Ambiguous Faces of Water-Based Inclusion Compounds: L4(4)8(8) Intercalato-Clathrate Hydrate of Pt(II) Complex

Clathrate hydrates are among the most intensively studied H-bond inclusion compounds. Despite the broad definition for this class of compounds, their meaning commonly refers to closed polyhedral nanocages that encapsulate small guest molecules. On the other hand, larger solutes enforce another type of encapsulation because of the solute size effect. Herein, we report a series of structures containing various molecules encapsulated by intercalated water layers constructed of polycyclic moieties of L4(4)8(8) topology. We parametrized the corrugation of individual layers and characterized interactions governing their formation. We suggested which could be categorized as two-dimensional clathrates based on the character of intra-layer interactions and effects observed between entrapped molecules and water-based intercalators.

Root-Applied Cerium Oxide Nanoparticles and Their Specific Effects on Plants: A Review

With the pronounced increase in nanotechnology, it is likely that biological systems will be exposed to excess nanoparticles (NPs). Cerium oxide nanoparticles (CeO2 NPs) are among the most abundantly produced nanomaterials in the world. Their widespread use raises fundamental questions related to the accumulation in the environment and further interactions with living organisms, especially plants. NPs present in either soil or soilless environments are absorbed by the plant root systems and further transported to the aboveground parts. After entering the cytoplasm, NPs interact with chloroplast, nucleus, and other structures responsible for metabolic processes at the cellular level. In recent years, several studies have shown the impact of nanoceria on plant growth and metabolic processes. Research performed on different plants has shown a dual role for CeO2 NPs. The observed effects can be positive or negative and strongly depend on the plant species, characterization, and concentrations of NPs. This review describes the impact of root-applied CeO2 NPs on plant growth, photosynthesis, metal homeostasis, and parameters of induced oxidative stress.

The Influence of Copper and Zinc on Photosynthesis and Phenolic Levels in Basil (Ocimum basilicum L.), Borage (Borago officinalis L.), Common Nettle (Urtica dioica L.) and Peppermint (Mentha piperita L.)

This work is aimed at relationships which govern zinc and copper uptake by four popular medicinal herbs: basil (Ocimum basilicum L.), borage (Borago officinalis L.), common nettle (Urtica dioica L.) and peppermint (Mentha piperita L.). They are often grown in soils with significant copper or zinc levels. Herbs were cultivated by a pot method in controlled conditions. Manganese, iron, copper and zinc concentrations were determined by High-Resolution Continuum Source Flame Atomic Absorption Spectrometry. The efficiency of photosynthesis was estimated by measuring the chlorophyll content, water use efficiency, net photosynthesis, intercellular CO2, stomatal conductance, and transpiration rate. Phenolic compounds were determined by the Folin-Ciocalteu method. Analysis of variance showed that herbs grown in soil treated with copper exhibited a lower iron content in roots, while manganese behaved in the opposite way. The only exception was borage, where a decrease in the manganese content in roots was observed. Both copper and zinc supplementations increased the total content of phenolics, while the highest increases were observed for common nettle and basil. Peppermint and borage responded less to supplementation. In the majority of samples, zinc and copper did not significantly affect the photosynthesis. Herbal extracts from common nettle and basil had unique antioxidant properties and may be good free radical scavengers.

1D and 2D Coordination Polymers of Calcium with Nonsteroidal Anti-Inflammatory Drugs: Synthesis, Crystal Structures, Hirshfeld Surfaces, Antimicrobial and Antioxidant Activities

Four alkaline earth metal complexes of ketoprofen (Hket) and indomethacin (Hind) were synthesized and characterized: [Ca(ket)2 (H2 O)2 ]n (1), [Mg(ket)2 (H2 O)2 ] (2), [Ca(ind)2 (EtOH)2 ]n (3), and [Mg(ind)2 (EtOH)2 ] (4). All compounds were studied by elemental analysis (EA), flame atomic absorption spectrometry (FAAS), Fourier transform infrared spectroscopy (FTIR), and thermogravimetric analysis (TGA). Crystal structures of 1 and 3 were determined by single crystal X-ray diffraction technique T=100 K. The structure of 1 is dominated by a one-dimensional coordination polymer, while 3 is formed by a two-dimensional layer stabilized by the calcium zig-zag chains and π⋅⋅⋅π stacking interactions. Crystal packing arrangements were characterized by fingerprint plots (FPs) that were derived from the Hirshfeld surfaces (HSs). The antioxidant and antimicrobial activities of complexes were evaluated against Gram-positive and Gram-negative bacteria as well as yeasts.

A holistic approach to the spatio-temporal variability investigation of the main river water quality - The importance of tributaries

The surface water pollution can cause serious ecological disasters. An example is large-scale fish deaths due to excessive salinity, which is global problem. In order to prevent such situations, it is necessary to carry out regular monitoring of both main rivers and their tributaries. The current monitoring system is neither adapted to the variability associated with the diversified use of catchments nor to changing climatic conditions. The Bzura River is one of the most anthropogenically transformed Polish rivers. So far, no comprehensive assessment of the chemical status of its catchment has been carried out. The presented research is a continuation of the study of the spatio-temporal variability of the Bzura chemistry. It covered 19 tributaries within the boundaries of the Łódź Voivodeship. Samples were collected once a month for one hydrological year. In total, 228 samples were obtained, in which 21 parameters were measured. Spatio-temporal variability of water quality on the basis of coefficients of variation (CVs) and water quality indices (WQIs) was evaluated. Principal component analysis (PCA) and cluster analysis (CA) were also performed. In addition, the datasets were visualized using geochemical maps. Combined monitoring with geospatial analysis brings benefits in terms of efficient control and management of water resources. The tributaries were divided according to the degree of their pollution. It was found that the electrical conductivity and concentrations of dissolved oxygen, nitrates, calcium and magnesium differentiated the tributaries in terms of pollution the most. The strong salinity from agricultural and geogenic sources was found. The WQIs were higher for the tributaries than for the Bzura. It suggests that the Bzura may be polluted by the tributaries under "favorable" climatic and hydrological conditions. Therefore, smaller watercourses should be included in monitoring and become more important in terms of an effective solution to global problem of surface water pollution.

Photosynthesis governed by nanoparticulate titanium dioxide. The Pisum sativum L. case study

Wide availability of anthropogenic TiO2 nanoparticles facilitates their penetration into environment and prompts interactions with plants. They alter plants growth and change their nutritional status. In particular, metabolic processes are affected. In this work the effect of nanometric TiO2 on photosynthesis efficiency in green pea (Pisum sativum L.) was studied. Hydroponic cultivations with three Ti levels (10; 50 and 100 mg L-1) were applied. At all concentrations nanoparticles penetrated into plant tissues and were detected by the single particle ICP-MS/MS method. Nanoparticles altered the CO2 assimilation rate and gas exchange parameters (i.e. transpiration, stomatal conductance, sub-stomatal CO2 concentration). The most pronounced effects were observed for Ti 50 mg L-1 cultivation where photosynthesis efficiency, transpiration and stomatal conductance were increased by 14.69%, 4.58% and 8.92%, respectively. They were further confirmed by high maximum ribulose 1,5-bisphosphate carboxylation rate (27.40% increase), maximum electron transport rate (21.51% increase) and the lowest CO2 compensation point (45.19% decrease). Furthermore, concentrations of Cu, Mn, Zn, Fe, Mg, Ca, K and P were examined with the most pronounced changes observed for elements directly involved in photosynthesis (Cu, Zn, Mn, and Fe). The Cu concentrations in roots, stems and leaves for Ti 50 mg L-1 cultivation were below the control by 33.15%, 38.28% and 10.76%, respectively. The Zn content in analogous treatment and organs decreased by 30.24%, 26.69% and 13.35%. The Mn and Fe levels in leaves were increased by 72.22% and 50.32%, respectively. Our results indicated that plant defence mechanisms which restrain the water uptake have been overcome in pea by photocatalytic activity of nanoparticulate TiO2 which stimulated photosynthesis. On the contrary to the substantial stomatal conductance, the transpiration has been reduced because exceptional part of water flow was already consumed in chloroplasts and could not have been freed to the atmosphere.

Antioxidant Activity and Photosynthesis Efficiency in Melissa officinalis Subjected to Heavy Metals Stress

The aim of this study was to assess influence of cadmium and zinc treatments on antioxidant activity combined with the photosynthesis efficiency in a popular herb lemon balm (Melissa officinalis L.). Plants were grown under greenhouse conditions by the pot method. The Mn, Cu, Cd, and Zn contents in soil and plants were measured by HR-CS FAAS. The activity of net photosynthesis, stomatal conductance, transpiration rate, intercellular CO2, and index of chlorophyll in leaves were determined for all investigated species. Reduction of the net photosynthesis was observed for cultivations subjected to either Zn or Cd treatments. Phenolic contents were determined by the chemical Folin-Ciocalteu method, while enhanced voltammetric analysis was applied to assess the antioxidant properties of plant extracts. Both of these approaches yielded similar results. Herbal extracts had exceptional antioxidant capacities and were good scavengers of free radicals and reactive oxygen species. Structural similarity of cadmium and zinc facilitated their mutual structural exchange and prompted substantial expansion of phenolics under the mixed Zn and Cd treatments.

Combined Effect of Climate and Anthropopressure on River Water Quality

This study was a continuation of our investigation of the spatio-temporal variability of the Bzura River's water chemistry. Our research is of particular importance in the context of the recent ecological disaster on the Oder River and concerns the international problem of surface water contamination. The study area was a 120 km section of the Bzura River. We tested more measurement points and with a higher sampling frequency than those used in the national monitoring of river water quality. During two hydrological years, 360 water samples were collected. The selected parameters: electrical conductivity, temperature, dissolved oxygen, dissolved organic carbon, nitrates, phosphates, bicarbonates, chlorides, sodium, potassium, calcium, and magnesium were determined. Numerous results exceeded the Polish threshold limits. Spatio-temporal variability and water quality were assessed using principal component analysis (PCA), cluster analysis (CA), and water quality index (WQI) approaches. Many point sources of pollution related to urbanization, agriculture, and industry were detected. Moreover, due to the changing climatic conditions, a significant difference between temporal variability in both years was observed. Our results indicated that it is necessary to increase the number of measurement stations for surface water monitoring; it will allow for a faster detection of the threat.

The Impact of Soil pH on Heavy Metals Uptake and Photosynthesis Efficiency in Melissa officinalis, Taraxacum officinalis, Ocimum basilicum

Herbs used in medicine should be grown under controlled and standardized conditions. Agricultural practices often induce changes to soil pH, which may affect migration of heavy metals in the environment, their accumulation in plant tissues and the concentration of medicinal ingredients. The aim of this work was to assess the influence of various soil pH on the biological parameters and uptake of manganese, copper and zinc by basil, dandelion and lemon balm. The soil analysis covered pH, organic matter content, bioavailable and total forms of investigated metals in soil. In plants cultivated in soil at pH covering the range 4.7–8.5 the concentrations of Mn, Cu and Zn were analyzed. Their mobility and availability were assessed by bioaccumulation factors, translocation factors and transfer coefficients. The seed germination and subsequent herbs growth were strongly dependent on soil pH for all investigated plant species. Photosynthetic efficiency at different pHs was positively correlated with uptake of Cu and Mn while Zn behaved in a more random way.

Supramolecular synthon hierarchy in cyclopropyl-containing peptide-derived compounds

Recognizing the increasing importance of cyclopropyl containing peptide-derived compounds in the pharma industry, here we report the crystal engineering of a series of novel derivatives, i.e. diethyl 2-acetamido-2-(cyclopropylmethyl)malonate (1), 2-(cyclopropylmethyl)-2-acetamidopropanedioic...

The Combined Effect of ZnO and CeO2 Nanoparticles on Pisum sativum L.: A Photosynthesis and Nutrients Uptake Study

Cerium oxide nanoparticles (CeO2 NPs) and zinc oxide nanoparticles (ZnO NPs) are emerging pollutants that are likely to occur in the contemporary environment. So far, their combined effects on terrestrial plants have not been thoroughly investigated. Obviously, this subject is a challenge for modern ecotoxicology. In this study, Pisum sativum L. plants were exposed to either CeO2 NPs or ZnO NPs alone, or mixtures of these nano-oxides (at two concentrations: 100 and 200 mg/L). The plants were cultivated in hydroponic system for twelve days. The combined effect of NPs was proved by 1D ANOVA augmented by Tukey's post hoc test at p = 0.95. It affected all major plant growth and photosynthesis parameters. Additionally, HR-CS AAS and ICP-OES were used to determine concentrations of Cu, Mn, Fe, Mg, Ca, K, Zn, and Ce in roots and shoots. Treatment of the pea plants with the NPs, either alone or in combination affected the homeostasis of these metals in the plants. CeO2 NPs stimulated the photosynthesis rate, while ZnO NPs prompted stomatal and biochemical limitations. In the mixed ZnO and CeO2 treatments, the latter effects were decreased by CeO2 NPs. These results indicate that free radicals scavenging properties of CeO2 NPs mitigate the toxicity symptoms induced in the plants by ZnO NPs.

Cyclic Dipeptides: The Biological and Structural Landscape with Special Focus on the Anti-Cancer Proline-Based Scaffold

Cyclic dipeptides, also know as diketopiperazines (DKP), the simplest cyclic forms of peptides widespread in nature, are unsurpassed in their structural and bio-functional diversity. DKPs, especially those containing proline, due to their unique features such as, inter alia, extra-rigid conformation, high resistance to enzyme degradation, increased cell permeability, and expandable ability to bind a diverse of targets with better affinity, have emerged in the last years as biologically pre-validated platforms for the drug discovery. Recent advances have revealed their enormous potential in the development of next-generation theranostics, smart delivery systems, and biomaterials. Here, we present an updated review on the biological and structural profile of these appealing biomolecules, with a particular emphasis on those with anticancer properties, since cancers are the main cause of death all over the world. Additionally, we provide a consideration on supramolecular structuring and synthons, based on the proline-based DKP privileged scaffold, for inspiration in the design of compound libraries in search of ideal ligands, innovative self-assembled nanomaterials, and bio-functional architectures.

Hysteresis of heavy metals uptake induced in Taraxacum officinale by thiuram

Dandelion (Taraxacum officinale) yields active substances frequently used in herbal medicinal preparations. Its plantations are exposed to fungal plagues which pose a threat to herbal crops. The aim of this study was to evaluate the long time effects of a fungicide thiuram on dandelion growth and photosynthesis. Additionally, the manganese, iron, copper, zinc, cadmium, and lead uptake and transport were also investigated. Plants were cultivated under greenhouse conditions by the pot method in a universal flowering soil. The elements content in soil and plants were determined by the HR-CS FAAS spectrometer. Thiuram concentrations were established by the HPLC. Those analyses showed that almost 80% of thiuram decomposed within two weeks of its application. The photosynthesis indicators suggested, that plants were in good conditions and the fungicide supplementation facilitated plant growth. The latter could be prompted by thiuram acting as a sulfur rich chemical micro fertilizer. The hypothesis, that thiuram significantly affects heavy metals interactions in dandelion was proved by the one-way analysis of variance. Notable, metals uptake did not completely recover after fungicide decomposition for all investigated elements except iron We suggest to define this chemically induced, time-dependent heavy metals migrations in the soil-plant system as hysteresis of heavy metals uptake.

The First Insight Into the Supramolecular System of D,L-α-Difluoromethylornithine: A New Antiviral Perspective

Targeting the polyamine biosynthetic pathway by inhibiting ornithine decarboxylase (ODC) is a powerful approach in the fight against diverse viruses, including SARS-CoV-2. Difluoromethylornithine (DFMO, eflornithine) is the best-known inhibitor of ODC and a broad-spectrum, unique therapeutical agent. Nevertheless, its pharmacokinetic profile is not perfect, especially when large doses are required in antiviral treatment. This article presents a holistic study focusing on the molecular and supramolecular structure of DFMO and the design of its analogues toward the development of safer and more effective formulations. In this context, we provide the first deep insight into the supramolecular system of DFMO supplemented by a comprehensive, qualitative and quantitative survey of non-covalent interactions via Hirshfeld surface, molecular electrostatic potential, enrichment ratio and energy frameworks analysis visualizing 3-D topology of interactions in order to understand the differences in the cooperativity of interactions involved in the formation of either basic or large synthons (Long-range Synthon Aufbau Modules, LSAM) at the subsequent levels of well-organized supramolecular self-assembly, in comparison with the ornithine structure. In the light of the drug discovery, supramolecular studies of amino acids, essential constituents of proteins, are of prime importance. In brief, the same amino-carboxy synthons are observed in the bio-system containing DFMO. DFT calculations revealed that the biological environment changes the molecular structure of DFMO only slightly. The ADMET profile of structural modifications of DFMO and optimization of its analogue as a new promising drug via molecular docking are discussed in detail.

A Global Review on Short Peptides: Frontiers and Perspectives

Peptides are fragments of proteins that carry out biological functions. They act as signaling entities via all domains of life and interfere with protein-protein interactions, which are indispensable in bio-processes. Short peptides include fundamental molecular information for a prelude to the symphony of life. They have aroused considerable interest due to their unique features and great promise in innovative bio-therapies. This work focusing on the current state-of-the-art short peptide-based therapeutical developments is the first global review written by researchers from all continents, as a celebration of 100 years of peptide therapeutics since the commencement of insulin therapy in the 1920s. Peptide "drugs" initially played only the role of hormone analogs to balance disorders. Nowadays, they achieve numerous biomedical tasks, can cross membranes, or reach intracellular targets. The role of peptides in bio-processes can hardly be mimicked by other chemical substances. The article is divided into independent sections, which are related to either the progress in short peptide-based theranostics or the problems posing challenge to bio-medicine. In particular, the SWOT analysis of short peptides, their relevance in therapies of diverse diseases, improvements in (bio)synthesis platforms, advanced nano-supramolecular technologies, aptamers, altered peptide ligands and in silico methodologies to overcome peptide limitations, modern smart bio-functional materials, vaccines, and drug/gene-targeted delivery systems are discussed.

Metal Homeostasis and Gas Exchange Dynamics in Pisum sativum L. Exposed to Cerium Oxide Nanoparticles

Cerium dioxide nanoparticles are pollutants of emerging concern. They are rarely immobilized in the environment. This study extends our work on Pisum sativum L. as a model plant, cultivated worldwide, and is well suited for investigating additive interactions induced by nanoceria. Hydroponic cultivation, which prompts accurate plant growth control and three levels of CeO2 supplementation, were applied, namely, 100, 200, and 500 mg (Ce)/L. Phytotoxicity was estimated by fresh weights and photosynthesis parameters. Additionally, Ce, Cu, Zn, Mn, Fe, Ca, and Mg contents were analyzed by high-resolution continuum source atomic absorption and inductively coupled plasma optical emission techniques. Analysis of variance has proved that CeO2 nanoparticles affected metals uptake. In the roots, it decreased for Cu, Zn, Mn, Fe, and Mg, while a reversed process was observed for Ca. The latter is absorbed more intensively, but translocation to above-ground parts is hampered. At the same time, nanoparticulate CeO2 reduced Cu, Zn, Mn, Fe, and Ca accumulation in pea shoots. The lowest Ce concentration boosted the photosynthesis rate, while the remaining treatments did not induce significant changes. Plant growth stimulation was observed only for the 100 mg/L. To our knowledge, this is the first study that demonstrates the effect of nanoceria on photosynthesis-related parameters in peas.

A Proline-Based Tectons and Supramolecular Synthons for Drug Design 2.0: A Case Study of ACEI

Proline is a unique, endogenous amino acid, prevalent in proteins and essential for living organisms. It is appreciated as a tecton for the rational design of new bio-active substances. Herein, we present a short overview of the subject. We analyzed 2366 proline-derived structures deposited in the Cambridge Structure Database, with emphasis on the angiotensin-converting enzyme inhibitors. The latter are the first-line antihypertensive and cardiological drugs. Their side effects prompt a search for improved pharmaceuticals. Characterization of tectons (molecular building blocks) and the resulting supramolecular synthons (patterns of intermolecular interactions) involving proline derivatives, as presented in this study, may be useful for in silico molecular docking and macromolecular modeling studies. The DFT, Hirshfeld surface and energy framework methods gave considerable insight into the nature of close inter-contacts and supramolecular topology. Substituents of proline entity are important for the formation and cooperation of synthons. Tectonic subunits contain proline moieties characterized by diverse ionization states: -N and -COOH(-COO-), -N+ and -COOH(-COO-), -NH and -COOH(-COO-), -NH+ and -COOH(-COO-), and -NH2+ and -COOH(-COO-). Furthermore, pharmacological profiles of ACE inhibitors and their impurities were determined via an in silico approach. The above data were used to develop comprehensive classification, which may be useful in further drug design studies.

Transition Metal Complexes with Flufenamic Acid for Pharmaceutical Applications-A Novel Three-Centered Coordination Polymer of Mn(II) Flufenamate

Five complexes of Mn(II), Co(II), Ni(II), Cu(II) and Zn(II) with non-steroidal anti-inflammatory drug, flufenamic acid were synthesized: (1) [Mn₃(fluf)₆EtOH)(H₂O)]_·3EtOH; (2) [Co(fluf)₂(EtOH)(H₂O)]_·H₂O; (3) [Ni(fluf)₂(EtOH)(H₂O)]_·H₂O; (4) [Cu(fluf)_2·H₂O]; (5) [Zn(fluf)_2·H₂O]. All complexes were characterized by elemental analysis (EA), flame atomic absorption spectrometry (FAAS), Fourier-transform infrared spectroscopy (FTIR), and thermogravimetric analysis (TGA). The crystal structure of 1 was determined by the single crystal X-ray diffraction technique. It crystallizes in the triclinic space group P with three independent Mn(II) cations, six coordinated flufenamato ligands augmented with water and ethanol molecules in the inner coordination sphere. In this crystal, manganese atoms are multiplied by symmetry and form infinite, polymeric chains which extend along the [001] dimension. The Hirshfeld Surface analysis revealed changes in interaction assemblies around all metal centers. The antioxidant and antimicrobial activities were established for all complexes and free ligand for comparison. All compounds exhibit good or moderate bioactivity against Gram-positive bacteria and yeasts.

Additive interactions of nanoparticulate ZnO with copper, manganese and iron in Pisum sativum L., a hydroponic study

Widespread occurrence of ZnO nanoparticles in environment follows the growing number of applications either in technology or agriculture. The impact of five forms of nanoparticulate ZnO on copper, manganese and iron uptake by Pisum sativum L. cultivated in Hoagland solutions was investigated. Plants were collected after twelve days of zinc administration. Effect of bulk ZnO has also been studied. Initial zinc concentration was 100 mg L^-1. Nanoparticles were characterized by the Transmission Electron Microscopy, Dynamic Light Scattering and Zeta potential measurements. Metal contents were analyzed using the Atomic Absorption Spectrometry with flame atomization for samples digested in a microwave closed system. Analysis of variance indicated that zinc species at either molecular or nanoscale levels altered Cu, Mn and Fe uptake and their further transport in pea plants. In particular, significant reduction of Mn and Fe combined with the Cu increase was observed. Additive interactions originated by nanoparticles affect the heavy metals uptake and indicate pollutants migration pathways in plants. Unfortunately, regulations for the plant cultivation were formulated when anthropogenic nanoparticles were not in common use. They underestimate complexity of metals interactions in either plant or habitat. Our results indicate that these additive interactions cannot be neglected and deserve further investigations.

Quasi-Isostructural Co(II) and Ni(II) Complexes with Mefenamato Ligand: Synthesis, Characterization, and Biological Activity

Three metal complexes of mefenamato ligand 1 were synthesized: [Co2(mef)4(EtOH)2(H2O)4]: 2; [Co(mef)2(MeOH)4]∙2MeOH: 3; and [Ni(mef)2(MeOH)4]∙2MeOH: 4. Their compositions and properties were investigated by elemental analysis (EA), flame atomic absorption spectrometry (FAAS), Fourier-transform infrared spectroscopy (FTIR), and thermogravimetric analysis (TGA). Crystal structures were determined by the single crystal X-ray diffraction technique. Additionally, their antioxidant and antimicrobial activity were established, thus proving good/moderate bioactivity against Gram-positive bacteria and yeasts. In the crystal structure of 2, an apical water molecule is shared between two adjacent cobalt(II) ions, resulting in the formation of a polymeric chain extending along the [100] direction. Meanwhile, structures 3 and 4 have strong intermolecular hydrogen bonds with diverse topologies that yield unique quasi-isostructural arrangements. The packing topology is reflected by the Hirshfeld surface analysis of intermolecular contacts.

Synthesis, experimental and in silico studies of N-fluorenylmethoxycarbonyl-O-tert-butyl-N-methyltyrosine, coupled with CSD data: a survey of interactions in the crystal structures of Fmoc-amino acids

Recently, fluorenylmethoxycarbonyl (Fmoc) amino acids (e.g. Fmoc-tyrosine or Fmoc-phenylalanine) have attracted growing interest in biomedical research and industry, with special emphasis directed towards the design and development of novel effective hydrogelators, biomaterials or therapeutics. With this in mind, a systematic knowledge of the structural and supramolecular features in recognition of those properties is essential. This work is the first comprehensive summary of noncovalent interactions combined with a library of supramolecular synthon patterns in all crystal structures of amino acids with the Fmoc moiety reported so far. Moreover, a new Fmoc-protected amino acid, namely, 2-{[(9H-fluoren-9-ylmethoxy)carbonyl](methyl)amino}-3-{4-[(2-hydroxypropan-2-yl)oxy]phenyl}propanoic acid or N-fluorenylmethoxycarbonyl-O-tert-butyl-N-methyltyrosine, Fmoc-N-Me-Tyr(t-Bu)-OH, C₂₉H₃₁NO₅, was successfully synthesized and the structure of its unsolvated form was determined by single-crystal X-ray diffraction. The structural, conformational and energy landscape was investigated in detail by combined experimental and in silico approaches, and further compared to N-Fmoc-phenylalanine [Draper et al. (2015). CrystEngComm, 42, 8047-8057]. Geometries were optimized by the density functional theory (DFT) method either in vacuo or in solutio. The polarizable conductor calculation model was exploited for the evaluation of the hydration effect. Hirshfeld surface analysis revealed that H...H, C...H/H...C and O...H/H...O interactions constitute the major contributions to the total Hirshfeld surface area in all the investigated systems. The molecular electrostatic potentials mapped over the surfaces identified the electrostatic complementarities in the crystal packing. The prediction of weak hydrogen-bonded patterns via Full Interaction Maps was computed. Supramolecular motifs formed via C-H...O, C-H...π, (fluorenyl)C-H...Cl(I), C-Br...π(fluorenyl) and C-I...π(fluorenyl) interactions are observed. Basic synthons, in combination with the Long-Range Synthon Aufbau Modules, further supported by energy-framework calculations, are discussed. Furthermore, the relevance of Fmoc-based supramolecular hydrogen-bonding patterns in biocomplexes are emphasized, for the first time.

A Supramolecular Approach to Structure-Based Design with A Focus on Synthons Hierarchy in Ornithine-Derived Ligands: Review, Synthesis, Experimental and in Silico Studies

The success of innovative drugs depends on an interdisciplinary and holistic approach to their design and development. The supramolecular architecture of living systems is controlled by non-covalent interactions to a very large extent. The latter are prone to extensive cooperation and like a virtuoso play a symphony of life. Thus, the design of effective ligands should be based on thorough knowledge on the interactions at either a molecular or high topological level. In this work, we emphasize the importance of supramolecular structure and ligand-based design keeping the potential of supramolecular H-bonding synthons in focus. In this respect, the relevance of supramolecular chemistry for advanced therapies is appreciated and undisputable. It has developed tools, such as Hirshfeld surface analysis, using a huge data on supramolecular interactions in over one million structures which are deposited in the Cambridge Structure Database (CSD). In particular, molecular interaction surfaces are useful for identification of macromolecular active sites followed by in silico docking experiments. Ornithine-derived compounds are a new, promising class of multi-targeting ligands for innovative therapeutics and cosmeceuticals. In this work, we present the synthesis together with the molecular and supramolecular structure of a novel ornithine derivative, namely N-α,N-δ)-dibenzoyl-(α)-hydroxymethylornithine, 1. It was investigated by modern experimental and in silico methods in detail. The incorporation of an aromatic system into the ornithine core induces stacking interactions, which are vital in biological processes. In particular, rare C=O…π intercontacts have been identified in 1. Supramolecular interactions were analyzed in all structures of ornithine derivatives deposited in the CSD. The influence of substituent was assessed by the Hirshfeld surface analysis. It revealed that the crystal packing is stabilized mainly by H…O, O…H, C…H, Cl (Br, F)…H and O…O interactions. Additionally, π…π, C-H…π and N-O…π interactions were also observed. All relevant H-bond energies were calculated using the Lippincott and Schroeder H-bond model. A library of synthons is provided. In addition, the large synthons (Long-Range Synthon Aufbau Module) were considered. The DFT optimization either in vacuo or in solutio yields very similar molecular species. The major difference with the relevant crystal structure was related to the conformation of terminal benzoyl C15-C20 ring. Furthermore, in silico prediction of the extensive physicochemical ADME profile (absorption, distribution, metabolism and excretion) related to the drug-likeness and medicinal chemistry friendliness revealed that a novel ornithine derivative 1 has the potential to be a new drug candidate. It has shown good in silico absorption and very low toxicity.

Combined cadmium-zinc interactions alter manganese, lead, copper uptake by Melissa officinalis

Farmland soil typical for the Polish rural environment was used in pot experiment to estimate the impact of cadmium and zinc on the manganese, lead and copper uptake by lemon balm (Melissa officinalis L). Bioavailable and total forms of investigated metals in soil and metal concentrations in plants were determined by atomic absorption spectrometry. The plant photosynthesis indicators were also examined. Intensification of photosynthesis upon the high zinc and cadmium soil supplementation was observed. This effect was not detected at low metal concentrations. ANOVA proved that cadmium and zinc treatments influenced manganese, lead and copper transfer from soil and their concentration in plants. Zinc uptake and accumulation in either roots or above-ground parts in plant was inversely proportional to cadmium concentration in soil. Manganese concentration in roots decreased upon the soil supplementation with either zinc or cadmium. It suggests that the latter ions are transported via symplastic pathways and compete with manganese for similar transporters. The opposite situation was observed for lead and copper. Soil supplementation with cadmium and zinc affects manganese, lead and copper concentrations and photosynthesis intensity in lemon balm plant. The following combined interactions in either normal or stress conditions are important indicators of the migration pathways.

Associated Effects of Cadmium and Copper Alter the Heavy Metals Uptake by Melissa Officinalis

Lemon balm (Melissa officinalis) is a popular herb widely used in medicine. It is often cultivated in soils with substantial heavy metal content. Here we investigate the associated effects of cadmium and copper on the plant growth parameters augmented by the manganese, zinc, and lead uptake indicators. The concentration of all elements in soil and plants was determined by the HR-CS FAAS with the ContrAA 300 Analytik Jena spectrometer. Bioavailable and total forms calculated for all examined metals were augmented by the soil analyses. The index of chlorophyll content in leaves, the activity of net photosynthesis, stomatal conductance, transpiration rate, and intercellular concentration of CO2 were also investigated. Either Cd or Cu acting alone at high concentrations in soil are toxic to plants as indicated by chlorophyll indices and gas exchange parameters. Surprisingly, this effect was not observed when both metals were administered together. The sole cadmium or copper supplementations hampered the plant's growth, lowered the leaf area, and altered the plant's stem elongation. Analysis of variance showed that cadmium and copper treatments of lemon balm significantly influenced manganese, lead, and zinc concentration in roots and above ground parts.

Synthesis of 3-Methylidene-1-tosyl-2,3-dihydroquinolin-4(1H)-ones as Potent Cytotoxic Agents

An efficient synthetic strategy to 3-methylidene-2,3-dihydroquinolin-4(1H)-ones variously substituted in position 2 has been developed. The title compounds were synthesized in the reaction sequence involving reaction of diethyl methylphosphonate with methyl 2-(tosylamino)benzoate, condensation of thus formed diethyl 2-oxo-2-(2-N-tosylphenyl)ethylphosphonate with various aldehydes followed by successful application of the obtained 3-(diethoxyphosphoryl)-1,2-dihydroquinolin-4-ols as Horner-Wadsworth-Emmons reagents for the olefination of formaldehyde. Also, enantioselective approach to the target compounds has been evaluated using 3-dimenthoxyphosphoryl group as a chiral auxiliary. Single X-ray crystal analysis of (2S)-3-(dimenthoxyphosphoryl)-2-phenyl-1-tosyldihydroquinolin-4-ol revealed the presence of strong resonance-assisted hydrogen bond (RAHB). The obtained 3-methylidene-2,3-dihydroquinolin-4(1H)-ones were then tested for their cytotoxic activity against two leukemia cell lines NALM-6 and HL-60 and a breast cancer MCF-7 cell line. All compounds showed very high cytotoxic activity with the IC₅₀ values mostly below 1 μm in all three cancer cell lines. The selected analogs were also tested on human umbilical vein endothelial cells (HUVEC) and on human mammary gland/breast cells (MCF-10A) to evaluate their influence on normal cells. Since one of the most serious problems in cancer chemotherapy is the development of drug resistance, the mRNA levels and activity of ABCB1 transporter considered to be the most important factor engaged in drug resistance, were evaluated in MCF-7 cells treated with two selected analogs. Both compounds were strong ABCB1 transporter inhibitors that could prevent efflux of anticancer drugs from cancer cells.

Supramolecular architecture in azaheterocyclic phosphonates. III. Structures of an ethyl phosphonamidate and an ethyl phosphonate

The novel crystal structures of ethyl (S)-P-(4-oxo-4H-benzo[4,5]thiazolo[3,2-a]pyrimidin-3-yl)-N-[(R)-1-phenylethyl]phosphonamidate, C20H20N3O3PS, I, and diethyl (4-isopropyl-2-oxo-3,4-dihydro-2H-benzo[4,5]thiazolo[3,2-a]pyrimidin-3-yl)phosphonate, C18H25N2O4PS, II, were characterized by X-ray diffraction analysis. The crystal packing of I is dominated by two infinite stacks composed of symmetry-independent molecules linked by distinctively different hydrogen-bond systems. The structure of II shows a ladder packing topology similar to those observed in related phosphorylated azaheterocycles. Structural studies are supplemented by calculations on the interactions stabilizing the molecular assemblies using the PIXEL method. Additionally, fingerprint plots derived from the Hirshfeld surfaces were generated for each structure to characterize the crystal packing arrangements in detail. The aromaticities of the heterocyclic moieties have been investigated using HOMA and HOMHED parametrization and compared with structures reported previously.

Influence of Digestion Procedure and Residual Carbon on Manganese, Copper, and Zinc Determination in Herbal Matrices by Atomic Absorption Spectrometry

Mineralization to the complete oxidation of sample carbon component does not always assure the best analyte recovery. Particular attention should be paid to the presence of silicon in the investigated plant sample and especially in the certified reference material for which Si content is scarcely given by the providers. During mineralization without addition of the hydrofluoric acid, the residual carbon may block silica surfaces and increase availability of an analyte for its spectral determination in the solution. This issue is of particular relevance because standard protocols for digestion of plant matrices often do not support hydrofluoric acid addition. Several procedures recommended for decomposition of herbal plants were applied for the respective certified reference material and examined in detail. Manganese, copper, and zinc contents were analyzed in all samples by the flame atomic absorption spectrometry. Additionally, the residual carbon was determined in all mineralizates. Silicon content was analyzed by the X-ray fluorescence method. The best recoveries were observed for samples characterized by relatively high residual carbon.

A hydantoin isoform of cyclic N6-threonylcarbamoyladenosine (ct6A) is present in tRNAs

N⁶-Threonylcarbamoyladenosine (t⁶A) and its derivatives are universally conserved modified nucleosides found at position 37, 3΄ adjacent to the anticodon in tRNAs responsible for ANN codons. These modifications have pleiotropic functions of tRNAs in decoding and protein synthesis. In certain species of bacteria, fungi, plants and protists, t⁶A is further modified to the cyclic t⁶A (ct⁶A) via dehydration catalyzed by TcdA. This additional modification is involved in efficient decoding of tRNA^Lys. Previous work indicated that the chemical structure of ct⁶A is a cyclic active ester with an oxazolone ring. In this study, we solved the crystal structure of chemically synthesized ct⁶A nucleoside. Unexpectedly, we found that the ct⁶A adopted a hydantoin isoform rather than an oxazolone isoform, and further showed that the hydantoin isoform of ct⁶A was actually present in Escherichia coli tRNAs. In addition, we observed that hydantoin ct⁶A is susceptible to epimerization under mild alkaline conditions, warning us to avoid conventional deacylation of tRNAs. A hallmark structural feature of this isoform is the twisted arrangement of the hydantoin and adenine rings. Functional roles of ct⁶A37 in tRNAs should be reconsidered.

Heavy Metal Uptake by Herbs. V. Metal Accumulation and Physiological Effects Induced by Thiuram in Ocimum basilicum L

Basil (Ocimum basilicum L.) is extensively cultivated as either an important spice and food additive or a source of essential oil crucial for the production of natural phenylpropanoids and terpenoids. It is frequently attacked by fungal diseases. The aim of the study was to estimate the impact of thiuram contact time on the uptake of manganese, cobalt, nickel, copper, zinc, cadmium, and lead by Ocimum basilicum L. The relevant plant physiological parameters were also investigated. Two farmland soils typical for the Polish rural environment were used. Studies involved soil analyses, bioavailable, and total forms for all investigated metals, chlorophyll content, and gas exchange. Atomic absorption spectrometry was used to determine concentration of all elements. Analysis of variance proved hypothesis that thiuram treatment of basil significantly influences metal transfer from soil and their concentration in roots and aboveground parts. This effect is mostly visible on the 14th day after the fungicide administration. Thiuram modifies mycoflora in the rhizosphere zone and subsequently affects either metal uptake from the soil environment or their further migration within the basil plant. Notable, those changes are more evident for basil planted in mineral soil as compared to organic soil with higher buffering capacity.

Influence of 2,4-D and MCPA herbicides on uptake and translocation of heavy metals in wheat (Triticum aestivum L.)

The aim of the study was to estimate the influence of the 2,4-dichlorophenoxy acetic acid and 2-methyl-4-chlorophenoxyacetic acid on the uptake and translocation of Cd, Co, Ni, Cu, Zn, Pb and Mn by wheat (Triticum aestivum L.). Two farmland soils typical for the central Polish rural environment were used. Studies involved soil analyses, contents of bioavailable, exchangeable and total forms for all investigated metals. Atomic absorption spectrometry was used to determine the concentration of the elements. The best correlation between the herbicide rate and the metal concentration was visibly for the underground part of plants. Analysis of variance proved that herbicide treatment of wheat frequently influences the metal transfer from soil and their concentration in roots and shoots. In particular, higher herbicide rates prompted the significant increase of all metals concentration in roots. Additionally, transfer coefficients depended on the type of soil and the herbicide rate applied. Uptake of metals may be also influenced by the formation of sparingly water-soluble metal-herbicide complexes. Its intensity would then depend on the solubility of particular chemical entity with the low solvable Pb, Cu and Cd complexes being the least mobile.

Commercial phenoxyacetic herbicides control heavy metal uptake by wheat in a divergent way than pure active substances alone

BACKGROUND

Impact of two widely used commercial herbicides, i.e. Aminopielik D 450 SL and Chwastox 300 SL, on the uptake and translocation of selected heavy metals in wheat plants Triticum aestivum L. cultivated in the laboratory pot experiments was investigated. Mineral-humus, loamy sand soil representative for the central part of Poland was applied. Bioavailable, exchangeable and total forms of Cd, Co, Cu, Zn, Pb, and Mn were determined. Transfer coefficients, translocation, and bioaccumulation factors illustrating metal migration in the plant were investigated.

RESULTS

Administration of commercial herbicides significantly altered heavy metals uptake by wheat in a way distinctively different than that observed for the parent chemically pure synthetic auxins, i.e. 2,4-D and MCPA. In particular, Aminopielik D 450 SL and Chwastox 300 SL prompted heavy metals accumulation in roots as indicated by their high transfer coefficients. Further transport to above ground part of the plant was limited and element dependent.

CONCLUSIONS

This work clearly shows that commercial herbicide formulations may act in a distinctively different way than pure active ingredients alone.

Heavy Metal Uptake by Herbs. IV. Influence of Soil pH on the Content of Heavy Metals in Valeriana officinalis L

The aim of the study was to estimate the influence of soil pH on the uptake of copper, zinc, and manganese by Valeriana officinalis. Preliminary studies involved soil analyses to determine acidity, organic matter content, and copper, zinc, and manganese total and bioavailable forms. The study involved atomic absorption spectrometry to determine the concentration of the elements, and mineral soil of pH = 5.1 was used in the study, as being typical for central Poland. The copper, zinc, and manganese contents were determined in plants grown in soils which had been modified to cover a wide range of pH values 3÷13. The intensity of germination was strongly pH dependent with the highest yield obtained in original, unmodified soil. Surprisingly, high soil alkalinity stimulated copper and manganese uptake while at the same time resulting in a decrease in zinc content.

(2S,4R)-4-Ammonio-5-oxopyrrolidine-2-carboxylate

In the crystal structure of the title compound, C(5)H(8)N(2)O(3), the mol-ecules exist in the zwitterionic form. The pyrrolidine ring adopts an envelope conformation with the unsubstituted endocyclic C atom situated at the flap. The other four endocyclic atoms are coplanar with the exocyclic carbonyl O atom, with an r.m.s. deviation from the mean plane of 0.06 Å. The carboxyl-ate substituent is located axially, while the ammonium group occupies an equatorial position. In the crystal structure, the mol-ecules are linked through N-H⋯O hydrogen bonds, forming a three-dimensional network.

rac-(1S,2R)-Diethyl 6-hydroxy-1-(4-methoxyphenyl)-3-oxo-2,3-dihydro-1H-benzo[f]chromen-2-yl]phosphonate

In the title compound, C₂₄H₂₅O₇P, the δ-valerolactonyl ring exists in a distorted screw-boat conformation with the diethoxy­phosphoryl substituent occupying an axial position. The latter adopts an almost syn-periplanar conformation around the P—C bond. The mol­ecules form centrosymmetric dimers connected by O—H⋯O hydrogen bonds.

X-ray investigations of bicyclic alpha-methylene-delta-valerolactones. V. (4aS,7R,8aR)-7-isopropenyl-4a-methyl-3-methyleneperhydrochromen-2-one

The title compound, C(14)H(20)O(2), adopts a conformation in which the delta-valerolactone and cyclohexane rings are almost coplanar with one another. The gamma-methyl substituent occupies an axial position with respect to the cyclohexane ring. The delta-valerolactone moiety adopts an envelope arrangement, while the cyclohexane ring exists in a chair conformation.