B.Z. Sibuh et al.
Life Sciences 273 (2021) 119305
2
.2.2. MTT cell viability assay cell count
Cells were counted using hemocytometer (x10 cell/ml) before the
tumor cell lines were subjected to quantitative reverse transcription-PCR
(RT-qPCR) using Gene expression specific primers (Supplementary
Table 3) was done. GAPDH was used as a housekeeping gene and
selected 17 genes viz. 10 tumor suppressor genes, 4 oncogenes, 2-hor-
monal genes and 1 apoptosis inducing gene were tested for their
expression.
4
cell viability test conducted. Then cell viability was assessed by MTT
assay as described in [33,50,51] using ATCC MTT Cell Proliferation
Assay kit (ATCC, VA, USA). MCF-7 and MCF-10 cell lines were cultured
4
separately in 96 well plates at a concentration of 1 × 10 cells/well.
After 48 h the media was removed and cells were washed twice with
1
00
μ
l serum-free medium. Then 10
μ
l MTT Reagent was added and left
2.2.5. Western blot analysis
◦
for incubation for 4 h at 37 C in a CO2 incubator, until intracellular
purple formazan crystals are visible (until purple precipitate is visible).
After that, MTT containing medium was discarded, the cells were
Western blot is a commonly used analytical technique to detect
specific proteins in a given sample. Because an antibody is used to
specifically detect its antigen, the technique is also known as protein
immunoblotting. By analyzing the location and intensity of the band
formed, the expression details of the target proteins in the given cells
could be obtained [54]. Western blot analysis was performed using
previous established procedures [54,55], MCF-10A and MCF-7 cell lines
were cultured in DMEM/F12 Media with antibiotics till 70% confluency
stage. The groups were untreated, 2-HBTSc and 4-HBTSc at concentra-
washed with PBS (200
μl). The crystals were then dissolved by adding
1
00 l of DMSO and mixed properly by pipetting up and down and left at
μ
room temperature in the dark for 2 h. Spectro photometrical absorbance
of the purple blue formazan dye was measured in a micro-plate reader at
5
70 nm. Then, percent Cell viability was calculated using the formula
from Abdellatif et al. [46]
tion of 50 g/dish. The cells were harvested after 72 h of treatment.
μ
Mean absorbance of treated
Mean absorbance of untreated
%
Cell viability =
× 100.
Proteins were extracted with ice-cold EBC buffer with proteinase in-
hibitors. After gel-electrophoresis and transfer to nitrocellulose mem-
branes, proteins were visualized by immunoblotting with affinity-
purified polyclonal antibodies (Supplementary Table 4), followed by
incubation of the filters with HRP-conjugated secondary antibodies
purchased from Santa Cruz Biotechnology (Santa Cruz, Dallas, Texas,
USA), and reaction with the Enhanced chemiluminescent (ECL) detec-
tion kit from Sigma Aldrich (Sigma Aldrich, MO, USA).
2
.2.3. Evaluation of anticancer potential
The in vitro anticancer activities of the test ligands were studied for
short-period of time. First, 1 mg of the synthesized thiosemicarbazone
ligand was dissolved in 1 ml of Dimethyl sulfoxide (DMSO) separately.
The test was done by taking the desired doses directly (without further
dilution). Hence, the study was conducted in five concentrations
including the control group (i.e., 0, 5
μ
g/ml, 10
μ
g/ml, 12
μ
g/ml, 20 g/
μ
ml of the test ligand) for each of the cell lines used. Based on the pre-
pared test drug concentrations we have assigned the following groups.
2.3. Molecular docking study
Group I: the cell line was subjected only for 10
II: 5 g/ml of the test ligand; Group III, 10
Group IV, 12 g/ml test ligand; Group V, 20
μ
l DMSO (control); Group
g/ml of the test ligand;
Patch dock server-Bioinfo 3D, a molecular docking algorithm [56]
was used to carry molecular docking calculations of the both the syn-
thesized compound, 2-Hydroxybenzaldehyde thiosemicarbazone (2-
HBTSc) and 4-Hydroxybenzaldehyde thiosemicarbazone(4-HBTSc)
respectively with four protein receptors, Estrogen Receptor Alpha
ligand binding Domain,Y5375 Mutant (PDB id: 6CBZ), Human 17-Beta-
hydroxy steroid dehydrogenase type 1 mutant H221Q (PDB id: 1FDW),
Human Topoisomerase II alpha(5GWK) and Human P73 Tetrameriza-
tion domain(2WTT). All proteins were downloaded from Protein Data
Bank as PDB files (Supplementary Fig. 1–4). Water molecules attached
to these enzymes were removed so that they do not cause any interfer-
ence during the docking study. The structure of the synthesized 2-HBTSc
was drawn and cleaned using Chem Sketch software and a mol file was
generated which was then converted into PDB format. The PDB file of
synthesized 2-HBTSc was given a default PDB id of tclactvs000bBNjp.
pdb. And the other compound, 4-HBTSc was prepared using the previ-
ously stated method and a default PDB id tclactvs000ckTjaK.pdb was
given. Both these ligands were then docked into the active site of 4
different enzymes and protein 6CBZ, 1FDW, 5GWK and 2WTT one by
one. The docking was done at root mean square deviation (RMSD) of
atomic position value of 4 as the standard value. The docking results
using both the compounds for both targets were measured in the form of
binding energy.
μ
μ
μ
μg/ml test ligand.
2
.2.4. RNA isolation, cDNA synthesis and quantitative RT-PCR
The effects of 2-HBTSc and 4-HBTSc on the tumor cell were also
determined by molecular profiling. RNA was isolated and extracted
using previous procedure [52] through Trizol reagent (Thermo Fisher
Scientific, MA, USA) The sample was Lysed and homogenized in TRIzol
reagent. For homogenization initially, cells were centrifuged and the
growth media was discarded. Then, TRIzol reagent (0.75 ml of TRIzol
reagent per 0.25 ml of sample) was add directly to the culture dish to
lyse the cells and the lysate was mixed by vortex for homogenization.
After that, chloroform was added with ration of 0.2 ml of chloroform per
1
ml of TRIzol reagent used for lysis. Once the chloroform-containing
solution is added, the sample become cloudy. And it was vortexed for
1
5 s, incubated at room temperature for 5 min, and centrifuged (12,000
◦
×
g, 4 C, 15 min). Then the upper aqueous layer which contains RNA,
was transferred to a new tube. To precipitate RNA, 0.5 ml of isopropanol
to the aqueous phase, per 1 ml of TRIzol reagent used for lysis was
added. Then it was vortexed for 15 s, incubated at room temperature for
◦
1
0 min, and centrifuged (12,000 ×g, 4 C, 15 min.). Total RNA precip-
itate formed a white gel-like pellet at the bottom of the tube. To wash the
RNA, the supernatant was discarded and a volume of 75% ethanol equal
to the amount of TRIzol used during homogenization (step #1) was add.
2
.4. Statistical analysis
Then the sample was briefly vortexed and centrifuged for 5 min at 7500
◦
×
g at 4 C. After that discarding the supernatant and vacuum or air
Data is presented in the form of descriptive statistics through tables
drying of the RNA pellet for 10 min was done. Similarly, cDNA is syn-
thesized as described in [53] using Revert Aid First strand cDNA syn-
thesis kit (Thermo Fisher Scientific, MA, USA) through oligo-dT primers,
RiboLock RNase Inhibitor and Revert Aid reverse transcriptase in total
and graphs. Microsoft Excel was used for descriptive statistical analysis.
Whereas, IC50 value was calculated using Prism statistical software
package by fitting the sigmoidal dose response model. Also, a two-way
ANOVA and Mean comparison test using Tukey multiple comparison
test were analyzed in Prism statistical software package (GraphPad
reaction volumes of 20 L. Following that all groups of normal and
μ
3