Interaction-tailored organization of large-area colloidal assemblies

• Silvia Rizzato,
• Elisabetta Primiceri,
• Anna Grazia Monteduro,
• Adriano Colombelli,
• Angelo Leo,
• Maria Grazia Manera,
• Roberto Rella and
• Giuseppe Maruccio

Beilstein J. Nanotechnol. 2018, 9, 1582–1593, doi:10.3762/bjnano.9.150

• high sensitivity of these oscillations to refractive index changes in the surrounding environment was exploited for monitoring binding events in real time and detecting gas [9][10], protein–ligand interactions, nucleic acid and protein conformational changes [11][12]. On the other hand, magnonic [13

Photobleaching of YOYO-1 in super-resolution single DNA fluorescence imaging

• Joseph R. Pyle and
• Jixin Chen

Beilstein J. Nanotechnol. 2017, 8, 2296–2306, doi:10.3762/bjnano.8.229

• theoretically predicted with the proposed method in this report. Keywords: diffusion; PAINT; single-molecule photophysics; super-resolution imaging; Introduction Fluorescence imaging of DNA with intercalating dyes is important for DNA sensing [1][2], nucleic acid imaging inside cells and viruses [3][4][5

Cationic PEGylated polycaprolactone nanoparticles carrying post-operation docetaxel for glioma treatment

• Cem Varan and
• Erem Bilensoy

Beilstein J. Nanotechnol. 2017, 8, 1446–1456, doi:10.3762/bjnano.8.144

• particles (which have neutral or near-neutral surface charge) are more prone to escape from the MPS. Cationic nanoparticles can also condense nucleic acid (DNA, RNA) or proteins to form polyplexes for intracellular gene/drug delivery. In this context, chitosan (CS) is used as a positively charged coating

Streptavidin-coated gold nanoparticles: critical role of oligonucleotides on stability and fractal aggregation

• Roberta D'Agata,
• Pasquale Palladino and
• Giuseppe Spoto

Beilstein J. Nanotechnol. 2017, 8, 1–11, doi:10.3762/bjnano.8.1

• enhanced sensitivity enables the detection of point mutations in non-amplified human genomic DNA with attomolar sensitivity [13], thus offering an excellent cost-effective alternative to time consuming and prone to sample contamination nucleic acid amplification protocols [14]. In this context, the

• local aggregation of AuNPs that could be exploited to increase the sensitivity of AuNP-enhanced nucleic acid detection assays. Results and Discussion Functionalization of nanoparticles The adsorption of proteins on nanoparticles has been widely investigated over the last decade [26]. In particular, it

A novel electrochemical nanobiosensor for the ultrasensitive and specific detection of femtomolar-level gastric cancer biomarker miRNA-106a

• Maryam Daneshpour,
• Kobra Omidfar and
• Hossein Ghanbarian

Beilstein J. Nanotechnol. 2016, 7, 2023–2036, doi:10.3762/bjnano.7.193

• biomarkers for early cancer diagnosis and prognosis. So far, different strategies have been developed in this regard, such as quantitative reverse transcription PCR (qRT-PCR) [13], locked nucleic acid-based northern blot [14], microarray [15], or flowcytometry [16]. Although there have been advantages to

• -characterized nanomaterial and the complementarity principle of nucleic acid molecules, this electrochemical nanobiosensor showed remarkable accuracy in evaluating miRNA target concentrations via differential pulse voltammetry (DPV) analyses. The principal steps of the biosensing procedure are schematically

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

• separates two compartments filled with electrolyte. Influenced by the electric field, the electrolyte ions traverse the pore producing a constant current. Also led by the applied field, a nucleic acid in one compartment moves through the pore to the other compartment and obstructs the current in a sequence

• attributed to a single base [11][18]. From a chemical point of view, the bases are not that different from each other and yield comparable current levels, as shown by experiments where the ssDNA was immobilized within the pore [19][20][21]. Discrimination is further reduced when the nucleic acid traverses

• sequencing information on T and C, and the osmylated complementary strand may provide information on A and G. Undoubtedly a labeled nucleic acid, used as a surrogate for sequencing via electron microscopy or nanopore technology, is required to meet stringent qualifications. These qualifications should

High antiviral effect of TiO₂·PL–DNA nanocomposites targeted to conservative regions of (−)RNA and (+)RNA of influenza A virus in cell culture

• Asya S. Levina,
• Marina N. Repkova,
• Elena V. Bessudnova,
• Ekaterina I. Filippova,
• Natalia A. Mazurkova and
• Valentina F. Zarytova

Beilstein J. Nanotechnol. 2016, 7, 1166–1173, doi:10.3762/bjnano.7.108

• (oligonucleotides and their derivatives and analogs) can be used for this purpose because they are known to site specifically interact with certain regions of nucleic acid (NA) targets. The development of antisense technology for the creation of drugs that can gene specifically affect the genes responsible for

• number of publications describing different delivery systems of nucleic acid fragments into cells [1][2][3], including the use of inorganic nanoparticles [4]. Another important problem of using NA-based drugs is to select a proper target in the IAV genome. The choice of the most efficient antiviral NA

• targets in the IAV genome for the action of nucleic acid-based drugs. It should be noted that the effect of the most efficient nanocomposites on the viral reproduction (inhibition of the IAV replication by 3–4 orders of magnitude) was higher than that of other NA-based compounds described in literature

Dielectrophoresis of gold nanoparticles conjugated to DNA origami structures

• Anja Henning-Knechtel,
• Matthew Wiens,
• Mathias Lakatos,
• Andreas Heerwig,
• Frieder Ostermaier,
• Nora Haufe and
• Michael Mertig

Beilstein J. Nanotechnol. 2016, 7, 948–956, doi:10.3762/bjnano.7.87

• of two single-stranded nucleic acid overhangs with a poly(A) sequence that hang out from the 6HB along two adjacent double helices of the origami. The distance between neighboring particle binding sites is 42 nm. The dielectrophoretic behavior of the 6HBs was studied using a microelectrode contact

Novel roles for well-known players: from tobacco mosaic virus pests to enzymatically active assemblies

• Claudia Koch,
• Fabian J. Eber,
• Carlos Azucena,
• Alexander Förste,
• Stefan Walheim,
• Thomas Schimmel,
• Alexander M. Bittner,
• Holger Jeske,
• Hartmut Gliemann,
• Sabine Eiben,
• Fania C. Geiger and
• Christina Wege

Beilstein J. Nanotechnol. 2016, 7, 613–629, doi:10.3762/bjnano.7.54

• detected a nucleic acid fraction of about 5% in the fibrous crystals [25][26]. These were shown by Helmut Ruska and colleagues, who pioneered electron microscopy in Berlin at that time, to most likely consist of rods about 300 nm in length and 15 nm in diameter [27]. In the 1950s, cutting-edge X-ray

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

• pore embedded in an insulating surface that separates two compartments filled with electrolyte. A nucleic acid in one compartment can move through the pore to the other compartment influenced by the electric field and the interactions with the pore, and concurrently modulate the current. Protein pores

• polymerase, at the top of the pore to move the nucleic acid one base at a time, was a game changer because it slowed down translocation to the ms level [39][40][41]. Translocation speed in the presence of an enzyme is reduced by three to four orders of magnitude and it is two to three orders slower than

• placed so far in labeling one or more of the bases with a moiety to add bulkiness and impose discrimination, perhaps, because selective labels are hard to find and because proof of efficient labeling of a gigabase long nucleic acid is seen as an unattainable goal. While working with metalorganic

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

• Dipartimento di Ingegneria Chimica, dei Materiali e della Produzione Industriale (DICMaPI), Università di Napoli “Federico II”, 80125 Napoli, Italy Geomedi University, 3 Krtsanisi Street, 0114 Tbilisi, Georgia 10.3762/bjnano.6.138 Abstract The employment of molecular tools with nucleic acid binding ability to

• viscosity of poly(rA) duplex solutions, thus suggesting that berberine does not significantly bind poly(rA) in its double-stranded form [25]. Xing et al. [26] verified the ability of coralyne to interact with poly(rA) and also to induce self-assembled structures in this nucleic acid. Also, Giri and Kumar

• strong stabilization of the double helix due to the interaction with the aminoglucoside. In addition, Xi et al. [43] studied the interaction of neomycin with several nucleic acid complexes by means of competition dialysis, UV, fluorescence, computational and calorimetry studies, demonstrating that this

Influence of gold, silver and gold–silver alloy nanoparticles on germ cell function and embryo development

• Ulrike Taylor,
• Daniela Tiedemann,
• Christoph Rehbock,
• Wilfried A. Kues,
• Stephan Barcikowski and
• Detlef Rath

Beilstein J. Nanotechnol. 2015, 6, 651–664, doi:10.3762/bjnano.6.66

• electron donors such as thiol groups found on the negatively-charged sperm membrane [57][68]. Oligonucleotide-conjugated nanoparticles might bind directly to nucleic acid specific binding sites which have been shown to exist on the sperm surface [69]. The fact that BSA coating inhibits nanoparticle

Hematopoietic and mesenchymal stem cells: polymeric nanoparticle uptake and lineage differentiation

• Ivonne Brüstle,
• Thomas Simmet,
• Gerd Ulrich Nienhaus,
• Katharina Landfester and
• Volker Mailänder

Beilstein J. Nanotechnol. 2015, 6, 383–395, doi:10.3762/bjnano.6.38

• intracellular depot of a drug or a nucleic acid construct with slow release kinetics. Thus, the intended nanoparticles should be tested for toxicity and the nanomaterial as a carrier ideally should not influence cellular functions itself, that is, only the payload should exert such an effect. Once introduced

Overview about the localization of nanoparticles in tissue and cellular context by different imaging techniques

• Anja Ostrowski,
• Daniel Nordmeyer,
• Alexander Boreham,
• Cornelia Holzhausen,
• Lars Mundhenk,
• Christina Graf,
• Martina C. Meinke,
• Annika Vogt,
• Sabrina Hadam,
• Jürgen Lademann,
• Eckart Rühl,
• Ulrike Alexiev and
• Achim D. Gruber

Beilstein J. Nanotechnol. 2015, 6, 263–280, doi:10.3762/bjnano.6.25

• microscope (0.2 µm) and the grain size of the emulsion [69]. This technique has previously been used, for example, for the localization of specific nucleic acid sequence, e.g., chromosomes or viral infections, by in situ hybridization employing radiolabeled nucleic acid probes [70]. We reasoned that this

Sequence-dependent electrical response of ssDNA-decorated carbon nanotube, field-effect transistors to dopamine

• Hari Krishna Salila Vijayalal Mohan,
• Jianing An and
• Lianxi Zheng

Beilstein J. Nanotechnol. 2014, 5, 2113–2121, doi:10.3762/bjnano.5.220

• electronic platform for biosensing [14]. Previously, numerous works have demonstrated that nucleic acid-functionalized CNT-based FETs exhibit fast, specific, and reproducible response to the detection of various polar molecules [15][16]. Since ssDNA has four bases, it gives the possibility of numerous

Effect of channel length on the electrical response of carbon nanotube field-effect transistors to deoxyribonucleic acid hybridization

• Hari Krishna Salila Vijayalal Mohan,
• Jianing An,
• Yani Zhang,
• Chee How Wong and
• Lianxi Zheng

Beilstein J. Nanotechnol. 2014, 5, 2081–2091, doi:10.3762/bjnano.5.217

• .5.217 Abstract A single-walled carbon nanotube (SWCNT) in a field-effect transistor (FET) configuration provides an ideal electronic path for label-free detection of nucleic acid hybridization. The simultaneous influence of more than one response mechanism in hybridization detection causes a variation

• variation trend in response to the newly defined parameters. Keywords: biosensor; carbon nanotubes; channel length; field-effect transistor; hybridization; mobility; nucleic acid; Introduction Detection of nucleic acids such as deoxyribonucleic acid (DNA) or ribonucleic acid (RNA) is an important issue in

Molecular dynamics simulations of mechanical failure in polymorphic arrangements of amyloid fibrils containing structural defects

• Hlengisizwe Ndlovu,
• Alison E. Ashcroft,
• Sheena E. Radford and
• Sarah A. Harris

Beilstein J. Nanotechnol. 2013, 4, 429–440, doi:10.3762/bjnano.4.50

• determined from ssNMR [24]. The coordinate files initially consisted of a pair of β-sheets, each of which was composed of two peptides of the SNNFGAILSS sequence (2 × 2 models). These coordinates were used as templates from which longer fibrils were constructed. The Nucleic Acid Builder (NAB) software

Functionalization of vertically aligned carbon nanotubes

• Eloise Van Hooijdonk,
• Carla Bittencourt,
• Rony Snyders and
• Jean-François Colomer

Beilstein J. Nanotechnol. 2013, 4, 129–152, doi:10.3762/bjnano.4.14

• paramount importance [136]. VA-CNT films are good candidates matching these requirements. In 2002, Nguyen et al. [137] created CNT–PM samples in two steps: first, a nucleic acid grafting at the CNT tips, leading to the opening of their end caps, and then a spin-on-glass deposition inside the VA-CNT array

Nanolesions induced by heavy ions in human tissues: Experimental and theoretical studies

• Marcus Bleicher,
• Lucas Burigo,
• Marco Durante,
• Maren Herrlitz,
• Michael Krämer,
• Igor Mishustin,
• Iris Müller,
• Francesco Natale,
• Igor Pshenichnov,
• Stefan Schramm,
• Gisela Taucher-Scholz and
• Cathrin Wälzlein

Beilstein J. Nanotechnol. 2012, 3, 556–563, doi:10.3762/bjnano.3.64

• . We concluded that the structure of the nanolesions depends strongly on the target structure, where the target is not only DNA, but the protein-nucleic acid complex (chromatin). Monte Carlo codes MCHIT and TRAX can elegantly reproduce the measured [6][17] energy deposition patterns following the