Genus-Wide Assessment of Antibiotic Resistance in Lactobacillus spp

species are widely used as probiotics and starter cultures for a variety of foods, supported by a long history of safe usage. Although more than 35 species meet the European Food Safety Authority (EFSA) criteria for qualified presumption of safety status, the safety of species and their carriage of...

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Veröffentlicht in:Applied and environmental microbiology 2019-01, Vol.85 (1)
Hauptverfasser: Campedelli, Ilenia, Mathur, Harsh, Salvetti, Elisa, Clarke, Siobhán, Rea, Mary C, Torriani, Sandra, Ross, R Paul, Hill, Colin, O'Toole, Paul W
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container_issue 1
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container_title Applied and environmental microbiology
container_volume 85
creator Campedelli, Ilenia
Mathur, Harsh
Salvetti, Elisa
Clarke, Siobhán
Rea, Mary C
Torriani, Sandra
Ross, R Paul
Hill, Colin
O'Toole, Paul W
description species are widely used as probiotics and starter cultures for a variety of foods, supported by a long history of safe usage. Although more than 35 species meet the European Food Safety Authority (EFSA) criteria for qualified presumption of safety status, the safety of species and their carriage of antibiotic resistance (AR) genes is under continuing review. To comprehensively update the identification of AR in the genus , we determined the antibiotic susceptibility patterns of 182 type strains and compared these phenotypes to their genotypes based on genome-wide annotations of AR genes. Resistances to trimethoprim, vancomycin, and kanamycin were the most common phenotypes. A combination of homology-based screening and manual annotation identified genes encoding resistance to aminoglycosides (20 sequences), tetracycline (18), erythromycin (6), clindamycin (60), and chloramphenicol (42). In particular, the genes and , involved in resistance to aminoglycosides and clindamycin, respectively, were found in spp. Acquired determinants predicted to code for tetracycline and erythromycin resistance were detected in , , and , flanked in the genome by mobile genetic elements with potential for horizontal transfer. species are generally considered to be nonpathogenic and are used in a wide variety of foods and products for humans and animals. However, many of the species examined in this study have antibiotic resistance levels which exceed those recommended by the EFSA, suggesting that these cutoff values should be reexamined in light of the genetic basis for resistance discussed here. Our data provide evidence for rationally revising the regulatory guidelines for safety assessment of lactobacilli entering the food chain as starter cultures, food preservatives, or probiotics and will facilitate comprehensive genotype-based assessment of strains for safety screening.
doi_str_mv 10.1128/AEM.01738-18
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Although more than 35 species meet the European Food Safety Authority (EFSA) criteria for qualified presumption of safety status, the safety of species and their carriage of antibiotic resistance (AR) genes is under continuing review. To comprehensively update the identification of AR in the genus , we determined the antibiotic susceptibility patterns of 182 type strains and compared these phenotypes to their genotypes based on genome-wide annotations of AR genes. Resistances to trimethoprim, vancomycin, and kanamycin were the most common phenotypes. A combination of homology-based screening and manual annotation identified genes encoding resistance to aminoglycosides (20 sequences), tetracycline (18), erythromycin (6), clindamycin (60), and chloramphenicol (42). In particular, the genes and , involved in resistance to aminoglycosides and clindamycin, respectively, were found in spp. Acquired determinants predicted to code for tetracycline and erythromycin resistance were detected in , , and , flanked in the genome by mobile genetic elements with potential for horizontal transfer. species are generally considered to be nonpathogenic and are used in a wide variety of foods and products for humans and animals. However, many of the species examined in this study have antibiotic resistance levels which exceed those recommended by the EFSA, suggesting that these cutoff values should be reexamined in light of the genetic basis for resistance discussed here. 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Although more than 35 species meet the European Food Safety Authority (EFSA) criteria for qualified presumption of safety status, the safety of species and their carriage of antibiotic resistance (AR) genes is under continuing review. To comprehensively update the identification of AR in the genus , we determined the antibiotic susceptibility patterns of 182 type strains and compared these phenotypes to their genotypes based on genome-wide annotations of AR genes. Resistances to trimethoprim, vancomycin, and kanamycin were the most common phenotypes. A combination of homology-based screening and manual annotation identified genes encoding resistance to aminoglycosides (20 sequences), tetracycline (18), erythromycin (6), clindamycin (60), and chloramphenicol (42). 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subjects Aminoglycosides
Annotations
Anti-Bacterial Agents - pharmacology
Antibiotic resistance
Antibiotics
Chloramphenicol
Chloromycetin
Clindamycin
Drug resistance
Drug Resistance, Bacterial - genetics
Erythromycin
Food Microbiology
Food safety
Gene sequencing
Genes
Genomes
Genotype & phenotype
Genotypes
Homology
Horizontal transfer
Kanamycin
Lactobacillus
Lactobacillus - drug effects
Lactobacillus - genetics
Phenotypes
Probiotics
Safety
Species
Spotlight
Starter cultures
Trimethoprim
Vancomycin
title Genus-Wide Assessment of Antibiotic Resistance in Lactobacillus spp
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