scholarly journals Genome Sequence of an Emerging Salmonella enterica Serovar Infantis and Genomic Comparison with Other S. Infantis Strains

2020 ◽  
Vol 12 (3) ◽  
pp. 223-228 ◽  
Author(s):  
Emiliano Cohen ◽  
Galia Rahav ◽  
Ohad Gal-Mor
Keyword(s):  
Antimicrobial Resistance ◽  
Genome Sequence ◽  
Salmonella Enterica ◽  
Phenotypic Diversity ◽  
Foodborne Pathogen ◽  
Bacterial Pathogen ◽  
Pathogenicity Islands ◽  
Genomic Comparison ◽  
Human Infections ◽  
Salmonella Pathogenicity Islands

Abstract Salmonella enterica serovar Infantis (S. Infantis) is one of the dominant serovars of the bacterial pathogen S. enterica. In recent years, the number of human infections caused by S. Infantis has been increasing in many countries, and often the emerging population harbors a unique virulence-resistant megaplasmid called plasmid of emerging S. Infantis (pESI). Here, we report the complete gap-free genome sequence of the S. Infantis Israeli emerging clone and compare its chromosome and pESI sequences with other complete S. Infantis genomes. We show a conserved presence of the Salmonella pathogenicity islands 1–6, 9, 11, 12, and CS54 and a common integration of five bacteriophages in the S. Infantis chromosome. In contrast, we found variable presence of additionally three chromosomally integrated phages and eight modular regions in pESI, which contribute to the genetic and phenotypic diversity (including antimicrobial resistance) of this ubiquitous foodborne pathogen.

scholarly journals Antimicrobial resistance and virulence genes of non-typhoidal Salmonella isolates in The Gambia and Senegal

2011 ◽  
Vol 5 (11) ◽  
pp. 765-775 ◽  
Author(s):  
Michel M Dione ◽  
Usman Ikumapayi ◽  
Debasish Saha ◽  
Nuredin Ibrahim Mohammed ◽  
Richard A Adegbola ◽  
...  
Keyword(s):  
Antibiotic Resistance ◽  
Antimicrobial Resistance ◽  
West Africa ◽  
Salmonella Enterica ◽  
Virulence Genes ◽  
Antimicrobial Agents ◽  
Food Products ◽  
The Gambia ◽  
Pathogenicity Islands ◽  
Salmonella Pathogenicity Islands

Introduction: The prevalence of virulence genes in non-typhoidal Salmonella (NTS) and its association with commonly used antibiotics in West Africa is unknown. Methodology: We tested 185 NTS isolates from children, animals, and food products for the presence of twelve virulence genes by PCR. Ten of the virulence genes tested belonged to the five Salmonella pathogenicity islands implicated in its pathogenesis. Results: Ten of twelve virulence genes except sopE and pefA were present in at least 70% of the isolates tested; sopE and pefA were observed in 33% and 44% of the isolates, respectively. The most prevalent gene was invA (99.5%), which is an invasion gene conserved within the Salmonella enterica. pipD and sopB genes, which were associated with serovar Enteritidis, were detected in 92.4% and 94.1% of isolates respectively. S. Istanbul and S. Javiana, which were isolated from chicken-serving restaurants, carried all the virulence genes of the five pathogenicity islands. There was significant association between sopB, sitC, orfLC, pipD and pefA virulence genes and resistance to commonly used antibiotics in Senegal and The Gambia, namely amoxicillin, ticarcillin, trimethoprim plus sulfamethoxazole, tetracycline, trimethoprim, spectinomycin, streptomycin, sulfonamides and nitrofurantoin. Conclusions: This study shows that virulence genes are present in NTS strains isolated from various sources. The significant association between some virulence genes and antibiotic resistance may have important implications with regard to the spread and persistence of resistance and virulence genes in Salmonella and to the prudent use of antimicrobial agents in humans and animals in West Africa.

scholarly journals Persistent Asymptomatic Human Infections by Salmonella enterica Serovar Newport in China

mSphere ◽  
2020 ◽  
Vol 5 (3) ◽  
Author(s):  
Narayan Paudyal ◽  
Hang Pan ◽  
Beibei Wu ◽  
Xiao Zhou ◽  
Xin Zhou ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Salmonella Enterica ◽  
Young Patients ◽  
Whole Genome Sequence ◽  
Persistent Diarrhea ◽  
Persistent Infections ◽  
Resistance Determinants ◽  
Asymptomatic Patients ◽  
Asymptomatic Individuals ◽  
Human Infections

ABSTRACT Salmonella enterica serovar Newport (S. Newport) infections are gradually on the rise in China from the last decade. For humans’ infections, S. Newport has been ranked among the top five serovars responsible for persistent infections, globally. A total of 290 S. Newport strains with their relevant clinical metadata were analyzed, and the strains were subjected to whole-genome sequence analysis. Among these, 62.4% (n = 181) were from diarrheic patients and 28.9% (n = 84) were from asymptomatic individuals (including adults and youngsters) while 8.6% (n = 25) were from cases of persistent diarrhea in infants (28%, n = 7) and toddlers (72%, n = 18). The association between the sequence types (STs) and the variations in the clinical presentation was statistically significant (P = 0.0432), with ST46 causing diarrhea or representing asymptomatic patients and ST31 or ST68 causing persistent diarrhea. Genomic analysis revealed that the highest proportion of the isolates (98.5%, n = 279), primarily from patients with or without diarrhea rather than from asymptomatic individuals, carried antimicrobial resistance determinants corresponding to the aminoglycosides and beta-lactams, highlighting the need for cautionary usage of antimicrobials in such patients. These findings also suggest that cases of nontyphoidal Salmonella infection with symptoms of acute diarrhea or persistent diarrhea caused by S. Newport should be handled with caution, due to the high chance of development of an antimicrobial resistance phenotype that might lead to therapeutic failures. Together, S. Newport ST31 and ST46, which have the highest frequency of carriage of multidrug resistance, are potentially responsible for antimicrobial-resistant diarrhea/persistent diarrhea in infants and children, while adult humans are more likely to be (asymptomatic) carriers of the S. Newport strains. IMPORTANCE Human infections caused by Salmonella Newport generally lead to gastrointestinal diseases. These infections are normally self-limiting; however, in certain cases, broad-spectrum antimicrobials are prescribed for the treatment. The Chinese National Foodborne Disease Surveillance Network has reported a gradual increase in the incidence of multidrug-resistant S. Newport infections in humans. After careful evaluation of the dynamic relationship among the clinical findings, the age group, and the genomic sequence data, it was found that young patients represented the major group with persistent diarrhea, whereas adults were either asymptomatic or diarrheic. Furthermore, all these strains contained multiple acquired antimicrobial resistance determinants, which limited the use of antimicrobials for human patients of all age groups. This analysis of the laboratory-confirmed cases, coupled with genetic analysis of the corresponding pathogen, revealed that antimicrobial treatment of persistent infections by S. Newport in infants and toddlers, and in asymptomatic or diarrheic adults, may not be successful. If the antimicrobials must be prescribed at all, they must be used with caution because of the presence of multiple acquired antimicrobial resistance determinants in such strains.

scholarly journals Complete Genome Sequence of an Avian Native NDM-1-Producing Salmonella enterica subsp. enterica Serovar Corvallis Strain

2018 ◽  
Vol 6 (26) ◽  
Author(s):  
Sead Hadziabdic ◽  
Maria Borowiak ◽  
Angelina Bloch ◽  
Burkhard Malorny ◽  
Istvan Szabo ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Salmonella Enterica ◽  
Complete Genome ◽  
Important Class ◽  
Content Type ◽  
Human Infections

Carbapenems are an important class of β-lactams and one of the last options for treating severe human infections. We present here the complete genome sequence of avian native carbapenemase-producing Salmonella enterica subsp.

scholarly journals Serotypes and antimicrobial resistance profiles of Salmonella enterica recovered from clinical swine samples

2020 ◽  
Vol 13 (11) ◽  
pp. 2312-2318
Author(s):  
Siriporn Kongsoi ◽  
Suksun Chumsing ◽  
Darunee Satorn ◽  
Panisa Noourai
Keyword(s):  
Public Health ◽  
Antimicrobial Resistance ◽  
High Resistance ◽  
Salmonella Enterica ◽  
Foodborne Pathogen ◽  
Diffusion Method ◽  
Clinical Samples ◽  
Public Health Issue ◽  
Diagnostic Laboratory ◽  
Disk Diffusion Method

Background and Aim: Salmonella enterica is an important foodborne pathogen and is recognized as a major public health issue. The emergence of multidrug-resistant (MDR) S. enterica represents a major challenge for national public health authorities. We investigated the distribution of serovars and antimicrobial resistance of S. enterica isolates from clinical swine samples stored at the Veterinary Diagnostic Laboratory, Faculty of Veterinary Medicine, Kasetsart University from 2016 to 2017. Materials and Methods: Clinical samples were collected and subjected to standard microbiological techniques outlined in the Manual of Clinical Microbiology to identify Salmonella serovars. Susceptibility to antimicrobials was tested by the Kirby–Bauer disk diffusion method using a panel of 14 antimicrobials. Results: A total of 144 Salmonella isolates were identified and the dominant serovar was Salmonella Choleraesuis (66.67%), followed by monophasic Salmonella Typhimurium (18.75%), S. Typhimurium (9.03%), and Rissen (5.56%). The isolates displayed high resistance rates to ampicillin (AMP [100%]), amoxicillin (AX [100%]), tetracycline (TE [100%]), cefotaxime (CTX [89.58%]), ceftriaxone (CRO [87.50%]), chloramphenicol (C [82.64%]), gentamicin (CN [79.17%]), nalidixic acid (NA [72.92%]), and ceftazidime (CAZ [71.53%]). All isolates were MDR, with 29 distinct resistance patterns. The dominant MDR pattern among serovars Choleraesuis and Rissen exhibited resistance to 9 antimicrobials: ( R7-14 AMP-AX-CAZ-CRO-CTX-NA-C-CN-TE). However, all tested isolates were susceptible to AX/ clavulanic acid and fosfomycin. Conclusion: High resistance levels to the third generation of cephalosporins such as CAZ, CRO, and CTX highlight the need for careful and reasonable usage of antimicrobials in animals and humans, especially for S. Choleraesuis infections.

scholarly journals Complete Genome Sequence of a Canadian Strain of Raoultella planticola with Metal and Antimicrobial Resistance Genes

2021 ◽  
Vol 10 (25) ◽  
Author(s):  
Mingsong Kang ◽  
John Chmara ◽  
Sohail Naushad ◽  
Hongsheng Huang
Keyword(s):  
Antimicrobial Resistance ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Bacterial Pathogen ◽  
Gene Clusters ◽  
Metal Resistance ◽  
Raoultella Planticola ◽  
Content Type ◽  
Antimicrobial Resistance Genes

Raoultella planticola is a Gram-negative opportunistic bacterial pathogen associated with hospital-acquired infections in humans. Here, we report the complete genome sequence of one Raoultella planticola strain isolated from Canadian wastewater treatment facilities containing one chromosome and four plasmids with four antimicrobial resistance (AMR) genes and four metal resistance gene clusters.

scholarly journals Complete Genome Sequence of Salmonella enterica Serovar Typhimurium Siphophage Seabear

2019 ◽  
Vol 8 (43) ◽  
Author(s):  
Ketki Patil ◽  
Chi Zeng ◽  
Chandler O’Leary ◽  
Lauren Lessor ◽  
Rohit Kongari ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Salmonella Enterica ◽  
Complete Genome ◽  
Salmonella Enterica Serovar Typhimurium ◽  
Foodborne Pathogen ◽  
Bacteriophage Therapy ◽  
Content Type ◽  
Serovar Typhimurium ◽  
Foodborne Infections

Salmonella enterica serovar Typhimurium is a foodborne pathogen that causes gastroenteritis. Due to increases in antibiotic resistance, bacteriophage therapy may be an alternative method for preventing Salmonella foodborne infections. We report here the complete genome sequence of a T5-like phage, Seabear, which was isolated against S. Typhimurium.

Resistance Phenotypes and Genotypes of Salmonella enterica subsp. enterica Isolates from Feed, Pigs, and Carcasses in Brazil

2015 ◽  
Vol 78 (2) ◽  
pp. 407-413 ◽  
Author(s):  
GRACIELA VOLZ LOPES ◽  
CAROLINE PISSETTI ◽  
DÉBORA da CRUZ PAYÃO PELLEGRINI ◽  
LUIS EDUARDO da SILVA ◽  
MARISA CARDOSO
Keyword(s):  
Antimicrobial Resistance ◽  
Resistance Genes ◽  
Salmonella Enterica ◽  
Foodborne Pathogen ◽  
Intestinal Content ◽  
Pork Products ◽  
Gene Profiles ◽  
Antimicrobial Resistance Genes ◽  
Human Salmonellosis ◽  
Agar Dilution

Salmonella enterica subsp. enterica plays a role as a foodborne pathogen worldwide. The consumption of contaminated pork has been associated with human salmonellosis and the increase in antimicrobial resistance among Salmonella from pigs and pork products is a concern. A total of 225 Salmonella isolates from feed mills, the lairage environment, and the intestinal contents of pigs and carcasses were investigated for their antimicrobial susceptibility. A MIC for ciprofloxacin was screened by agar dilution, and antimicrobial resistance genes were investigated by PCR assays. Among the tested isolates, 171 (76%) showed resistance to at least one antimicrobial agent, and 91 (40.4%) were multiresistant. Resistance occurred most frequently to tetracycline (54.5%), sulfonamides (39.6%), and streptomycin (33.7%). Thirty-two (94.1%) nalidixic acid-resistant isolates exhibited decreased susceptibility to ciprofloxacin. The resistance genes found were blaTEM (ampicillin), tet(A) (tetracycline), tet(B) (tetracycline/minocycline), sul1, sul2, and sul3 (sulfonamides), catA1 (chloramphenicol), floR (florfenicol/chloramphenicol), strA and strB (streptomycin), aph(3′)-Ia (kanamycin), aac(3)-IIa and aac(3)-IVa (apramycin/gentamicin), aadA variant (streptomycin/spectinomycin), and dfrA1 (trimethoprim). Salmonella isolates from pig feces and carcasses displayed a higher frequency of resistance to most antimicrobials tested than isolates from feed mills. Common resistance gene profiles were found in isolates from the lairage and the intestinal content of pigs and carcasses, demonstrating that resistance genes selected on farms may be found in pork.

scholarly journals Variation between Pathogenic Serovars within Salmonella Pathogenicity Islands

2003 ◽  
Vol 185 (12) ◽  
pp. 3624-3635 ◽  
Author(s):  
P. Amavisit ◽  
D. Lightfoot ◽  
G. F. Browning ◽  
P. F. Markham
Keyword(s):  
Restriction Endonuclease ◽  
Salmonella Enterica ◽  
Blot Hybridization ◽  
Southern Blot Hybridization ◽  
Pathogenicity Islands ◽  
Serovar Typhimurium ◽  
Sequence Elements ◽  
Base Fragment ◽  
Multiple Strains ◽  
Salmonella Pathogenicity Islands

ABSTRACT Although four of the five Salmonella pathogenicity islands (SPIs) have been characterized in detail for Salmonella enterica serovar Typhimurium, and the fifth has been characterized for Salmonella enterica serovar Dublin, there have been limited studies to examine them in detail in a range of pathogenic serovars of S. enterica. The aim of this study was to examine these regions, shown to be crucial in virulence, in pathogenic serovars to identify any major deletions or insertions that may explain variation in virulence and provide further understanding of the elements involved in the evolution of these regions. Multiple strains of each of the 13 serovars were compared by Southern blot hybridization using a series of probes that together encompassed the full length of all five SPIs. With the exception of serovar Typhimurium, all strains of the same serovar were identical in all five SPIs. Those serovars that differed from serovar Typhimurium in SPI-1 to SPI-4 and from serovar Dublin in SPI-5 were examined in more detail in the variant regions by PCR, and restriction endonuclease digestion and/or DNA sequencing. While most variation in hybridization patterns was attributable to loss or gain of single restriction endonuclease cleavage sites, three regions, in SPI-1, SPI-3, and SPI-5, had differences due to major insertions or deletions. In SPI-1 the avrA gene was replaced by a 200-base fragment in three serovars, as reported previously. In SPI-5, two serovars had acquired an insertion with similarity to the pagJ and pagK genes between pipC and pipD. In SPI-3 the genes sugR and rhuM were deleted in most serovars and in some were replaced by sequences that were very similar to either the Escherichia coli fimbrial operon, flanked by two distinct insertion sequence elements, or to the E. coli retron phage ΦR73. The distribution of these differences suggests that there have been a number of relatively recent horizontal transfers of genes into S. enterica and that in some cases the same event has occurred in multiple lineages of S. enterica. Thus, it seems that insertion sequences and retron phages are likely to be involved in continuing evolution of the pathogenicity islands of pathogenic Salmonella serovars.

scholarly journals Genetic Determinants in Salmonella enterica Serotype Typhimurium Required for Overcoming In Vitro Stressors in the Mimicking Host Environment

2021 ◽  
Author(s):  
Rabindra K. Mandal ◽  
Tieshan Jiang ◽  
Young Min Kwon
Keyword(s):  
Genome Sequence ◽  
Food Chain ◽  
Salmonella Enterica ◽  
Sequence Data ◽  
Bacterial Pathogen ◽  
Genetic Determinants ◽  
Content Type ◽  
Host Environment ◽  
The Rich

Salmonella enterica serotype Typhimurium is a major human bacterial pathogen that enters the food chain through meat animals asymptomatically carrying this pathogen. Despite the rich genome sequence data, a significant portion of Salmonella genes remain to be characterized for their potential contributions to virulence.

Sign in / Sign up

Export Citation Format

Share Document