Hi,

I have recently addressed topic of magnesium pyrophosphates binding to DNA during amplification, and that these polycationic clusters stabilize short hybrids of DNA through electrostatic interactions.

"Real-time analysis of switchable nanocomposites of magnesium pyrophosphates and rolling circle amplification products"Article Real-time analysis of switchable nanocomposites of magnesium...

Unlike PCR (where DNA annealing is "cycled" at three different temperatures), isothermal amplification techniques allow for different secondary structures to form, both intra- and inter-strand.

So I wonder now whether the same happens with recombinase polymerase amplification and loop-mediated amplification techniques, i.e. that the products of these isothermal amplification reactions are not "clean" double-stranded molecules but rather a kind of a hydrogel, packed into any supramolecular form, e.g. a nanoflower. This might be a very big deal for some of researchers!