In situ thermal imaging and absolute temperature monitoring by luminescent diphenylalanine nanotubes

Molecular self-assembled helix peptide nanotubes based on some amino acid molecules and their dipeptides: molecular modeling studies

CONTEXT

The paper considers the features of the structure and dipole moments of several amino acids and their dipeptides which play an important role in the formation of the peptide nanotubes based on them. The influence of the features of their chirality (left L and right D) and the alpha-helix conformations of amino acids are taken into account. In particular, amino acids with aromatic rings, such as phenylalanine (Phe/F), and branched-chain amino acids (BCAAs)-leucine (Leu/L) and isoleucine (Ile/I)-as well as corresponding dipeptides (diphenylalanine (FF), dileucine (LL), and diisoleucine (II)) are considered. The main features and properties of these dipeptide structures and peptide nanotubes (PNTs), based on them, are investigated using computational molecular modeling and quantum-chemical semi-empirical calculations. Their polar, piezoelectric, and photoelectronic properties and features are studied in detail. The results of calculations of dipole moments and polarization, as well as piezoelectric coefficients and band gap width, for different types of helical peptide nanotubes are presented. The calculated values of the chirality indices of various nanotubes are given, depending on the chirality of the initial dipeptides-the results obtained are consistent with the law of changes in the type of chirality as the hierarchy of molecular structures becomes more complex. The influence of water molecules in the internal cavity of nanotubes on their physical properties is estimated. A comparison of the results of these calculations by various computational methods with the available experimental data is presented and discussed.

METHOD

The main tool for molecular modeling of all studied nanostructures in this work was the HyperChem 8.01 software package. The main approach used here is the Hartree-Fock (HF) self-consistent field (SCF) with various quantum-chemical semi-empirical methods (AM1, PM3, RM1) in the restricted Hartree-Fock (RHF) and in the unrestricted Hartree-Fock (UHF) approximations. Optimization of molecular systems and the search for their optimal geometry is carried out in this work using the Polak-Ribeire algorithm (conjugate gradient method), which determines the optimized geometry at the point of their minimum total energy. For such optimized structures, dipole moments D and electronic energy levels (such as EHOMO and ELUMO), as well as the band gap Eg = ELUMO - EHOMO, were then calculated. For each optimized molecular structure, the volume was calculated using the QSAR program implemented also in the HyperChem software package.

Molecular Dynamics Simulation of Self-Assembly Processes of Diphenylalanine Peptide Nanotubes and Determination of Their Chirality

In this work, we further developed a new approach for modeling the processes of the self-assembly of complex molecular nanostructures using molecular dynamics methods; in particular, using a molecular dynamics manipulator. Previously, this approach was considered using the example of the self-assembly of a phenylalanine helical nanotube. Now, a new application of the algorithm has been developed for implementing a similar molecular dynamic self-assembly into helical structures of peptide nanotubes (PNTs) based on other peptide molecules-namely diphenylalanine (FF) molecules of different chirality L-FF and D-FF. In this work, helical nanotubes were assembled from linear sequences of FF molecules with these initially different chiralities. The chirality of the obtained nanotubes was calculated by various methods, including calculation by dipole moments. In addition, a statistical analysis of the results obtained was performed. A comparative analysis of the structures of nanotubes was also performed using the method of visual differential analysis. It was found that FF PNTs obtained by the MD self-assembly method form helical nanotubes of different chirality. The regimes that form nanotubes of right chirality D from initial L-FF dipeptides and nanotubes of left chirality L from D-FF dipeptides are revealed. This corresponds to the law of changing the sign of the chirality of molecular helical structures as the level of their hierarchical organization becomes more complicated.

Fmoc-diphenylalanine gelating nanoarchitectonics: A simplistic peptide self-assembly to meet complex applications

9-fluorenylmethoxycarbonyl-diphenylalanine (Fmoc-FF), has been has been extensively explored due to its ultrafast self-assembly kinetics, inherent biocompatibility, tunable physicochemical properties, and especially, the capability of forming self-sustained gels under physiological conditions. Consequently, various methodologies to develop Fmoc-FF gels and their corresponding applications in biomedical and industrial fields have been extensively studied. Herein, we systemically summarize the mechanisms underlying Fmoc-FF self-assembly, discuss the preparation methodologies of Fmoc-FF hydrogels, and then deliberate the properties as well as the diverse applications of Fmoc-FF self-assemblies. Finally, the contemporary shortcomings which limit the development of Fmoc-FF self-assembly are raised and the alternative solutions are proposed, along with future research perspectives.

Nanotubes and water-channels from self-assembling dipeptides

Dipeptides are attractive building blocks for biomaterials in light of their inherent biocompatibility, biodegradability, and simplicity of preparation. Since the discovery of diphenylalanine (Phe-Phe) self-assembling ability into nanotubes, research efforts have been devoted towards the identification of other dipeptide sequences capable of forming these interesting nanomorphologies, although design rules towards nanotube formation are still elusive. In this review, we analyze the dipeptide sequences reported thus far for their ability to form nanotubes, which often feature water-filled supramolecular channels as revealed by single-crystal X-ray diffraction, as well as their properties, and their potential biological applications, which span from drug delivery and regenerative medicine, to bioelectronics and bioimaging.

Luminescent Yb3+,Er3+-Doped α-La(IO3)3 Nanocrystals for Neuronal Network Bio-Imaging and Nanothermometry

Dual-light emitting Yb³⁺,Er³⁺-codoped α-La(IO₃)₃ nanocrystals, known to exhibit both second harmonic signal and photoluminescence (PL), are evaluated as optical nanoprobes and thermal sensors using both conventional microscopes and a more sophisticated micro-PL setup. When loaded in cortical and hippocampal neurons for a few hours at a concentration of 0.01 mg/mL, a visible PL signal arising from the nanocrystals can be clearly detected using an epifluorescent conventional microscope, enabling to localize the nanocrystals along the stained neurons and to record PL variation with temperature of 0.5% K⁻¹. No signal of cytotoxicity, associated with the presence of nanocrystals, is observed during the few hours of the experiment. Alternatively, a micro-PL setup can be used to discriminate the different PL lines. From ratiometric PL measurements, a relative thermal sensitivity of 1.2% K⁻¹ was measured.

Bioinspired Supramolecular Packing Enables High Thermo-Sustainability

Bottom-up self-assembled bioinspired materials have attracted increasing interest in a variety fields. The use of peptide supramolecular semiconductors for optoelectronic applications is especially intriguing. However, the characteristic thermal unsustainability limits their practical application. Here, we report the thermal sustainability of cyclo-ditryptophan assemblies up to 680 K. Non-covalent interactions underlie the stability mechanism, generating a low exciton-binding energy of only 0.29 eV and a high thermal-quenching-activation energy of up to 0.11 eV. The contributing forces comprise predominantly of aromatic interactions, followed by hydrogen bonding between peptide molecules, and, to a lesser extent, water-mediated associations. This thermal sustainability results in a temperature-dependent conductivity of the supramolecular semiconductors, showing 93 % reduction of the resistance from 320 K to 440 K. Our results establish thermo-sustainable peptide self-assembly for heat-sensitive applications.

Soft-Matter Nanotubes: A Platform for Diverse Functions and Applications

Self-assembled organic nanotubes made of single or multiple molecular components can be classified into soft-matter nanotubes (SMNTs) by contrast with hard-matter nanotubes, such as carbon and other inorganic nanotubes. To date, diverse self-assembly processes and elaborate template procedures using rationally designed organic molecules have produced suitable tubular architectures with definite dimensions, structural complexity, and hierarchy for expected functions and applications. Herein, we comprehensively discuss every functions and possible applications of a wide range of SMNTs as bulk materials or single components. This Review highlights valuable contributions mainly in the past decade. Fifteen different families of SMNTs are discussed from the viewpoints of chemical, physical, biological, and medical applications, as well as action fields (e.g., interior, wall, exterior, whole structure, and ensemble of nanotubes). Chemical applications of the SMNTs are associated with encapsulating materials and sensors. SMNTs also behave, while sometimes undergoing morphological transformation, as a catalyst, template, liquid crystal, hydro-/organogel, superhydrophobic surface, and micron size engine. Physical functions pertain to ferro-/piezoelectricity and energy migration/storage, leading to the applications to electrodes or supercapacitors, and mechanical reinforcement. Biological functions involve artificial chaperone, transmembrane transport, nanochannels, and channel reactors. Finally, medical functions range over drug delivery, nonviral gene transfer vector, and virus trap.

Photoactive properties of supramolecular assembled short peptides

Bioinspired nanostructures can be the ideal functional smart materials to bridge the fundamental biology, biomedicine and nanobiotechnology fields. Among them, short peptides are among the most preferred building blocks as they can self-assemble to form versatile supramolecular architectures displaying unique physical and chemical properties, including intriguing optical features. Herein, we discuss the progress made over the past few decades in the design and characterization of optical short peptide nanomaterials, focusing on their intrinsic photoluminescent and waveguiding performances, along with the diverse modulation strategies. We review the complicated optical properties and the advanced applications of photoactive short peptide self-assemblies, including photocatalysis, as well as photothermal and photodynamic therapy. The diverse advantages of photoactive short peptide self-assemblies, such as eco-friendliness, morphological and functional flexibility, and ease of preparation and modification, endow them with the capability to potentially serve as next-generation, bio-organic optical materials, allowing the bridging of the optics world and the nanobiotechnology field.

Reductionist Approach in Peptide-Based Nanotechnology

The formation of ordered nanostructures by molecular self-assembly of proteins and peptides represents one of the principal directions in nanotechnology. Indeed, polyamides provide superior features as materials with diverse physical properties. A reductionist approach allowed the identification of extremely short peptide sequences, as short as dipeptides, which could form well-ordered amyloid-like β-sheet-rich assemblies comparable to supramolecular structures made of much larger proteins. Some of the peptide assemblies show remarkable mechanical, optical, and electrical characteristics. Another direction of reductionism utilized a natural noncoded amino acid, α-aminoisobutryic acid, to form short superhelical assemblies. The use of this exceptional helix inducer motif allowed the fabrication of single heptad repeats used in various biointerfaces, including their use as surfactants and DNA-binding agents. Two additional directions of the reductionist approach include the use of peptide nucleic acids (PNAs) and coassembly techniques. The diversified accomplishments of the reductionist approach, as well as the exciting future advances it bears, are discussed.

Bioinspired Flexible and Tough Layered Peptide Crystals

One major challenge of functional material fabrication is combining flexibility, strength, and toughness. In several biological and artificial systems, these desired mechanical properties are achieved by hierarchical architectures and various forms of anisotropy, as found in bones and nacre. Here, it is reported that crystals of N-capped diphenylalanine, one of the most studied self-assembling systems in nanotechnology, exhibit well-ordered packing and diffraction of sub-Å resolution, yet display an exceptionally flexible nature. To explore this flexibility, the mechanical properties of individual crystals are evaluated, assisted by density functional theory calculations. High-resolution scanning electron microscopy reveals that the crystals are composed of layered self-assembled structures. The observed combination of strength, toughness, and flexibility can therefore be explained in terms of weak interactions between rigid layers. These crystals represent a novel class of self-assembled layered materials, which can be utilized for various technological applications, where a combination of usually contradictory mechanical properties is desired.

Tunable Carbon-Dot-Based Dual-Emission Fluorescent Nanohybrids for Ratiometric Optical Thermometry in Living Cells

The use of carbon-dot-based dual-emission fluorescent nanohybrids (DEFNs) as versatile nanothermometry devices for spatially resolved temperature measurements in living cells is demonstrated. The carbon dots (CDs) are prepared in the organic phase and display tunable photoluminescence (PL) across a wide visible range by adjusting the excitation wavelengths and extend of N-doping. DEFNs are formed in a straightforward fashion from CDs (emitting blue PL) and gold nanoclusters (AuNCs, emitting red PL). The DEFNs display ideal single-excitation, dual-emission with two well-resolved, intensity-comparable fluorescence peaks, and function in optical thermometry with high reliability and accuracy by exploiting the temperature sensitivity of their fluorescence intensity ratio (blue/red). Furthermore, the DEFNs have been introduced into cells, exhibiting good biocompatibility, and have facilitated physiological temperature measurements in the range of 25-45 °C; the DEFNs can therefore function as "non-contact" tools for the accurate measurement of temperature and its gradient inside a living cell.

Temperature-dependent luminescence properties of lanthanide(III) β-diketonate complex-doped LAPONITE®

In this work, by doping the lanthanide(III)-hexafluoroacetylacetone complex into LAPONITE®, we obtained a lanthanide-based organic-inorganic hybrid material. The resulting hybrid materials were fully characterized with elementary analysis, scanning electron microscopy (SEM) and powder X-ray diffraction (PXRD) techniques. The Ln(3+) and HFA loadings were experimentally determined to be roughly 0.3 per u.c. and 0.72 per u.c. by analyzing the supernatant (titration against EDTA) and elemental analysis, respectively. XRD patterns suggest that at least partial complexes are intercalated within the interlayers of the LAPONITE®. The in situ formation of luminescent Ln(3+) complexes is confirmed by the luminescence data. Furthermore, the emission intensity ratio of the (5)D4→(7)F5 transition (Tb(3+)) to the (5)D0→(7)F2 transition (Eu(3+)) of the hybrid material containing both Eu(3+) and Tb(3+) can be linearly related to temperature in the range from 197 K to 287 K (temperature sensitivity: 1.107% per K), which will be an appealing alternative for in situ and real time detection of temperature in many special areas. This strategy presents new opportunities for the development of highly sensitive and stable thermo sensors.

Functional architectures based on self-assembly of bio-inspired dipeptides: Structure modulation and its photoelectronic applications

Getting inspiration from nature and further developing functional architectures provides an effective way to design innovative materials and systems. Among bio-inspired materials, dipeptides and its self-assembled architectures with functionalities have recently been the subject of intensive studies. However, there is still a great challenge to explore its applications likely due to the lack of effective adaptation of their self-assembled structures as well as a lack of understanding of the self-assembly mechanisms. In this context, taking diphenylalanine (FF, a core recognition motif for molecular self-assembly of the Alzheimer's β-amyloid polypeptides) as a model of bio-inspired dipeptides, recent strategies on modulation of dipeptide-based architectures were introduced with regard to both covalent (architectures modulation by coupling functional groups) and non-covalent ways (controlled architectures by different assembly pathways). Then, applications are highlighted in some newly emerging fields of innovative photoelectronic devices and materials, such as artificial photosynthetic systems for renewable solar energy storage and renewable optical waveguiding materials for optoelectronic devices. At last, the challenges and future perspectives of these bio-inspired dipeptides are also addressed.

Coumarin 545: an emission reference dye with a record-low temperature coefficient for ratiometric fluorescence based temperature measurements

The emission intensities of coumarin 545 solution exhibit a low temperature dependence, with a record-low temperature coefficient of only ∼0.025% per °C.

Metal–organic frameworks for luminescence thermometry

We describe the recent progress made in luminescent MOF thermometers, and especially highlight the development of dual-emitting ratiometric thermometers.

Peptide nanotubes

The self-assembly of different classes of peptide, including cyclic peptides, amyloid peptides and surfactant-like peptides into nanotube structures is reviewed. The modes of self-assembly are discussed. Additionally, applications in bionanotechnology and synthetic materials science are summarized.

Simple and compact optode for real-time in-situ temperature detection in very small samples

Real-time in-situ temperature detection is essential in many applications. In this paper, a simple and robust optode, which uses Ruthenium (II) complex as a temperature indicator, has been developed for rapid and sensitive temperature detection in small volume samples (<5 μL). Transmission of excitation light and collection and transmission of fluorescence are performed by a homemade single-multi mode fiber coupler, which provides the entire system with a simple and robust structure. The photoluminescence intensity of Ruthenium (II) complex diminishes monotonically from 0°C to 80°C, and the response to temperature is rapid and completely reversible. When temperature is less than (or higher than) 50°C, a linear correlation exists between the fluorescence intensity and the temperature. Excellent agreement was also observed between the continuous and in situ measurements obtained by the presented optode and the discrete temperature values measured by a conventional thermometer. The proposed optode has high sensitivity, high photostability and chemical stability, a wide detection range, and thermal reversibility, and can be applied to real-time in-situ temperature detection of a very small volume biological, environmental, and chemical sample.

Postsynthetic lanthanide functionalization of nanosized metal–organic frameworks for highly sensitive ratiometric luminescent thermometry

A facile and general approach was demonstrated to generate ratiometric luminescent nanothermometers through postsynthetic incorporation of lanthanide cations within nanosized metal–organic frameworks bearing the open bipyridine sites. The obtained nanothermometers exhibit ultrahigh sensitivities.

A triarylboron-based fluorescent temperature indicator: sensitive both in solid polymers and in liquid solvents

A novel triarylboron compound, MPB, exhibiting reversible thermochromic fluorescence in solid-state polymers and in liquid solvents was designed and synthesized.