|Matt Lewis||Department of Pathology
University of Liverpool
In situ hybridisation to alpha satellite sequences (chromosome specific)
Alpha satellite sequences, whilst highly repetitive, are specific to each individual chromosome. These sequences flank the centromeres and can present a target measured in megabases. In this protocol a biotin or digoxigenin labelled DNA probe is detected using HRP-conjugated antibodies. The signal is visualised with diaminobenzidine (DAB). Normal, healthy nuclei show two spots. Aneusomic nuclei show 1, 3, 4 or more spots.
A 6mm section of a paraffin embedded raft culture hybridised to a chromosome 17 specific alpha satellite probe.
We buy our probes from Appligene/Oncor although they are very expensive and the telesales staff are rude.
We have two types of starting material; (i) tissue culture cells attached to glass slides, (ii) sections taken from paraffin embedded tissue.
Tissue culture cells. We use multispot slides with 4 wells separated by PTFE coating. The slides are treated with APES prior to use (see below) . The cells are trypsinised and resuspended as usual then one or two drops are placed onto the end well of a labelled slide. The cells are allowed to attach overnight in a humid chamber in the CO2 incubator. Next day the slides are immersed in 10% neutral buffered formalin. After 2 days fixation the slides are rinsed in H2O and allowed to air dry. Store dry, dust-free.
Paraffin sections. Take 6mm sections onto APES treated slides (see below) and bake overnight at 60C. Dewax in Xylene, 2 x 5 minutes. Then immerse as follows; 100% ethanol 2 x 5 minutes, 90% Ethanol 5 minutes, 75% ethanol 5 minutes, H2O 2 x 5 minutes and allow to dry. Store dry, dust-free.
(1) Immerse the slides in 1M sodium thiocyanate at 80C for 10 minutes. Rinse in H2O and allow to dry.
This treatment strips away the histones.
(2) Treat the slides with 4mg/ml pepsin at 37C for 30 minutes. Rinse in H2O, 2 x 5 minutes, and allow to dry.
This opens up the fixed (crosslinked) cytoplasm to allow probe access.
This pepsin digestion is the most crucial step. Too little digestion and the probe will not be able to access the chromosomes. Too much and the morphology will all be chewed up.
(3) Prepare the hybridisation solution.
One well of a multispot slide needs 6ml of hyb with a 13mm circular coverslip.
(4) Apply an appropriate amount of hybridisation solution onto the slide and cover with a coverslip.
(5) Incubate at 80C for 10 minutes
This denatures the DNA
(6) Transfer to a humid chamber and incubate overnight at 37C
(7) Dip the slides into a coplin jar containing wash solution, allow the coverslips to slide off. Immerse the slides in formamide wash solution for 20 minutes at 42C.
We wash in formamide wash solution at 42C. The wash can be done
without formamide at higher temperature (try 0.25 x SSC at 72C for 5 minutes)
(8) Immerse briefly in PBS to wash, then incubate with blocking solution for 20 minutes at room temperature.
Lay the slides flat in a humid chamber and drop the solution onto them
(9) Drain off the blocking solution and replace with mouse anti-biotin antibody diluted 1:100 in blocking solution for 40 minutes at 37C.
We currently use DAKO antibody #M0743, 100-200ml per slide.
(10) Wash with blocking solution for 10 minutes
(11) Incubate with rabbit anti-mouse HRP antibody diluted 1:80 for 40 minutes at 37C
We use DAKO P0260
(12) Wash with blocking solution for 10 minutes
(13) Incubate with swine anti-rabbit HRP antibody diluted 1:100 for 40 minutes at 37C
We use DAKO P0217
(14) Wash in PBS for 5 minutes
(15) Detect the signal using Diaminobenzidine (DAB)
I use DAB tablets (Sigma D4293) to make 5ml of DAB solution and then carefuuly drop
the DAB onto the slides. DAB is carcinogenic so take care. The signal takes about 10 minutes to develop.
If you're lucky you may be able to see tiny spots at low power under the microscope (take care not to dip
the lens in the DAB solution)
(16) Rinse in tap water, stain the nuclei using haematoxylin, de-hydrate through the ethanol series and mount in DPX.
The length of the haematoxylin stain depends on the kind of haemaotoxylin and how much it has been used. Try 30 secs at first. Check under the low power microscope.
This is an alternative to poly-L-lysine treatment. The APES coating makes the slides more adhesive for fixed tissue and living cells.
Fill several big metal slide racks with slides (I do hundreds at a time), then treat each rack sequentially as follows;
(1) Immerse in 1% acid/alcohol 30 mins
Acid alcohol is [1% (v/v) concentrated HCl, 70% Ethanol, 29% H2O]
(2) Rinse in water and allow to dry
First rinse in running tap water, then immerse in distilled water, then allow to dry.
(3) Immerse in acetone for 10 minutes
(4) Immerse in [2%(v/v) APES in acetone] for 5 minutes.
APES is aminopropyltriethoxysilane (Sigma A3648)
(5) Immerse briefly in 2 sequential rinses of distilled H2O
(6) Allow to dry and store in a dust-free container
Use within months not years