Transcription, DNA topoisomerases and genetic recombination are interr
elated for several structural reasons. Transcription can affect DNA to
pology, resulting in effects on recombination. It can also affect the
chromatin structure in which the DNA resides. Topoisomerases can affec
t DNA and/or chromatin structure influencing the recombination potenti
al at a given site. Here we briefly review the extent to which homolog
ous direct repeat recombination and site-specific recombination in euk
aryotes are affected by transcription and topoisomerases. In some case
s, transcription pr the absence of topoisomerases have little or no ef
fect on recombination. In others, they are important components in the
recombinational process. The common denominator of any effects of tra
nscription and topoisomerases on recombination is their shared role in
altering DNA topology.