Isolation of Double Negative αβ T Cells from the Kidney

Summary

DNabT cells are rare among peripheral T cells; however, they are abundant in certain non-lymphoid tissues. Difficulty of isolating DN T cells from non-lymphoid tissue hinders their functional analysis despite increasing recognized pathophysiologic significance. We describe a novel protocol for isolation of highly purified DN T cells from murine kidney.

Abstract

There is currently no standard protocol for the isolation of DN T cells from the non-lymphoid tissues despite their increasingly reported involvement in various immune responses. DN T cells are a unique immune cell type that has been implicated in regulating immune and autoimmune responses and tolerance to allotransplants^1-6. DN T cells are, however, rare in peripheral blood and secondary lymphoid organs (spleen and lymph nodes), but are major residents of the normal kidney. Very little is known about their pathophysiologic function⁷ due to their paucity in the periphery. We recently described a comprehensive phenotypic and functional analysis of this population in the kidney⁸ in steady state and during ischemia reperfusion injury. Analysis of DN T cell function will be greatly enhanced by developing a protocol for their isolation from the kidney.

Here, we describe a novel protocol that allows isolation of highly pure ab CD4+ CD8+ T cells and DN T cells from the murine kidney. Briefly, we digest kidney tissue using collagenase and isolate kidney mononuclear cells (KMNC) by density gradient. This is followed by two steps to enrich hematopoietic T cells from 3% to 70% from KMNC. The first step consists of a positive selection of hematopoietic cells using a CD45+ isolation kit. In the second step, DN T cells are negatively isolated by removal of non-desired cells using CD4, CD8, and MHC class II monoclonal antibodies and CD1d α-galcer tetramer. This strategy leads to a population of more than 90% pure DN T cells. Surface staining with the above mentioned antibodies followed by FACs analysis is used to confirm purity.

Introduction

Peripheral αβTCR⁺CD3⁺CD4^-CD8^-double-negative (DN) T cells are divided into various subsets that possess distinct phenotypes and functions^1-4. DN T cells are poorly understood but increasingly being implicated in pathophysiological immune responses in different disease models^4-6.

DN T cells are a unique immune cell type that is increasingly implicated in the regulation of various immune and autoimmune responses and the modulation of allotransplant tolerance. ^4-6,9 They are rare in the peripheral blood and secondary lymphoid organs (spleen and lymph nodes). However, they are major residents of the normal kidney and gut epithelium^10-12. Very little is known about their function⁷ in the kidney in the steady state and under pathological conditions such as acute kidney injury (AKI) associated with kidney transplant.

Because of the intricate roles of different immune cells in regulating immune responses including alloresponses, defining the role of each player is critical in understanding alloresponses and designing new therapeutics. Given the significant numbers of DN T cells present in the kidney under physiologic and different disease conditions, DN T cells are likely to play a critical role in regulating immune and autoimmune responses in mice and humans, and alloresponses in transplant recipients. Accumulating though still scattered evidence implicates DN T cells in both pathogenic and immunosuppressive functions but it is poorly understood why and how they exhibit a specific harmful or suppressive function and how the environment influences them.

Due to their low abundance in the kidney, improved methods of isolation are necessary.

There is currently no standard protocol for isolation of DN T cells from the non-lymphoid tissues. Our protocol describes a novel method for isolation of DN T cells from the kidney; however, the method can also be used for various non-lymphoid tissues.

Protocol

1. Preparation of Instruments, Culture Media and Reagents

1. Instruments: Prepare the reagents under sterile conditions and use under a laminar flow hood.
2. Prepare 1 L of RPMI tissue culture medium, add 5% of fetal bovine serum, 2.1 g of bicarbonate, 10 ml glutamate 100x, 10 mg of HEPES, 1 mg sodium pyruvate and 10 ml of 100x penicillin/streptomycin.
   Note: the recommended tissue culture medium, RPMI, is interchangeable with DMEM.
3. Prepare 5% collagenase “D” solution (5 ml of collagenase “D” to 9 ml of tissue culture medium).
4. Make Percoll solution at three different concentrations: 100%, 80% and 40%. The following concentrations are calculated for 1 sample. Keep solutions at room temperature.
   1. Percoll solution: add 9 ml of undiluted Percoll (from stock solution); add 1 ml of PBS 10x.
   2. Percoll solution: add 8 ml of Percoll 100%; add 2 ml of PBS 1x.
   3. Percoll solution: add 4 ml of Percoll 80%; add 4 ml of PBS 1x.
5. Make 1 L of fluorescence-activated cell sorting (FACS) buffer; add 5 ml 10% BSA (0.1% BSA), 1 ml 10% sodium azide (0.1%), 2 ml EDTA agent, make up to 1,000 ml with 1x PBS.

2. Preparation of Kidney Digestion

1. Having acquired any necessary institutional approval, sacrifice and exsanguinate the mice with standard methods and following the current regulations and animal care guidelines.
   1. Anesthetize the mouse with pentobarbital (0.07 mg/kg).
   2. Proceed to exsanguination.
   3. Place the mouse in a supine position on a surgical table.
   4. Spray the abdominal area with 70% ethanol.
2. Add 10 ml of collagenase D solution to the Petri dish.
3. Remove and decapsulate both kidneys from each mouse.
   1. Open the abdomimal cavity by making a midline incision through the abdominal skin and peritoneum from the sternum to the pubis.
   2. Expose the left kidney by moving the intestine laterally to the side.
   3. Carefully separate the left capsule with the forceps.
      Note: The capsule appears as a transparent layer surrounding the kidney and partially covered by perinephric adipose tissue.
   4. Remove the left kidney by cutting the pedicle vessels using a surgical scissor.
   5. Repeat same procedure for the right kidney.
      Note: The right kidney is more cranial and closer to the midline (pedicels are shorter).
4. Place the kidney into the Petri dish.
5. Cut the kidney tissue into small pieces (1-2 mm in dimension) using a regular metal shaping blade and place the pieces into the collagenase solution for 30-45 min in the incubator at 37 °C (Figure 1).

3. Preparation of Kidney Mononuclear Cells (KMNC) from the Kidney Digestion

1. Obtain a cell suspension of the kidney digestion by mechanically disrupting the tissue using a strainer (70 µm) and resuspend in 25 ml of tissue culture medium and mix.
2. Centrifuge at 400 x g for 10 min at 4 °C to pellet the cell suspension.
3. Re-suspend the pellet in 4 ml of 40% Percoll solution and gently overlay onto 4 ml of 80% Percoll solution with a transfer plastic pipette, very slowly and carefully. This will result in two phases clearly separated by a translucent layer. On the top will be a yellow layer corresponding to the lipids.
4. Centrifuge at 1,500 x g for 30 min at room temperature with the centrifuge in brake off mode.
5. Remove by aspiration the yellow and thick top layer (about 1-2 ml).
6. Collect only the slight whitish translucent layer from the interface of the two phases with a transfer pipette. Very carefully transfer this suspension into a 15 ml conical tube containing 2 ml of tissue culture medium and then add 13 ml of medium to make a total volume of 15 ml.
7. Centrifuge at 400 x g for 10 min at 4 °C.
8. Resuspend the samples in 1 ml of the medium.
9. Count the number of KMNC using trypan blue exclusion on a hemocytometer and express the results as numbers of KMNC per ml per Kidney.
10. Wash once as above.

4. Isolation of Hematopoietic (CD45+) Cells from KMNC (Step I)

1. Resuspend the cells up to 10⁷ into 90 µl of running buffer.
2. Add 10 µl of CD45 microbeads and incubate for 15 min at 4 °C.
3. Add 1 ml of the running buffer to stop the reaction. Centrifuge at 400 x g for 10 min at 4 °C and resuspend in 500 µl of running buffer.
4. Prepare the magnetic column by placing at the magnet and rinse with 3 ml of running buffer.
5. Pass the cell suspension through the magnetic column and collect the unlabeled cells that pass through the column.
6. Wash the cells three times with 3 ml of running buffer. Then collect the effluent.
7. Remove the column from the separator and pipette 5 ml of running buffer onto the columns and flush out the labeled fraction immediately. This fraction contains the CD45+ cells. Count the cells.
8. To calculate the absolute number of different T cells subsets into kidneys multiply the total number of KMNC by the percentage of positive cells determined by flow cytometry (Figure 2).

5. Isolation of DN T Cell from CD45+ Preparation by Negative Selection (Step II)

1. Add 2.5 µl (0.5 mg/ml, 1.25 µg) of each of the following biotinylated antibodies: anti-CD4, anti-CD8, anti-Fc receptor (CD16/32), anti-MHC class II (I-A b), anti-CD1d PBS-57 tetramer for every 10⁷ hematopoietic cells.
2. Incubate cells for 30 min in cold room.
3. Add 1 ml anti-Biotin microbeads.
4. Incubate for 30 min in a cold room.
5. Place the tube in the magnet and proceed to depletion.
6. Count the viable cells to determine the total number of DN T cells in the negative fraction by using a hemocytometer.
7. Check purity of DN T cells with flow cytometry by following this gating strategy: first gate CD45+, second gate TCRαβ+. Exclude CD1d+ cells. Plot CD4+ vs. CD8+ to identify DN T cells (Figure 3).
8. Multiply the total number by the percentage determined in purity.
   Note: Using this protocol results in a population of more than 90% pure DN T cells.

Results

Wild type C57BL/6 (B6) kidney contains approximately 1.5-2.1 x 10⁶ mononuclear cells per kidney. Approximately less than 10% are hematopoietic CD45⁺ cells. For the preparation of kidney mononuclear cells (KMNC), the kidneys are cut into small pieces as shown in Figure 1 followed by digestion using 5% collagenase.

This is followed by performing a density gradient centrifugation to collect KMNC layer (Figure 2, left panel). KMNC were then s...

Discussion

There is increasing interest in DN T cells since they are being implicated in different pathologic conditions such as autoimmune disorders, cancer, graft tolerance, and primary diseases of the kidney including acute kidney injury (AKI), glomerulonephritis^8,13. Therefore, there is need to better understand and characterize the pathophysiologic functions of DN T cells. However, currently there is a lack in understanding of these cells’ function as compared to CD4 and CD8 T cells. A ma...

Materials

List of materials used in this article

Name	Company	Catalog Number	Comments
Laminar flow hood	Baker Company, Inc		Or equivalent equipment
Centrifuge	Beckman Coulter		Or equivalent equipment
Hemocytometer	Electron Microscopy Sciences	63514-11
Atmosphere-controlled incubator	Fisher Scientific		(37 °C with 5% CO2)
Analytical flow cytometer	LSR II
RPMI 1640	Media Tech	10-040-CV
Collagenase D	Roche	11088858001
Percoll	GE Healthcare	17-0891-01
Fetal bovine serum	Corning Cellgro	35-011-CV
0.1% sodium azide (NaN3)	Sigma-Aldrich	S2002
Buffer phosphate buffered saline (PBS)	Corning Cellgro	21-040-CV
PBS 10x	Mediatech	46-013-CM
EDTA buffer	Sigma-Aldrich	E1161
LS columns	MiltenyiBiotec	130-042-401
CD45+ microbeads	MiltenyiBiotec	6.78E-51
Biotin microbeads	MiltenyiBiotec	130-090-485
anti-CD45 (clone: 30-F11)  PerCP	eBioscience	G1397
anti-CD45 (clone: 30-F11)  APC-Cy7	Biolegend	103116
anti-TCR Pacific Blue  (ab-chain, clone: H57-597)	Invitrogen	HM3628
anti-CD4 PE	eBioscience	12-0043
anti-CD8 FITC	eBioscience	8011-0087
anti-CD4 biotinylated (GK1.5)	BD	553728
anti-CD8 biotinylated  (clone 53-6.7)	BD	553029
anti-MHC class II (I-A b) biotinylated	BD	553609
AutoMACS Running Buffer - MACS Separation Buffer	MIlteny I Biotec	130-091-221
C57BL/6J mice	Jackson Labs	000664	Kidneys - Lymph Nodes
Petri dish	BD Biosciences	356517
70 μm filter	Fisher Scientific	22363548
Plunger			Or equivalent equipment
GeneMate Tubes 50 ml	Bioexpress	C-3394-3	Or equivalent equipment
GeneMate Tubes 15 ml	Bioexpress	C-3394-1	Or equivalent equipment
CD1d α-galcer tetramer	NHI