Antimicrobial resistance and related gene analysis of Salmonella from egg and chicken sources by whole-genome sequencing

Hu, Lijun; Cao, Guojie; Brown, Eric W.; Allard, Marc W.; M., Li; Khan, Ashraf A.; Zhang, Guodong

doi:10.1016/j.psj.2020.10.011

Cited by 17 publications

(9 citation statements)

References 19 publications

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“…Typhimurium and Salmonella ser. Heidelberg from chicken-sourced isolates [ 134 ]. The observation is in concordance with previously published reports stating that aminoglycosides exhibit weak bactericidal activity against intracellular S .…”

Section: Discussionmentioning

confidence: 99%

Comparative genome analysis of Salmonella enterica serovar Gallinarum biovars Pullorum and Gallinarum decodes strain specific genes

et al. 2021

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Salmonella enterica serovar Gallinarum biovar Pullorum (bvP) and biovar Gallinarum (bvG) are the etiological agents of pullorum disease (PD) and fowl typhoid (FT) respectively, which cause huge economic losses to poultry industry especially in developing countries including India. Vaccination and biosecurity measures are currently being employed to control and reduce the S. Gallinarum infections. High endemicity, poor implementation of hygiene and lack of effective vaccines pose challenges in prevention and control of disease in intensively maintained poultry flocks. Comparative genome analysis unravels similarities and dissimilarities thus facilitating identification of genomic features that aids in pathogenesis, niche adaptation and in tracing of evolutionary history. The present investigation was carried out to assess the genotypic differences amongst S.enterica serovar Gallinarum strains including Indian strain S. Gallinarum Sal40 VTCCBAA614. The comparative genome analysis revealed an open pan-genome consisting of 5091 coding sequence (CDS) with 3270 CDS belonging to core-genome, 1254 CDS to dispensable genome and strain specific genes i.e. singletons ranging from 3 to 102 amongst the analyzed strains. Moreover, the investigated strains exhibited diversity in genomic features such as virulence factors, genomic islands, prophage regions, toxin-antitoxin cassettes, and acquired antimicrobial resistance genes. Core genome identified in the study can give important leads in the direction of design of rapid and reliable diagnostics, and vaccine design for effective infection control as well as eradication. Additionally, the identified genetic differences among the S. enterica serovar Gallinarum strains could be used for bacterial typing, structure based inhibitor development by future experimental investigations on the data generated.

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Section: Discussionmentioning

confidence: 99%

Comparative genome analysis of Salmonella enterica serovar Gallinarum biovars Pullorum and Gallinarum decodes strain specific genes

et al. 2021

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“…In most cases, salmonellosis is cured by itself, with antimicrobial therapy required only for invasive or long-term infections. However, large-scale application of antibiotics results in the development of resistance to antimicrobial preparations and favours the emergence of strains possessing multiple drug resistance (MDR) [ 40 , 41 , 42 ].…”

Section: Discussionmentioning

confidence: 99%

“…Strain SZL 38 had two different genes associated with resistance to aminoglycosides localized in chromosomes. Previously, it has been reported that there are different variants of resistance to aminoglycosides in the same strains isolated from the poultry production chain [ 42 , 51 ]. This may be due to the intense selection pressure in these production lines.…”

Section: Discussionmentioning

confidence: 99%

Evaluation of Antibiotic Resistance of Salmonella Serotypes and Whole-Genome Sequencing of Multiresistant Strains Isolated from Food Products in Russia

et al. 2021

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Food products may be a source of Salmonella, one of the main causal agents of food poisoning, especially after the emergence of strains resistant to antimicrobial preparations. The present work dealt with investigation of the occurrence of resistance to antimicrobial preparations among S. enterica strains isolated from food. The isolates belonged to 11 serovars, among which Infantis (28%), Enteritidis (19%), and Typhimurium (13.4%) predominated. The isolates were most commonly resistant to trimethoprim/sulfamethoxazole (n = 19, 59.38%), cefazolin (n = 15, 46.86%), tetracycline (n = 13, 40.63%), and amikacin (n = 9, 28.13%). Most of the strains (68.75%) exhibited multiple resistance to commonly used antibiotics. High-throughput sequencing was used to analyse three multidrug-resistant strains (resistant to six or more antibiotics). Two of them (SZL 30 and SZL 31) belonged to S. Infantis, while one strain belonged to S. Typhimurium (SZL 38). Analysis of the genomes of the sequenced strains revealed the genes responsible for antibiotic resistance. In the genomes of strains SZL 30 and SZL 31 the genes of antibiotic resistance were shown to be localized mostly in integrons within plasmids, while most of the antibiotic resistance genes of strain SZL 38 were localized in a chromosomal island (17,949 nt). Genomes of the Salmonella strains SZL 30, SZL 31, and SZL 38 were shown to contain full-size pathogenicity islands: SPI-1, SPI-2, SPI-4, SPI-5, SPI-9, SPI-11, SPI-13, SPI-14, and CS54. Moreover, the genome of strain SZL 38 was also found to contain the full-size pathogenicity islands SPI-3, SPI-6, SPI-12, and SPI-16. The emergence of multidrug-resistant strains of various Salmonella serovars indicates that further research on the transmission pathways for these genetic determinants and monitoring of the distribution of these microorganisms are necessary.

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“…Typhimurium and Salmonella ser. Heidelberg from chicken-sourced isolates [134]. The observation is in concordance with previously published reports stating that aminoglycosides exhibit weak bactericidal activity against intracellular S. enterica serovars [135].…”

Section: S6b Table)supporting

confidence: 91%

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Antimicrobial resistance and related gene analysis of Salmonella from egg and chicken sources by whole-genome sequencing

Cited by 17 publications

References 19 publications

Comparative genome analysis of Salmonella enterica serovar Gallinarum biovars Pullorum and Gallinarum decodes strain specific genes

Comparative genome analysis of Salmonella enterica serovar Gallinarum biovars Pullorum and Gallinarum decodes strain specific genes

Evaluation of Antibiotic Resistance of Salmonella Serotypes and Whole-Genome Sequencing of Multiresistant Strains Isolated from Food Products in Russia

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