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mixture was extracted with diethyl ether (3×10 mL). The combined
organic layers were dried (MgSO4), filtered and evaporated. In most
cases the hydroxyquinone product was of high purity, as assessed
by 1H and 13C NMR spectroscopy and TLC, but could be further
purified by column chromatography, typically using 2%–10% by
volume of ethyl acetate in hexane.
(pH 7.9), 500 mM KCl, 500 mM NaCl, 50 mM MgCl2, 1 mM EDTA,
0.15 mg/mL BSA and 10 mM ATP) diluted tenfold. To this mixture
was added the diluted inhibitor to give a final concentration of
80 μM. The mixtures were incubated for at room temperature for
10 min then the supercoiled DNA substrate (0.3 μg) was added,
making the final volume up to 30 μL. The mixture was then
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incubated at 37 C for 30 min prior to reaction termination with the
stopping buffers SDS and proteinase K to give a final concentration
of 0.25% and 250 μg/mL respectively. The mixture was then
analysed on 1% agarose gel in a 10% Tris-borate EDTA buffer. The
different forms of DNA were then separated by electrophoresis at
150 V conducted at room temperature for approximately 2 h. Gels
were visualised by staining with ethidium bromide (0.5 μg/mL) for
30 min then de-staining in water for 15 min. The gels were
photographed under UV irradiation using a UV transilluminator
coupled with a camera. For quantitation, the integrated pixel
intensities of the ethidium bromide fluorescence were determined
using ImageJ software. Background fluorescence (mainly from open
circular ‘nicked’ DNA) was subtracted from all fluorescence values
to give normalised intensities, the percentage inhibition being
given by 100–100 x (normalised intensity for relaxed DNA formed).
Topoisomerase I DNA Cleavage Assay
Human recombinant topoisomerase I (Affymetrix) was supplied in a
storage buffer (15 mM sodium phosphate, pH 7.1, 700 mM NaCl,
0.1 mM EDTA, 0.5 mM DTT, 50% glycerol) at a concentration of
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20 units/μL and was stored at À 20 C. Inhibitor solutions were
prepared by serial dilution of a 10 mM stock solution in DMSO with
relaxation buffer (20 mM Tris-HCl pH 7.5, 200 mM NaCl, 0.25 mM
EDTA, 5% glycerol). To each Eppendorf tube was added supercoiled
plasmid DNA (pBR322, 0.3 μg) followed by different concentrations
of HU-331 (0.3 μM to 1 mM). Human recombinant topoisomerase I
(2 U) was added to each mixture, making the final volume up to
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30 μL. The mixtures were incubated together at 37 C for 45 min.
The reactions were then terminated by addition of the stopping
buffers SDS and proteinase K to a final concentration of 0.25% and
250 μg/mL respectively. The reaction mixtures were incubated at
Cell Proliferation XTT Assay
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50 C for 30 min then analysed by electrophoresis on 1% agarose
gel with 0.5 μg/mL ethidium bromide in a 10% Tris-borate EDTA
buffer. The different forms of DNA were then separated by
electrophoresis at 90–140 V conducted at room temperature for
approximately 2 h. Gels were photographed under UV irradiation
using a UV transilluminator coupled with a camera.
A procedure for an MTT assay was used with the following
adaptations.[53] DU-145 cells were suspended in RPMI 1640 medium,
supplemented with fetal calf serum (40 mL) and L-glutamine (5 mL)
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at 37 C in a humidified atmosphere of 5% CO2 and 95% air.
Aliquots (200 μL) of suspensions of cancer cells were dispensed into
wells of 96-well tissue culture plates at densities of 4000 cells/well.
After incubation for 24 h various concentrations of the 2-hydroxy-
1,4-benzoquinone derivative were added and cell viability deter-
mined after 72 h using 2,3-bis-(2-methoxy-4-nitro-5-sulfophenyl)-
2H-tetrazolium-5-carboxanilide (XTT) in the presence of phenazine
methosulfate (PMS). Absorbance was measured against a back-
ground control as a blank (0.5% DMSO in growth medium) using a
scanning multiwell spectrophotometer (Wallac Victor 1420 multi-
label counter) at 450 nm. IC50 values for various compounds were
then calculated using OriginPro 9 by plotting the Log of the
concentrations against the mean percentage inhibition, and using a
nonlinear curve fit algorithm.
DNA Intercalation Assay
A literature procedure, reported by Peixoto and co-workers,[51] was
used to investigate the intercalation activity of HU-331 compared
to ethidium bromide based on the topoisomerase I relaxation assay.
Inhibitor concentrations were made by serial dilution of stock
solutions (10 mg/mL for ethidium bromide and 10 mM for HU-331)
with topoisomerase I relaxation buffer (20 mM Tris-HCl pH 7.5,
200 mM NaCl, 0.25 mM EDTA, 5% glycerol). To each Eppendorf
tube was added supercoiled plasmid DNA (pBR322, 0.3 μg) followed
by different concentrations of ethidium bromide (0.03–3 μM) and
HU-331 (0.03–100 μM). Human recombinant topoisomerase I (5 U)
was added to each mixture, and the final volume made up to 30 μL
using dilution buffer. The mixtures were incubated together at
Cell Viability Assay
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37 C for 45 min. Reactions were then terminated by addition of the
Cell lines were purchased from American Type Culture Collection
(Manassas, VA). Cells of the DU-145 prostate cancer cell line were
grown in EMEM medium, whereas those from Raji human
lymphoma and Jurkat human acute T cell leukaemia cell line were
grown in RPMI-1640 medium. All culture media were supplemented
with 10% fetal bovine serum, penicillin (100 μg/mL) and streptomy-
stopping buffers SDS and proteinase K to a final concentration of
0.25% and 250 μg/mL respectively. The reaction mixtures were
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incubated at 50 C for 30 min then analysed by electrophoresis on
1% agarose gel in a 10% Tris-borate EDTA buffer. The different
forms of DNA were then separated by electrophoresis at 150 V
conducted at room temperature for approximately 2 h. The gels
were visualised by staining with ethidium bromide (0.5 μg/mL) for
30 min then de-staining in water for 15 min. The gels were
photographed under UV irradiation using a UV transilluminator
coupled with a camera.
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cin (100 μg/mL). Cultures were maintained at 37 C in a humidified
atmosphere of 5% CO2 and 95% air.
Test compounds and the reference compound staurosporine
(Sigma-Aldrich) were prepared in DMSO as 10 mM stock solutions
which then were diluted with 10-dose and three-fold dilutions in a
source plate. A solution of each test compound (0.25 mL) or of
staurosporine (0.025 mL) was delivered from the source plate to
each well of the 384-well cell culture plates by Echo 550. Culture
medium (25 μL) containing one thousand cells from the DU-145
prostate cancer cell line, or the Raji human lymphoma cell line, or
the Jurkat human acute T cell leukaemia cell line was added to the
wells of the cell culture plates. The cells were incubated with the
Topoisomerase II Relaxation Assay
The procedure was similar to the topoisomerase I relaxation assay
but with slight modifications.[52] Each inhibitor was tested at one
concentration (80 μM) by diluting the stock concentrations with
topoisomerase II dilution buffer (10 mM sodium phosphate pH 7.1,
50 mM NaCl, 0.2 mM DTT, 0.1 mM EDTA, 10% glycerol and 0.5 mg/
mL BSA. To each Eppendorf tube was added human recombinant
topoisomerase II (2 U) followed by reaction buffer (100 mM Tris-HCl
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compounds at 37 C for 72 h under an atmosphere of 5% CO2 and
95% air. To each well was added Cell Titer Glo 2.0 reagent (25 μL)
(Promega, Madison, WI), then the contents were mixed on an
ChemMedChem 2019, 14, 1–12
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