The food industry, water and environmental quality control and clinical diagnostics are the main areas where prompt biological-agent detection is crucial [2,13]. The existing methods used to detect pathogens and toxins rely on conventional techniques such as plate culturing, enzyme-linked immunosorbent assay (ELISA) and polymerase chain reaction (PCR) [ 14 , 15 ].. A list of at the moment validated methods for enumeration of both utility indicators (aerobic plate count) and hygiene indicators (Enterobacteriaceae, Escherichia coli, coagulase positive Staphylococcus) as well as for detection of the four major pathogens (Salmonella spp., Listeria monocytogenes, E. coli O157 and Campylobacter spp.) is included with reference to relevant websites to check for.
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When the detection value is lower than 104 copy 100 mL−1, the bacteria in the water are rarely pathogenic bacteria, so the detection value of 104 copy 100 mL−1 can be used as a new indicator.. The development of viral metagenomics for direct pathogen detection has shown promise 29,30; however, it is notable that current untargeted metagenomic methods may miss pathogens detected by.
