Synthesis, Reverse Transcription, Replication, and Inter-Transcription of 2′-Modified Nucleic Acids with Evolved Thermophilic Polymerases: Efforts toward Multidimensional Expansion of the Central Dogma

Abstract

In the past decades, various xenobiotic nucleic acids (XNAs), including 2′-modified nucleic acids, have been developed as novel genetic materials and demonstrated great potential in synthetic biology and biotechnology. Enzymatic polymerization and replication of these artificial polymers are obviously the prerequisite to make full use of them, and DNA and RNA polymerases from different families have thus been extensively engineered for these purposes. However, the performance of engineered XNA polymerases is still far from satisfactory, especially in terms of the efficiency of synthesizing XNA with bigger lengths and the capability of directly replicating XNAs or transcribing one XNA to another. In this work, we tailored a mutant of Stoffel fragment of Taq DNA polymerase, SFM4-3, by engineering a key residue pair on the surfaces of fingers and thumb domains, and successfully obtained mutants with significantly enhanced efficiency for the synthesis of fully 2′-OMe-modified DNA with bigger lengths. Remarkably, we also found that these polymerase mutants are capable of synthesizing, reverse transcribing, and even replicating RNA and different fully 2′-modified XNAs, as well as transcribing one of these nucleic acids to another, with varied efficiencies. The application of these activities for producing DNA strands end-protected by XNA duplexes was then demonstrated. These results clearly suggest that the genetic information can be stored in and transmitted among DNA, RNA, and different 2′-modified XNAs with the assistance of polymerase mutants, and the central dogma of life can be expanded to higher dimensions via the development of XNAs together with engineering their polymerases.

Polyamines promote xenobiotic nucleic acid synthesis by modified thermophilic polymerase mutants

“…Polymerase mutants, derived from thermophilic DNA polymerases such as Taq, 9°N, Tgo, and KOD DNA polymerase have been developed for XNA synthesis. 4,5,22–26 Based on KOD DNA polymerase, we previously developed the polymerase mutant, KOD DGLNK (KOD: N210D/Y409G/A485L/D614N/E664K), for the synthesis of locked nucleic acid (LNA), also called 2′,4′-bridged nucleic acid (2′,4′-BNA). 5…”