Cyanine‐Like Dyes with Large Bond‐Length Alternation

Herein, the synthesis and properties of alkyne‐bridged carbocations, which are analogous in structure to cyanine dyes, are reported. An alkene‐bridged dye, linked at the third position of the indole, was also synthesized as a reference compound. These new carbocations are stable under ambient conditions, allowing characterization by UV/Vis and NMR (¹H and ¹³C) spectroscopies. These techniques revealed a large degree of delocalization of the positive charge, similar to a previously reported porphyrin carbocation. The linear and nonlinear optical properties are compared with cyanine dyes and triarylmethyl cations, to investigate the effects of the bond‐length alternation and the overall molecular geometry. The value of Re(γ), the real part of the third‐order microscopic polarizability, of ?1.3×10^?33 esu for the alkyne‐linked cation is comparable to that of a cyanine dye of similar length. Nondegenerate two‐photon absorption spectra showed that the alkene‐bridged dye exhibited characteristics of cyanines, whereas the alkyne‐bridged dye is reminiscent of octupolar chromophores, such as the triarylmethyl carbocation brilliant green. Such attributes were confirmed and rationalized by quantum chemical calculations.     

Regioselective Synthesis and Photophysical and Electrochemical Studies of 20‐Substituted Cyanine Dye–Purpurinimide Conjugates: Incorporation of NiII into the Conjugate Enhances its Tumor‐Uptake and Fluorescence‐Imaging Ability

We report herein a simple and efficient approach to the synthesis of a variety of meso‐substituted purpurinimides. The reaction of meso ‐ substituted purpurinimide with N‐bromosuccinimide regioselectively introduced a bromo functionality at the 20‐position, which on further reaction with a variety of boronic acids under Suzuki reaction conditions yielded the corresponding meso‐substituted analogues. Interestingly, the free base and the metalated analogues showed remarkable differences in photosensitizing efficacy (PDT) and tumor‐imaging ability. For example, the free‐base conjugate showed significant in vitro PDT efficacy, but limited tumor avidity in mice bearing tumors, whereas the corresponding Ni^II derivative did not produce any cell kill, but showed excellent tumor‐imaging ability at a dose of 0.3 μmol kg^?1 at 24, 48, and 72 h post‐injection. The limited PDT efficacy of the Ni^II analogue could be due to its inability to produce singlet oxygen, a key cytotoxic agent required for cell kill in PDT. Based on electrochemical and spectroelectrochemical data in DMSO, the first one‐electron oxidation (0.52 V vs. SCE) and the first one‐electron reduction (?0.57–0.67 V vs. SCE) of both the free base and the corresponding Ni^II conjugates are centered on the cyanine dye, whereas the second one‐electron reduction (?0.81 V vs. SCE) of the two conjugates is assigned to the purpurinimide part of the molecule. Reduction of the cyanine dye unit is facile and occurs prior to reduction of the purpurinimide group, which suggests that the cyanine dye unit as an oxidant could be the driving force for quenching of the excited triplet state of the molecules. An interaction between the cyanine dye and the purpurinimide group is clearly observed in the free‐base conjugate, which compares with a negligible interaction between the two functional groups in the Ni^II conjugate. As a result, the larger HOMO–LUMO gap of the free‐base conjugate and the corresponding smaller quenching constant is a reason to decrease the intramolecular quenching process and increase the production of singlet oxygen to some degree.     

Pyrazole‐substituted Near‐infrared Cyanine Dyes Exhibit pH‐dependent Fluorescence Lifetime Properties

Near‐infrared heptamethine cyanine dye is functionalized with pyrazole derivatives at the meso‐position to induce pH‐dependent photophysical properties. The presence of pyrazole unsubstituted at ¹N‐position is essential to induce pH‐dependent fluorescence intensity and lifetime changes in these dyes. Replacement of meso‐chloro group of cyanine dye IR820 with ¹N‐unsubstituted pyrazole resulted in the pH‐dependent fluorescence lifetime changes from 0.93 ns in neutral media to 1.27 ns in acidic media in DMSO. Time‐resolved emission spectra (TRES) revealed that at lower pH, the pyrazole consists of fluorophores with two distinct lifetimes, which cor‐responds to pH‐sensitive and non‐pH‐sensitive species. In contrast, ¹N‐substituted pyrazoles do not exhibit pH response, suggesting excited state electron transfer as the mechanism of pH‐dependent fluorescence lifetime sensitivity for this class of compounds.     

Rational Molecular Design and Synthesis of Highly Thermo‐ and Photostable Near‐Infrared‐Absorbing Heptamethine Cyanine Dyes with the Use of Fluorine Atoms

Highly thermo‐ and photostable, near‐infrared‐absorbing heptamethine cyanine dyes were achieved with the use of fluorine‐containing components. In particular, one prepared heptamethine cyanine dye, bearing a tetrakis(pentafluorophenyl)borate as a counter anion and an N‐ethyl‐2,2,2‐trifluoroacetamido group at the meso position, showed not only a high decomposition temperature (T_dt), but also very high photostability toward white LED irradiation.     

Interfacing Click Chemistry with Automated Oligonucleotide Synthesis for the Preparation of Fluorescent DNA Probes Containing Internal Xanthene and Cyanine Dyes

Double‐labeled oligonucleotide probes containing fluorophores interacting by energy‐transfer mechanisms are essential for modern bioanalysis, molecular diagnostics, and in vivo imaging techniques. Although bright xanthene and cyanine dyes are gaining increased prominence within these fields, little attention has thus far been paid to probes containing these dyes internally attached, a fact which is mainly due to the quite challenging synthesis of such oligonucleotide probes. Herein, by using 2′‐O‐propargyl uridine phosphoramidite and a series of xanthenes and cyanine azide derivatives, we have for the first time performed solid‐phase copper(I)‐catalyzed azide–alkyne cycloaddition (CuAAC) click labeling during the automated phosphoramidite oligonucleotide synthesis followed by postsynthetic click reactions in solution. We demonstrate that our novel strategy is rapid and efficient for the preparation of novel oligonucleotide probes containing internally positioned xanthene and cyanine dye pairs and thus represents a significant step forward for the preparation of advanced fluorescent oligonucleotide probes. Furthermore, we demonstrate that the novel xanthene and cyanine labeled probes display unusual and very promising photophysical properties resulting from energy‐transfer interactions between the fluorophores controlled by nucleic acid assembly. Potential benefits of using these novel fluorescent probes within, for example, molecular diagnostics and fluorescence microscopy include: Considerable Stokes shifts (40–110 nm), quenched fluorescence of single‐stranded probes accompanied by up to 7.7‐fold light‐up effect of emission upon target DNA/RNA binding, remarkable sensitivity to single‐nucleotide mismatches, generally high fluorescence brightness values (FB up to 26), and hence low limit of target detection values (LOD down to <5 nM ).     

新型近红外试剂的合成及其现场二聚体与DNA作用的研究

合成了一种新型近红外阴离子染料,并对其水溶液及阳离子表面活性剂ＣＴＡＢ存在下的吸收荧光光谱进行了研究。结果表明,低浓度的ＣＴＡＢ与该近红外阴离子染料形成离子缔合物而使阴离子染料的荧光强度降低,当ＣＴＡＢ的浓度进一步加大时,其胶束前预聚集促使该染料形成非荧光二聚体,导致荧光急剧猝灭。     

Self‐Assembly of Carboxylic Acid Appended Naphthalene Diimide Derivatives with Tunable Luminescent Color and Electrical Conductivity

Self‐assembly of a series of carboxylic acid‐functionalized naphthalene diimide (NDI) chromophores with a varying number (n=1–4) of methylene spacers between the NDI ring and the carboxylic acid group has been studied. The derivatives show pronounced aggregation due to the synergistic effects of H‐bonding between the carboxylic acid groups in a syn–syn catemer motif and π stacking between the NDI chromophores. Solvent‐dependent UV/Vis studies reveal the existence of monomeric dye molecules in a “good” solvent such as chloroform and self‐assembly in “bad” solvents such as methylcyclohexane. The propensity of self‐assembly is comparable for all samples. Temperature‐dependent spectroscopic studies show high thermal stability of the H‐bonding‐mediated self‐assembled structures. In the presence of a protic solvent such as MeOH, self‐assembly can be suppressed, suggesting a decisive role of H‐bonding, whereas π stacking is more a consequence of than a cause for self‐assembly. Syn–syn catemer‐type H‐bonding is supported by powder XRD studies and the results corroborate well with DFT calculations. The morphology as determined by AFM is found to be dependent on the value of n; with increasing n, the morphology gradually shifts from 2D nanosheets to 1D nanofibers. Emission spectra show sharp emission bands with relatively small Stokes shifts. In addition, a rather broad emission band is observed at longer wavelengths because of the in situ formation of excimer‐type species. Due to such a heterogeneous nature, the emission spectrum spans almost the entire red–green–blue region. Depending on the value of n, the ratio of intensities of the two emission bands is changed, which results in a tunable luminescent color. Furthermore, in the case of n=1 and 3, almost pure white light emission is observed. Time‐resolved photoluminescence spectra show a very short lifetime (a few picoseconds) of monomeric dye molecules and biexponential decays with longer lifetimes (on the order of nanoseconds) for aggregated species. Current–voltage measurements show electrical conductivity in the range of 10^?4 S cm^?1 for the aggregated chromophores, which is four orders of magnitude higher than the value for a structurally similar NDI control molecule lacking the H‐bonding functionality.     

New 1,3,4‐Oxadiazinoisoquinoline Methine Cyanine Dyes: Synthesis,Photosensitivity and Antibacterial Activity

New heterocyclic ring system including 1,3,4‐oxadiazino[6,5‐c]isoquinoline was prepared and employed as a precursor for preparation of monomethine and trimethine cyanine dyes. The structure of the new compounds was characterized via elemental analysis and mass, ¹H‐NMR, and ¹³C‐NMR spectroscopy. The photosensitivity (electronic transitions inside the dye molecule due to photon absorption) of the new methine cyanine dyes was investigated by studying their visible spectra in absolute ethanol and showed its maxima in the visible range of the spectrum with relatively strong absorption bands. The antibacterial activity of the newly synthesized compounds was evaluated against some bacterial strains, resulting in a promising antibacterial efficacy that recommend the tested compounds as new candidates for further pharmaceutical evaluations.     

Sterically Shielded Heptamethine Cyanine Dyes for Bioconjugation and High Performance Near‐Infrared Fluorescence Imaging

The near‐infrared window of fluorescent heptamethine cyanine dyes greatly facilitates biological imaging because there is deep penetration of the light and negligible background fluorescence. However, dye instability, aggregation, and poor pharmacokinetics are current drawbacks that limit performance and the scope of possible applications. All these limitations are simultaneously overcome with a new molecular design strategy that produces a charge balanced and sterically shielded fluorochrome. The key design feature is a meso‐aryl group that simultaneously projects two shielding arms directly over each face of a linear heptamethine polyene. Cell and mouse imaging experiments compared a shielded heptamethine cyanine dye (and several peptide and antibody bioconjugates) to benchmark heptamethine dyes and found that the shielded systems possess an unsurpassed combination of photophysical, physiochemical, and biodistribution properties that greatly enhance bioimaging performance.     

Phototransfer of an electron in frozen solutions of cyanine dyes

The irradiation of frozen vitreous solutions of cyanine dyes in the absorption band of the quinoline fragment of the dye molecule leads to the two-quantum phototransfer of an electron from the pigment to the acceptor. The intermediate stages of the charge separation involve the transfer of electronic excitation energy from the quinoline fragment to the dye molecule as a whole. The transfer to the acceptor from a molecule of the dye in the monomeric state is more than 12 times as effective as the transfer of an electron from the dye in an associated state (reckoned for a single molecule in the aggregate.Translated from Izvestiya Akademii Nauk SSSR, Seriya Khimicheskaya, No. 8, pp. 1734–1737, August, 1990.     

Specifics of the formation of J-aggregates of cyanine dyes in solutions of AOT/water/hexane reverse micelles

The behavior of a cyanine dye (3,3′-di-(gamma-sulfopropyl)-4,5,4′,5′-dibenzo-9-ethylthiacarbocyanine betaine pyridinium salt) was studied in AOT/water/hexane reverse micelles over a wide range of W at various concentrations of the dye, AOT, and reverse micelles. The processes occurring during the formation of the AOT/water/hexane micellar solution were studied in detail. It has been shown that, before the formation of the stable microemulsion, the dye aggregation processes occur by virtue of the interaction of the dye with the AOT anion. The amount of J-aggregates is proportional to the logarithm of the ratio of the amount of AOT molecules to the amount of dye molecules. The time behavior of J-aggregates after the formation of a micellar structure depends on the concentration of reverse micelles, thereby indicating an important role of intermicellar exchange.     

Protein purification by aminosquarylium cyanine dye‐affinity chromatography

The most selective purification method for proteins and other biomolecules is affinity chromatography. This method is based on the unique biological‐based specificity of the biomolecule–ligand interaction and commonly uses biological ligands. However, these ligands may present some drawbacks, mainly because of their cost and lability. Dye‐affinity chromatography overcomes the limitations of biological ligands and is widely used owing to the low cost of synthetic dyes and to their resistance to biological and chemical degradation. In this work, immobilized aminosquarylium cyanine dyes are used in order to exploit affinity interactions with standard proteins such as lysozyme, α‐chymotrypsin and trypsin. These studies evaluate the affinity interactions occurring between the immobilized ligand and the different proteins, as a reflection of the sum of several molecular interactions, namely ionic, hydrophobic and van der Waals, spread throughout the structure, in a defined spatial manner. The results show the possibility of using an aminosquarylium cyanine dye bearing a N‐hexyl pendant chain, with a ligand density of 1.8 × 10^?2 mmol of dye/g of chromatographic support, to isolate lysozyme, α‐chymotrypsin and trypsin from a mixture. The application of a decreasing ammonium sulfate gradient resulted in the recovery of lysozyme in the flowthrough. On the other hand, α‐chymotrypsin and trypsin were retained, involving different interactions with the ligand. In conclusion, this study demonstrates the potential applicability of ligands such as aminosquarylium cyanine dyes for the separation and purification of proteins by affinity chromatography. Copyright © 2013 John Wiley & Sons, Ltd.     

光谱法研究噻菁染料与血清蛋白的相互作用

本文通过吸收和荧光光谱法研究了一种噻菁染料与人血清蛋白及牛血清蛋白的相互作用。吸收光谱数据表明,与血清蛋白结合后,噻菁染料单体的吸收峰发生红移,同时强度也有很大变化;还通过吸收光谱计算确定了噻菁染料与血清蛋白的结合位点数（ n ）。与人血清蛋白或牛血清蛋白结合后,噻菁染料的荧光量子产率增加。分析噻菁染料的荧光强度随溶液中血清蛋白浓度的变化得到了二者反应的表观结合常数（ K _a）和自由能变化（ ΔG ）。根据表观结合常数（ K _a）可以判断,人血清蛋白比牛血清蛋白与噻菁染料的结合更强。     

Cation binding and photophysical properties of a monoaza-15-crown-5-ether linked cyanine dye

A cyanine chromoionophore1 has been synthesised and its photophysical properties have been investigated. Complexation with alkali metal cations (Li⁺ and Na⁺) brings about a significant shift in the absorption and emission spectra to shorter wavelengths, which is accompanied by an enhancement in the fluorescence quantum yield. These effects can be attributed to the suppression of intramolecular charge transfer processes of the cyanine dye, brought about by complexation with the metal cations. Dedicated to Professor C N R Rao on his sixtieth birthday Contribution No. RRLT-PRU-42 from the Regional Research Laboratory, Trivandrum     

Fluorescent Light‐up Probe for the Detection of Protein Aggregates

A fluorescent dye was decorated with water‐soluble pyridinium groups in order to be applied in the detection of cyclodextrins or DNA. The dye displays an enhancement of its emission intensity when the internal rotations are restricted due to the formation of an inclusion complex with cyclodextrins or upon interaction with DNA. In vivo, the fluorescent probe can stain protein aggregates with a selectivity comparable to the widely used Proteostat®.     

Conjugated Polymer Nanoparticle‐Triplet Emitter Hybrids in Aqueous Dispersion: Fabrication and Fluorescence Quenching Behavior

Conjugated polymer nanoparticles based on poly[9,9‐bis(2‐ethylhexyl)fluorene] and poly[N‐(2,4,6‐trimethylphenyl)‐N,N‐diphenylamine)‐4,4′‐diyl] are fabricated using anionic surfactant sodium dodecylsulphate in water by miniemulsion technique. Average diameters of polyfluorene and polytriarylamine nanoparticles range from 70 to 100 and 100 to 140 nm, respectively. The surface of the nanoparticles is decorated with triplet emitting dye, tris(2,2′‐bipyridyl)ruthenium(II) chloride. Intriguing photophysics of aqueous dispersions of these hybrid nanoparticles is investigated. Nearly 50% quenching of fluorescence is observed in the case of dye‐coated polyfluorene nanoparticles; excitation energy transfer is found to be the dominant quenching mechanism. On the other hand, nearly complete quenching of emission is noticed in polytriarylamine nanoparticle‐dye hybrids. It is proposed that the excited state electron transfer from the electron‐rich polytriarylamine donor polymer to Ru complex leads to the complete quenching of emission of polytriarylamine nanoparticles. The current study offers promising avenues for developing aqueous solution processed‐electroluminescent devices involving a conjugated polymer nanoparticle host and Ru or Ir‐based triplet emitting dye as the guest.

     

Photopolymerization reactions initiated by a visible light photoinitiating system: Cyanine dye/borate salt/1,3,5‐triazine

New three‐component photoinitiating systems consisting of a cyanine dye, borate salt, and a 1,3,5‐triazine derivative were investigated by measuring their photoinitiation activities and through fluorescence quenching experiments. Polymerization kinetic studies based on the microcalorimetric method revealed a significant increase in polymerization rate when the concentration of n‐butyltriphenylborate salt or the 1,3,5‐triazine derivative were increased. The photo‐induced electron transfer process between electron donor and electron acceptor was studied by means of fluorescence quenching and SrEt change of the fluorescence intensity. The experiments performed documented that an increase of the n‐butyltriphenylborate salt concentration dramatically increases the rate of dye fluorescence quenching, whereas the increasing of the 1,3,5‐triazine derivative concentration slows down the consumption of the dye. We conclude that the primary photochemical reaction involves an electron transfer from the n‐butyltriphenylborate anion to the excited singlet state of the dye, followed by the reaction of the 1,3,5‐triazine derivative with the resulting dye radical to regenerate the original dye. This reaction simultaneously produces a triazinyl radical anion derived from the 1,3,5‐triazine, which undergoes the carbon‐halogen bond cleavage yielding radicals active in initiation of a free radical polymerization chain. © 2007 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 45: 3626–3636, 2007     

Red‐Emitting Rhodamines with Hydroxylated,Sulfonated, and Phosphorylated Dye Residues and Their Use in Fluorescence Nanoscopy

Fluorescent dyes emitting red light are frequently used in conventional and super‐resolution microscopy of biological samples, although the variety of the useful dyes is limited. We describe the synthesis of rhodamine‐based fluorescent dyes with absorption and emission maxima in the range of 621–637 and 644–660 nm, respectively and demonstrate their high performance in confocal and stimulated emission depletion (STED) microscopy. New dyes were prepared by means of reliable chemical transformations applied to a rhodamine scaffold with three variable positions. They feature polarity, water solubility, variable net charges, improved stabilities of N‐hydroxysuccinimidyl (NHS) esters, as well as large fluorescence quantum yields in dye solutions and antibody conjugates. The photophysical and imaging properties of dyes containing three different polar groups, namely primary phosphate, sulfonic acid (in two different positions), and hydroxyl were compared. A dye with two primary phosphate groups was explored as a valuable alternative to dyes with “classical” sulfonic acid groups. Due to the increased net charge of the phosphorylated dye (q=?4 at pH 8), it demonstrated a far better electrophoretic mobility compared with analogues with two sulfonic acid groups (q=?2). As an example, one fluorescent dye was designed to be especially convenient for practical use. It is characterized by sufficiently high chemical stability of the NHS ester, its simple isolation, handling, and solubility in aqueous buffers, as well as in organic solvents. All these features, accompanied by a zero net charge in conjugates, were accomplished by the introduction of hydrophilic groups of two types: two hydroxyl groups and one sulfonic acid residue.     

Kinetic study of free‐radical polymerization photoinitiated by cyanine‐borate salts. II.

A series of cyanine butyltriphenylborate salts were prepared and tested as initiators of free‐radical polymerization photoinitiated via a photoinduced electron‐transfer process. For the majority of the tested series, the highest rate of photoinitiated free‐radical polymerization was observed when sec‐butyl radicals were formed. Essentially, there was no influence of the quantum yield of the free‐radical formation on the rate of the free‐radical polymerization initiated by the cyanine‐borate salts. The experimental data revealed that the relationship between the rate of polymerization and the free energy change for the electron transfer displayed typical Marcus region kinetic behavior. The photoreduction of the cyanine butyltriphenylborate salts produced colorless products. The efficiency of the bleached‐dye formation had no effect on the overall efficiency of photoinitiated polymerization. © 2000 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 38: 2365–2374, 2000     

Integration of Cyanine,Merocyanine and Styryl Dye Motifs with Synthetic Bacteriochlorins

Understanding the effects of substituents on spectral properties is essential for the rational design of tailored bacteriochlorins for light‐harvesting and other applications. Toward this goal, three new bacteriochlorins containing previously unexplored conjugating substituents have been prepared and characterized. The conjugating substituents include two positively charged species, 2‐(N‐ethyl 2‐quinolinium)vinyl‐ (B‐1) and 2‐(N‐ethyl 4‐pyridinium)vinyl‐ (B‐2), and a neutral group, acroleinyl‐ (B‐3); the charged species resemble cyanine (or styryl) dye motifs whereas the neutral unit resembles a merocyanine dye motif. The three bacteriochlorins are examined by static and time‐resolved absorption and emission spectroscopy and density functional theoretical calculations. B‐1 and B‐2 have Q_y absorption bathochromically shifted well into the NIR region (822 and 852 nm), farther than B‐3 (793 nm) and other 3,13‐disubstituted bacteriochlorins studied previously. B‐1 and B‐2 have broad Q_y absorption and fluorescence features with large peak separation (Stokes shift), low fluorescence yields, and shortened S₁ (Q_y) excited‐state lifetimes (~700 ps and ~100 ps). More typical spectra and S₁ lifetime (~2.3 ns) are found for B‐3. The combined photophysical and molecular‐orbital characteristics suggest the altered spectra and enhanced nonradiative S₁ decay of B‐1 and B‐2 derive from excited‐state configurations in which electron density is shifted between the macrocycle and the substituents.