Emerging applications of peptide–oligonucleotide conjugates: bioactive scaffolds, self-assembling systems, and hybrid nanomaterials

MacCulloch, T.; Buchberger, Alex; Stephanopoulos, Nicholas

doi:10.1039/c8ob02436g

Cited by 63 publications

(71 citation statements)

References 92 publications

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“…DNA scaffolds that are modified with (multiple) peptides might recapitulate the full-length (and functions) of proteins sequence, thus allowing the formation novel structures that are difficult to obtain with native proteins [203]. This allows the formation of new nanostructures that contain functional peptides sequences that are able to support some specific bioactivity or that have catalytic active sites [203,204]. Moreover, protein detection using DNA labelling can enhance the immunoassays sensitivity during the detection of biomarkers of specific proteins.…”

Section: Self-assembly Of Oligonucleotides (Dna and Rna)mentioning

confidence: 99%

Self-Assembly of Organic Nanomaterials and Biomaterials: The Bottom-Up Approach for Functional Nanostructures Formation and Advanced Applications

et al. 2020

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In this paper, we survey recent advances in the self-assembly processes of novel functional platforms for nanomaterials and biomaterials applications. We provide an organized overview, by analyzing the main factors that influence the formation of organic nanostructured systems, while putting into evidence the main challenges, limitations and emerging approaches in the various fields of nanotechology and biotechnology. We outline how the building blocks properties, the mutual and cooperative interactions, as well as the initial spatial configuration (and environment conditions) play a fundamental role in the construction of efficient nanostructured materials with desired functional properties. The insertion of functional endgroups (such as polymers, peptides or DNA) within the nanostructured units has enormously increased the complexity of morphologies and functions that can be designed in the fabrication of bio-inspired materials capable of mimicking biological activity. However, unwanted or uncontrollable effects originating from unexpected thermodynamic perturbations or complex cooperative interactions interfere at the molecular level with the designed assembly process. Correction and harmonization of unwanted processes is one of the major challenges of the next decades and requires a deeper knowledge and understanding of the key factors that drive the formation of nanomaterials. Self-assembly of nanomaterials still remains a central topic of current research located at the interface between material science and engineering, biotechnology and nanomedicine, and it will continue to stimulate the renewed interest of biologist, physicists and materials engineers by combining the principles of molecular self-assembly with the concept of supramolecular chemistry.

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Section: Self-assembly Of Oligonucleotides (Dna and Rna)mentioning

confidence: 99%

Self-Assembly of Organic Nanomaterials and Biomaterials: The Bottom-Up Approach for Functional Nanostructures Formation and Advanced Applications

et al. 2020

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“…The programmed self‐assembly of oligonucleotides (ONs) through hydrogen bond and π‐stacking interactions has inspired the burgeoning development of elaborate two‐ and three‐dimensional DNA nanostructures during the last decades . With sizes ranging from nano‐ to micrometers, the user‐defined geometry and the facile chemical functionalization of DNA nanostructures offer ideal nanoscale molecular construction tools for peptide and protein engineering with unparalleled spatial accuracy down to the ångström‐scale level with various chemical and biological applications as long term goals . However, only a few examples have demonstrated bottom‐up construction of artificial protein mimics using the programmability and adaptability of nucleic acid secondary structures, including DNA triplexes, G‐quadruplexes and multiple DNA junctions .…”

Section: Introductionmentioning

confidence: 99%

Self‐Assembly of DNA–Peptide Supermolecules: Coiled‐Coil Peptide Structures Templated by d‐DNA and l‐DNA Triplexes Exhibit Chirality‐Independent but Orientation‐Dependent Stabilizing Cooperativity

Lou

Boesen

Christensen

et al. 2020

Chemistry A European J

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DNA nanostructures have been designed and used in many differenta pplications.H owever,t he use of nucleic acid scaffolds to promote the self-assembly of artificial protein mimicsi so nly starting to emerge. Herein five coiledcoil peptide structures were templatedb yt he hybridization of a d-DNA triplex or its mirror-image counterpart, an l-DNA triplex.T he self-assembly of the desiredt rimeric structures in solutionw as confirmed by gel electrophoresis and smallangle X-ray scattering,a nd the stabilizing synergyb etween the two domains was found to be chirality-independent but orientation-dependent. This is the first example of using a nucleic acid scaffold of l-DNA to template the formation of artificial protein mimics. The results may advance the emerging POC-basedn anotechnology field by adding two extra dimensions, that is, chirality and polarity,t op rovide innovative molecular tools forr ational design and bottom-up construction of artificial protein mimics, programmable materials and responsive nanodevices.[a] Dr.[a] Thermal denaturation and annealing temperatures (T m and T a values) of POC and ON-reference triple helixes measured at pH 5.5 as an average of three independent melting temperature determinations shownw ith the corresponding standard deviations. The values in brackets are T m and T a values measured for the corresponding underlying duplexes. The experiments werer ecorded at 275 nm in 10 mm acetate buffer( NaOAc/HOAc)c ontaining1 00 mm NaCl. The concentration of the individual duplex components was 1.0 mm while the TFO component was used in 1.5 mm concentration. The peptide moiety is marked in yellowa nd red (l-peptidea sr ight-handed helix, d-peptidea sl eft-handedh elix), the TFO moiety in dark blue (d-nucleotide) or light blue (l-nucleotide),a nd the DNA duplexm oiety in crimson (d-nucleotide) or in orange (l-nucleotide).

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“…Along with extensive investigations of the properties and functions of naturally occurring nucleic acids, synthetic and chemically modified oligonucleotides are also attracting significant attention for the development of innovative diagnostic and therapeutic approaches in biology, medicine and materials science. [2][3][4][5] One of the recently emerged strategies towards the regulation of the functions of biomacromolecules is the supramolecular approach, which allows to manipulate the molecular counterparts in a supramolecular assembly and thereby govern the properties of the whole system. 6 In general, the main supramolecular interaction occurring in NA-containing systems is the noncovalent association of small molecules and proteins to the binding sites of NA hosts.…”

Section: Introductionmentioning

confidence: 99%

Cucurbiturils in nucleic acids research

Chernikova

Berdnikova

2020

Chem. Commun.

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Emerging applications of peptide–oligonucleotide conjugates: bioactive scaffolds, self-assembling systems, and hybrid nanomaterials

Abstract: Peptide–oligonucleotide conjugates (POCs) are covalent constructs that link a molecule like DNA to a synthetic peptide sequences.

Cited by 63 publications

References 92 publications

Self-Assembly of Organic Nanomaterials and Biomaterials: The Bottom-Up Approach for Functional Nanostructures Formation and Advanced Applications

Self-Assembly of Organic Nanomaterials and Biomaterials: The Bottom-Up Approach for Functional Nanostructures Formation and Advanced Applications

Self‐Assembly of DNA–Peptide Supermolecules: Coiled‐Coil Peptide Structures Templated by d‐DNA and l‐DNA Triplexes Exhibit Chirality‐Independent but Orientation‐Dependent Stabilizing Cooperativity

Cucurbiturils in nucleic acids research

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