Open Access Article
Jude I.
Ayogu
a,
Minyan
Lyu
a,
Aleksei D.
Barykin
bc,
Anastasia A.
Fadeeva
b,
Zinaida M.
Kaskova
bd and
James C.
Anderson
*a
aDepartment of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK. E-mail: j.c.anderson@ucl.ac.uk
bShemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow 117997, Russia
cMoscow Center for Advanced Studies, Kulakova str. 20, Moscow 123592, Russian Federation
dPirogov Russian National Research Medical University, Moscow 117997, Russia
First published on 22nd October 2025
A rational design of new luciferins based upon the combination of luciferins from different lineages is exemplified by the synthesis of chimeric luciferins from a combination of fungal and firefly luciferin. Two new chimeric fungal–firefly luciferins exhibited the furthest red shifted bioluminescence of a fungal luciferin analogue.
Luciferases are widely used for imaging biological processes in vitro, in live cells and in animal models. The most popular bioluminescent imaging system uses firefly's D-luciferin (2) which bioluminesces with λmax = 558 nm (Fig. 1).3 The technique does not require an external light source, unlike fluorescence imaging, so there are no background photons, leading to a higher signal/noise ratio, which is particularly attractive for bioanalytical methods that require enhanced sensitivity. It has proven easy to use, cheap, non-invasive, highly sensitive and has a wide dynamic range.4 However, one of the main limitations of using bioluminescence in vivo is that only a fraction of the light typically reaches the detector, because the photons are absorbed and/or scattered by haemoglobin, melatonin and tissue. This has a detrimental effect on image resolution and signal penetration depth. It is well accepted that light beyond the visible range (infrared) is more tissue penetrant.5
The development of new imaging techniques has relied upon manipulating the natural capabilities of a bioluminescence system, most often to red shift the wavelength of the emitted light for improved tissue penetration. For the most popular bioluminescent imaging system D-luciferin this was approached first through mutations of the luciferase enzyme,6 but was found to be limited by the inherent structure and electronic properties of the D-luciferin itself. Derivatives of D-luciferin (Fig. 2) have led to enhanced properties in terms of colour modulation, most desirably towards the red end of the spectrum.7
The most successful analogues for imaging have been based upon substitution of the hydroxyl group of D-luciferin with an amino group (CycLuc8 and AkaLumine,9Fig. 2). Akalumine was also the first example of extended conjugation leading to red shifted bioluminescent emission.10 This concept was in turn used to develop some of the most red shifted luciferins to date, infraluciferin11 and napthylluciferins12 (λmax = 730 and 750 nm respectively),13 along with other examples that have shown the beneficial effects of extending π-conjugation.14–17 Akalumine was also an example of complete substitution of the benzothiazole nucleus of D-luciferin. Other examples have substituted for new heterocylces,18,19 benzothiophene,20 quinoline,21 coumarin derivatives22–24 and benzobisthiazole ‘V’-shaped motifs.25 They all suffer from much lower quantum yields than D-luciferin, but some are nevertheless efficacious due to more tissue penetrant red light being produced and specific luciferase matching.13,26 This has been shown to be the case for CycLuc,8 akalumine,9 napthylluciferin12 and coumarin luciferins.23
There is still a pressing need for bright, multicoloured, nr-IR emitting luciferins for improved in vivo tissue penetration and new multiparametric bioluminescence analytical/imaging techniques for a wide range of applications. The opportunities to substitute and adorn the skeleton of the natural core of D-luciferin are dwindling and could be considered exhausted (Fig. 2). The coupling of other chromophores such as dye molecules (BODIPY, squaraine, rhodamine dye etc.) to the ‘reactive’ thiazoline unit has given useful bioluminescent species,9,10,12,18–24 but future examples of this concept are not obvious. Computer aided design is possible, but only when the three dimensional structure of the luciferase is known, which is not the case for all luciferases. We postulate that to rationally diversify the structures of new luciferins it would be beneficial to look beyond the structure of D-luciferin and its structurally exhausted analogues. We propose the design of chimeric luciferins that combine the ‘reactive’ core of one luciferin with the chromophore of a luciferin from another lineage to identify new luciferin structures that may form the basis for further development of bioluminescent systems for imaging.
The luciferases and luciferin extracted from different species within the same phylogenetic lineage can be cross-reacted, resulting in light emission, because they are essentially identical bioluminescent systems within each lineage.27,28 Even though bioluminescence from each system requires the oxidation of a small molecule luciferin to its excited state, due to the subtly different mechanisms of bioluminescent light production, it is not possible for a luciferin from one lineage to give light with the luciferase from another lineage. However, luciferases can be promiscuous. For example and as already discussed, firefly luciferase can generate light with a multitude of unnatural D-luciferins (Fig. 2).7 This indicates that if the ‘reactive’ core of the molecule is present in an unnatural luciferin then the enzyme normally used to give light with that particular ‘reactive’ molecular feature, will most probably still give light with the new luciferin. The remaining bulk of the molecule can have a modified structure, which has been proven by the substitution of the benzothiazole of D-luciferin with other aromatic groups. Luciferin metabolites in nature have presumably evolved to gain selective advantages in their environment, in this specific case to give chemical light. By extension, each part of a luciferin, the ‘reactive’ core and the chromophore, have been selected for efficient bioluminescence. We wanted to demonstrate that for a rational synthesis of diverse new luciferins, a ‘reactive’ core of a luciferin from one lineage could be combined with a chromophore from a luciferin from another lineage. The wild type luciferase matched to the ‘reactive’ partner of the chimeric luciferin should be able to generate bioluminescence. This cross-lineage, modular approach allows extended π-conjugation and rational tuning of emission wavelengths while retaining enzymatic compatibility. We report our preliminary investigation of this chimeric approach by the synthesis and bioluminescent evaluation of two chimeric fungal–firefly luciferins, that demonstrate their potential to expand the spectral and structural diversity of luciferins.
We thought that chimera 3 would be more red shifted than fungal luciferin 1 as D-luciferin (2) (λmax = 558 nm) bioluminesces with a more red shifted emission than fungal luciferin 1 (λmax ∼ 530 nm). We also thought that chimera 4 would most likely be a poor bioluminescence emitter and unlikely to have significantly red shifted bioluminescence compared to that of fungal luciferin. This was based upon the seminal work on Akalumine (Fig. 2) which showed that the 4-substiuted phenol analogue of chimera 4, analogue 5, was a weak bioluminescence emitter (λmax = 530 nm).10 Amino luciferins are often red shifted compared to their hydroxyl parents and increased lipohilicity can yield advantages in terms of lowering Km.7–9,12 Therefore this study focussed on the synthesis of chimera 3 and due to the beneficial tuning effect of substituting the hydroxyl group in D-luciferin with a dimethylamine,7–9,12 we also chose to additionally synthesise chimera 6.
DFT calculations at the B3LYP/6-311+G(2d,p) level30,31 were performed to interrogate the proposed red shifting effect of dimethylamine substitution in chimera 6 over the hydroxyl derivative chimera 3. The calculations supported our prediction that of the light giving oxidised forms of the luciferins, that would be produced by fungal luciferase, Oxy-6 had a smaller HOMO–LUMO gap (2.94 eV) and a higher dipole moment (μ = 9.15 D) than Oxy-3 (3.51 eV; μ = 5.64 D) which should manifest itself in red shifted bioluminescence of chimera analogue 6 compared to chimera 3. The calculated values (Fig. 3) are consistent with increased charge delocalisation and enhanced intramolecular charge transfer (ICT).32,33 Orbital density mapping showed HOMO localisation on the aryl donor and LUMO concentration on the reactive backbone (Fig. 3), supporting directional ICT upon excitation.
We investigated a synthetic strategy for synthesising the chimeric fungal–firefly luciferins that focused on the central alkene function as a convergent joining point. Although a series of condensation reactions between 4-methoxy-6-methyl-2H-pyran-2-one (7) and a range of aryl aldehydes has been reported,34 analogous attempts with 6-methoxybenzo[d]thiazole-2-carbaldehyde (8), with a view to using the fully oxygenated 3,4-dimethoxy-pyranone under similar conditions if successful, led to degradation (Scheme 2). The exploration of a range of deprotonating conditions using LDA, t-BuOK, NaOAc, piperidine and DBU were also unfruitful. Inspired by the reported palladium catalysed coupling of arene diazonium tetrafluoroborates with a vinyl-2-pyrone,35 investigation of a Heck type approach with suitable coupling partners 9 and 10 was also unsuccessful under a range of different conditions (Scheme 2). Resorting to Wittig based technology that had already been shown by Kaskova et al. to be effective for the synthesis of fungal luciferin analogues,29 a fully tris-methyl protected analogue 11 was prepared. Unfortunately global deprotection of the methyl groups to give target chimera 3 was unsuccessful due to the 6-MeO group being recalcitrant to unmasking under a range of more forcing conditions that ultimately led to degradation. It was decided to repeat this latter approach with a more compliant 6-phenolic protecting group.
The approach was repeated with a 6-OMEM group as it had been used successfully in luciferin synthesis.36,37 Wittig reaction of known aldehydes 12
37 and 13
38 with phosphonium salt 14
29 gave good yields of alkene products 15 and 16 (Scheme 3). Global deprotection of 15 was achieved in two steps, first by removal of the MEM protecting group with TFA and then treatment with an excess of BBr3 to give target 3 in a 60% yield after reverse phase HPLC purification. After optimisation global deprotection of 16 was achieved by stirring with an excess of BBr3 for 4 days to give 6 in 69% yield after reverse phase HPLC purification.
The bioluminescence of the chimeric fungal–firefly luciferins, 3 and 6 were assayed with recombinant Neonothopanus nambi luciferase. Both compounds produced red shifted emission profiles compared to wild type fungal luciferin 1, with λmax values for 3 at 630 nm more red shifted than 6 at 600 nm (Fig. 5).
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| Fig. 5 Bioluminescence emission spectra of chimeric fungal–firefly luciferins 3 and 6 with recombinant fungal luciferase, showing red shifted λmax values relative to fungal luciferin 1. | ||
While the red shifted bioluminescence emission of 3 compared to 6 contradicted our DFT calculations, fluorescence measurements and the results from amino firefly luciferins in the literature,7–9,12 the results did fit the trend seen for fungal luciferin analogues,29 and those of coumarin luciferins23 with respect to substitution of hydroxyl groups for dimethylamino substituents. Hydroxyl groups can induce bathochromic shifts through microenvironmental interactions within the active site of the luciferase that are not captured by in vitro DFT or optical measurements.
Kinetic analyses (Fig. 6 and Table 1) revealed low Michaelis constants (Km = 0.40 μM for 3 and 0.25 μM for 6) compared to fungal luciferin (Km = 1.09 μM), indicative of high luciferase affinity. The lower Km value of dimethylamino chimera analogue 6 over that of chimera 3 is in line with previous observations for amino substituted luciferins.7–9,12 However, the Vmax values were markedly reduced compared to fungal luciferin with relative bioluminescence intensities of ∼1.5% for 3 and ∼2.8% for 6 (Fig. 7). This suggested tight binding, but poor catalytic turnover possibly due to steric or electronic misalignment in the active site. These magnitudes of relative bioluminescence are expected for luciferin analogues.7
| Substrate | Relative activity (%) | K m (μM) | Emission wavelength maximum (nm) |
|---|---|---|---|
| 1 | 100 | 1.09 ± 0.06 | 548 ± 10 |
| 6 | 2.8 | 0.25 ± 0.05 | 600 ± 10 |
| 3 | 1.5 | 0.40 ± 0.05 | 630 ± 10 |
:
1) to give 20 (1.99 g, 78%, lit.3 34%) as a yellow solid; Rf 0.29 (pet. ether/EtOAc 1
:
1); 1H NMR (400 MHz, CDCl3) δ 6.29 (1H, s, CH), 4.14 (2H, s, CH2), 3.97 (3H, s, CH3), 3.83 (3H, s, CH3). 13C NMR (100 MHz, CDCl3) δ 160.9 (C
O), 157.8 (CCH2), 154.2 (COCH3), 128.5 (C(OCH3)C
O), 99.6 (CH), 60.3 (OCH3), 57.8 (OCH3), 26.9 (CH2). The data was in agreement with the literature.29
29 (24.0 mg, 0.0471 mmol) in DCM (1.0 mL) was added aldehyde 12
37 (18.8 mg, 0.0704 mmol) and the reaction mixture was allowed to stir at room temperature. After 4 h, the reaction mixture was diluted with DCM (2 mL) and washed with water (2 × 2 mL). The aqueous layer was re-extracted with DCM (2 mL), and the combined organic layers were dried (Na2SO4), filtered and concentrated in vacuo. The residue was purified by flash column chromatography (pet. ether/EtOAc 1
:
1 → 1
:
4) to afford the product 10 (46.0 mg, quant.) as a fluorescent green syrup; Rf 0.26 (pet. ethe/EtOAc 1
:
1); λmax (acetonitrile) = 389 nm (c = 0.27 mM, ε = 14
967 L mol−1 cm−1); IR (neat) 1692 (C
C), 1247 (C–O), 1029 cm−1; 1H NMR (500 MHz, CD3CN) δ 7.81 (1H, d, J = 8.9, ArCH), 7.62 (1H, d, J = 2.4, ArCH), 7.33 (1H, d, J = 15.8, HC
CH), 7.16–7.12 (2H, m, HC
CH, ArCH), 6.78 (1H, s, CHCOCH3), 5.27 (2H, s, OCH2O), 3.95 (3H, s, OCH3), 3.74–3.72 (2H, m, OCH2), 3.70 (3H, s, OCH3), 3.45–3.43 (2H, m, OCH2), 3.18 (3H, s, OCH3); 13C NMR (125 MHz, CD3CN) δ 162.3 (COC
O), 159.2 (C
N), 158.1 (C
O), 156.0 (ArC), 152.4 (ArC), 149.3 (ArC), 136.4 (COCH3), 129.2 (HC
CH), 125.8 (HC
CH), 125.5 (ArCH), 123.7 (ArCH), 117.5 (C(OCH3)C
O), 107.6 (ArCH), 101.6 (HCCOCH3), 93.8 (OCH2O), 71.4 (OCH2), 67.7 (OCH2), 59.1 (OCH3), 57.8 (OCH3), 57.0 (OCH3); HRMS C20H22NO732S [M + H]+ calcd 420.1102, found 420.1112.
:
1) to afford the mono deprotected 6-OH (231 mg, 95%) as a pale green-fluorescent solid; Rf 0.14 (pet. ether/EtOAc 1
:
1); mp 85–86 °C; IR (neat) cm−1 3099, 2995, 2930 (C–H), 1684 (C
O), 1606 (C
C), 1410, 1347 (O–H bend), 1265 (C–O) cm−1; 1H NMR (500 MHz, DMSO) δ 10.14 (1H, s, OH), 7.81 (1H, d, J = 8.9, ArCH), 7.64–7.53 (1H, m, ArCH), 7.35 (1H, d, J = 15.8, HC
CH), 7.23 (1H, J = 15.9, HC
CH), 7.09 (1H, s, HCCOCH3), 7.01 (1H, dd, J = 8.8, 2.4, ArCH), 3.94 (3H, s, OCH3), 3.71 (3H, s, OCH3); 13C NMR (125 MHz, DMSO) δ 162.3 (COC
O), 159.2 (C
N), 158.1 (C
O), 156.0 (ArC), 152.4 (ArC), 149.3 (ArC), 131.5 (COCH3), 128.7 (HC
CH), 125.5 (HC
CH), 125.4 (ArCH), 123.8 (ArCH), 116.7 (COCH3), 106.8 (ArCH), 101.6 (CHCOCH3), 59.5 (OCH3), 57.4 (OCH3); HRMS C16H14O5N32S [M + H]+ calcd 332.0587, found 332.0580.
To a solution of the mono deprotected 6-OH compound prepared above (51.0 mg 0.142 mmol) in anhydrous DCM (40 mL) was added a solution of BBr3 (7.10 mL of 1.0 M in DCM, 30 eq.) and the reaction mixture was allowed to stir for 3 days under N2. The solvent and the excess BBr3 were removed in vacuo, and the residue was partitioned between phosphate buffer (100 mL, pH 7.4) and EtOAc (100 mL). The layers were separated, the aqueous layer was further extracted with EtOAc (3 × 100 mL), and the combined organic layers dried (Na2SO4), filtered and concentrated in vacuo. The residue was dissolved in DMSO (6.00 mL) and purified by reverse-phase HPLC to give the product 3 (162 mg, 58%) as a green solid; Rt 13.4 min (5–95% acetonitrile in water); λmax (DMSO) = 394 nm (c = 0.33 μM, ε = 2666 L mol−1 cm−1); IR (neat) 2925, 2856 (C–H), 1732 (C
O), 1457, 1376 (O–H bend), 1265 (C–O) cm−1; 1H-NMR (700 MHz, DMSO-d6) δ 10.80 (1H, br s, OH), 9.96 (1H, s, OH), 9.23 (1H, br s, OH), 7.78 (1H, d, J = 8.8, ArCH), 7.37 (1H, d, J = 2.5, ArCH), 7.19 (1H, d, J = 15.9, HC
CH), 7.18 (1H, d, J = 15.9, HC
CH), 6.97 (1H, dd, J = 8.8, 2.5, ArCH), 6.59 (1H, s, CHC(OH)); 13C NMR (150 MHz, acetone-d6) δ 162.3 (COH), 161.0 (COC
O), 157.1 (C
N), 149.8 (C
O), 149.0 (ArC), 137.5 (ArC), 132.7 (C(OH)C
O), 129.5 (ArC), 129.4 (HC
CH), 126.4 (HC
CH), 124.7 (ArCH), 117.2 (ArCH), 107.4 (ArCH), 107.0 (CHC(OH)); HRMS C14H10O5N32S [M + H]+ calcd 304.0274, found 304.0278.
29 (204 mg, 0.400 mmol) in DCM (14 mL) was added the aldehyde 1338 (124 mg, 0.602 mmol). After 3 h, the reaction mixture was diluted with DCM (2 × 50 mL), washed with H2O (2 × 50 mL), dried (Na2SO4), filtered and concentrated in vacuo. The residue was purified by flash column chromatography (pet. ether/EtOAc 1
:
1) to afford 16 (123 mg, 86%.) as a fluorescent deep orange solid; Rf 0.41 (pet. ether/EtOAc 1
:
1); mp >200 °C (dec.); λmax (acetonitrile) = 415 (c = 0.22 M, ε = 17
312 L mol−1 cm−1); IR (neat) 3087, 2918 (C–H), 1684 (C
O), 1611 (C
C), 1348 (C–N) 1278 (C–O), 1156 (C–O) cm−1; 1H NMR (500 MHz, CDCl3) δ 7.84 (1H, d, J = 9.0, ArCH), 7.50 (1H, d, J = 15.6, HC
CH), 7.03 (1H, d, J = 2.6, ArCH), 6.97–6.92 (2H, m, HC
CH, ArCH), 6.21 (1H, s, CHC(OCH3)), 3.99 (3H, s, OCH3), 3.89 (3H, s, OCH3), 3.05 (6H, s, N(CH3)2); 13C NMR (125 MHz, CDCl3) δ 160.5 (COC
O), 159.0 (C
N), 158.2 (C
O), 153.4 (ArC), 149.4 (ArC-NMe2), 146.2 (ArC), 138.0 (COCH3), 129.3 (HC
CH), 127.3 (HC
CH), 123.8 (ArCH), 123.1 (ArCH), 114.0 (ArCH), 102.4 (ArCH), 100.2 (CHC(OCH3)), 60.5 (OCH3), 57.6 (OCH3), 41.0 (N(CH3)2); HRMS C18H18N2O432S [M + H]+ calcd 359.1060, found 359.1057.
O), 1561 (C
C), 1354 (C–N), 1153 (C–O) cm−1; 1H NMR (700 MHz, acetone-d6) δ 7.77 (1H, d, J = 9.1, ArCH), 7.30 (1H, d, J = 15.8, HC
CH), 7.24 (1H, d, J = 2.6, ArCH), 7.05 (1H, d, J = 15.8, HC
CH), 7.03 (1H, dd, J = 9.1, 2.6, ArCH), 6.52 (1H, s, CHC(OH)), 3.06 (6H, s, (N(CH3)2); 13C NMR (150 MHz, acetone-d6) δ 162.4 (COH), 160.1 (COC
O), 150.4 (C
N), 150.1 (C
O), 146.8 (ArC), 138.2 (ArC), 128.0 (C(OH)C
O), 125.4 (ArC), 125.2 (HC
CH), 124.1 (HC
CH), 122.4 (ArCH)), 114.4 (ArCH), 103.3 (ArCH), 103.0 (CHC(OH)), 40.8 (N(CH3)2); HRMS C16H15N2O432S [M + H]+ calcd 331.0742, found 331.0747.
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