Template-Guided Recombination: From Theory to Laboratory
Template-guided recombination (TGR) is a model for the rearrangement of genomic DNA that takes place in some ciliated protozoa. Originally proposed as a formal model, TGR has been investigated both as a realistic model for genome rearrangement in ciliates and, due to interest in the potential of ciliates as “in vivo computers”, in terms of its computational power. TGR was put forward as a biological hypothesis that certain types of DNA rearrangements in ciliates are primarily controlled by a process of template-matching, where new genes are generated by using old genes as templates. Most significantly, it has recently been experimentally established that gene rearrangement in the stichotrichous ciliate Oxytricha trifallax (Sterkiella histriomuscorum) proceeds in a template-guided fashion. This survey describes recent work on TGR as a biological process and the computational properties of the formal model of TGR.
KeywordsFormal Language Regular Language Closure Property Small Cover Ciliated Protozoan
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