COVID-19, SARS and Bats Coronaviruses Genomes Unexpected Exogeneous RNA Sequences
Authors: perez jean-claude , Montagnier Luc 
Published: April 2020

We human are facing the worldwide invasion of a new coronavirus. This follows several limited outbreaks of related viruses in various locations in a recent past (SARS, MERS). Although the main objective of researchers is to bring efficient therapeutic and preventive solutions to the global population, we need  also to better  understand the origin of the newly coronavirus-induced epidemic in order to avoid future new outbreaks. The present molecular appraisal is to study by a bio-infomatic approach the facts relating to the virus and its precursors. This article demonstrates how 16 « Exogeneous Informative Elements » fragments (Env Pol and Integrase genes) from different strains, both diversified and very recent, of the HIV1, HIV2 and SIV retroviruses most likely are present into the genome of COVID-19. Among these fingerprints, 12 of them would be concentrated in a very small region of the genome COVID-19 of length less than 900bases, i.e. less than 3% of the total length of this genome. In addition, these footprints are positioned in 2 functional genes of COVID-19: the orf1ab and S spike genes.To sum up, here are the two main facts which contribute to our hypothesis of a partially synthetic genome: A contiguous region representing 2.49% of the whole COVID-19 genome is 40.99% made up of 12 diverse Exogeneous  Informative Elements (EIE) fragments originating from various strains of HIV SIV retroviruses. On the other hand, these 12  Exogeneous Informative Elements, some of them appear concatenated, that is to say placed side by side in the genome of COVID-19, and this despite natures, strains, and years of emergence all different. Notably, the retroviral part of these regions, which consists of 8 motifs from various strains HIV1, HIV2 and SIV, covers a length of 275 contiguous bases of COVID-19. The cumulative length of these 8 HIV SIV motifs represents 200 bases. Consequently, the HIV SIV density rate of this region of COVID-19 is 200/275 = 72.73%, which is considerable.A major part of these 16 EIE Elements already existed in the first SARS genomes as early as 2003. However, we demonstrate how and why a new region including 4 HIV1 HIV2 Exogeneous Informative Elements radically distinguishes all COVID-19 strains from all SARS and Bat strains. Particularly, we will be interested in the Bat RaTG13 strain whose genomic proximity to COVID-19 will be thoroughly analyzed. Then, we gather facts about the possible origins of COVID_19, we have particularly analyze this small region of 225 bases common to COVID_19 and batRaTG13 but totally absent in all SARS strains. Then, we discuss the case of bat genomes presumed to be at the origin of COVID_19. In the strain of bat RaTG13 bat coronavirus isolated in 2013, then sequenced in 2020, the homology profile for HIV1 Kenya 2008 fingerprint is identical to that of COVID_19. (collected end december 2019, then sequenced in 2020). Finally, we have studied the most recent genetic evolution of the COVID_19 strains involved in the world epidemic. We found an astoneshing occurrence of mutations and deletions in the 225b region.On sampling genomes, we finally show that this 225b key region of each genome, rich in "EIE", evolves much faster than the corresponding whole genome.