Identification of the conjugative and mobilizable plasmid fragments in the plasmidome using sequence signatures.

ABSTRACT: Plasmids are the key element in horizontal gene transfer in the microbial community. Recently, a large number of experimental and computational methods have been developed to obtain the plasmidomes of microbial communities. Distinguishing transmissible plasmid sequences, which are derived from conjugative or at least mobilizable plasmids, from non-transmissible plasmid sequences in the plasmidome is essential for understanding the diversity of plasmids and how they regulate the microbial community. Unfortunately, due to the highly fragmented characteristics of DNA sequences in the plasmidome, effective identification methods are lacking. In this work, we used information entropy from information theory to assess the randomness of synonymous codon usage over 4424 plasmid genomes. The result

SUBMITTER: Fang Z 

PROVIDER: S-EPMC7725325 | biostudies-literature | 2020 Nov

REPOSITORIES: biostudies-literature