Felix
Boisten
a,
Iván
Maisuls
ab,
Tim
Schäfer
a,
Cristian A.
Strassert
*abc and
Jens
Müller
*ac
aWestfälische Wilhelms-Universität Münster, Institut für Anorganische und Analytische Chemie, Corrensstr. 28/30, 48149 Münster, Germany. E-mail: ca.s@uni-muenster.de; mueller.j@uni-muenster.de
bWestfälische Wilhelms-Universität Münster, Center for Nanotechnology (CeNTech), Heisenbergstr. 11, 48149 Münster, Germany
cWestfälische Wilhelms-Universität Münster, Center for Soft Nanoscience (SoN) and Cells in Motion Interfaculty Centre (CiMIC), Corrensstr. 28/30, 48149 Münster, Germany
First published on 3rd February 2023
Phosphorescent Pt(II) complexes, composed of a tridentate N^N^C donor ligand and a monodentate ancillary ligand, were covalently attached to DNA oligonucleotides. Three modes of attachment were investigated: positioning the tridentate ligand as an artificial nucleobase via a 2′-deoxyribose or a propane-1,2-diol moiety and orienting it towards the major groove by appending it to a uridine C5 position. The photophysical properties of the complexes depend on the mode of attachment and on the identity of the monodentate ligand (iodido vs. cyanido ligand). Significant duplex stabilization was observed for all cyanido complexes when they are attached to the DNA backbone. The luminescence strongly depends on whether a single or two adjacent complexes are introduced, with the latter showing an additional emission band indicative of excimer formation. The doubly platinated oligonucleotides could be useful as ratiometric or lifetime-based oxygen sensors, as the green photoluminescence intensities and average lifetimes of the monomeric species are drastically boosted upon deoxygenation, whereas the red-shifted excimer phosphorescence is nearly insensitive to the presence of triplet dioxygen in solution.
We report herein on the site-specific covalent incorporation of phosphorescent Pt(II) complexes into DNA duplexes (Chart 1). The coordination compounds are derived from a recently established family of Pt(II) complexes containing a tridentate N^N^C donor ligand and an ancillary monodentate ligand. These species show robust phosphorescence, with an emission wavelength essentially independent of the identity of the monodentate ligand.29–31 While their green phosphorescence (lifetimes and intensities) is quenched by triplet dioxygen (3O2), their dimers and higher aggregates appear with a red-shifted yet oxygen-insensitive luminescence portraying excimeric character supported by metal–metal interactions (i.e., coupling between dz2-orbitals protruding out of the coordination plane). The site-specific incorporation of a Pt(II) complex into DNA is complicated by the high affinity of Pt(II) for purine N7 positions, as is well-known from the mode of action of the antitumor drug cisplatin.32 In the past, two pre-platinated building blocks for automated DNA solid-phase synthesis were reported to tackle this challenge.33,34 Similarly, the solid-phase synthesis of a terminally Pt(II)-modified oligonucleotide was reported.35 However, none of these approaches can be applied for the introduction of the Pt(II) complex under consideration here, because they make use of exclusively monodentate ligands. Instead, we decided to use the Cu(I)-catalysed azide–alkyne Huisgen cycloaddition to achieve the desired site-specific attachment of the Pt(II) complexes. A similar approach was recently reported in the context of (non-luminescent) cis-Pt(II)-modified triplex-forming oligonucleotides.36
Scheme 1 Synthesis of the Pt(II) precursor complexes PtI and PtCN for the subsequent cycloaddition to a suitably alkyne-modified oligonucleotide. (a) NIS, Pd(OAc)2, CH3CN, 90 °C, 2 d; (b) Pt2(dba)3, THF, 50 °C, 90 min; (c) KCN, CH3OH/CH3CN (1:1), 90 °C, 3 h. For further synthetic details, see ESI.† |
Duplex | Sequence | |
---|---|---|
a The letter X represents the identity of the Pt(II) complex and its point of attachment (PtI, PtCN, GNA, DNA, Uri). In Pt(II)-free reference duplexes, an unsubstituted 1,2,3-triazole moiety (Tri) was used. See text for more details. | ||
IX | ODN1X | 5′-d(CTT TCT XTC CCT C)-3′ |
ODN2G | 3′-d(GAA AGA GAG GGA G)-5′ | |
IIX | ODN1X | 5′-d(CTT TCT XTC CCT C)-3′ |
ODN2C | 3′-d(GAA AGA CAG GGA G)-5′ | |
IIIX | ODN1X | 5′-d(CTT TCT XTC CCT C)-3′ |
ODN2A | 3′-d(GAA AGA AAG GGA G)-5′ | |
IVX | ODN1X | 5′-d(CTT TCT XTC CCT C)-3′ |
ODN2T | 3′-d(GAA AGA TAG GGA G)-5′ | |
V | ODN3X | 5′-d(CTT TCT XXC CCT C)-3′ |
ODN4 | 3′-d(GAA AGA GGG GGA G)-5′ |
Duplex | T m | ΔTm | Duplex | T m | ΔTm |
---|---|---|---|---|---|
a Experimental conditions: 1 μM DNA duplex, 5 mM MOPS buffer (pH 7.0), 150 mM NaClO4, 2.5 mM Mg(ClO4)2. | |||||
I Tri,GNA | 26.1 | n.a. | I Tri,DNA | 30.5 | n.a. |
IPtI ,GNA | 19.9 | −6.2 | IPtI ,DNA | 13.8 | −16.7 |
II Tri,GNA | 24.3 | n.a. | II Tri,DNA | 28.1 | n.a. |
IIPtI ,GNA | 19.0 | −5.3 | IIPtI ,DNA | 11.6 | −16.5 |
III Tri,GNA | 28.2 | n.a. | III Tri,DNA | 31.3 | n.a. |
IIIPtI ,GNA | 20.4 | −7.8 | IIIPtI ,DNA | 12.2 | −19.1 |
IV Tri,GNA | 25.0 | n.a. | IV Tri,DNA | 27.7 | n.a. |
IVPtI ,GNA | 19.1 | −5.9 | IVPtI ,DNA | 11.8 | −15.9 |
Hence, in a second set of experiments, the iodido ligand was exchanged by a cyanido unit, which is expected to bind more tightly to the Pt(II) ion due to its strong σ-donor and π-acceptor character. This was again confirmed by mass spectrometry, where a non-dissociated Pt(II) complex was observed for ODN1PtCN,GNA and ODN1PtCN,DNA (Fig. S5 and S6†). Indeed, the PtCN-modified duplexes show a more regular melting behaviour, as illustrated in Fig. 1 based on duplexes IIIX. In the presence of the Pt(II) complex, a significant increase in Tm is observed with respect to the triazole-containing reference duplexes. The increase is largely independent of the complementary nucleobase (Fig. S7†), with duplex IIPtCN,GNA being a prominent exception. In general, the melting transition is steeper for duplexes in which the Pt(II) complex is attached via a 2′-deoxyribose, compared to the GNA linker. This is in agreement with the distortion expected upon the incorporation of the non-canonical backbone fragment. Again, the CD spectra indicate no major structural changes upon the introduction of the Pt(II) complex (Fig. 1b and S7†), except for the fact that the Pt(II)-free reference duplexes show an unusually strong positive Cotton effect at ∼280 nm. However, as the wavelengths of the Cotton effects do not significantly shift in the presence of the Pt(II) complex, major structural changes can be ruled out.
Table 3 lists the melting temperatures of the duplexes in the presence of PtCN. The reason for the increased stabilization of duplex IIPtCN,GNA in comparison to the other duplexes with a PtCN, GNA modification remains unclear. While it could be speculated that the complex optimally fits into a duplex with a complementary 2′-deoxycytidine, such an explanation would not be in agreement with the shallow melting transition (vide supra) or the data for PtCN, DNA.
Duplex | T m | ΔTm | Duplex | T m | ΔTm |
---|---|---|---|---|---|
a Experimental conditions: 1 μM DNA duplex, 5 mM MOPS buffer (pH 7.0), 150 mM NaClO4, 2.5 mM Mg(ClO4)2. | |||||
IPtCN ,GNA | 34.1 | 8.0 | IPtCN ,DNA | 37.5 | 7.0 |
IIPtCN ,GNA | 39.0 | 14.7 | IIPtCN ,DNA | 35.7 | 7.6 |
IIIPtCN ,GNA | 33.8 | 5.6 | IIIPtCN ,DNA | 35.1 | 3.8 |
IVPtCN ,GNA | 34.1 | 9.1 | IVPtCN ,DNA | 34.2 | 6.5 |
To evaluate the effect of two consecutive Pt(II) complexes within a DNA double helix, duplex V was synthesized. It is derived from IPtCN,DNA (the PtCN-containing duplex with the highest Tm) by formally replacing the T:A pair adjacent to the X:G pair by second X:G pair. Duplex V melts at 34.0 °C and hence at a slightly lower Tm as IPtCN,DNA (Fig. 1c). Its CD spectrum resembles that of B-DNA. Nonetheless, slightly blue-shifted maxima with respect to those in the CD spectrum of duplex IPtCN,DNA indicate a slight structural change upon the incorporation of the second Pt(II) complex (Fig. 1c).
The general applicability of our approach of a post-synthetic modification of nucleic acids with organometallic complexes was confirmed by applying the Pd(II) complex PdCN analogous to PtCN. As expected, the behaviour of the resulting duplexes is essentially identical, as exemplified by a comparison of the respective melting temperatures (Fig. S8, Table S1†).
DNA | Air-equilibrated | Argon-purged | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
PtI,GNA | PtI,DNA | PtCN,GNA | PtCN,DNA | PtCN,Uri | PtI,GNA | PtI,DNA | PtCN,GNA | PtCN,DNA | PtCN,Uri | |
a Experimental conditions: 1 μM DNA (single-stranded in the case of ODN1X, double-stranded for IX, IIX, IIIX, IVX), 5 mM MOPS buffer (pH 7.0), 150 mM NaClO4, 2.5 mM Mg(ClO4)2, room temperature, experimental uncertainty ± 0.1 μs. The corresponding original data, together with the fitting parameters, are given in the ESI (Fig. S25–S74). | ||||||||||
ODN1X | 5.3 | 5.9 | 4.3 | 4.9 | 6.2 | 11.6 | 13.2 | 19.5 | 20.7 | 19.8 |
IX | 9.9 | 9.6 | 13.3 | 19.0 | 14.0 | 13.6 | 14.6 | 24.5 | 24.8 | 22.0 |
IIX | 7.7 | 9.3 | 13.6 | 16.6 | 11.6 | 13.8 | 14.4 | 23.9 | 23.6 | 21.4 |
IIIX | 9.8 | 10.9 | 12.8 | 18.0 | 14.5 | 13.8 | 15.1 | 23.1 | 22.7 | 22.2 |
IVX | 9.2 | 10.7 | 13.6 | 17.1 | 15.1 | 13.9 | 15.1 | 23.9 | 23.5 | 21.9 |
In the following, we will first discuss the behaviour in air-equilibrated solutions. Here, duplexes bearing PtCN entities in a complete DNA context have the longest amplitude-weighted average lifetimes, compared to PtCN attached via a GNA linkage and all PtI-containing duplexes. This means that in duplexes containing the oligonucleotide ODN1PtCN,DNA, the Pt(II) complex is best shielded from water and dioxygen. The average lifetimes of the PtCN complexes attached via the uracil C5 position are shorter by 20–30% (see Fig. S9† for their melting curves and CD spectra and Table S2† for their Tm). Here, the Pt(II) complex is protruding into the major groove. It is therefore expected to be less efficiently shielded from water, which is in agreement with the shorter lifetimes. The poorer shielding in the single-stranded oligonucleotides ODNX is reflected by their even further shortened lifetimes.
Upon Ar-purging, i.e., in the absence of 3O2, the lifetimes clearly reflect the different structural shielding from physical quenching. In general, they are always longer upon deoxygenation. The systems with PtI moieties show the shortest lifetimes, in agreement with a faster deactivation rate related to a lower ligand field splitting. The average lifetimes of PtCN-bearing duplexes are very similar, irrespective of the identity of the nucleobase in the complementary position and whether they are attached via a 2′-deoxyribose or a GNA linker. The duplexes with PtCN facing the major groove (i.e., attached to uracil) display a somewhat shorter average lifetime (by 3–11%). Still, the duplex lifetimes remain longer than those of the corresponding single-stranded oligonucleotides, indicating that the complex is better shielded from quenching in the duplex. Taken together, these data are in agreement with the localization of the PtCN complexes either in the base pair stack or as groove binders. Even the shorter average lifetimes of all the DNA duplexes bearing PtI moieties reflect the different solvent and 3O2 accessibility of their Pt(II) centres, in agreement with the non-specific cross-linking to other DNA strands as proposed above on the basis of the melting profiles.
The doubly platinated duplex V shows significantly different luminescent properties. Fig. 2 shows the photoluminescence spectra of this duplex and of the corresponding single-stranded ODN3 under different atmospheric conditions. In addition to the emission band with vibrational progression centring around 500 nm, a broad emission band is observed above 600 nm, indicating the presence of excimers. The average lifetimes of these excimeric species are significantly shorter than those of the monomers (Tables S3 and S4†). They are likewise shorter than those of the respective mono-platinated species IPtCN,DNA and ODN1PtCN (Table 4). In general, the lifetimes are reminiscent of what had been reported previously for a related Pt(II) complex interacting non-covalently with ctDNA via groove-binding.40
Interestingly, duplex V and single-stranded oligonucleotide ODN3 respond differently to the presence of dissolved molecular dioxygen. The luminescence intensity of the excimers above 600 nm is much less sensitive to dissolved dioxygen than that of the monomers at 500 nm. Thus, it could be used as an internal reference to sense the concentration of dissolved 3O2, if compared with the monomeric emission (for clarity, the spectra shown in Fig. 2 have been normalized to the excimeric maximum peaking at ca. 620 nm). Interestingly, while the relative luminescence intensity of the monomer emission at 500 nm increases about 1.7-fold upon Ar-purging, this increase is much larger (3.2-fold) for the single strand, in agreement with an enhanced exposure to physical quenching. To confirm that this effect is due to the presence of dissolved 3O2, the measurements were repeated by comparing Ar-purged to O2-saturated solutions. Here, the relative monomer emission intensities increase 1.9-fold and 3.9-fold, respectively. Hence, the doubly platinated oligonucleotide ODN3PtCN (and to a lesser extent the corresponding duplex) constitutes an excellent candidate for a 3O2 sensor based on the relative phosphorescence intensities of monomer and excimer (ratiometric quantification). On the other hand, while the average lifetimes of the green monomers are drastically prolonged upon de-oxygenation, the photoluminescence decays are less sensitive if monitored at the emission maximum of the red excimers. In fact, their relative ratios mirror the qualitative trend observed for the intensities, but the multi-exponential nature (Tables S3 and S4, Fig. S75–S86†) precludes a straightforward comparison (mainly due to the manifold of co-existing conformers), thus requiring the evaluation of amplitude-weighted average lifetimes.41
Footnote |
† Electronic supplementary information (ESI) available: Additional DNA melting curves and CD spectra; lists of melting temperatures; MALDI-ToF spectra; photoluminescence spectra; time-resolved photoluminescence decay curves with fitting parameters; photoluminescence lifetimes; experimental details; NMR spectra. See DOI: https://doi.org/10.1039/d2sc05916a |
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