January Fluorescence life-me imaging of sDarken as a tool for th e evalua-on of serotonin levels Mar-n Kubitschke Vanessa Beck Olivia Andrea Masseck Synthe-sche Biologie Univeristät Bremen Breme n Germany 2024 4 2024

Recent advances in the development of gene-cally encoded biosensors have resulted in a variety of diûerent neurotransmiLer sensors for the preci se measurement of the dynamics of neurotransmiLers, neuromodulators, pep-des and hormone s in real -me. However, intensitybased measurements of ûuorescent biosensors are limited by their dependence on the expression level of the sensor, the intensity of the excita-on light, and photobleaching over -me. Here, we show that the FLIM of sDarken (a GPCR-based ge ne-cally encoded sensor for serotonin) decreases with increasing serotonin concentra-ons. Diûerent members of the sDarken family, with diûerent aûni-es for serotonin, sh ow concentra-on-dependent changes in ûuorescence life-me according to their dynamic range . We believe that this feature of sDarken is a value-adding complement to intensity-based informa-on and may lead to a beLer understanding of serotonin dynamics in health and disease.

Main

Understanding how neural networks generate complex behaviour is one of the great challenges of neuroscience. NeurotransmiLers and neurom odulators dynamics modulate neuronal circuits, and understanding their func-on is ke y to unravelling their role in behaviour. Many diseases are associated with dysfunc-onal neuromodula tory signaling. Especially the neuromodulator serotonin (5-HT) plays an important role in a variety of physiological func-ons, cogni-on and behavior. 5-HT seems to be invo lved in regula-ng emo-onal and social behaviors and disturbances in brains serotonin levels are associated with psychiatric disorders, such as major depressive disorder (MDD). Although the func-on of 5-HT has been studied for many years, the lack of appropriate tools to measure dynamics on diûerent -mescale with high spa-al resolu-on prevented the detail ed elucida-on of underlying disease mechanisms. A special feature of neuromodulators, such as serotonin (5-HT), is that they act not only as classical neurotransmiLers at synapses on a mill isecond -mescale, but also through volume transmission on the scale of seconds to minutes. These longer -mescale dynamics of serotonin are thought to underlie internal brain states or behavioral states, such as sleep, foraging or escape 1-3.

In recent years, an increasing number of gene-cally encod ed ûuorescent biosensors have been published that allow the measurement of neurotransmiLer rel ease with high temporal and spa-al resolu-on in vitro and in vivo 4-7. All of this intensity or intensiometric biosensors have in common that upon binding of the ligand to the sensing moiety, conforma-onal changes occur that can either quench or enhance ûuorescence. A change in ûuorescence can be mediated by several factors, such as shi`ing the protona-on equilibrium of the chromophore, changing the quantum yield or the ex-nc-on coeûcient 8.

However, intensity-based sensors all suûer from several limita-ons, such as their dependence on expression levels, excita-on power, photobleachin g and sensi-vity to pH changes 9, which will limit the possible interpreta-ons that can be deriv ed from the intensity readout. A more robust readout may be ûuorescence life-me informa-on ( FLIM), which is not aûected by expression level, excita-on power, photobleaching or pH 10,11. Only tools that will enable the precise measurement of serotonin dynamics independent from expression levels of the sensor and excita-on power will make it possible to compare se rotonin levels across animals, brain areas, disease states and -mepoints.

Previously it has been shown that some, but not all GPCR based sensors for neuromodulators, exhibit changes in their life-me upon binding of their respec-ve ligand and can be u-lized to compare neuromodulator dynamics across animals, brain regions, disease models and over -me 12. Although Ma et al. reported that also GRAB-5-HT showed a change in life-me upon satura-ng serotonin concentra-ons, detected changes were quite small (<0.1 ns), hindering the ability of GRAB5-HT to be u-lized as FLIM based sensor.

We hypothesized that sDarken, a GPCR-based intensiometric biosensor that decreases its ûuorescence upon binding of serotonin, would also show changes in ûuorescence life-me upon applica-on of 5-HT ( Fig. 1a). To test our hypothesis, we applied increasing concentra-ons of serotonin to human embryonic kidney (HEK) cells transiently expressing sDarken. We observed that the ûuorescence life-me is decreased w ith increasing concentra-ons of 5HT (Fig. 1b-c). Life-me was signiûcantly diûerent from baseline star-n g at a concentra-on of 80 nM (p< 0.0021, One Way ANOVA). It is noteworthy that changes in FLIM are only observed within the dynamic range of sDarken (Kd = 127 nM; Kubitschke et al. 2023) . The dynamic range of sDarken, as characterized in Kubitschke et al., is between 100 nM and 1 µM, which corresponds well to a decrease of FLIM within this concentra-on range. We observed that the dynamic range (0.529 ns) of the life-me between baseline (t=2.689± 0.0022 ns )and the maximum concentra-on of 2.560 µM ( t=2.160±0.055 ns) is rela-vely large. The doseresponse curve displays a sigmoidal shape (Fig. 1d) and an IC50 of 221.4 nM. To verify our hypothesis, that changes in FLIM will only be observable with the dynamic range of the u-lized biosensor we repeated our experiments with L-sDarken a low aûnity variant with 1.000 fold lower aûnity for serotonin (KD =45 µM, Kubitschke et al. 2022) . In deed changes of the life-me could only be observed between 10 µM and 1 mM (Fig.1 e-g), well in accordance with the reported dynamic range of L-sDarken. Fluorescence life-me is decreased with increasing concentra-ons of 5-HT ( Fig. 1e-f). Life-me was signiûcantly diûerent from baseline star-ng at a concentra-on of 50 µM (p< 0.021, One Way ANOVA). As for sDarken, also L-sDarken had a remarkable large dynamic range of 0.462 ns, between the baseline life-me (mean t=2.680 ±0.0022 ns) and a maximum concentra-on of 1 mM ( mean t=2.218±0.0047 ns). For control we used a nullmutant of sDarken and a cytosolic expressed GFP. The nullmutant of L-sDarken combines several muta-ons in the binding pocket of the 5-HT1A receptor the sensing domain of sDarken: A50V, D82N, D116N, S198A and T199A, that have been shown to be important for the binding and ac-va-on of the 5-HT1A receptor 13,14. Both controls did not show any signiûcant changes in their life-me to diûerent concentra-ons of serotonin (Fig.2 a-b).

The decrease in life-me is blocked by the applica-on o f the 5-HT1A antagonist WAY (Fig.2 c-d). Life-me is signiûcantly decreased with the applica-on of 5-HT (-5-HT: mean t=2.615±0.0011 ns; + 5-HT: mean t=2.502±0.0020 ns; one-way ANOVA p=0.003), whereas in the presence of WAY no change in life-me could be observed (- 5-HT: me an t=2.615±0.0011 ns; WAY+5-HT: mean t=2.596 ±0.00125 ns; one-way ANOVA p=0.7832).

In conclusion, sDarken, a gene-cally encoded serotonin sensor, exhibits a concentra-ondependent change in ûuorescence life-me. To date, sDar ken has the largest reported life-me change for GPCR based neuromodulator sensors. For sDarken life-me changes are observed at submicromolar 5-HT concentra-ons and across micromolar concentra-ons for L-sDarken, the low aûnity variant of sDarken. We suggest that in the futu re, FLIM measurements of the sDarken family could be a valuable complement to intensity-based measurements of serotonin. As been shown for GRABACh3.0 15, sDarken could provide addi-onal informa-on about tonic levels of serotonin during diûerent internal states 12. FLIM measurements of sDarken have the poten-al to quan-ta-vely assess seroton in levels, also over long periods of -me making it an ideal tool to inves-gate diûerences in brain serotonin levels in health and disease. Another advantage would be that FLIM as a readout could presumably be used to make beLer comparisons of serotonin levels across brain regions, animals, and disease states12.

Acknowledgements: We would like to thank Andreas Reiner and Tommaso Patriarchi for valuable discussions. We thank Celina Schreiber for expert technical assistance. O.A.M and M.K. were funded by the Deutsche Forschungsgemeinscha` (DFG MA 4692/6-3). Declara-on of genera-ve AI and AI-assisted technologies in the wri-ng process During the prepara-on of this work the author(s) used Dee pLWrite in order to improve language and readability. A`er using this tool/service, the author(s) reviewed and edited the content as needed and take full responsibility for the content of the publica-on.
Material and Methods Cell culture

HEK cells (HEK293, tsA201 cells, ATTC) were cultured in Dulbecco's modiûed Eagle's medium (DMEM, high glucose, with stable glutamine, with pyruvate, Cellpure®) supplemented with penicillin (100 I.U/mL, Cellpure®), streptomycin (0.1 mg/mL, Cellpure®) and fetal bovine serum (Brazilian origin, Gibco). Cells were seeded on µ-Dishes (35mm µ-Dish, IbiTreat, Ibidi) and transfected when they reached ~70% conûuence. For transfec-on, 1µg plasmid DNA and 4µL polyethyleneimine (branched, average MW 25000, Aldrich Chemistry) were incubated in 100µL DMEM for 15min at RT. The mixture was applied dropwise to 60-70% conûuent HEK cells. The cells were incubated at 37°C with 5% CO2. Measurements were performed the following day.

Plasmids Following plasmids were used for transfec-on pN1-CMV-sDar ken (Addgene plasmid #184799, pN1-CMV-L-sDarken (Addgene plasmid #184800), null-mutant of sDarken (created in house), peGFP-N1-FLAG (Addgene plasmid # 60360). Measurement

Serotonin stock solu-on (serotonin hydrochloride, 1 00 mM in PBS [0.9 mM CaCl2, 0.5 mM MgCl2, 2.7 mM KCl, 1.47 mM KH2PO4, 138 mM NaCl, 8 mM Na2HPO4]) was prepared fresh each day before measurement. Diûerent concentra-ons of s erotonin were prepared by dilu-ng the stock solu-on with 1X PBS. For each dish, th e medium was aspirated and the dish was washed with 1x PBS. Then 2 mL of serotonin solu-on was added to the cells. For WAY100635 measurements, 2 µL of solu-on (10 µM; serotonin , 10 µM WAY-100635 [WAY-100635 Maleate, Sigma Aldrich]) was pipeLed directly onto the ce lls between life-me measurements. Cells were measured under a confocal laser scanning microscope (Microscope: LSM880 [Zeiss] with the LSM upgrade kit [Picoquant], emission ûlter 520/35). The measurement was performed with a pixel dwell -me of 8.19µs and a frame s ize of 512x512 pixels. Excita-on was performed with a 480nm laser (LDH-D-C-485, Picoquant) at a pulse rate of 40.00MHz. The laser intensity was set just below 10% of the laser repe--on ra te. Measurements were stopped at 1000 counts in the brightest pixel. The laser power was aLenuated to remain below 10% of the laser repe--on rate (4000 counts/s).

IRF measurement The instrument response func-on was measured with a satura ted NaI solu-on containing ûuorescein (Thermo Fischer Scien-ûc) using the same m easurement parameters as above. Analysis

FLIM ûzng was performed using the FLIMût analysis so`ware (FLIMû t 5.1.1). Images were loaded with a -me binning of 250. The IRF shi` was determ ined by an ini-al ût and subtracted for ûzng. Fizng was performed on thresholded images, and the raw mean tau values of the images were used to determine the mean life-me of ûuor escence within outer membrane organelles. N were selected using the analyze par-cle fu nc-on of ImageJ (ImageJ 1.53c). The threshold was set to include most of the membrane parts. N of non-membrane parts were manually discarded.

Sta-s-cs All sta-s-cal analysis was done in GraphPadPrism9. A one way ANOVA was u-lized to test whether or not the means of independent sample groups are diûerent. One-way ANOVA assumes normality and homoscedas-city of the data sets. The normality of the data was conûrmed by the Shapiro-Wilk test. Homogeneity of variances between groups was tested using BartleL's test. Dose response curves are ûLed with a dose-response-inhibi-on (three parameters) ût. Inhibitor vs. response. A standard slope is considered equal to a Hill slope with a sigmoidal shape.

Neuron 103 , 6863701 .e8 ( 2019 ). Marques , J. C. , Li , M. , Schaak , D. , Robson , D. N. & Li , J. M. Internal state dynamics shape brainwide ac-vity and foraging behaviour . Nature 577 , 2393243 ( 2020 ). Seo , C. et al. Intense threat switches dorsal raphe serotonin neurons to a paradoxical opera-onal mode . Science 363 , 5383542 ( 2019 ). Kubitschke , M. & Masseck , O. A. Illumina-ng the brain-ge ne-cally encoded single wavelength ûuorescent biosensors to unravel neurotransmiLe r dynamics . Biol Chem ( 2023 ). doi: 10 .1515/hsz-2023-0175 RavoLo, L., Duûet , L. , Zhou , X. , Weber , B. & Patriarchi , T. A Bright and Colorful Future for G-Protein Coupled Receptor Sensors . Front Cell Neurosci 14 , 67 ( 2020 ). Saba-ni , B. L. & Tian , L. Imaging NeurotransmiLer and Ne uromodulator Dynamics In Vivo with Gene-cally Encoded Indicators . Neuron 108 , 17332 ( 2020 ). Wu , Z. , Lin , D. & Li , Y. Pushing the fron-ers: too ls for monitoring neurotransmiLers and neuromodulators . Nat. Rev. Neurosci . 23 , 2573274 ( 2022 ). Molina , R. S. et al. Understanding the Fluorescence Change in Red Gene-cally Encoded Calcium Ion Indicators . Biophysical Journal 116 , 187331886 ( 2019 ). Vu , C. Q. & Arai , S. Quan-ta-ve Imaging of Gene-cally E ncoded Fluorescence Life-me Biosensors . Biosensors (Basel) 13 , 939 ( 2023 ). Becker , W. Fluorescence life-me imaging--techniqu es and applica-ons . J Microsc 247 , 1193136 ( 2012 ). Yasuda , R. Imaging spa-otemporal dynamics of neuronal sig naling using ûuorescence resonance energy transfer and ûuorescence life-me imagin g microscopy . Current Opinion in Neurobiology 16 , 5513561 ( 2006 ). Ma , P. et al. Fluorescence life-me enables high-resolu-on analysis of neuromodulator dynamics across -me and animals . bioRxiv 2022 . 09 .28.510014 ( 2023 ). Del Tredici , A. L. et al. Pharmacology of polymorphic variants of the human 5-HT1A receptor . Biochem Pharmacol 67 , 4793490 ( 2004 ). Ho , B. Y. , Karschin , A. , Branchek , T. , Davidson , N. & Lester , H. A. The role of conserved aspartate and serine residues in ligand binding and in func-on of the 5-HT1A receptor: a site-directed muta-on study . FEBS LeD . 312 , 2593262 ( 1992 ). Jing , M. et al. An op-mized acetylcholine sensor for monitoring in viv o cholinergic ac-vity . Nature Methods 17 , 113931146 ( 2020 ).