omicscodeathon/amr_cattle

This is a comparative study of Antimicrobial Resistance (AMR) genes in cattle microbiome found in East African countries (Kenya, Uganda and Tanzania) using metagenomics # Investigating Antimicrobial Resistance Genes in Kenya, Uganda and Tanzania Cattles Using Metagenomics *This is a comparative study of Antimicrobial Resistance (AMR) genes found in East African countries (Kenya, Uganda and Tanzania).* ## Background The emergence of AMR is a major global public health issue that jeopardises the efficiency of antimicrobials to cure animal infections that threatens their health, welfare and productivity. Antimicrobial Resistance Genes (ARGs) is an environmental concern that is vastly prevalent in the African cattle production system as well as being a threat to both animal and human health. East African countries such as Kenya, Tanzania, and Uganda, have a scarcity of comparative knowledge of microbiomes and resistomes of small-holder cattle breeds. This makes it imperative to study the distributions and inter-relationships of these genes in order to provide further insight into the resistomes being circulated and their underlying environmental influences. The understanding of circulating resistomes is important since management of cattle becomes difficult with disease burden which in turn leads to a decline in production as well as an increase in production costs and thus threatens the East Africa Community (EAC) economic growth agenda. It is therefore imperative to understand what resistomes exist within the member states together with their genetic make up and genetic environmental basis underlying the resistomes.This is to better manage the livestock for maximisation of production and lowering risk and production costs. It will also help stakeholders and policy makers to further improve the standardisation protocols that govern the movement of products that are derived from cattle as well as govern veterinarians on informed decision on how to better manage their disease incidences. ## Project Description Raw shotgun metagenomic reads from cattle faecal samples in these countries are available in ENA and MG-RAST databases where …