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PMC:7019868 / 7390-9327 JSONTXT

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LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
138 44-51 Chemical denotes iPEDVPT
139 56-63 Chemical denotes iPEDVPT
140 69-76 Chemical denotes iPEDVPT
141 88-95 Chemical denotes iPEDVPT
154 429-436 Species denotes E. coli Tax:562
155 1470-1474 Species denotes PEDV Tax:28295
156 1820-1826 Species denotes stocks Tax:3724
157 1843-1849 Species denotes stocks Tax:3724
158 140-151 Chemical denotes iPEDVPT-P96
159 233-243 Chemical denotes iPEDVPT-P5
160 285-296 Chemical denotes iPEDVPT-P96
161 1123-1129 Chemical denotes phenol MESH:D019800
162 1130-1140 Chemical denotes chloroform MESH:D002725
163 1419-1444 Chemical denotes phosphate buffered saline
164 1446-1449 Chemical denotes PBS
165 1625-1634 Chemical denotes PI-medium

LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T38 437-442 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T39 754-763 Body_part denotes backbones http://purl.org/sig/ont/fma/fma13478
T40 803-807 Body_part denotes gene http://purl.org/sig/ont/fma/fma74402
T41 1246-1249 Body_part denotes RNA http://purl.org/sig/ont/fma/fma67095
T42 1385-1390 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T43 1399-1404 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T44 1532-1537 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646
T45 1681-1685 Body_part denotes cell http://purl.org/sig/ont/fma/fma68646
T46 1872-1877 Body_part denotes cells http://purl.org/sig/ont/fma/fma68646

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T83 103-110 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes Viruses
T84 152-155 http://purl.obolibrary.org/obo/CLO_0051582 denotes has
T85 217-218 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T86 328-329 http://purl.obolibrary.org/obo/CLO_0001021 denotes B
T87 437-442 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T88 587-594 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T89 627-632 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T90 803-807 http://purl.obolibrary.org/obo/OGG_0000000002 denotes gene
T91 816-821 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes virus
T92 922-927 http://purl.obolibrary.org/obo/OGG_0000000002 denotes genes
T93 958-965 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T94 1091-1093 http://purl.obolibrary.org/obo/CLO_0050050 denotes S1
T95 1268-1269 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T96 1385-1390 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T97 1394-1398 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T98 1394-1398 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T99 1399-1404 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T100 1532-1537 http://purl.obolibrary.org/obo/GO_0005623 denotes cells
T101 1681-1685 http://purl.obolibrary.org/obo/GO_0005623 denotes cell
T102 1775-1782 http://purl.obolibrary.org/obo/NCBITaxon_10239 denotes viruses
T103 1828-1830 http://purl.obolibrary.org/obo/CLO_0008285 denotes P1
T104 1867-1871 http://purl.obolibrary.org/obo/CLO_0009524 denotes Vero
T105 1867-1871 http://purl.obolibrary.org/obo/CLO_0050515 denotes Vero
T106 1872-1877 http://purl.obolibrary.org/obo/GO_0005623 denotes cells

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T24 1123-1129 Chemical denotes phenol http://purl.obolibrary.org/obo/CHEBI_15882
T25 1130-1140 Chemical denotes chloroform http://purl.obolibrary.org/obo/CHEBI_35255
T26 1419-1428 Chemical denotes phosphate http://purl.obolibrary.org/obo/CHEBI_18367|http://purl.obolibrary.org/obo/CHEBI_26020|http://purl.obolibrary.org/obo/CHEBI_35780|http://purl.obolibrary.org/obo/CHEBI_43474
T30 1625-1627 Chemical denotes PI http://purl.obolibrary.org/obo/CHEBI_28874|http://purl.obolibrary.org/obo/CHEBI_53806|http://purl.obolibrary.org/obo/CHEBI_61484|http://purl.obolibrary.org/obo/CHEBI_74790
T34 1828-1830 Chemical denotes P1 http://purl.obolibrary.org/obo/CHEBI_60949

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T26 1291-1304 http://purl.obolibrary.org/obo/GO_0006351 denotes transcription
T27 1565-1571 http://purl.obolibrary.org/obo/GO_0040007 denotes growth

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T52 0-4 Sentence denotes 2.3.
T53 5-110 Sentence denotes Generation and Recovery of Recombinant iPEDVPT-P5, iPEDVPT-P96, iPEDVPT-P5-96S and iPEDVPT-P96-5S Viruses
T54 111-187 Sentence denotes The strategy used to recover iPEDVPT-P96 has been described previously [19].
T55 188-297 Sentence denotes The approach to constructing a cDNA clone of iPEDVPT-P5 was technically identical to that of the iPEDVPT-P96.
T56 298-565 Sentence denotes However, we split the plasmid B into two fragments because the sequence remained toxic to the One Shot™ TOP10 Chemically Competent E. coli cells (Invitrogen, Carlsbad, USA) despite propagation in LB broth supplemented with 10% SOC medium and being incubated at 30 °C.
T57 566-764 Sentence denotes To generate chimeric viruses carrying heterologous spike (S) genes, namely the iPEDVPT-P5-96S and iPEDVPT-P96-5S, cDNA clones of iPEDVPT-P5 and iPEDVPT-P96, respectively, were used as the backbones.
T58 765-891 Sentence denotes The sequences covering the complete S gene of each virus were exchanged without disruption to the remaining genomic structure.
T59 892-992 Sentence denotes Sequence differences in the S genes of iPEDVPT-P5 and iPEDVPT-P96 viruses are summarized in Table 1.
T60 993-1185 Sentence denotes Each plasmid was digested with corresponding type-IIS restriction enzymes as designated in Figure S1, gel-purified, assembled and phenol-chloroform extracted to generate the full-length cDNAs.
T61 1186-1504 Sentence denotes The cDNAs were then in vitro transcribed to the full-length RNA transcripts using a mMessage mMachine T7 transcription kit (Ambion, Austin, CA, USA) and immediately electroporated into 800 μL of 107 cells/mL Vero cells in RNase-free phosphate buffered saline (PBS) along with 5 μg of PEDV nucleocapsid (N) transcripts.
T62 1505-1697 Sentence denotes After electroporation, the cells were allowed to recover in growth medium for approximately 16 h and then maintained in PI-medium until cytopathic effects involved over 90% of cell monolayers.
T63 1698-1832 Sentence denotes The whole flasks were subjected to one freeze-and-thaw cycle and the rescued viruses were passaged once to generate viral stocks (P1).
T64 1833-1937 Sentence denotes The viral stocks were titrated on Vero cells in 96-well plates to determine the viral titer (see below).