General Route to Symmetric and Asymmetric meso-CF3-3(5)-Aryl(hetaryl)- and 3,5-Diaryl(dihetaryl)-BODIPY Dyes

Macrocyclic Bridgehead Fluorophores, Pyrrolyl-diazabicyclo[8.3.1]tetradecadienones, with Giant Stokes Shifts

A previously unknown class of fluorophores was discovered, which represents 14-membered bridgehead heterocycles, pyrrolyl-diazabicyclo[8.3.1]tetradecadienones, herein referred to as PY-14-ONEs. The new fluorophores are characterized by giant Stokes shifts of ∼8000-10,250 cm-1 and virtually zero overlap of the absorption and emission bands. They exhibit fluorescence maxima in the blue-green region (454 ≤ λem ≤ 513 nm, MeCN), which shift to the red side when converted to their water-soluble salts by alkylation with MeI (478 ≤ λem ≤ 516 nm, water). PY-14-ONEs were obtained by an original synthesis from DBU, 1,8-diazabicyclo[5.4.0]undec-7-ene, which reacts with acylethynylpyrroles without catalysts under mild conditions to afford PY-14-ONEs in a 34-58% yield. The reaction represents a ring expansion of DBU. Since acylethynylpyrroles are readily available, the discovered reaction opens promising possibilities for the development of new fluorophores. The results of our time-dependent DFT calculations indicate that the pyrrole ring in PY-14-ONEs plays an important role in the formation of the Stokes shifts, which can be further enhanced by attaching appropriate substituents to it, capable of creating in S1 an extended conjugated system and causing a substantial alternation of the molecular structure via its planarization.

A Practical and Modular Method for Direct C-H Functionalization of the BODIPY Core via Thianthrenium Salts

Direct structural modification of small-molecule fluorophores represents a straightforward and appealing strategy for accessing new fluorescent dyes with desired functionalities. We report herein a general and efficient visible-light-mediated method for the direct C-H functionalization of BODIPY, an important fluorescent chromophore, using readily accessible and bench-stable aryl and alkenylthianthrenium salts. This practical approach operates at room temperature with extraordinary site-selectivity, providing a step-economical means to construct various valuable aryl- and alkenyl-substituted BODIPY dyes. Remarkably, this protocol encompasses a broad substrate scope and excellent functional-group tolerance, and allows for the modular synthesis of sophisticated symmetrical and asymmetrical disubstituted BODIPYs by simply employing different combinations of thianthrenium salts. Moreover, the late-stage BODIPY modification of complex drug molecules further highlights the potential of this novel methodology in the synthesis of fluorophore-drug conjugates.

B(C6F5)3-Catalyzed Dehydrogenation of Pyrrolidines to Form Pyrroles

Pyrroles are important N-heterocycles found in medicines and materials. The formation of pyrroles from widely accessible pyrrolidines is a potentially attractive strategy but is an underdeveloped approach due to the sensitivity of pyrroles to the oxidative conditions required to achieve such a transformation. Herein, we report a catalytic approach that employs commercially available B(C6F5)3 in an operationally simple procedure that allows pyrrolidines to serve as direct synthons for pyrroles. Mechanistic studies have revealed insights into borane-catalyzed dehydrogenative processes.

Substituent-Dependent Divergent Synthesis of 2-(3-Amino-2,4-dicyanophenyl)pyrroles, Pyrrolyldienols and 3-Amino-1-acylethylidene-2-cyanopyrrolizines via Reaction of Acylethynylpyrroles with Malononitrile

An efficient method for the synthesis of pharmaceutically and high-tech prospective 2-(3-amino-2,4-dicyanophenyl)pyrroles (in up to 88% yield) via the reaction of easily available substituted acylethynylpyrroles with malononitrile has been developed. The reaction proceeds in the KOH/MeCN system at 0 °C for 2 h. In the case of 2-acylethynylpyrroles without substituents in the pyrrole ring, the reaction changes direction: instead of the target 2-(3-amino-2,4-dicyanophenyl)pyrroles, the unexpected formation of pyrrolyldienols and products of their intramolecular cyclization, 3-amino-1-acylethylidene-2-cyanopyrrolizines, is observed.

Application of meso-CF3-Fluorophore BODIPY with Phenyl and Pyrazolyl Substituents for Lifetime Visualization of Lysosomes

A bright far-red emitting unsymmetrical meso-CF₃-BODIPY fluorescent dye with phenyl and pyrazolyl substituents was synthesized by condensation of trifluoropyrrolylethanol with pyrazolyl-pyrrole, with subsequent oxidation and complexation of the formed dipyrromethane. This BODIPY dye exhibits optical absorption at λ_ab ≈ 610-620 nm and emission at λ_em ≈ 640-650 nm. The BODIPY was studied on Ehrlich carcinoma cells as a lysosome-specific fluorescent dye that allows intravital staining of cell structures with subsequent real-time monitoring of changes occurring in the cells. It was also shown that the rate of uptake by cells, the rate of intracellular transport into lysosomes, and the rate of saturation of cells with the dye depend on its concentration in the culture medium. A concentration of 5 μM was chosen as the most suitable BODIPY concentration for fluorescent staining of living cell lysosomes, while a concentration of 100 μM was found to be toxic to Ehrlich carcinoma cells.

BODIPY derivatives as fluorescent reporters of molecular activities in living cells

Fluorescent compounds have become indispensable tools for imaging molecular activities in the living cell. 4,4-Difluoro-4-bora-3a,4a-diaza-s-indacene (BODIPY) is currently one of the most popular fluorescent reporters due to its unique photophysical properties. This review provides a general survey and presents a summary of recent advances in the development of new BODIPY-based cellular biomarkers and biosensors. The review starts with the consideration of the properties of BODIPY derivatives required for their application as cellular reporters. Then review provides examples of the design of sensors for different biologically important molecules, ions, membrane potential, temperature and viscosity defining the live cell status. Special attention is payed to BODPY-based phototransformable reporters.

The bibliography includes 339 references.

A Convenient Approach to meso-Uracil–4,4-Difluoro-4-bora-3a, 4a-diaza-s-indacene Derivatives

An effective and convenient protocol for the synthesis of 1-substituted uracil-6-carbaldehyde derivatives has been developed. A three-step sequence permits the preparation of uracil-6-carbaldehydes with various substituents at the N-1 in large quantities by using low-cost precursors. The aldehyde-functionalized uracils served as useful precursors for the preparation of meso-(1-substituted 6-uracil)-derivatives of 4,4-difluoro-4-bora-3a,4a-diaza-s-indacene (BODIPY). In this way, regioselectively functionalized BODIPYs with a direct connection to a nucleobase were prepared in yields of 30–45%. MALDI-TOF mass spectrometry, NMR, UV/vis absorption, and steady-state and time-­resolved fluorescence spectroscopies were used to characterize the structures and the spectroscopic/photophysical properties of the resultant dyes.

Fluorescence from 3,5-diphenyl-8-CF3-BODIPYs with amino substituents on the phenyl rings: Quenching by aromatic molecules

The photoluminescence from n-hexane solutions of the dyes obtained by the introduction of amino groups into the meta position of the phenyl rings of 3,5-diphenyl-8-CF₃-BODIPY was found to be strongly quenched by some aromatic molecules (benzene and toluene). On the contrary, the introduction of an amino group into the para position does not lead to significant quenching. The quenching of photoluminescence from the meta derivatives obeys the mixed static + dynamic mechanism. Temperature-dependent time-resolved fluorescence measurements were performed to determine the Stern-Volmer constants of the static and dynamic components of quenching. It follows from these data that the binding energy between luminophore and toluene molecules is about 5.0 kcal/mol in the ground state and larger than 3.4 kcal/mol in the excited state. Complexation with toluene facilitates the intramolecular charge transfer in the BODIPY derivatives with the meta position of the amino groups, resulting in photoluminescence quenching.

Fluorescence Quenching of 3,5-Diphenyl-8-CF3-BODIPY Luminophores Bearing Aminophenyl Substituents by Aromatic Molecules

Abstract

It has been found that the fluorescence quantum yield of 3,5-diphenyl-8-CF3-BODIPY luminophores with aminophenyl substituents in aromatic solvents strongly depends on the position of the aniline amino group with respect to the position of attachment to the core of the BODIPY molecule. It has been suggested and substantiated that the reason for quenching of BODIPY meta-isomers is the specific interaction of luminophore molecules with aromatic molecules.

Recent Advancements in Pyrrole Synthesis

This review article features selected examples on the synthesis of functionalized pyrroles that were reported between 2014 and 2019. Pyrrole is an important nitrogen-containing aromatic heterocycle that can be found in numerous compounds of biological and material significance. Given its vast importance, pyrrole continues to be an attractive target for the development of new synthetic reactions. The contents of this article are organized by the starting materials, which can be broadly classified into four different types: substrates bearing π-systems, substrates bearing carbonyl and other polar groups, and substrates bearing heterocyclic motifs. Brief discussions on plausible reaction mechanisms for most transformations are also presented.

Theoretical predictions of the spectroscopic properties of BODIPY dyes: Effects of the fused aromatic and heteroaromatic rings at the b, g bonds

The fusion of aryl and heteroaryl moieties in the BODIPY skeleton is the important route to design BODIPYs exhibiting absorption and fluorescence in red or near infra-red regions. Despite the importance of this approach, little is known about the influence of aryl and heteroaryl rings on the position of the energy levels of the lower electronic states of such dyes. In this paper, the influence of benzene (B), thiophene (T) and furan (F) rings fused in the BODIPY core (b) at both b and g bonds on the optical properties of the symmetric BbB, TbT and FbF and asymmetric TbF, BbF and BbT dyes have been investigated by TD-CAM-B3LYP and RI-CC2 calculations. We have shown that in contrast to the locally excited (LE0-type) main vertical state, energy of which is nearly the same for all the substituents at the b and g bonds, energy of the next two states of the LE1- and LE2-type for the symmetric dyes or the charge transfer (CT1- and CT2-type) for the asymmetric dyes depends strongly on the nature of the rings at the b and g bonds. The benzene-fused dyes (BbF, BbT, BbB) have the lowest energy of the excited levels of the LE-type (or CT1-type) states, and inversion with LE0-type levels occurs. As a result, the dramatic decrease of the fluorescence quantum yield is expected in these cases. The identification of these effects provides a quality framework for understanding of how fused substituents regulate photophysical processes of BODIPYs.

Synthesis and Functions of Oligomeric and Multidentate Dipyrrin Derivatives and their Complexes

The dipyrrin–metal complexes and especially the boron complex 4,4-difluoro-4-bora-3a,4a-diaza-s-indacene (BODIPY) have recently attracted considerable attention because of their interesting properties and possible applications. We have developed two unique and useful ways to extend versatility and usefulness of the dipyrrin complexes. The first one is the linear and macrocyclic oligomerization of the BODIPY units. These arrangements of the B–F moieties of the oligomerized BODIPY units provide sophisticated functions, such as unique recognition ability toward cationic guest, associated with changes in the photophysical properties by utilizing unprecedented interactions between the B–F and a cationic species. The second one is introduction of additional ligating moieties into the dipyrrin skeleton. The multidentate N2Ox dipyrrin ligands thus obtained form a variety of complexes with 13 and 14 group elements, which are difficult to synthesize using the original N2 dipyrrin derivatives. Interestingly, these unique complexes exhibit novel structures, properties, and functions such as guest recognition, stimuli-responsive structural conversion, switching of the optical properties, excellent stability of the neutral radicals, etc. We believe that these multifunctional dipyrrin complexes will advance the basic chemistry of the dipyrrin complexes and develop their applications in the materials and medicinal chemistry fields.

1 Introduction

2 Linear Oligomers of Boron–Dipyrrin Complexes

3 Cyclic Oligomers of Boron–Dipyrrin Complexes

4 A Cyclic Oligomer of Zinc–Dipyrrin Complexes

5 Group 13 Element Complexes of N2Ox Dipyrrins

6 Chiral N2 and N2Ox Dipyrrin Complexes

7 Group 14 Element Complexes of N2O2 Dipyrrins

8 Other N2O2 Dipyrrin Complexes with Unique Properties and Functions

9 Conclusion

Recent Strides in the Transition Metal-Free Cross-Coupling of Haloacetylenes with Electron-Rich Heterocycles in Solid Media

The publications covering new, transition metal-free cross-coupling reactions of pyrroles with electrophilic haloacetylenes in solid medium of metal oxides and salts to regioselectively afford 2-ethynylpyrroles are discussed. The reactions proceed at room temperature without catalyst and base under solvent-free conditions. These ethynylation reactions seem to be particularly important, since the common Sonogashira coupling does not allow ethynylpyrroles with strong electron-withdrawing substituents at the acetylenic fragments to be synthesized. The results on the behavior of furans, thiophenes, and pyrazoles under the conditions of these reactions are also provided. The reactivity and structural peculiarities of nucleophilic addition to the activated acetylene moiety of the novel C-ethynylpyrroles are considered.

Boron difluoride formazanates with thiophene and 3,4-ethylenedioxythiophene capping and their electrochemical polymerization

BF₂ formazanates with thiophene and 3,4-ethylenedioxythiophene capping, prospective candidates for ambipolar semiconductors, have been synthesized and polymerized electrochemically.

gem-Dibromovinyl boron dipyrrins: synthesis, spectral properties and crystal structures

A family of new asymmetric and symmetric 1,3,7,9-tetramethyl-4,4-bora difluoro-diaza-s-indacene (BODIPY) derivatives, bearing gem-dibromovinyl substituents, was synthesized by the Corey-Fuchs olefination method. One or two gem-dibromovinyl moieties were attached at either the p-position of 5-phenyl, or the β-position of the pyrrole ring, directly or, through phenyl spacers. The assigned structures were supported by MS, NMR (¹H, ¹³C, ¹⁹F), X-ray diffraction analysis and for some compounds 2D HSQC and ¹¹B NMR as well as optical spectroscopy. Their absorption and fluorescence properties and solvatochromism in different solvents were investigated. The highest absorption and emission maxima were obtained for compounds having two gem-dibromovinyl groups attached directly or through the phenyl spacer. The best correlation (R-coefficient) between the solvent and spectral properties of the BODIPYs were obtained using the refractive index of the solvent. Although these compounds are structurally quite similar, their solid states show remarkable differences in the crystal system, clearly revealing two distinct patterns of gem-dibromovinyl orientation and torsion angles of the 5-phenyl ring and the indacene plane. Hirshfeld surface analysis data were used to visualize various intermolecular interactions.

Exploring the Application of the Negishi Reaction of HaloBODIPYs: Generality, Regioselectivity, and Synthetic Utility in the Development of BODIPY Laser Dyes

The generality of the palladium-catalyzed C-C coupling Negishi reaction when applied to haloBODIPYs is demonstrated on the basis of selected starting BODIPYs, including polyhalogenated and/or asymmetrical systems, and organozinc reagents. This reaction is an interesting synthetic tool in BODIPY chemistry, mainly because it allows a valuable regioselective postfunctionalization of BODIPY chromophores with different functional groups. In this way, functional patterns that are difficult to obtain by other procedures (e.g., asymmetrically functionalized BODIPYs involving halogenated positions) can now be made. The regioselectivity is achieved by controlling the reaction conditions and is based on almost-general reactivity preferences, and the nature of the involved halogens and their positions. This ability is exemplified by the preparation of a series of new BODIPY dyes with unprecedented substitution patterns allowing noticeable lasing properties.

Metal-Free Direct α-Selective Arylation of Boron Dipyrromethenes via Base-Mediated C-H Functionalization

A metal-free direct α-selective arylation of BODIPYs has been developed based on base-mediated C-H functionalization with easily accessible diaryliodonium salts, which provides a straightforward facile access to a variety of α-arylBODIPY dyes. The α-regioselectivity was confirmed by X-ray analysis, and was studied by DFT calculation. The resultant dyes show strong absorption and emission over a broad range of spectra tunable via the simple variation of the diaryliodonium salts.

Recent developments in the group-1B-metal-catalyzed synthesis of pyrroles

Pyrroles are important synthetic targets as a result of their occurrence in numerous biologically active molecules, their important roles in diverse living processes, and their utility as versatile intermediates.

Synthesis and Properties of Benzothieno[b]-Fused BODIPY Dyes

Two benzothieno[b]-fused BODIPYs, BT-BODIPY and BBT-BODIPY, in which one parent BODIPY core is fused with one and two benzothieno rings, respectively, were synthesized from BODIPYs substituted with 2-(methylsulfinyl)phenyl at the β-position. The first H2SO4-induced cyclization and deborylation afforded benzothieno[b]-fused dipyrrin derivatives, which can easily complex with BF3·OEt2 to form the desired benzothieno[b]-fused BODIPYs. It was revealed that the fusion of the benzothieno ring is more effective at extending conjugation than simple attachment of the 2-(methylthio)phenyl substituent, which presumably results from conformational restriction. Compared with the corresponding unstrained SPh-BODIPY and BSPh-BODIPY, which contain one and two 2-(methylthio)phenyl groups at the β-position, BT-BODIPY and BBT-BODIPY display red shifted absorption, increased absorptivity, and fluorescence efficiency. Furthermore, the ring fusion is also helpful to increase stability of the formed cation in BBT-BODIPY. Thus, BBT-BODIPY exhibits very intriguing properties, such as intense absorption and emission in the red region, very sharp emission spectra, and reversible oxidation and reduction potentials.

Effect of meso-substituents on the electronic transitions of BODIPY dyes: DFT and RI-CC2 study

In this work, the influence of substituents on the electronic transitions of model 8-R-BODIPY dyes (R=NMe2, NH2, OH, CH3, H, F, SH, Cl, Br, CF3, CN, and NO2) was investigated theoretically using time-dependent density functional theory (TD-DFT) and ab initio coupled-cluster doubles (CC2) quantum chemical calculations. Quantum chemical modeling shows a direct relationship between the electron donating and electron withdrawing character of substituents expressed by Hammett substituent constants (σp) and changes in energy of the HOMO-LUMO gap modulating spectral shifts of the S0→S1 transition. Good linear correlations of the calculated LUMO energies and σp as well as the shape of the HOMO and LUMO allow to obtain a reasonable explanation for the observed effects of substituents.

Unusual spectroscopic and photophysical properties of meso-tert-butylBODIPY in comparison to related alkylated BODIPY dyes

meso-t-Bu-BODIPY produces unusual spectroscopic and photophysical characteristics in comparison to those of related alkylated BODIPY dyes.