An official website of the United States government
NIR dyes have become popular for many applications, including biosensing and imaging. For this reason, the molecular switch mechanism of the xanthene dyes makes them useful for in vivo detection and imaging of bioanalytes. Our group has been designing NIR xanthene-based dyes by the donor-acceptor-donor approach; however, the equilibrium between their opened and closed forms varies depending on the donors and spacer. We synthesized donor-acceptor-donor NIR xanthene-based dyes with an alkyne spacer via the Sonogashira coupling reaction to investigate the effects of the alkyne spacer and the donors on the maximum absorption wavelength and the molecular switching (ring opening) process of the dyes. We evaluated the strength and nature of the donors and the presence and absence of the alkyne spacer on the properties of the dyes. It was shown that the alkyne spacer extended the conjugation of the dyes, leading to absorption wavelengths of longer values compared with the dyes without the alkyne group. In addition, strong charge transfer donors shifted the absorption wavelength towards the NIR region, while donors with strong π-donation resulted in xanthene dyes with a smaller equilibrium constant. DFT/TDDFT calculations corroborated the experimental data in most of the cases. Dye 2 containing the N,N-dimethylaniline group gave contrary results and is being further investigated.
more »
« less
This content will become publicly available on December 1, 2025
Quantum Chemical Determination of Molecular Dye Candidates for Non-Invasive Bioimaging
Molecular dyes containing carbazole-based π bridges and/or julolidine-based donors should be promising molecules for intense SWIR emission with potential application to molecular bioimaging. This study stochastically analyzes the combinations of more than 250 organic dyes constructed within the D-π-D (or equivalently D-B-D) motif. These dyes are built from 22 donors (D) and 14 π bridges (B) and are computationally examined using density functional theory (DFT). The DFT computations provide optimized geometries from which the excited state transition wavelengths and associated oscillator strengths and orbital overlaps are computed. While absorption is used as a stand-in for emission, the longer the absorption wavelength, the longer the emission should be as well for molecules of this type. Nearly 100 novel dyes reported in this work have electronic absorptions at or beyond 1200 nm, opening the possibility for future synthesis and experimental characterization of new molecular dyes with promising properties for bioimaging.
more »
« less
- Award ID(s):
- 2150352
- PAR ID:
- 10638866
- Publisher / Repository:
- MDPI
- Date Published:
- Journal Name:
- Molecules
- Volume:
- 29
- Issue:
- 24
- ISSN:
- 1420-3049
- Page Range / eLocation ID:
- 5860
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
More Like this
-
-
Abstract Small organic molecules absorbing and emitting in the shortwave infrared (SWIR, 1000–2000 nm) region are desirable for biological imaging applications due to low auto‐fluorescence, reduce photon scattering, and good tissue penetration depth of photons which allows forin vivoimaging with high resolution and sensitivity. Si‐substituted xanthene‐based fluorophores with indolizine donors have demonstrated some of the longest wavelengths of absorption and emission from organic dyes. This work seeks to compare an indolizine heterocyclic nitrogen with dimethyl aniline nitrogen donors on otherwise identical Si‐substituted xanthene fluorophoresviaoptical spectroscopy, computational chemistry and electrochemistry. Three donors are compared including an indolizine donor, a ubiquitous dimethyl aniline donor, and a vinyl dimethyl aniline group that keeps the number of π‐bonds consistent with indolizine. Significantly higher quantum yields and molar absorptivity are observed in these studies for a dimethylamine‐based donor relative to a simple indolizine donor absorbing and emitting at similar wavelengths (~1312 nm emission). Substantially longer wavelengths are obtainable by appending aniline‐based groups to the indolizine donor (~1700 nm) indicating longer wavelengths can be accessed with indolizine donors while stronger emitters can be accessed with anilines in place of indolizine.more » « less
-
Conjugated polymers composed of tricoordinate boron and π-conjugated units possess extended conjugation with relatively low-lying LUMOs arising from p B –π interactions. However, donor–acceptor (D–A) polymers that feature triorganoboranes alternating with highly electron-rich donors remain scarce. We present here a new class of hybrid D–A polymers that combine electron-rich dithienosiloles or dithienogermoles with highly robust tricoordinate borane acceptors. Polymers of modest to high molecular weight are readily prepared by Pd-catalyzed Stille coupling reaction of bis(halothienyl)boranes and distannyldithienosiloles or -germoles. The polymers are obtained as dark red solids that are stable in air and soluble in common organic solvents. Long wavelength UV-vis absorptions at ca. 500–550 nm indicate effective π-conjugation and pronounced D–A interactions along the backbone. The emission maxima occur at wavelengths longer than 600 nm in solution and experience further shifts to lower energy with increasing solvent polarity, indicative of strong intramolecular charge transfer (ICT) character of the excited state. The powerful acceptor character of the borane comonomer units in the polymer structures is also evident from cyclic voltammetry (CV) analyses that reveal relatively low-lying LUMO levels of the polymers, enhancing the D–A interaction. Density functional theory (DFT) calculations on model oligomers further support these experimental observations.more » « less
-
Fluorescent organic dyes that absorb and emit in the near-infrared (NIR, 700–1000 nm) and shortwave infrared (SWIR, 1000–1700 nm) regions have the potential to produce noninvasive high-contrast biological images and videos. BODIPY dyes are well known for their high quantum yields in the visible energy region. To tune these chromophores to the NIR region, fused nitrogen-based heterocyclic indolizine donors were added to a BODIPY scaffold. The indolizine BODIPY dyes were synthesized via microwave-assisted Knoevenagel condensation with indolizine aldehydes. The non-protonated dyes showed NIR absorption and emission at longer wavelengths than an aniline benchmark. Protonation of the dyes produced a dramatic 0.35 eV bathochromic shift (230 nm shift from 797 nm to 1027 nm) to give a SWIR absorption and emission (λmaxemis = 1061 nm). Deprotonation demonstrates that material emission is reversibly switchable between the NIR and SWIR.more » « less
-
Electron transfer (ET) in donor–bridge–acceptor (DBA) compounds depends strongly on the structural and electronic properties of the bridge. Among the bridges that support donor–acceptor conjugation, alkyne bridges have attractive and unique properties: they are compact, possess linear structure permitting access to high symmetry DBA molecules, and allow torsional motion of D and A, especially for longer bridges. We report conformation dependent electron transfer dynamics in a set of novel DBA compounds featuring butadiyne (C4) bridge, N -isopropyl-1,8-napthalimide (NAP) acceptors, and donors that span a range of reduction potentials (trimethyl silane (Si-C4-NAP), phenyl (Ph-C4-NAP), and dimethyl aniline (D-C4-NAP)). Transient mid-IR absorption spectra of the CC bridge stretching modes, transient spectra in the visible range, and TD-DFT calculations were used to decipher the ET mechanisms. We found that the electronic excited state energies and, especially, the transition dipoles (S 0 → S n ) depend strongly on the dihedral angle ( θ ) between D and A and the frontier orbital symmetry, offering an opportunity to photo-select particular excited states with specific ranges of dihedral angles by exciting at chosen wavelengths. For example, excitation of D-C4-NAP at 400 nm predominantly prepares an S 1 excited state in the planar conformations ( θ ∼ 0) but selects an S 2 state with θ ∼ 90°, indicating the dominant role of the molecular symmetry in the photophysics. Moreover, the symmetry of the frontier orbitals of such DBA compounds not only defines the photo-selection outcome, but also determines the rate of the S 2 → S 1 charge separation reaction. Unprecedented variation of the S 2 –S 1 electronic coupling with θ by over four orders of magnitude results in slow ET at θ ca. 0° and 90° but extremely fast ET at θ of 20–60°. The unique features of high-symmetry alkyne bridged DBA structures enable frequency dependent ET rate selection and make this family of compounds promising targets for the vibrational excitation control of ET kinetics.more » « less
