LitCovid-sentences  

PMC:7096774 / 5991-11723 JSONTXT 13 Projects

Annnotations TAB TSV DIC JSON TextAE

Id Subject Object Predicate Lexical cue
T58 0-49 Sentence denotes SARS-CoV-2/Finland/1/2020 whole-genome sequencing
T59 50-304 Sentence denotes Nearly the complete coding region of SARS-CoV-2 (GenBank accession number: MT020781) was sequenced from the NPS collected on Day 4 (Table) and the complete coding region was sequenced from the virus isolate obtained after three passages in Vero E6 cells.
T60 305-559 Sentence denotes The virus had 1 nt substitution C21707T compared with the reference strain Wuhan-Hu-1 collected in Wuhan China, December 2019 (NC_045512) [3] which had led to a histidine to tyrosine (H49Y) substitution in the N-terminal domain of the spike glycoprotein.
T61 561-610 Sentence denotes Antibody response during the SARS-CoV-2 infection
T62 611-728 Sentence denotes Serum samples were collected from the index case on Days 4, 9, 10 and 20 from onset of the first symptoms (Figure 1).
T63 729-1014 Sentence denotes Presence of serum IgM and IgG antibodies against SARS-CoV-2 was analysed by immunofluorescence assays (IFA) based on Vero E6 cells infected with passage 4 of the patient’s isolate SARS-CoV-2/Finland/1/2020 virus and transferred onto microscope slides and fixed with acetone (Figure 2).
T64 1015-1120 Sentence denotes Serum samples from the index case were serially diluted and incubated for 2 h for IgM and 30 min for IgG.
T65 1121-1231 Sentence denotes Antibodies were visualised with fluorescein isothiocyanate (FITC)-conjugated anti-human IgM or IgG antibodies.
T66 1232-1405 Sentence denotes While the antibodies were undetectable on Day 4 after onset of symptoms, IgG titres rose to 80 and 1,280 and IgM titres to 80 and 320 on Days 9 and 20, respectively (Table).
T67 1406-1555 Sentence denotes Random serum samples from staff members of the University of Helsinki (n = 19) did not show specific binding at dilutions greater than 20 (Figure 2).
T68 1556-1660 Sentence denotes Figure 2 Immunofluorescence assay of serum samples, COVID-19 index case, Finland, January–February 2020
T69 1661-1696 Sentence denotes COVID-19: coronavirus disease 2019.
T70 1697-1837 Sentence denotes Anti-SARS-CoV-2 IgM and IgG antibodies were detectable by immunofluorescence assay in samples from Days 9, 10 and 20 after onset of illness.
T71 1838-1929 Sentence denotes Both IgM and IgG were found at a titre of 80 on Day 9, titres on Day 20 were 320 and 1,280.
T72 1930-2052 Sentence denotes As an example, dilutions 1:20 and 1:160 from the Day 20 sample are shown for, respectively, IgM and IgG of the index case.
T73 2053-2093 Sentence denotes Dilution 20 shown for the control serum.
T74 2094-2287 Sentence denotes Mock- and SARS-CoV2-infected Vero E6 cells collected on Day 6 post infection were lysed in Laemmli sample buffer, and Western blotting (WB) of lysates was performed as described previously [4].
T75 2288-2397 Sentence denotes At 1:200 dilution, the convalescent serum on Day 20 identified SARS-CoV2 N, S and E protein bands (Figure 3).
T76 2398-2486 Sentence denotes At higher exposure, all bands were detectable even at 1:1,600 serum dilution (Figure 3).
T77 2487-2650 Sentence denotes Figure 3 Western blot of mock- and SARS-CoV-2 infected Vero E6 cells using patient serum collected 20 days after onset of symptoms, Finland, January–February 2020
T78 2651-2748 Sentence denotes Top left panel: total protein staining (Ponceau S) of the nitrocellulose membrane before probing.
T79 2749-2842 Sentence denotes Top right panel: strips probed with different dilutions of the patient serum at low exposure.
T80 2843-2926 Sentence denotes Bottom panel: the same membranes individually contrasted for higher band intensity.
T81 2927-3096 Sentence denotes The arrows indicate SARS-CoV-2 proteins, the labelling assumes that the migration of SARS-CoV-2 proteins was similar to that of Vero E6-expressed SARS-CoV proteins [23].
T82 3097-3181 Sentence denotes The bands migrating at ca 110 and 90 kDa probably represent S1 and S2, respectively.
T83 3182-3239 Sentence denotes Marker M: Precision Plus Dual Colour Standards (Bio-Rad).
T84 3240-3369 Sentence denotes The detection was done using Odyssey Infrared Imaging System (LI-COR) using goat anti-human IR800 conjugate at 1:10,000 dilution.
T85 3370-3485 Sentence denotes SARS-CoV-2-specific neutralising antibody levels were measured in duplicate with the MN test in a BSL-3 laboratory.
T86 3486-3661 Sentence denotes The serum samples were heat-inactivated at 56 °C for 30 min and 2-fold serially diluted starting from 1:4 in EMEM supplemented with 2% of heat-inactivated FBS and antibiotics.
T87 3662-3800 Sentence denotes Fifty plaque‐forming units (PFU) of the SARS-CoV-2/Finland/1/2020 strain were added to the serum dilutions and incubated for 1 h at 37 °C.
T88 3801-3945 Sentence denotes Vero E6 cells (5 × 104/well) were added to the virus–serum mix, and the mixture was incubated in 96-well plates for 4 days at 37 °C with 5% CO2.
T89 3946-3981 Sentence denotes Neutralisation was assessed by CPE.
T90 3982-4134 Sentence denotes The neutralisation endpoint was determined as the 50% endpoint of the serum that inhibited the SARS-CoV-2 infection observed by CPE of inoculated cells.
T91 4135-4252 Sentence denotes Diagnostic serum samples from the index case and her three asymptomatic close contacts were studied with the MN test.
T92 4253-4331 Sentence denotes During the acute phase of infection, no neutralising antibodies were detected.
T93 4332-4458 Sentence denotes The patient seroconverted for neutralising antibodies between Day 4 and 9, with the titre increasing to 160 on Day 20 (Table).
T94 4459-4544 Sentence denotes The serum specimens were confirmed not to be toxic or infective to the cells as such.
T95 4545-4622 Sentence denotes Serum samples taken from the three close contacts tested negative in MN test.
T96 4623-4738 Sentence denotes We also tested serum samples collected in 2019 from 83 Finnish subjects aged 4 to 89 years and all tested negative.
T97 4739-4913 Sentence denotes Sera known to be positive for IgG against human coronavirus OC43 and 229E [5] and rabbit or guinea pig antibody against SARS-CoV N protein [6] could not neutralise the virus.
T98 4915-4932 Sentence denotes Ethical statement
T99 4933-5243 Sentence denotes The investigations were carried out in accordance with the General Data Protection Regulation (Regulation (EU) 2016/679 and Directive 95/46/EC) and the Finnish Personal Data Act (Finlex 523/1999) The Finnish Communicable Diseases Act (Finlex 1227/2016) allows sampling for diagnostic and surveillance purposes.
T100 5244-5437 Sentence denotes The convalescent serum sample was obtained on 14 February through informed consent of the patient and research permits (TYH2018322, TYH2019263) from the Helsinki University Hospital Laboratory.
T101 5438-5498 Sentence denotes Finnish population serum samples were collected during 2019.
T102 5499-5644 Sentence denotes The study protocol was approved by the Ethics Committee of the Department of Medicine, Helsinki University Hospital (Permission 433/13/03/00/15).
T103 5645-5732 Sentence denotes Serum samples of University of Helsinki staff members were used under informed consent.