Modification of a SERS-active Ag surface to promote adsorption of charged analytes: effect of Cu²⁺ ions

• Bahdan V. Ranishenka,
• Andrei Yu. Panarin,
• Irina A. Chelnokova,
• Sergei N. Terekhov,
• Peter Mojzes and
• Vadim V. Shmanai

Beilstein J. Nanotechnol. 2021, 12, 902–912, doi:10.3762/bjnano.12.67

• of different modifications, only treatment with copper ions appeared to be successful (Figure 8, numbers 1 and 2). According to an earlier investigation [35], the Cu2+ ions are able to bind effectively both the phosphate groups and the nucleobases in the oligonucleotide molecules to yield charge

• complex. Additionally, it was confirmed in experiments with Mg2+ ions, instead of Cu2+ ions, which are much less capable of complexation with nucleobases. Moreover, Mg2+ cations have been shown [35] to have the lowest affinity to DNA molecules among doubly charged ions (Mg2+ < Co2+ < Ni2+ < Mn2+ < Zn2

Antimicrobial metal-based nanoparticles: a review on their synthesis, types and antimicrobial action

• Matías Guerrero Correa,
• Fernanda B. Martínez,
• Cristian Patiño Vidal,
• Camilo Streitt,
• Juan Escrig and
• Carol Lopez de Dicastillo

Beilstein J. Nanotechnol. 2020, 11, 1450–1469, doi:10.3762/bjnano.11.129

• , transcription, and cell division since ROS can generate DNA mutations. These modifications may target the sugar-phosphate or the nucleobases and cause saccharide fragmentation and strand break [160]. This cleavage induced by the nanoparticles was studied in the pBR322 plasmid in the presence of Ag NPs via

Using gold nanoparticles to detect single-nucleotide polymorphisms: toward liquid biopsy

• María Sanromán Iglesias and
• Marek Grzelczak

Beilstein J. Nanotechnol. 2020, 11, 263–284, doi:10.3762/bjnano.11.20

• are obtained by intercalating natural and artificial nucleobases or by modifying internucleoside linkages. Lee and co-workers have proposed the colorimetric detection of a point mutation in codon 559 of c-Kit using targets of different lengths (12-, 21- or 42-mer) [92]. PNA-coated AuNPs (18 nm) were

Molecular architectonics of DNA for functional nanoarchitectures

• Debasis Ghosh,
• Lakshmi P. Datta and
• Thimmaiah Govindaraju

Beilstein J. Nanotechnol. 2020, 11, 124–140, doi:10.3762/bjnano.11.11

• beacon) state to an open (A-motif) state in a pH-responsive manner within artificial vesicles and living cells. The DNA device was made up of 24 nucleobases, of which 12 adenine nucleobases were present within the loop region, and a closed molecular beacon structure was formed via two stretches of five

• via canonical and noncanonical hydrogen bonding, and with guanine via noncanonical hydrogen bonding interactions. The PDI was functionalized with adenine, owing to its unique ability to form hydrogen bonds with other complementary and noncomplementary nucleobases. The canonical hydrogen bonding

• acid (PNA) dimers (clamps) via WC and Hoogsteen base pairing interactions (Figure 6) [75]. The hydrogen bonding interactions, along with hydrophobic interactions, imparted by the nucleobases and the NDI core, facilitated the formation of versatile nano- and microarchitectures. The morphological

Biocompatible organic–inorganic hybrid materials based on nucleobases and titanium developed by molecular layer deposition

• Leva Momtazi,
• Henrik H. Sønsteby and
• Ola Nilsen

Beilstein J. Nanotechnol. 2019, 10, 399–411, doi:10.3762/bjnano.10.39

• combining titanium tetra-isopropoxide (TTIP) and the nucleobases thymine, uracil or adenine using the molecular layer deposition (MLD) approach. Such materials have potential as bioactive coatings, and the bioactivity of these films is described in our recent work [Momtazi, L.; Dartt, D. A.; Nilsen, O

• , confirming the hybrid nature of the as-deposited films with an amorphous structure where partial inclusion of the TTIP molecule occurs during growth. The films are highly hydrophilic, while the nucleobases do leach in water providing an amorphous structure mainly of TiO2 with reduced density and index of

• refraction. Keywords: ALD; bioactive materials; hybrid materials; MLD; nucleobases; Introduction There is an ever-increasing interest in organometallic compounds in the field of medicinal chemistry. Organometallic complexes are now being developed as anticancer agents, radiopharmaceuticals for diagnosis

Review on nanoparticles and nanostructured materials: history, sources, toxicity and regulations

• Jaison Jeevanandam,
• Ahmed Barhoum,
• Yen S. Chan,
• Alain Dufresne and
• Michael K. Danquah

Beilstein J. Nanotechnol. 2018, 9, 1050–1074, doi:10.3762/bjnano.9.98

False positives and false negatives measure less than 0.001% in labeling ssDNA with osmium tetroxide 2,2’-bipyridine

• Anastassia Kanavarioti

Beilstein J. Nanotechnol. 2016, 7, 1434–1446, doi:10.3762/bjnano.7.135

• reactivity of OsBp towards the backbone of an oligo composed of all four nucleobases, including osmylated pyrimidines, we experimented with an oligo that happened to be of exceptional purity. This oligo is a 32-mer, 3’-end-adenylated PCR primer pGEX3’, abbreviated as pGEX3’A9 (Table 1). Figure 9 shows the IE

Single pyrimidine discrimination during voltage-driven translocation of osmylated oligodeoxynucleotides via the α-hemolysin nanopore

• Yun Ding and
• Anastassia Kanavarioti

Beilstein J. Nanotechnol. 2016, 7, 91–101, doi:10.3762/bjnano.7.11

• necessary for detection, yielding a tentative 100 to 1000-fold reduction in reading speed compared to an optimal situation [12][13]. In a nutshell progress in nanopore-based sequencing of DNA is still limited by three issues: (i) the chemical comparability of the four nucleobases in the context of current

• are accurate to ±1%, and did not vary with voltage. Evidence for translocation of osmylated oligos via the α-HL pore, despite the apparent bulkiness of the OsBp moiety, was initially surprising. Actually the approximately orthogonal positioning of the nucleobases to the strand axis, and the top or

DNA–melamine hybrid molecules: from self-assembly to nanostructures

• Rina Kumari,
• Shib Shankar Banerjee,
• Anil K. Bhowmick and
• Prolay Das

Beilstein J. Nanotechnol. 2015, 6, 1432–1438, doi:10.3762/bjnano.6.148

• demonstrated great potential to produce molecular-scale building blocks. The covalent conjugation of the nucleobases with small molecules has been found to be a useful method to improve the properties of their natural counterparts such as nucleobase pairing fidelity, duplex stability, and for creating complex

Natural and artificial binders of polyriboadenylic acid and their effect on RNA structure

• Giovanni N. Roviello,
• Domenica Musumeci,
• Valentina Roviello,
• Marina Pirtskhalava,
• Alexander Egoyan and
• Merab Mirtskhulava

Beilstein J. Nanotechnol. 2015, 6, 1338–1347, doi:10.3762/bjnano.6.138

• nucleopeptides (Figure 10), a significant role was played not only by the molecular recognition of complementary nucleobases, but also by the electrostatic interactions occurring between anionic phosphodiester moieties and the cationic residues present in the nucleopeptide structures. It is also interesting to

Non-covalent and reversible functionalization of carbon nanotubes

• Antonello Di Crescenzo,
• Valeria Ettorre and
• Antonella Fontana

Beilstein J. Nanotechnol. 2014, 5, 1675–1690, doi:10.3762/bjnano.5.178

• rupture triggered by NIR laser pulses. Continuous NIR radiation can cause cell death because of excessive in vitro local SWCNTs heating [75]. In these carbon scaffolds the nucleobases directly interact with SWCNT sidewalls, while the hydrophilic sugar-phosphate backbone is oriented towards the solvent [5

DNA origami deposition on native and passivated molybdenum disulfide substrates

• Xiaoning Zhang,
• Masudur Rahman,
• David Neff and
• Michael L. Norton

Beilstein J. Nanotechnol. 2014, 5, 501–506, doi:10.3762/bjnano.5.58

• to adsorb through van der Waals forces between the four nitrogenous nucleobases and the basal plane of MoS2 [18]. For example, in the report of Maddocks et al. [21], guanine, one of the four DNA bases, was observed, by using scanning tunneling microscopy (STM), to form a stable two-dimensional

• applications. In this work, the behavior of DNA origami structures on a MoS2 surface was studied for the first time. Our results revealed that DNA origami nanostructures are not stable when in direct contact with the MoS2 surface. This can be attributed to the van der Waals interaction between nucleobases and

Distinction of nucleobases – a tip-enhanced Raman approach

• Regina Treffer,
• Xiumei Lin,
• Elena Bailo,
• Tanja Deckert-Gaudig and
• Volker Deckert

Beilstein J. Nanotechnol. 2011, 2, 628–637, doi:10.3762/bjnano.2.66

• contributions from the specific nucleobases, TERS spectra were collected on single stranded calf thymus DNA with arbitrary sequence. The results show that, while the Raman signals with respect to the four nucleobases differ remarkably, specific markers can be determined for each respective base. The combination

• the respective nucleobases is possible, and this eventually led to successful TERS measurements on a single RNA strand of a cytosine homopolymer [19]. The dependency of the electromagnetic field enhancement of TERS on the composition of the substrate, amongst other parameters, was shown in three

• a sequencing procedure with TERS is the fact that the four nucleobases reveal remarkably different Raman scattering cross sections. It was shown that in SERS experiments on an equimolar mixture of the bases, the intensities of the ring breathing modes of the distinct bases are as follows: Poly