Clinical detection of human probiotics and human pathogenic bacteria by using a novel high-throughput platform based on next generation sequencing

Abstract

The human body plays host to a vast array of bacteria which are harmful or beneficial. Next generation sequencing technology have increased its accuracy in identifying bacteria. This work develops a novel platform for rapidly detecting probiotics and pathogens based on sequencing results of 16S rRNA. A database that recorded the species of probiotics and pathogens from literature was constructed, along with a modified Smith-Waterman algorithm for assigning the taxonomy of the sequenced 16S rRNA sequences. A bacteria disease risk model for seven diseases was constructed based on 98 samples. Applicability of the proposed platform is demonstrated by collecting the microbiome in human gut of 13 samples. The proposed platform provides a relatively easy means of identifying a certain amount of bacteria and their species for clinical microbiology applications. Detecting how probiotics and pathogens inhabit humans and affect their health significantly contributes to develop a diagnosis and treatment method.