| Id |
Subject |
Object |
Predicate |
Lexical cue |
| T30 |
0-151 |
Sentence |
denotes |
In the span of 7 months, the COVID-19 pandemic has caused a devastating global health crisis with significant mortality and socioeconomic implications. |
| T31 |
152-306 |
Sentence |
denotes |
As of July 23, 2020, more than 15 million cases and 622,000 attributable deaths have been reported worldwide (5–8) (https://coronavirus.jhu.edu/map.html). |
| T32 |
307-423 |
Sentence |
denotes |
Phylogenetic analyses suggest that SARS-CoV-2 is likely derived from a clade of viruses found in horseshoe bats (9). |
| T33 |
424-510 |
Sentence |
denotes |
In S, the bat genome RaTG13 has more than 97% amino acid identity with SARS-CoV-2 (6). |
| T34 |
511-820 |
Sentence |
denotes |
Interestingly, the RmYN02 sequence, which is the closest to SARS-CoV-2 in the long ORF1ab but more distant than RaTG13 in S, showed the insertion of multiple amino acids at the cleavage site between the S1 and S2 subunits of the S protein (this S1/S2 insertion is a characteristic feature of SARS-CoV-2) (10). |
| T35 |
821-1009 |
Sentence |
denotes |
Highly similar sequences, especially in the RBD, were also identified in Malayan pangolins (11, 12), emphasizing the plasticity of coronavirus genomes and their propensity to switch hosts. |
| T36 |
1010-1503 |
Sentence |
denotes |
Although the closest currently available bat sequences are fairly divergent from SARS-CoV-2, their characteristics (insertion at S1/S2 cleavage site, high diversity, and similarity between specific gene fragments and particular strains) together with their known adaptive properties (high recombination and host-switching rates and evidence of positive selection) support that these bat viruses constitute a generalist lineage where a specific virus is likely the natural origin of SARS-CoV-2. |
| T37 |
1504-1666 |
Sentence |
denotes |
We did not study the transmission of the virus from its animal reservoir and focused our analysis on the evolution of SARS-CoV-2 since its introduction in humans. |
| T38 |
1667-2008 |
Sentence |
denotes |
While the scale of the pandemic attests to the high transmissibility of SARS-CoV-2 between humans, with a basic reproduction number R0 estimated to be 2.2 (95% CI, 1.4 to 3.9) in Wuhan, China (13), we wanted to investigate evidence of further adaptation of SARS-CoV-2 to its host, as adaptive processes could interfere with vaccine efficacy. |
