Antimicrobials have been widely used to prevent and treat infectious diseases and promote growth in food-production animals.However,the occurrence of antimicrobial resistance poses a huge threat to public and animal h...Antimicrobials have been widely used to prevent and treat infectious diseases and promote growth in food-production animals.However,the occurrence of antimicrobial resistance poses a huge threat to public and animal health,especial y in less developed countries where food-producing animals often intermingle with humans.To limit the spread of antimicrobial resistance from food-production animals to humans and the environment,it is essential to have a comprehensive knowledge of the role of the resistome in antimicrobial resistance(AMR),The resistome refers to the col ection of al antimicrobial resistance genes associated with microbiota in a given environment.The dense microbiota in the digestive tract is known to harbour one of the most diverse resistomes in nature.Studies of the resistome in the digestive tract of humans and animals are increasing exponential y as a result of advancements in next-generation sequencing and the expansion of bioinformatic resources/tools to identify and describe the resistome.In this review,we outline the various tools/bioinformatic pipelines currently available to characterize and understand the nature of the intestinal resistome of swine,poultry,and ruminants.We then propose future research directions including analysis of resistome using long-read sequencing,investigation in the role of mobile genetic elements in the expression,function and transmission of AMR.This review outlines the current knowledge and approaches to studying the resistome in food-producing animals and sheds light on future strategies to reduce antimicrobial usage and control the spread of AMR both within and from livestock production systems.展开更多
基金supported by Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences(CAAS-ASTIP-2017-FRI-04)China Agriculture Research System of MOF and MARA+2 种基金Ministry of Alberta Agriculture and Forestry(2015P008R and 2018F095R)The NSERC Discovery GrantThe One Health Consortium of the University of Calgary-Alberta Government Major Innovation Fund and the International Opportunities Program of Agriculture a Agri-Food Canada。
文摘Antimicrobials have been widely used to prevent and treat infectious diseases and promote growth in food-production animals.However,the occurrence of antimicrobial resistance poses a huge threat to public and animal health,especial y in less developed countries where food-producing animals often intermingle with humans.To limit the spread of antimicrobial resistance from food-production animals to humans and the environment,it is essential to have a comprehensive knowledge of the role of the resistome in antimicrobial resistance(AMR),The resistome refers to the col ection of al antimicrobial resistance genes associated with microbiota in a given environment.The dense microbiota in the digestive tract is known to harbour one of the most diverse resistomes in nature.Studies of the resistome in the digestive tract of humans and animals are increasing exponential y as a result of advancements in next-generation sequencing and the expansion of bioinformatic resources/tools to identify and describe the resistome.In this review,we outline the various tools/bioinformatic pipelines currently available to characterize and understand the nature of the intestinal resistome of swine,poultry,and ruminants.We then propose future research directions including analysis of resistome using long-read sequencing,investigation in the role of mobile genetic elements in the expression,function and transmission of AMR.This review outlines the current knowledge and approaches to studying the resistome in food-producing animals and sheds light on future strategies to reduce antimicrobial usage and control the spread of AMR both within and from livestock production systems.
