Try adding a protienase K and RNAase step to your extraction...the smears on your gel pic looks like protein contamination

Thank you, Tichaona. I use RNAase in the protocol (sorry, didn't show it in ingredients list). Yesterday I added also chloroform-isoamyl alcohol step in the extraction and didn't get smear, but my DNA pellets are still gelatinous and DNA doesn't move in gel (stays in wells) - even with increased volume of water for resuspension of pellets.  You can see it on the picture attached (first 6 isolates with chloroform step. 6 next ones - without, all DNA is in wells - if it is DNA not junk). I also did test PCR with ITS with my first extraction and it worked (got bands of needed weight).

Don't know how to solve this problem with viscosity. Have anybody got this with CTAB?

I need to do number of amplifications with different primers (as ITS so single gene primers for mutations analysis) and also microsatellites scores but not sure if such DNA is going to work for that.

Have u nano dropped ur DNA after extraction...coz maybe the yeild is high and thus you might try diluting the DNA before PCR.

You can try isolating your DNA from fungal mycelium with DNeasy Plant Maxi Kit. You get pure DNA because everything goes through a column.

I had this issue with the viscosity when I did the CTAB extraction. In my case that was because of the schizophyllan (it will not dissolve and that is why you see the smear).

I agree with Tichaona. You may just be getting really high yields of mixed DNA and RNA (RNA does precipitate out as more of a gelatinous pellet, where DNA is more white and thread-like).

Usually polysacharides and polyphenols could account to formation of gelatinous pellet.

Moreover DNA precipitated with CTAB will form complex soluble in high salt conditionds.

You will find long but good protocol on molbiol.ru in russian (link)

- it is a variant of S. O. Rogers & A. J. Bendich Extraction of DNA from milligram amounts of fresh, herbarium and mummified plant tissues. Plant Molecular Biology. 5; 69-76, 1985

CTAB-DNA complex is soluable under high salt (2M LiCl, 1M NaCl). 

To clean DNA from 1.5M NaCl, 2% CTAB extract sample with Chlorophorm.

Transfer supernatant to new PP and decrease salt to less then 0.5M, add 2-2.5V EtOH or 0.7V isopropanol. On this step polysacharides, polyphenols and membranes don't precipitate.

To eliminate CTAB dissolve pellet in TE supplemented with 1M NaCl (up to 65 C if need) and precipitate with EtOH.

Clean with additional step of reprecipitation from 2.5 N AcNH4 with EtOH

http://molbiol.ru/protocol/14_05.html

you can try a step of PEG purification. it involves

1. take 50 microlitres of your purified DNA

2. Dilute it to 500 microlitres with double distilled water

3. Give a phenol chloroform step

4. Take the upper layer and add PEG

5. Incubate at 37 degree for 10 minutes and spin

6. the pellet may be white or colorless

7. dry the pallet and dissolve it in required amount of sigma water 

The viscous materials maybe carbohydrate. You can avoid it by following step 10 and 15 from the following protocol that I use. I used  both CTAB and SDS mathod. No big difference except the lysis buffer component. 

Hope it will works.

For gel-run:

First 2 min run at maximum voltage (220+). then normally 

·         You can purify your genomic DNA with DNA purification column according to Kit manual

·         Wash mycelia with 0.9% NaCL several times and TE buffer after that ground the mycelia with liquid nitrogen

·         Increase ratio of SDS and CTAB in extraction buffer

I agree with Al- Amin suggestions.  You may wish to look at the Vilgalys CTAB protocol available at http://www.umich.edu/~mycology/protocols.html.  I have had similar "protein smears" on gels which I believe was due to my lack of "carefully" (see Al-Amin note and Vilgalys instructions) removing the upper layer in the Chloroform:isoamyl alcohol extraction.