A Fluorescence-based Lymphocyte Assay Suitable for High-throughput Screening of Small Molecules

Summary

We present in the current study a novel fluorescence-based assay using lymphocytes derived from a transgenic mouse. This assay is suitable for high-throughput screening (HTS) of small molecules endowed with the capacity of either inhibiting or promoting lymphocyte activation.

Abstract

High-throughput screening (HTS) is currently the mainstay for the identification of chemical entities capable of modulating biochemical reactions or cellular processes. With the advancement of biotechnologies and the high translational potential of small molecules, a number of innovative approaches in drug discovery have evolved, which explains the resurgent interest in the use of HTS. The oncology field is currently the most active research area for drug screening, with no major breakthrough made for the identification of new immunomodulatory compounds targeting transplantation-related complications or autoimmune ailments. Here, we present a novel in vitro murine fluorescent-based lymphocyte assay easily adapted for the identification of new immunomodulatory compounds. This assay uses T or B cells derived from a transgenic mouse, in which the Nur77 promoter drives GFP expression upon T- or B-cell receptor stimulation. As the GFP intensity reflects the activation/transcriptional activity of the target cell, our assay defines a novel tool to study the effect of given compound(s) on cellular/biological responses. For instance, a primary screening was performed using 4,398 compounds in the absence of a "target hypothesis", which led to the identification of 160 potential hits displaying immunomodulatory activities. Thus, the use of this assay is suitable for drug discovery programs exploring large chemical libraries prior to further in vitro/in vivo validation studies.

Introduction

High throughput screening (HTS) is a proven strategy widely adopted for the identification of new therapeutic molecules or for the repositioning of FDA-approved drugs in new medical indications.¹ So far, the achieved HTS success can be measured by the plethora of previously discovered drugs. For instance, the tyrosine kinase inhibitor lapatinib used for the treatment of breast cancer, sitagliptin; a dipeptidyl peptidase-4 (DPP-4) inhibitor used as an anti-hyperglycemic drug, and the oral Bcr-Abl tyrosine kinase inhibitor dasatinib used for the treatment of chronic myelogenous leukemia represent few examples of a long list of approved drugs originally discovered by HTS.² Although the productivity of the pharmaceutical industry has lately suffered from a lack in the discovery of new chemical entities, the likelihood of successful drug discovery can be improved through an increase in the number of pre-clinical candidates displaying modulatory biological/biochemical properties. Accordingly, the development of new HTS assays adapted for phenotypic screening could offer the potential to provide important pharmacological tools for the discovery of new drug hits.^3,4,5,6 Furthermore, HTS can now be performed at a faster pace due to significant technological transformations in recent years including custom-designed flexible robotic installations, novel read-out technologies and extensive miniaturization.^2,7 Among the factors contributing to the growing interest in the use of phenotypic screening (aka forward pharmacology) is the perception that focusing on functional effects rather than oversimplified reductionist assumptions regarding molecular targets (target-based screening/biochemical reactions) is more likely to show clinical efficacy. Thus, phenotypic screening holds the promise to uncover new potentially therapeutic compounds and molecular pathways of currently untreatable diseases.²

To properly identify inhibitors or activators for a given molecular target or cellular function, a highly sensitive and reliable assay is required in order to differentiate between bona fide hits and false positives. So, what makes a good assay? The quality of a given assay must be first judged by the signal-to-noise ratio (reflected through a Z factor).⁸ Second, the targeted effect or the goal of the screen should be clearly established. For example, functional cell-based approaches can offer significant advantages for receptor screening as opposed to an assay specifically designed to assess ligand-receptor binding. The reason for this is that the latter approach cannot differentiate between agonist and antagonist ligands.⁹ In contrast, a cell-based approach is likely to be more effective as receptor function can be directly assessed in a biological phenotype (proliferation, cell cycle arrest, apoptosis, and/or differentiation). However, it must be noted that biochemical assays can provide significant advantages over phenotypic assays as they infringe on a specific intracellular target. A well-optimized biochemical assay will generally have less data scatter than a phenotypic screening while simplifying afterwards investigations related to the drug molecular mechanism of action. However, the major drawback of target-based or biochemical assays is the chance of amplifying the rate of false positive hits that may affect non-specific targets when tested in a biological system (loss of the specificity originally studied in the biochemical assay).¹⁰ Although a well-established cut-off point between negative and positive hits can minimize the number of false positives in the primary screening, the use of a physiologically relevant system mimicking the native cellular environment such as intact cells, whole tissue or whole animal remains the core of the assay design pendulum. Therefore, phenotypic screening enables lead discovery with desirable biological/phenotypic effects for diseases with no identified drug targets without having prior knowledge of the compound's activity or mode of action.¹¹

The herein study concerns the development and testing of an optimized and reproducible phenotypic screening based on two important components: a commercially available mouse model and a clustered sub-family of chemical compounds. With respect to the animal model, the assay relies on the use of lymphocytes derived from a mouse strain (Nur77^GFP) harboring a bacterial artificial chromosome containing a cassette in which the expression of the green fluorescent protein (GFP) is driven by the Nur77 promoter.¹² The hallmark of this stimulation is based on the fact that Nur77 is an immediate early gene up-regulated following T-cell receptor (TCR) or B-cell receptor (BCR) stimulation.¹² As for the screening method itself, an approach was used to help avoiding the screening of trivial analogues while minimizing the time needed to assess a large chemical library (>10⁵ compounds). To do so, a database of chemical compounds selected by medicinal chemists using virtual screening tools was exploited to identify topologically similar compounds using known active seed structures as references. This approach allowed us to screen 4,398 compounds representing an overall library of over 136,000 chemical entities.

Protocol

All animal protocols were approved by the Animal Care Committee of Université de Montréal. Mice were euthanized by gradual inhalation of CO₂ until no vital signs were observed followed by cervical dislocation. The procedure was carried out by a certified person to ensure that animals were euthanized in a humane manner and according to the recommendations of the Canadian Council on Animal Care.

1. Preparation of Splenocyte Medium and Flow-cytometry Buffer

1. Perform all steps under a 70% ethanol-cleaned biological hood.
2. Remove 70 mL of pre-warmed Roswell Park Memorial Institute (RPMI) 1640 1x medium (commercially available and supplied in filtered 500 ml volume sterile bottles) and place in a sterile tube. The removed medium will be used later in the protocol.
3. Supplement the remaining 430 mL of RPMI 1640 1x with 50 ml inactivated fetal bovine serum (FBS), 5 mL penicillin/streptomycin, 5 mL HEPES, 5 ml non-essential amino acids, 5 mL sodium pyruvate, and 0.05 mL filtered (1M) 2-mercaptoethanol.
   NOTE: Pre-warm splenocyte medium using a water bath set at 37 ºC to avoid heat shocking cells. This is important to avoid induction of cellular apoptosis.
4. To prepare the flow-cytometry buffer, add 2 mL of FBS to 98 ml phosphate buffered saline (PBS) and keep refrigerated until use (preferably within three days).

2. Generation of Splenocyte Cell Suspension from Nur77^GFP Mouse Spleens

1. Aseptically isolate the spleen from a 6-8 week old female Nur77^GFP mouse.
   1. To achieve this, work under sterile hood. Soak the sacrificed mouse fur, scissors and forceps in 70% ethanol.
   2. Lay the mouse on its right side, cut the skin and muscles in the upper left abdominal quadrant. Inspect the incision area to visibly locate the spleen then cut it out. Keep the spleen in splenocyte medium on ice until ready to perform the next step.
2. Place the spleen(s) in a 10 cm² cell culture petri dish containing 5 ml of pre-warmed splenocyte medium.
3. Mash the spleen using a sterile syringe plunger until the solution is turbid. A spleen collagen matrix should remain by the end of the procedure.
4. Following extensive mashing in splenocyte medium, collect the cell suspension and pass it through a 70 µm cell strainer placed on a 50 mL tube to filter-out any debris or clots.
5. Centrifuge at 500 x g for 5 min. After discarding the supernatant, re-suspend the cell pellet in 2-3 mL of in-house produced or commercial red blood cell lysis buffer. Following pipetting (2-3 times) let the suspension rest for 20-30 s.
6. Add 5 mL of PBS or a suitable buffer of choice then centrifuge the cell suspension for 5 min at 500 x g.
7. Remove the supernatant (should be red in color as it contains lysed red blood cells) and re-suspend the cell pellet in 2 ml of splenocyte medium.
8. Using a hemocytometer, count the number of cells stained with trypan blue to differentiate between live and dead (necrotic) cells.

3. T-cell Isolation from the Splenocyte Cell Suspension

1. Centrifuge the cell suspension for 5 min at 500 x g. Re-suspend the cells in serum-free RPMI medium (50 ml from step 1.3) to obtain a cellular concentration of 10 x 10⁶ cells/mL.
2. Transfer the cells to a 5 mL polystyrene tube and set aside a 100 µL aliquot of splenocytes for purity assessment/comparison at the end of the purification step.
3. Add normal rat serum to the cell suspension at 50 µL/mL followed by T cell isolation antibody cocktail (50 µL/mL).
4. Mix the cell suspension and let it rest for 10 min. This step allows the antibody cocktail to bind all unwanted cells.
5. Add the streptavidin rapid spheres (magnetic beads) for 2.5 min, then bring the volume to 2.5 mL using the serum-free medium.
6. Place the tube in a cell isolation magnet for 3 min.
7. Transfer the T cell suspension into a new polystyrene tube by holding the magnet and pouring out the solution in one move.
   NOTE: The isolated suspension contains the purified T cells. All unwanted cells are held on the side of the tube bound to the magnetic streptavidin beads.
8. Count the isolated T cells using trypan blue and a hemocytometer.
   NOTE: At this step the purity of the isolated T cells can be verified (optional) by analyzing the percentage of CD3⁺ events before and after T cell isolation by flow-cytometry.¹³
   1. Briefly, centrifuge 1 ml of splenocyte cell suspension at 500 x g. Discard the supernatant and suspend the cells in flow-cytometry buffer at a concentration of 1 x 10⁶ cells/mL.
   2. Add fluorescent-tagged anti-mouse CD3 antibody at a concentration of 1:100. Incubate at 4 °C for 30 min. Wash once, centrifuge and re-suspend in flow-cytometry buffer (400 µL) for analysis by flow-cytometry.

4. B-cell Isolation from the Splenocyte Cell Suspension

1. Follow the same protocol as described for T cells (steps 3.1-3.8) but using a B-cell isolation kit. For purity assessment, use the CD19 antibody instead of the CD3 antibody.¹³
   1. For purity assessment (optional), use the CD19 antibody instead of the CD3 antibody. Centrifuge 1 mL of splenocyte cell suspension at 500 x g. Discard the supernatant and suspend the cells in flow-cytometry buffer at a concentration of 1 x 10⁶ cells/ml.
   2. Add fluorescent tagged anti-mouse CD19 antibody at a concentration of 1:100 and incubate at 4 °C for 30 min. Wash once, centrifuge and re-suspend in flow-cytometry buffer (400 µL) for analysis by flow-cytometry.

5. T-cell Activation and the Induction of GFP Expression

1. Seed the T cells, in suspension, into a round-bottomed 96-well plate at a concentration of 2.5 x 10⁵ cells/well.
2. Add recombinant interleukin (IL)-7 at 2 ng/mL and CD3/CD28 magnetic beads (25 µL/10⁶ cells). Keep a portion of the T cells untreated with beads to serve as a negative control for later measurements that representing non-activated T cells.
3. Twelve hours later, harvest the T cells from the 96-well plate by gently pipetting the cell suspension in each well up and down to break any bead-cell complex/aggregates. Collect the suspension from all wells into a 5 mL polystyrene tube.
4. Place the tube containing the suspension inside the same cell isolation magnet used previously for purification of T or B cells and allow it to rest for 5 min.
5. Transfer the T cell suspension into a new polystyrene tube by holding the magnet and pouring out the solution in one move.
6. Centrifuge the cells at 500 x g for 5 min. Re-suspend the cells in fresh splenocyte medium to get a concentration of 2 x 10⁶ cells/mL.
7. Assess GFP expression intensity by flow-cytometry (optional for quality control) at 12 to 24 h post-stimulation in comparison with non-activated T cells.¹²
   NOTE: The GFP fluorescence is intrinsic to the Nur77^GFP T cells and is manifested upon successful activation of the TCR.¹²
8. For assessment of viability and activation (optional) by microscopy, stain the activated cells with Hoechst 30 min prior to analysis at a concentration of 0.2 µg/ml. Add adequate volume of the cell suspension to a cover slide or to a well of a flat-bottomed black-sided 384-well plate and examine under fluorescence microscope to assess living cells. Dead cells will not retain nuclear staining.¹⁴

6. B-cell Activation and the Induction of GFP Expression

1. Using a T-25 culture flask, re-suspend the isolated B cells at 1 x 10⁶ cells/mL.
2. Add anti-mouse IgG/IgM (H+L) at 10 µL/mL and recombinant CD40L at a concentration of 200 ng/mL. Keep a portion of the B cells untreated to serve as a negative control for later measurements (representing non-activated B cells).
3. Assess GFP expression intensity by flow-cytometry at 12 or 24 h post-stimulation in comparison with non-activated B cells.
   NOTE: The GFP fluorescence is intrinsic to the Nur77^GFP B cells and is manifested upon successful activation of the BCR.¹²
4. For assessment of viability and activation (optional) by microscopy, stain the activated cells with Hoechst 30 min prior to analysis at a concentration of 0.2 µg/mL. Add adequate volume of the cell suspension to a cover slide or to a well of a flat-bottomed black-sided 384-well plate and examine under a fluorescence microscope to assess living cells. Dead cells will not retain nuclear staining.¹⁴

7. High Throughput Screening of Small Molecules

1. Prepare a cell suspension at 2 x 10⁶ cells/mL of the activated T or B cells (magnetic beads or antibodies/CD40L) or non-activated groups.
2. Plate 75,000 cells/well in a 384-well plate (volume of 40 µL). Use a flat-bottomed black-sided 384-well plate or a microscope cover slide for viability and activation assessment by fluorescent microscopy (optional quality control step prior to HTS) using Hoechst stain (refer to steps 5.8 and 6.4 for details).¹⁴
3. Manually or using an automated system, add the drugs of choice (dissolved in 0.5% DMSO) to each well.
4. Add the vehicle (DMSO) to positive (activated) and negative (non-activated) control wells. Adjust DMSO concentration to a maximum of 0.5%.
5. Incubate the plates for 24 h (or incubation time of choice) at 37 ºC and 5% CO₂.
6. On the day of the screening, dilute the Hoechst 33342 stain solution (1:3,333; for e.g. add 10 µL to the cells in the 384-well plates to generate a total volume to 50 µL). Stain 30 min before GFP analysis by adding Hoechst solution to achieve a concentration of 0.2 µg/mL.
7. Gently pipette the cells up and down to obtain a homogenous distribution in each well.
   NOTE: This step is important in case of dispensing the drugs (step 7.3) using an automated system as the cells tend to accumulate at one side of the well, opposite to the direction of the flow.
8. Spin the plates at 45 x g for 3 min at room temperature.
9. Leave the plates to rest for 15 min at room temperature.
10. Perform plate(s) read-outs, using the automated confocal high content screening (HCS) system.¹⁵ Load the plate to the machine. Set the objective at 40X or higher magnification. Use camera #4 for Hoechst (UV lamp) and camera #1 for GFP (laser 488). Set up the machine to read 6-10 fields per well. Adjust the machine to do two sequential readings per field at 488 nm (to read GFP) and UV light (to read Hoechst). Set the objective at 40X or higher magnification.
    NOTE: The system is a computerized microscope that does not require any adjustments. The focal distance, the intensity of the incident light and the time of exposure are all setup automatically by the machine.

Results

Design of the HTS assay

Two important factors were taken into consideration when designing the herein fluorescent assay. First, we needed to replicate a physiological condition in which T- or B cell activation would represent an ailment (e.g. graft-versus-host disease). Second, the assessment of cellular activation should be performed using a sensitive and quantitative method. Fluorescence is nowadays one of the primary ch...

Discussion

Several read-out methods have been exploited for the development of sensitive and reliable HTS assays. These include colorimetric, luminescent or fluorescent methods. Although colorimetric methods are simple to set-up, they require multiple additions of chemicals, which may interfere or disrupt the cells being tested.²³ In addition, they do not permit dynamic assessment of a biological response as the pharmacological effect is assessed at a specific endpoint. Furthermore, this method may require e...

Materials

Name	Company	Catalog Number	Comments
Nur77GFP mice	The Jackson Laboratory	Mouse strain No. 016617	An in house colony was established at our animal facility
96 wells-U culture plates, sterile	VWR International	10062-902	T-cell activation using the magnetic beads
70 µm cell strainer, sterile	Corning Inc.	352350	Generation of splenocytes cell suspension
5 ml polystyrene round bottom tubes, sterile	Corning Inc.	352058	Generation of splenocytes cell suspension
50 ml polypropylene conical bottom tubes, sterile	VWR International	89039-656	Generation of splenocytes cell suspension
10 ml syringe without needle, sterile	Becton, Dickinson and Company	305482	To mash the spleen
T-25 culture flask	Greiner Bio-One	690 175	To incudabte B cells during activation
5 ml cell culture dish, sterile	Greiner Bio-One	627 160	To mash the spleen
Penicillin- Streptomycin (10,000 U/mL)	WISENT Inc.	450-200-EL	Component of the splenocyte media
RPMI 1600 with sodium bicarbonate and L- glutamine	WISENT Inc.	350-002-CL	Component of the splenocyte media
MEM non-essential amino acids	WISENT Inc.	321-010-EL	Component of the splenocyte media
HEPES free acid 1 M	WISENT Inc.	330-050-EL	Component of the splenocyte media
Sodium pyruvate solution (100mM)	WISENT Inc.	600-110-EL	Component of the splenocyte media
Fetal Bovine Serum (FBS)	WISENT Inc.	080-910	Component of the splenocyte media and flow-cytometry buffer
Phosphate buffered saline (PBS)	WISENT Inc.	311-010-CL	Component of flow-cytometry buffer
2-Mercaptoethanol (55 mM)	Thermo Fisher Scientific	21985-023	Component of the splenocyte media
T-Cells isolation kit	Stemcell Technologies	19851	To isolate T cells
B-Cells isolation kit	Stemcell Technologies	19854	To isolate B cells
Mouse T-Activator CD3/CD28 superparamagnetic beads	Thermo Fisher Scientific	11452D	To activate T cells
Cell isolation magnet	Stemcell Technologies	18000	To isolate T cells and remove the magnetic beads
AffiniPure F(ab')2 Fragment Goat Anti-Mouse IgG + IgM (H+L)	Jackson ImmunoResearch Laboratories, Inc.	115-006-068	To stimulate B cells
Recombinant Murine IL-7	Peprotech	217-17	To support T-cell survival during activation
Recombinant CD40L	R&D Systems	8230-CL/CF	To stimulate B cells
Anti-mouse CD3 antibody	BD Pharmingen	561799	To stain T cells for flow-cytometry
Anti-mouse CD19 antibody	BD Pharmingen	553786	To stain B cells for flow-cytometry
Biomek FXp	PerkinElmer Inc.	A31842	To re-suspend cells after 24 h incubation
Opera Phenix High Content Screening System	PerkinElmer Inc.	HH14000000	To analyze GFP/Hoechst signal