Detailed Information on Publication Record

@article{28376,
   author = {Beneš, David and RodriguezandPaton, Alfonso and Sosík, Petr},
   article_number = {3},
   doi = {http://dx.doi.org/10.1007/s11047-016-9595-9},
   keywords = {Biocircuit; Conjugative plasmid; CRISPR-Cas9; Directed evolution; Evolutionary search; Genetic circuit; Programmed evolution},
   language = {eng},
   issn = {1567-7818},
   journal = {Natural Computing},
   title = {Directed evolution of biocircuits using conjugative plasmids and CRISPR-Cas9: design and in silico experiments},
   url = {https://link.springer.com/article/10.1007%2Fs11047-016-9595-9},
   volume = {16},
   year = {2017}
}

TY  - JOUR
ID  - 28376
AU  - Beneš, David - Rodriguez-Paton, Alfonso - Sosík, Petr
PY  - 2017
TI  - Directed evolution of biocircuits using conjugative plasmids and CRISPR-Cas9: design and in silico experiments
JF  - Natural Computing
VL  - 16
IS  - 3
SP  - 497-505
EP  - 497-505
PB  - Springer Netherlands
SN  - 1567-7818
KW  - Biocircuit
KW  - Conjugative plasmid
KW  - CRISPR-Cas9
KW  - Directed evolution
KW  - Evolutionary search
KW  - Genetic circuit
KW  - Programmed evolution
UR  - https://link.springer.com/article/10.1007%2Fs11047-016-9595-9
L2  - https://link.springer.com/article/10.1007%2Fs11047-016-9595-9
N2  - Recent links between computer science and synthetic biology allow for construction of many kinds of algorithmic processes within cells, obtained either by a direct engineered design or by an evolutionary search. In the latter case, horizontal gene transfer and especially transfer of plasmids by conjugation is generally respected as a crucial source of genetic diversity in bacteria. While some previous studies focused on mutations as the crucial principle to obtain diversity for engineered evolution, here we consider conjugation itself as a tool to generate diversity from a pre-determined library of biocircuits basic components. The recent development of CRISPR-Cas9 and its programmable DNA cutting ability makes it a powerful selection tool able to remove nonfunctional biocircuits from a cell population. In this paper, we describe a framework for controlled bacterial evolution of biocircuits based on conjugation and on CRISPR-Cas9, resulting in a direct biological implementation of an evolutionary algorithm. In silico experiments provide data to estimate the computational/search capability of plasmid-based engineered evolution.
ER  - 

BENEŠ, David, Alfonso RODRIGUEZ-PATON and Petr SOSÍK. Directed evolution of biocircuits using conjugative plasmids and CRISPR-Cas9: design and in silico experiments. \textit{Natural Computing}. Springer Netherlands, 2017, vol.~16, No~3, p.~497-505. ISSN~1567-7818. Available from: https://dx.doi.org/10.1007/s11047-016-9595-9.