why does the reaction product of a LAMP PCR reaction give a ladder like pattern in gel electrophoresis unlike giving just a single band as in the conventional PCR. Is there any specific reason.
The reason of ladder-like pattern is the mechanism of LAMP. During LAMP a set of concatemers, consisting of DNA fragment between F3/B3 primers, is produced. Here you can find an animation illustrarting that process.
http://loopamp.eiken.co.jp/e/lamp/anim.html
Therefore, gel-electrophoresis of LAMP products gives a ladder, where step between bands is a original fragment between F3/B3.
Actually, it is possible to get a PCR-like single band from LAMP product. For that purpose the latter should be hydrolyzed with restriction enzyme which recognition site is located in LAMP fragment.
Thanks Igor for your answer. I have one more doubt...in spite of the band appearing as a ladder,a ladder is used adjacent to our gel electrophoresis lamp bands.whats the reason for that
A DNA ladder is used just to ensure that whether the lowest molecular weight band produced by the outer primers (F3 and B3) matches its product size. Moreover, gel electrophoresis of LAMP products is not recommended unless in the initial stages of its development. Gel electrophoresis leads to high risks of contamination of your reagents with LAMP products. Kindly prepare a no-template control to ensure whether your reagents are safe, else you have to keep multiple aliquots of various reagents and primers.
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