Publications

next generation sequencing-based multigene panel for high throughput detection of food-borne pathogens.	contamination of food by chemicals or pathogenic bacteria may cause particular illnesses that are linked to food consumption, commonly referred to as foodborne diseases. bacteria are present in/on various foods products, such as fruits, vegetables and ready-to-eat products. bacteria that cause foodborne diseases are known as foodborne pathogens (fbps). accurate detection methods that are able to reveal the presence of fbps in food matrices are in constant demand, in order to ensure safe foods wi ...	2017	28578266
quantitative risk assessment of antimicrobial-resistant foodborne infections in humans due to recombinant bovine somatotropin usage in dairy cows.	recombinant bovine somatotropin (rbst) is a production-enhancing technology that allows the dairy industry to produce milk more efficiently. concern has been raised that cows supplemented with rbst are at an increased risk of developing clinical mastitis, which would potentially increase the use of antimicrobial agents and increase human illnesses associated with antimicrobial-resistant bacterial pathogens delivered through the dairy beef supply. the purpose of this study was to conduct a quanti ...	2017	28574304
susceptibility of salmonella biofilm and planktonic bacteria to common disinfectant agents used in poultry processing.	poultry contaminated with salmonella enterica subsp. enterica are a major cause of zoonotic foodborne gastroenteritis. salmonella heidelberg is a common serotype of salmonella that has been implicated as a foodborne pathogen associated with the consumption of improperly prepared chicken. to better understand the effectiveness of common antimicrobial disinfectants (i.e., peroxyacetic acid [paa], acidified hypochlorite [ach], and cetylpyridinium chloride [cpc]), environmental isolates of nontyphoi ...	2017	28561639
mitigation of salmonella on pet food kibbles by using liquid and powdered 3-hydroxy-3-methylbutyric acid.	in recent years, several pet food recalls have been attributed to salmonella contamination. in addition to the negative impacts on animal health, salmonella-contaminated pet foods have been linked to infection in humans. with that in mind, the u.s. food and drug administration has set forth a zero-tolerance policy for salmonella in pet foods. typically, pet foods are extruded or processed at high temperatures that are sufficient to reduce pathogenic bacteria. however, the possibility for postext ...	2017	28561638
ca(2+) in hybridization solutions for fluorescence in situ hybridization facilitates the detection of enterobacteriaceae.	fluorescence in situ hybridization (fish) has been employed to identify microorganisms at the single cell level under a microscope. extensive efforts have been made to improve and extend the fish technique; however, the development of a widely applicable protocol is a continuing challenge. the present study evaluated the effects of divalent cations in the hybridization solution on the fish-based detection of various species of bacteria and archaea with rrna-targeted probes. a flow cytometric ana ...	2017	28515389
whole-genome sequence and annotation of salmonella enterica subsp. enterica serovar enteritidis phage type 8 strain en1660.	the genome of salmonella enterica subspecies enterica serovar enteritidis phage type 8 strain en1660, isolated from an outbreak in thunder bay, canada, was sequenced to 46-fold coverage using an illumina miseq with 300-bp paired-end sequencing chemistry to produce 28 contigs with an n50 value of 490,721 bp.	2017	28126943
emergence of multidrug resistance in locally-acquired human infections with salmonella typhimurium in australia owing to a new clade harbouring blactx-m-9.	antimicrobial resistance in non-typhoidal salmonella is a critical problem globally, with the emergence of resistance to third-generation cephalosporins (3gcs) a particular concern. the aim of this study was to use whole-genome sequencing (wgs) to characterise recently identified human and non-human isolates of 3gc-resistant salmonella enterica subsp. enterica serovar typhimurium from australia. the illumina nextseq sequencing platform was used to determine the genome sequences of 78 s. typhimur ...	2017	28476613
draft genome sequences of salmonella enterica subsp. enterica serovar typhimurium strains isolated from chicken and swine carcasses in two distinct geographical regions from rio de janeiro state, brazil.	salmonella enterica subsp. enterica serovar typhimurium is a surveyed worldwide serotype with well-characterized genomes for several different strains. in brazil, very few studies have submitted whole-genome sequences to genbank. this genome may be useful to analyze the genetic mechanisms comparable to those of other related studies conducted in brazil and globally.	2017	28450502
sensitivity to antibiotics of bacteria exposed to gamma radiation emitted from hot soils of the high background radiation areas of ramsar, northern iran.	over the past several years our laboratories have investigated different aspects of the challenging issue of the alterations in bacterial susceptibility to antibiotics induced by physical stresses.	2017	28432369
collateral damage: insights into bacterial mechanisms that predispose host cells to cancer.	infections are estimated to contribute to 20% of all human tumours. viruses are known to induce cell transformation, but evidence has also linked bacteria, such as helicobacter pylori and salmonella enterica subsp. enterica serovar typhi, to different cancer types. in addition, chlamydia trachomatis, fusobacterium nucleatum and bacteroides fragilis are associated with the development of cancer, although a causal relationship has not yet been established. bacterial effectors such as colibactin an ...	2017	28045107
anti-salmonella activity and probiotic trends of kluyveromyces marxianus s-2-05 and kluyveromyces lactis s-3-05 isolated from a french cheese, tomme d'orchies.	kluyveromyces marxianus s-2-05 and kluyveromyces lactis s-3-05 were recently isolated from a traditional french cheese, tomme d'orchies, and characterized here for their advantages using a different application perspective. first, we established their anti-salmonella activity and downregulation of the virulence sopd gene of salmonella enterica subsp. enterica serovar typhimurium, mainly in the presence of k. marxianus s-2-05. in addition to their antagonism, these non-saccharomyces yeasts were a ...	2017	28366839
fowl typhoid in laying hens cause hepatic oxidative stress.	the aim of this study was to analyses nitric oxide, antioxidant status, and oxidative profile in the liver of laying hens naturally infected by salmonella enterica subsp enterica serovar gallinarum (s. gallinarum). the nitrite/nitrate (nox), reactive oxygen species (ros), thiobarbituric acid-reactive substances (tbars), catalase (cat), glutathione reductase (gr), glutathione peroxidase (gpx) and glutathione s-transferase (gst) activities were measured in liver samples, as well the biomarkers of ...	2017	28027943
draft genome sequence of a multidrug-resistant cmy-2-producing salmonella enterica subsp. enterica serovar minnesota st3088 isolated from chicken meat.		2017	28017672
genome sequence of the thermotolerant foodborne pathogen salmonella enterica serovar senftenberg atcc 43845 and phylogenetic analysis of loci encoding increased protein quality control mechanisms.	salmonella enterica subsp. enterica bacteria are important foodborne pathogens with major economic impact. some isolates exhibit increased heat tolerance, a concern for food safety. analysis of a finished-quality genome sequence of an isolate commonly used in heat resistance studies, s. enterica subsp. enterica serovar senftenberg 775w (atcc 43845), demonstrated an interesting observation that this strain contains not just one, but two horizontally acquired thermotolerance locus homologs. these ...	2017	28293682
rapid concentration detection and differentiation of bacteria in skimmed milk using surface enhanced raman scattering mapping on 4-mercaptophenylboronic acid functionalized silver dendrites.	a novel method was developed to rapidly concentrate, detect, and differentiate bacteria in skimmed milk using surface enhanced raman scattering (sers) mapping on 4-mercaptophenylboronic acid (4-mpba) functionalized silver (ag) dendrites. the 4-mpba functionalized ag dendritic sers substrate was used to capture the bacterial cells and enhance the bacterial signal. salmonella, a significantly important food pathogen, was used as the representative strain to optimize and evaluate the developed meth ...	2017	28091716
mlva for salmonella enterica subsp. enterica serovar dublin: development of a method suitable for inter-laboratory surveillance and application in the context of a raw milk cheese outbreak in france in 2012.	salmonella enterica subspecies enterica serovar dublin (s. dublin) figures among the most frequently isolated salmonella strains in humans in france. this serovar may affect production and animal health mainly in cattle herds with corresponding high economic losses. given that the current gold standard method, pulsed-field gel electrophoresis (pfge), provides insufficient discrimination for epidemiological investigations, we propose a standard operating procedure in this study for multiple-locus ...	2017	28289408
draft genome sequences of 18 salmonella enterica subsp. enterica serovar oranienburg strains isolated from rivers in northwestern mexico.	salmonella enterica subsp. enterica serovar oranienburg is recognized as a foodborne pathogen widely distributed in the environment. here, we report 18 draft genomes of s oranienburg strains isolated from rivers in the northwestern region of mexico.	2017	28280020
complete genome and methylome sequences of salmonella enterica subsp. enterica serovars typhimurium, saintpaul, and stanleyville from the sara/sarb collection.	in this announcement, we report the complete genome and methylome sequences of three salmonella enterica strains from the sara and sarb collection: s. enterica subsp. enterica serovar typhimurium (sara13), s. enterica subsp. enterica serovar saintpaul (sara26), and s. enterica subsp. enterica serovar stanleyville (sarb61).	2017	28302778
kidney allograft pyelonephritis caused by salmonella enterica serovar schwarzengrund.	kidney transplant recipients (ktrs) taking immunosuppressive drugs have a 20-fold greater risk of nontyphoidal salmonella (nts) infection than the healthy adult population. among ktrs, the urinary tract is the most common site of infection. however, few cases of urinary tract infection caused by nts have been documented in ktrs, and only one in japan. furthermore, it frequently induces acute allograft rejection with high mortality. salmonella enterica subsp. enterica serovar schwarzengrund (s. s ...	2017	28302440
whole-genome comparative analysis of salmonella enterica serovar newport strains reveals lineage-specific divergence.	salmonella enterica subsp. enterica serovar newport has been associated with various foodborne outbreaks in humans and animals. phylogenetically, serovar newport is one of several salmonella serovars that are polyphyletic. to understand more about the polyphyletic nature of this serovar, six food, environment, and human isolates from different newport lineages were selected for genome comparison analyses. whole genome comparisons demonstrated that heterogeneity mostly occurred in the prophage re ...	2017	28379364
development and validation of a cultural method for the detection and isolation of salmonella in cloves.	detection of salmonella in some spices, such as cloves, remains a challenge due to their inherent antimicrobial properties. the purpose of this study was to develop an effective detection method for salmonella from spices using cloves as a model. two clove varieties, ceylon and madagascar, were used in the study. cloves were inoculated with salmonella enterica subsp. enterica serotypes montevideo, typhimurium, or weltevreden at about 1, 3, or 6 log cfu/25 g. two test portion sizes, 10 and 25 g, ...	2017	28199150
genome sequences of salmonella enterica subsp. enterica serovar infantis strains from hungary representing two peak incidence periods in three decades.	four strains of salmonella enterica subsp. enterica serovar infantis isolated from humans (1980 to 1982) and broiler chickens (2016) have been sequenced. they represent the early and recent peak incidences of this serovar in hungary. genome sequences of these isolates provide comparative data on the evolution and rise of an endemic s infantis clone in hungary.	2017	28254986
detection of a novel qnrb19-carrying plasmid variant mediating decreased fluoroquinolone susceptibility in salmonella enterica serovar hadar.	thirty salmonella enterica subsp. enterica serovar hadar isolates of avian origin collected between 2007 and 2010 from chicken carcasses in five geographically spread abattoirs in germany were investigated for plasmid-mediated quinolone resistance determinants. four isolates were identified by pcr analysis and hybridization experiments to carry qnrb genes. the isolates were indistinguishable by their xbai macrorestriction patterns and did not exhibit a mutation in the quinolone resistance-determ ...	2017	27404660
detection of brucellosis in sika deer ( cervus nippon ) through loop-mediated isothermal amplification (lamp).	brucellosis (brucella bovis) in sika deer ( cervus nippon ) can cause enormous losses to stag breeding, especially in areas in which stag breeding has become an important industry. it also poses a threat to humans because it is a zoonotic disease. use of the loop-mediated isothermal amplification (lamp) assay has been poorly described in the diagnosis of brucellosis in deer. we developed a lamp assay targeting the omp25 gene sequence to detect brucellosis (brucella bovis) in sika deer. the react ...	2017	28318383
metagenomics of two severe foodborne outbreaks provides diagnostic signatures and signs of coinfection not attainable by traditional methods.	diagnostic testing for foodborne pathogens relies on culture-based techniques that are not rapid enough for real-time disease surveillance and do not give a quantitative picture of pathogen abundance or the response of the natural microbiome. powerful sequence-based culture-independent approaches, such as shotgun metagenomics, could sidestep these limitations and potentially reveal a pathogen-specific signature on the microbiome that would have implications not only for diagnostics but also for ...	2017	27881416
comparative subproteomic analysis of clinically acquired fluoroquinolone resistance and ciprofloxacin stress in salmonella typhimurium dt104b.	antimicrobial resistance is a worldwide public health threat and salmonella enterica subsp. enterica serotype typhimurium phage type dt104b multiresistant strains with additional quinolone resistance have been responsible for global outbreaks and high mortality. quinolone resistance is known to be multifactorial but is still far from a complete understanding. to give new insights about the resistance mechanisms involved, this work aimed to evaluate subproteome changes between a s. typhimurium dt ...	2017	28314077
is the evolution of salmonella enterica subsp. enterica linked to restriction-modification systems?	salmonella enterica subsp. enterica bacteria are highly diverse foodborne pathogens that are subdivided into more than 1,500 serovars. the diversity is believed to result from mutational evolution, as well as intra- and interspecies recombination that potentially could be influenced by restriction-modification (rm) systems. the aim of this study was to investigate whether rm systems were linked to the evolution of salmonella enterica subsp. enterica. the study included 221 salmonella enterica ge ...	2017	27822532
ultrasound improves chemical reduction of natural contaminant microbiota and salmonella enterica subsp. enterica on strawberries.	new sanitization methods have been evaluated to improve food safety and food quality and to replace chlorine compounds. however, these new methods can lead to physicochemical and sensory changes in fruits and vegetables. the present study evaluated the effects of acetic acid, peracetic acid, and sodium dodecylbenzenesulfonate isolated or combined with 5min of ultrasound treatment (40khz, 500w) on strawberry quality over 9days of storage at 8°c. the strawberry natural contaminant microbiota (mold ...	2017	27743521
phenotyping and genetic characterization of salmonella enterica isolates from turkey revealing arise of different features specific to geography.	192 food samples (commonly consumed 8 food types), 355 animal samples (animal feces of bovine, ovine, goat and chicken) and 50 samples from clinical human cases in sanliurfa city, turkey in a year were collected to determine the salmonella enterica subsp. enterica mosaic in turkey. 161 salmonella isolates represented 17 serotypes, 20 sequence types (sts) and 44 pfge patterns (pts). 3 serotypes, s. enteritidis, s. typhimurium and s. kentucky, were recovered from three different hosts. the highest ...	2017	27768932