Autonomous assembly of synthetic oligonucleotides built from an expanded DNA alphabet. Total synthesis of a gene encoding kanamycin resistance

• Kristen K. Merritt,
• Kevin M. Bradley,
• Daniel Hutter,
• Mariko F. Matsuura,
• Diane J. Rowold and
• Steven A. Benner

Beilstein J. Org. Chem. 2014, 10, 2348–2360, doi:10.3762/bjoc.10.245

• single strands to give such large targets, with only a modest amount of design to ensure minimal off-target annealing. With ideal DNA, plasmid-sized constructs (L-DNA, 1,000–10,000 base pairs) and possibly even ultra-long DNA constructs (UL-DNA > 10,000 base pairs) might assemble simply by combining the

• constructs, including errors in the synthesis of the DNA fragments used for the assembly. These must be mitigated in any effort to look forward, especially in the hope of finding inexpensive automated strategies that assemble inexpensive oligonucleotides into long DNA constructs (L-DNA) and (possibly

OligArch: A software tool to allow artificially expanded genetic information systems (AEGIS) to guide the autonomous self-assembly of long DNA constructs from multiple DNA single strands

• Kevin M. Bradley and
• Steven A. Benner

Beilstein J. Org. Chem. 2014, 10, 1826–1833, doi:10.3762/bjoc.10.192

• a scalable and integrated infrastructure for the rapid and designed engineering of biology. Keywords: AEGIS; bioinformatics; DNA self-assembly; long DNA constructs; software; Introduction Automated synthesis of single stranded DNA fragments has, perhaps more than any other technology, enabled the