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PMC:7081066 / 6060-7093 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
193 29-34 Gene denotes spike Gene:43740568
194 644-649 Gene denotes spike Gene:43740568
195 443-448 Gene denotes spike Gene:43740568
196 56-66 Species denotes SARS-CoV-2 Tax:2697049
197 75-79 Species denotes CoVs Tax:11118
198 81-89 Species denotes SARS-CoV Tax:694009
199 203-213 Species denotes SARS-CoV-2 Tax:2697049
200 225-228 Species denotes CoV Tax:11118
201 292-300 Species denotes SARS-CoV Tax:694009
202 316-319 Species denotes CoV Tax:11118
203 323-342 Species denotes Rhinolophus affinis Tax:59477
204 461-464 Species denotes CoV Tax:11118
205 472-482 Species denotes SARS-CoV-2 Tax:2697049
206 660-668 Species denotes SARS-CoV Tax:694009
207 677-680 Species denotes CoV Tax:11118
208 686-705 Species denotes Rhinolophus sinicus Tax:89399
209 764-774 Species denotes SARS-CoV-2 Tax:2697049
210 854-864 Species denotes SARS-CoV-2 Tax:2697049
211 881-884 Species denotes CoV Tax:11118
212 890-909 Species denotes Rhinolophus affinis Tax:59477
213 959-964 Species denotes CoV-2 Tax:2697049

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T36 35-42 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T37 650-658 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T38 792-802 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739
T39 989-999 Body_part denotes amino acid http://purl.org/sig/ont/fma/fma82739

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T27 56-64 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T28 81-89 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T29 203-211 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T30 292-300 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T31 472-480 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T32 660-668 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T33 764-772 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091
T34 854-862 Disease denotes SARS-CoV http://purl.obolibrary.org/obo/MONDO_0005091

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T34 219-220 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T35 377-382 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T36 402-404 http://purl.obolibrary.org/obo/CLO_0050510 denotes 18
T37 452-460 http://purl.obolibrary.org/obo/NCBITaxon_9397 denotes this Bat
T38 565-567 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T39 718-726 http://purl.obolibrary.org/obo/SO_0000418 denotes signaled
T40 755-760 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T41 955-958 http://purl.obolibrary.org/obo/CLO_0051568 denotes SAS

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T42 35-42 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T43 650-658 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T44 792-802 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T45 792-797 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T46 798-802 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T47 989-999 Chemical denotes amino acid http://purl.obolibrary.org/obo/CHEBI_33709
T48 989-994 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T49 995-999 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T54 0-119 Sentence denotes Phylogenetic analysis of the spike protein sequences of SARS-CoV-2 and Bat-CoVs, SARS-CoV is shown in Figure 1(Fig. 1).
T55 120-407 Sentence denotes The results are in agreement with recent reports of an independent introduction of SARS-CoV-2 from a Bat-CoV, different from the spillover which led to the introduction of SARS-CoV, being the Bat-CoV of Rhinolophus affinis the probable ancestor of this new virus (Wong et al., 2020[18]).
T56 408-524 Sentence denotes Indeed, the sequences of the whole spike of this Bat-CoV and of SARS-CoV-2 share 97.7 % identity (Figure 1(Fig. 1)).
T57 525-659 Sentence denotes More divergence is found however in the S1 subunit, particularly in the Receptor Binding Domain (RBD) of the different spike proteins.
T58 660-865 Sentence denotes SARS-CoV and Bat-CoV from Rhinolophus sinicus (originally signaled as the most closely related virus to SARS-CoV-2) exhibit several amino acid substitutions and deletions in the RBD compared to SARS-CoV-2.
T59 866-1033 Sentence denotes The RBD of Bat-CoV from Rhinolophus affinis, although more closely related to the one of SAS-CoV-2, also displayed several amino acid substitutions (Figure 2(Fig. 2)).