[Modeling evolution of regulatory signals for gene expression in bacteria].
A model of evolution of a regulatory signal along the phylogenetic tree of species taking into account the secondary RNA structure is suggested. Based on this model, an algorithm is presented. It inputs the extant primary structure of a signal for the leaves of the phylogenetic tree and computes the primary and secondary structures of all the nodes. Another result of the algorithm is a multiple alignment of extant sites of a regulatory signal taking into account the secondary structure of the signal. The algorithm ha s been implemented and successfully tested on biological data representing three types of regulation in bacteria.
Gorbunov
K Iu
KIu
Liubetskaia
E V
EV
Asarin
E A
EA
Liubetskiĭ
V A
VA
D000465:Algorithms; D001426:Bacterial Proteins / Q000096:biosynthesis* / Q000235:genetics; D001483:Base Sequence; D003198:Computer Simulation; D019143:Evolution, Molecular; D015964:Gene Expression Regulation, Bacterial; D007930:Leucine / Q000096:biosynthesis; D008954:Models, Biological; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D012313:RNA / Q000737:chemistry*; D012256:Riboflavin / Q000096:biosynthesis; D013912:Threonine / Q000096:biosynthesis
D001426:Bacterial Proteins; D013912:Threonine; D012313:RNA; D007930:Leucine; D012256:Riboflavin