PMID- 24379378
OWN - NLM
STAT- MEDLINE
DCOM- 20140506
LR  - 20211021
IS  - 1091-6490 (Electronic)
IS  - 0027-8424 (Print)
IS  - 0027-8424 (Linking)
VI  - 111
IP  - 4
DP  - 2014 Jan 28
TI  - In vitro selection with artificial expanded genetic information systems.
PG  - 1449-54
LID - 10.1073/pnas.1311778111 [doi]
AB  - Artificially expanded genetic information systems (AEGISs) are unnatural forms of 
      DNA that increase the number of independently replicating nucleotide building 
      blocks. To do this, AEGIS pairs are joined by different arrangements of hydrogen 
      bond donor and acceptor groups, all while retaining their Watson-Crick 
      geometries. We report here a unique case where AEGIS DNA has been used to execute 
      a systematic evolution of ligands by exponential enrichment (SELEX) experiment. 
      This AEGIS-SELEX was designed to create AEGIS oligonucleotides that bind to a 
      line of breast cancer cells. AEGIS-SELEX delivered an AEGIS aptamer (ZAP-2012) 
      built from six different kinds of nucleotides (the standard G, A, C, and T, and 
      the AEGIS nonstandard P and Z nucleotides, the last having a nitro functionality 
      not found in standard DNA). ZAP-2012 has a dissociation constant of 30 nM against 
      these cells. The affinity is diminished or lost when Z or P (or both) is replaced 
      by standard nucleotides and compares well with affinities of standard GACT 
      aptamers selected against cell lines using standard SELEX. The success of 
      AEGIS-SELEX relies on various innovations, including (i) the ability to 
      synthesize GACTZP libraries, (ii) polymerases that PCR amplify GACTZP DNA with 
      little loss of the AEGIS nonstandard nucleotides, and (iii) technologies to deep 
      sequence GACTZP DNA survivors. These results take the next step toward expanding 
      the power and utility of SELEX and offer an AEGIS-SELEX that could possibly 
      generate receptors, ligands, and catalysts having sequence diversities nearer to 
      that displayed by proteins.
FAU - Sefah, Kwame
AU  - Sefah K
AD  - Department of Chemistry, University of Florida, Gainesville, FL 32611.
FAU - Yang, Zunyi
AU  - Yang Z
FAU - Bradley, Kevin M
AU  - Bradley KM
FAU - Hoshika, Shuichi
AU  - Hoshika S
FAU - Jimenez, Elizabeth
AU  - Jimenez E
FAU - Zhang, Liqin
AU  - Zhang L
FAU - Zhu, Guizhi
AU  - Zhu G
FAU - Shanker, Savita
AU  - Shanker S
FAU - Yu, Fahong
AU  - Yu F
FAU - Turek, Diane
AU  - Turek D
FAU - Tan, Weihong
AU  - Tan W
FAU - Benner, Steven A
AU  - Benner SA
LA  - eng
GR  - R01 GM079359/GM/NIGMS NIH HHS/United States
GR  - R21 CA122648/CA/NCI NIH HHS/United States
GR  - GM079359/GM/NIGMS NIH HHS/United States
GR  - R01 CA133086/CA/NCI NIH HHS/United States
GR  - R21CA122648/CA/NCI NIH HHS/United States
GR  - CA133086/CA/NCI NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
DEP - 20131230
PL  - United States
TA  - Proc Natl Acad Sci U S A
JT  - Proceedings of the National Academy of Sciences of the United States of America
JID - 7505876
RN  - 0 (DNA Primers)
SB  - IM
MH  - Base Sequence
MH  - DNA Primers
MH  - *Information Systems
MH  - Polymerase Chain Reaction
MH  - SELEX Aptamer Technique
MH  - *Selection, Genetic
PMC - PMC3910645
OTO - NOTNLM
OT  - cancer cell SELEX
OT  - next generation sequencing
OT  - nucleic acids
OT  - synthetic biology
COIS- S.A.B., Z.Y., and the Foundation for Applied Molecular Evolution hold patents and 
      patent applications for various of the AEGIS compounds and in vitro selection 
      with expanded genetic alphabets.
EDAT- 2014/01/01 06:00
MHDA- 2014/05/07 06:00
PMCR- 2014/07/28
CRDT- 2014/01/01 06:00
PHST- 2014/01/01 06:00 [entrez]
PHST- 2014/01/01 06:00 [pubmed]
PHST- 2014/05/07 06:00 [medline]
PHST- 2014/07/28 00:00 [pmc-release]
AID - 1311778111 [pii]
AID - 201311778 [pii]
AID - 10.1073/pnas.1311778111 [doi]
PST - ppublish
SO  - Proc Natl Acad Sci U S A. 2014 Jan 28;111(4):1449-54. doi: 
      10.1073/pnas.1311778111. Epub 2013 Dec 30.