[Histonet] Need help with FISH staining protocol on frozen tissue sections

Merced M Leiker leiker <@t> buffalo.edu
Wed Mar 10 09:13:35 CST 2010

I have been using IDLabs porcine Y chromosome green label probe on frozen 
pig tissue with good results most of the time.  You say you denature the 
probe and then hold it at 37oC...I would think that would allow the probe 
to reanneal to itself since you also hybridize later on at that temp...try 
following the IDLabs protocol where they say to co-denature the probe and 
the slide. I do this for my frozen sections and it works.


--On Wednesday, March 10, 2010 12:44 AM -0600 "Shen, Jinhui" 
<jinhui <@t> uta.edu> wrote:

> Hi everyone,
> Has anyone done FISH staining on mice tissue frozen sections for Y
> chromosome? I need help with a successful protocol.
> Recently I started to do FISH staining on mice liver frozen sections for
> chromosome Y, but got no positive results even on male samples yet. The
> probe I used was IDMF1057 Green label Chr Y probe from ID Labs Inc.
> (www.idlabs.com). They have a protocol online probably for cultured cells
> (http://www.idlabs.com/product/datasheets/IDMF1057.pdf?PHPSESSID=b39f1650
> 7cf76b69495166c651f0b52c) which I haven't tried yet. I followed the
> following protocol for frozen sections:
> 1. Fix sections in 4% PFA at 4C for 10 mins, then wash in PBS.
> 2. Treat the sections with 0.01% Pepsin, 37C 10min, wash in PBS.
> 3. Dehydrate the slides using 70% Ethanol (2minsX2), 90% Ethanol (2mins
> X2), 100% Ethanol (5 mins X1).Then Age the slides at 65C for one hour.
> 4. Mix the probe and hybridization buffer. Denature the probe by incubate
> it at 65C for 10 mins, then hold it at 37C for 30 - 60 mins.
> 5. Denature the sections by incubate them in denaturing solution
> (formamide:2XSSC, 70:30) at 75C for 2 mins.
> 6. Quench the slides in 4C 70% Ethanol for 4 mins. Dehydrate the slides
> as step 3.
> 7. Apply the probe and hybridize at 37C overnight.
> 8. Immerse the slides in 1XSSC for 5 mins to remove the cover slips.
> 9. Wash slides in stringency solution (formamide:2XSSC, 50:50) at 45C, 5
> mins X2.
> 10. Wash slides in 1XSSC at 45C, 5minsX2.
> 11. Wash slides in detergent wash solution at 45C, 5minX1.
> 12. Rinse slides in PBS.
> 13. Air dry for a couple of minutes and counterstain with DAPI.
> 14. Mount the slides and observe the results or keep in 4C for late check.
> Are there any problems with this procedure? Please help me to check, or
> if you could recommend a working protocol you had used, I would really
> appreciate.
> Thanks,
> Jinhui
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Merced M Leiker
Research Technician III
Cardiovascular Medicine
348 Biomedical Research Building
State University of New York at Buffalo
3435 Main St, Buffalo, NY 14214  USA
leiker <@t> buffalo.edu
716-829-6118 (Ph)
716-829-2665 (Fx)

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