Key Resource table
Reagent/Resource
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Source
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Identifier
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Experimental models: Cell lines
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Vero CCL-81
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ATCC
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Cat#ATCC-CCL-81
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Experimental models: Organisms/strains
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Hamsters: Syrian hamsters
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Indian Council of Medical Research-National Institute of Nutrition, Hyderabad, India
|
--
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Virus strain
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NIV-2020-770
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ICMR-National Institute of Virology, Pune
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hCoV-19/India/770/2020|EPI_ISL_420545|
hCoV19/India/2020770/2020|EPI_ISL_420546|
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Antibodies
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Biotin mouse anti-Armenian and Syrian Hamster IgG1
|
BD Biosciences
|
Cat#554007
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Biotin mouse anti-Armenian and Syrian Hamster IgG2
|
BD Biosciences
|
Cat#554025
|
Anti-mice HRP
|
Dako
|
Cat #P044701-2
|
Chemicals
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Imidazoquinoline
|
Viro Vax
|
|
Alum
|
Brenntag
|
|
b-Propionolactone
|
Ferak
|
|
Minimum Essential Medium (MEM)
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Thermo Fisher Scientific
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Cat # 11534466
|
Dulbecco's Modified Eagle Medium
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Sigma-Aldrich
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Cat # D5796
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Foetal Bovine serum
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Sigma-Aldrich
|
Cat # F4135
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Penicillin/Streptomycin
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Sigma-Aldrich
|
Cat # P4333
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Skimmed milk powder
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Difco
|
Cat #232100
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3,3′,5,5′-Tetramethylbenzidine (TMB) substrate
|
Clinical science product
|
Cat#01016-1-1000
|
Critical Commercial Assays
|
Hamster Interleukin ELISA Kit
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Immunotag
|
Cat #ITE150025, ITE150027,ITE150010, ITE150004,ITE150058,ITE150028,ITE150030
|
MagMAX™
Viral/Pathogen Nucleic Acid Isolation Kit
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Thermo Fisher Scientific
|
Cat #A42352
|
Software
|
PRISM
|
GraphPad software
|
Version 8
|
Lead Contact
Further information and requests for resources and reagents should be directed to the Lead Contact, Dr Pragya D Yadav ([email protected]).
Materials Availability
This study did not generate new unique reagents.
Data and Code Availability Statement
The published article includes all datasets generated or analysed during this study.
Experiment model and subject details
Cells and virus
Vero CCL81 cells were grown in Minimum Essential Media (MEM) (Thermo fisher Scientific, USA) supplemented with 2% foetal bovine serum (FBS) (Sigma-Aldrich, USA). SARS-CoV-2 strain, NIV-2020-770 isolated from a patient's throat/ nasal swab sample at Indian Council of Medical Research- National Institute of Virology, Pune was passaged up to three times in Vero CCL81 cells before use (Sarkale et al., 2020). The infectious virus titre was found to be 106.5 tissue culture infective dose 50 (TCID50)/ml.
Ethics statement
The study was approved by the Institutional Project Review Committee, Institutional Animal Ethics Committee and Institutional Biosafety Committee of Indian Council of Medical Research-National Institute of Virology, Pune. All the experiments were performed as per the guidelines laid down by the Committee for the Purpose of Control and Supervision of Experiments in Animals (CPCSEA, 2003).
Immunization of hamsters
Thirty-six, 6- 8 week old, female Syrian hamsters were divided into four groups, viz., Group I, II, III, and IV of 9 hamsters each. The hamsters were housed in individually ventilated cages with ad libitum food and water. Group I was administered with phosphate-buffered saline (PBS), group II with 6µg of vaccine candidate along with Algel 1, group III with 3µg of vaccine candidate with Algel 2, and group 4 with 3µg of vaccine candidate with Algel 2. Animals of each group were immunized with 0.1 ml of PBS/vaccine formulations intramuscularly in the left hind leg under isoflurane anaesthesia 0, 14, and 35 days. Post immunization hamsters were observed daily for clinical signs and injection site reaction. Rectal temperature was monitored every 24 hours for 3 days post-immunization and weekly thereafter. Body weight was measured every alternate day for the first week and weekly thereafter. The hamsters were bled on day 12, 21, and 48 post-immunization to check for antibody response.
Dose optimization study in hamsters
For optimization, of the intranasal virus challenge dose, SARS-CoV-2 dilutions ranging from 101.5 TCID50/0.1ml to 105.5 TCID50/ml were inoculated in 5 groups of 6 Syrian hamsters each in containment facility. Three hamsters from each group were sacrificed on days 3 and 14 post-inoculation to check for viral load in the lungs by real-time RT-PCR/virus titration and lung pathology.
Challenge study in hamsters
The immunized hamsters were challenged with 0.1 ml of 105.5 TCID50 SARS-CoV-2 virus intranasally on the eighth-week post-immunization (day 50) in the containment facility of ICMR-National Institute of Virology, Pune under isoflurane anaesthesia. Throat swabs were collected in 1 ml virus transport media on every alternate day post-inoculation for viral load estimation. Three hamsters from each group were euthanized on 3, 7 and 15 DPI to collect throat swab, nasal wash, rectal swab, blood and organ samples for viral RNA estimation, titration, histopathology, and immunological analysis.
Method details
Inactivated SARS-CoV-2 whole virion vaccine (BBV152)
SARS-CoV-2 strain (NIV-2020-770) isolated at ICMR-NIV, Pune was propagated in Vero CCL81 cells and harvested on observation of cytopathic effect in the cells. At BBIL BPL (Ferak, Germany) was added to the virus harvest following filtration and stabilization of the harvest using a buffer. The mixture was kept at 2-8˚C with continuous stirring for 24 hrs and was further hydrolysed by incubating at 37˚C for 2hrs. Column chromatography was used for further purification and the process intermediate was concentrated to prepare the whole virion vaccine. Two different antigen concentrations (3 µg and 6 µg) and 2 adjuvants namely Algel 1 (Alum) and Algel 2 (TLR 7/8 (imidazoquinoline) agonist adsorbed alum) in combinations were used for the study. The vaccine formulations evaluated in the study were 6 µg antigen with Algel1, 3 µg with Algel 2, and 6 µg with Algel 2.
Enzyme-linked Immunosorbent Assay
Ninety-six well microtitre plates were coated with 1:10 diluted inactivated SARS-CoV-2 antigen with carbonate buffer (pH 9.5) overnight at 4 °C. Subsequently, wells were blocked with liquid plate sealer (CANDOR Bioscience GmbH, Germany) for two hours at room temperature (25-30°C). The wells were washed 5 times with phosphate-buffered saline with 0.05% Tween 20 (PBS-T) and were incubated at 37°C for one hour with 100μl of diluted hamster serum samples (1: 100). Negative control was added to each plate. After 5 washes with PBS-T, anti-hamster IgG antibodies 1:3000 (Thermoscientific, USA) were added and incubated for 1 hour at 37°C. Following 5 washes with PBS-T, 100 μl of substrate, 3’,3’5,5’-tetramethylbenzidine (TMB) was added to each well. The colour reactions were developed for 10 minutes and after termination, absorbance was measured at 450 nm. Serum IgG titres were determined by testing serial 10-fold dilutions of each sample, starting from 1:100 dilution. Titre values were determined as the highest dilution at which the optical density was more than 0.2 and positive/negative (P/N) ratio above 1.5.
For antibody sub-typing, plates were coated with antigen and blocked as described earlier. Hamster serum, 1:100 diluted in 1% bovine serum albumin in 1× PBST was added to each well and incubated for 1 hour at 37°C. After washing the plates 5 times with 1× PBST wells were probed with biotinylated anti-Syrian hamster IgG1 /IgG2 antibodies diluted at 1:10000 (BD biosciences, USA) and incubated for 1 hour at 37°C. After washing, the plates were incubated with Streptavidin-horseradish peroxidase 1:8000 (Thermo-scientific, USA) for 30 minutes at 37°C. The reaction was read as described earlier.
Plaque Reduction Neutralization test
The assay was performed as described by Gururaj et al., 2020. Briefly, a four-fold serial dilution of hamster serum samples was mixed with an equal amount of virus suspension and incubated at 37°C for 1 hour. Further 0.1 ml of the mixture was inoculated in a 24-well tissue culture plate containing a confluent monolayer of Vero CCL-81 cells. The plate was incubated at 37°C for 60 min and overlay medium (2% carboxymethyl cellulose with 2% FBS in 2X MEM) was added to the cell monolayer, which was further incubated at 37°C in 5% CO2 incubator for 4-5 days and PRNT 50 titres were calculated as described earlier.
Cytokine analysis
The serum cytokine levels (TNF-α, IFN-γ, IL-4, IL-6, IL-10 and IL-12) were assessed in hamsters post challenge at 3, 7, and 15 days. An ELISA based commercial assay (Immunotag, USA) was used for the hamster specific cytokine quantitation. For this, plates pre-coated with hamster specific cytokine antibody were used and a streptavidin based HRP system was used for detection and the absorbance was measured at 450 nm.
Real-time RT-PCR for detection of genomic and subgenomic viral RNA
Nasal wash, throat swab and rectal swab samples were collected in 1ml viral transport medium and weighed organ samples (lungs, nasal turbinate, trachea, spleen, kidney and intestine) were triturated in 1 ml sterile tissue culture media, using a tissue homogenizer (Eppendorf, Germany) and 200 µl of the homogenate/ swab specimens were used for further RNA extraction using MagMAX™ Viral/Pathogen Nucleic Acid Isolation Kit as per the manufacturer’s instructions. Real-time RT-PCR was performed for E and RdRp2 gene for SARS-CoV-2 as well as for detection of sgRNA of E gene using published primers (Choudhary et al., 2020 and Wolfelet al., 2020)
Virus titration
The lungs, nasal turbinate and throat swab samples from 3, 7, and 15 DPI were used for virus titration in Vero CCL81 cells. 100 ml of the sample was added onto a 24-well plate with Vero CCL81 monolayers and incubated for one hour at 37°C. The media was removed and the cell monolayer was washed with PBS. The plate was incubated with maintenance media with 2% FBS in a CO2 incubator. The plate was examined daily for any cytopathic effects (CPE) using an inverted microscope (Nikon, Eclipse Ti, Japan). The culture supernatant from the wells showing CPE was confirmed by real-time RT-PCR (Gururaj et al., 2020).
Histopathology and immunohistochemistry
Lungs samples collected during necropsy were fixed in 10% neutral buffered formalin. The tissues were processed by routine histopathological techniques for hematoxylin and eosin staining. Duplicate sections were taken for immunohistochemical evaluation. An in-house developed anti-SARS-CoV-2 mouse polyclonal serum was used as the primary antibody for detection. The tissue sections were rehydrated and antigen retrieval was performed using 0.3% hydrogen peroxide in methanol. The slides were incubated with 1: 500 dilution of primary antibody for an hour and an anti-mouse HRP antibody (Dako, USA) was used as a secondary antibody. For detection, 3, 3’-diaminobenzidine tetrahydrochloride substrate, and hydrogen peroxide were used.
Data analysis
For analysis of the data, Graphpad Prism version 8.4.3 software was used. The statistical significance was assessed using the Kruskal-Wallis test Dunn's multiple comparisons test. Two-tailed Mann-Whitney test was performed between the control and the vaccinated groups if the p-value for the Kruskal-Wallis test was found to be significant; p-values less than 0.05 were considered to be statistically significant.