Identification Sus scrofa and Mus musculus as potential hosts of SARS-CoV-2 via phylogenetic and homologous recombination analysis

Abstract

Background: Previously , m ost studies focus on the wild animal  being sold in the Wuhan Huanan seafood wholesale market, neglecting that the livestock living around other place could also be the original hosts. Methods: First, relative synonymous codon usage was utilized to analyze the potential hosts of SARS-CoV-2; Then cluster SARS-CoV-2 and related coronavirus through the phylogenetic tree. Next, we used Recombination Detection Program to identify the possible recombination region, as well as verifying via Simplot. Results: Related coronavirus from porcine or murine sources may faciliatate the evolution and reorganization of SARS-CoV-2. Conclusions: Overall, to our knowledge, this is the first paper to illustrate that swine and mice could be probable reservoirs for the SARS-CoV-2.