene analysis [19][20][21][22]. The software VirulenceFinder-VFDB (http://cge.cbs.dtu.dk/services/VirulenceFinder/, accessed on 29 June 2021) [23,24] uses WGS data for the in silico characterization of several pathogenic bacteria and enables researchers and clinical health personnel to quickly extract and interpret virulence-relevant information from the genome data [21].…”

Section: Introductionmentioning

confidence: 99%

The Distribution of Campylobacter jejuni Virulence Genes in Genomes Worldwide Derived from the NCBI Pathogen Detection Database

Panzenhagen

Portes

Santos

et al. 2021

Genes

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Campylobacter jejuni (C. jejuni) is responsible for 80% of human campylobacteriosis and is the leading cause of gastroenteritis globally. The relevant public health risks of C. jejuni are caused by particular virulence genes encompassing its virulome. We analyzed 40,371 publicly available genomes of C. jejuni deposited in the NCBI Pathogen Detection Database, combining their epidemiologic metadata with an in silico bioinformatics analysis to increase our current comprehension of their virulome from a global perspective. The collection presented a virulome composed of 126 identified virulence factors that were grouped in three clusters representing the accessory, the softcore, and the essential core genes according to their prevalence within the genomes. The multilocus sequence type distribution in the genomes was also investigated. An unexpected low prevalence of the full-length flagellin flaA and flaB locus of C. jejuni genomes was revealed, and an essential core virulence gene repertoire prevalent in more than 99.99% of genomes was identified. Altogether, this is a pioneer study regarding Campylobacter jejuni that has compiled a significant amount of data about the Multilocus Sequence Type and virulence factors concerning their global prevalence and distribution over this database.

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Campylobacter jejuni isolated from poultry meat in Brazil: in silico analysis and genomic features of two strains with different phenotypes of antimicrobial susceptibility

Cited by 11 publications

References 38 publications

Distribution of CRISPR Types in Fluoroquinolone-Resistant Campylobacter jejuni Isolates

Distribution of CRISPR Types in Fluoroquinolone-Resistant Campylobacter jejuni Isolates

Antimicrobial resistance and interspecies gene transfer in Campylobacter coli and Campylobacter jejuni isolated from food animals, poultry processing, and retail meat in North Carolina, 2018–2019

The Distribution of Campylobacter jejuni Virulence Genes in Genomes Worldwide Derived from the NCBI Pathogen Detection Database

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