More roGFP-based fusion proteins have been developed for the detection of species-specific redox compounds (
Figure 4b). Mrx1-roGFP2 is a fusion protein of roGFP2 and mycoredoxin-1 (Mrx-1), an oxidoreductase dependent on mycothiol, an unusual thiol compound found in the actinobacteria that functions as a redox buffer
[94][51] (
Figure 4c). Brx-roGFP2 is a fusion protein of roGFP2 and bacilliredoxin (Brx), designed for the measurement of the redox potential for bacillithiol, which works in
Staphylococcus aureus cells as a glutathione surrogate
[95,96][52][53]. Tpx-roGFP2 is a fusion protein of roGFP2 with tryparedoxin (Tpx), a Prxs, for the detection of trypanothione in
Trypanosoma [64][54].
Sugiura and colleagues set up a series of sensors based on cyan FP (CFP), Sirius, mTurquois, and Venus mutants
[97,98][55][56]. By inserting Cys residue couples inspired to the roGFP structure, the authors obtained two series of redox-sensitive proteins called Oba-Q (oxidation balance-sensed quenching) and Re-Q (reduction-sensed quenching), having different midpoint redox potentials applicable in different cellular environments; they generally were not pH-sensitive in physiological conditions and the different emission wavelengths consented their simultaneous use. As a drawback, however, the signal of Oba-Q and Re-Q proteins was non-ratiometric and their fluorescence intensity was proportional to their expression levels. Taking advantage of the expertise on mTurquois and Venus mutants, the same research group also conceived a FRET-based biosensor, where the two FTs were separated by the N-terminus of the Trx-targeted protein CP12 from
A. thaliana or the cyanobacterium Anabaena sp. PCC7120 (
Figure 4d)
[98][56]. These sensors were called CROST (Change in RedOx State of Trx) 1 and 2, respectively, and could discriminate the Trx redox state directly.
Another type of sensor was then developed to monitor in living cells the glutathione redox state fluctuations through Grx activity. Indeed, Grx-FROG/B, composed of the human Grx1 domain connected by a linker to a mutant GFP, exploits a mechanism called excitation state intramolecular proton transfer (ESIPT) that gives green fluorescence in oxidizing conditions and blue emission in reducing ones, with a midpoint redox potential of −293 mV and a good response at physiological pH values (
Figure 4e). The green/blue output of Grx-FROG/B can be registered at the same time by a multiplex detector
[99][57].
3.3. ROS Sensors Based on Circularly Permuted FPs
Circular permutation of proteins, a naturally occurring event first described in lectins
[100][58], consists of the modification of their primary structure by fusing the natural N- and C-termini with peptide linkers and creating new extremities, generally on exposed flexible loops (
Figure 4f). Based on this approach, it is possible to insert ROS-sensitive domains inside GFP or other FP sequences, producing a chimeric structure. The native folding is easily preserved but, at the same time, it is possible to modulate FP intrinsic fluorescence through conformational rearrangements promoted by ligand binding to the receptor domain
[101,102][59][60].
HyPer sensors were developed, starting in 2006, by Belousov and co-workers, by exploiting circularly permuted FPs (
Figure 4g)
[103,104,105,106][61][62][63][64]. A circularly permuted YFP (cpYFP) was modified to develop a chimeric construct with the regulatory domain (RD, residues 80–310) of the OxyR transcription factor from
E. coli, specifically sensitive to H
2O
2 [103][61]. Under oxidizing conditions, OxyR switched to the DNA binding-competent form with Cys199 and Cys208 engaging in a disulfide bond. The cpYFP sequence was inserted between residues 205 and 206 of OxyR-RD by exploiting two short linkers, and the chimeric structure assembled as weak dimers
[105][63]. This reaction required the formation of sulfenic acid derivatives between H
2O
2 and Cys199; Cys199 was then repelled by the hydrophobic pocket and approached Cys208 to bridge
[107][65].
In the following years, an advanced version of HyPer was developed by the same research group to improve the biosensor dynamic range. The A406V mutation, corresponding to an amino acid substitution on the OxyR-RD moiety (A233V on the OxyR wild type sequence), was fortuitously discovered as improving two-fold the HyPer dynamic range; the new probe was called HyPer-2
[105][63].
rxRFP features have been exploited also by Ai’s research group to develop the first genetically encoded biosensor for Trx redox system monitoring
[114][66]. Specifically, the optimal coupling of the redox cysteine pairs of human Trx1 and rxRFP was obtained by inserting a Gly-Ser-rich linker between the two proteins; several mutation rounds led to the set-up of TrxRFP1 (
Figure 4h), which showed a fluorescence fingerprint identical to rxRFP1 alone, presenting excitation and emission maxima at 576 nm and 600 nm, respectively, with a 5.7-fold fluorescence increase in dynamic range. The result was the development of a fluorescent probe highly responsive to Trx peroxidase-mediated H
2O
2 oxidation, even at a nanomolar concentration; its midpoint redox potential of −281 mV makes this sensor suitable for cytoplasmic measurements in live cells where, also, TrxRFP1 is not directly oxidized by H
2O
2 and is not influenced by the presence of glutathione, a characteristic that consents the specific monitoring of the cellular Trx redox system
[114,115][66][67].
The transcriptional regulator OhrR from
Xanthomonas campestris can sense and respond to organic hydroperoxides via the oxidation of a cysteine residue, which induces a large conformational rearrangement predisposing the formation of an intermolecular disulfide bridge. Chen’s group exploited the behavior of OhrR to develop an organic hydroperoxide sensor by inserting a circularly permuted version of the fluorescent Venus protein (cpVenus) between OhrR residues 119 and 120 (
Figure 4i)
[117][68]. The probe, named OHSer (organic hydroperoxide sensor), showed a fluorescence emission at 526 nm upon excitation at 519 nm, a spectral property that adapted well to the reduction of biological damage during in vivo measurements.
3.4. ROS Sensors Based on LOV Domains
The light–oxygen–voltage-sensing domains (LOV domains)
[118][69] are part of the PAS domain superfamily
[119][70] (named after three proteins in which it occurs, i.e., Per, Arnt, and Sim) and are present in proteins from higher plants, microalgae, fungi, and bacteria. LOV-containing proteins are involved in the detection and adaptation to environmental changes. Particularly, LOV domains are involved in controlling phototropism, chloroplast movements, and stomatal opening in higher plants
[120][71]. In fungi, they are involved in the circadian temporal organization of the cells. LOV domains consist of 110 to 140 amino acids organized in 5 antiparallel β-sheets and several α-helices and contain a blue-light sensitive flavin chromophore, usually flavin mononucleotide (FMN) (
Figure 3c)
[121][72]. The LOV domain of LOV-containing proteins serves as a photoswitch, activating kinase, phosphodiesterase, and DNA-binding domains upon light absorption
[122][73].
Other than being used as fluorescent reporters, engineered LOV domains have been used to devise sensors, ranging from metals
[124][74] to O
2 [30][21]. LOV-based chimeras have also been used to develop sensors for the intracellular redox state. Among LOV-based sensors, a dual-function pH and redox-sensitive FP named pHaROS has been devised as a sensor for both H
2O
2 and pH in living cells. It consists of the iLOV domain fused with mBeRFP, a variant of the monomeric far-red FP mKATE (
Figure 4l)
[125,126][75][76]. The iLOV portion of pHaROS can reversibly gain an electron and displays fluorescence intensity changes depending on the redox state. GRX1-pHaROS is a fusion protein of pHaROS and Grx1, which confers higher redox specificity
[125][75], in a manner similar to Grx1-roGFP2 (
Figure 4m)
[84,85][44][45].
3.5. ROS Sensors Based on YAP1
YAP1 is a transcriptional regulator that activates the transcription of genes involved in oxidative stress response and redox homeostasis in
S. cerevisiae. YAP1, which is partially disordered, can undergo conformational changes affecting disulfide bond formation at two cysteine-rich domains (CRDs) that mask the nuclear export signal, thus preventing its nuclear export. In
S. cerevisiae Yap1 and Orp1 constitute a redox relay system, where Yap1 is oxidized by the peroxidase Orp1 in the presence of H
2O
2. Two genetically encoded sensors for H
2O
2 based on Yap1 were reported, based on the FRET couple Cerulean Δ11 and Cp173 Venus separated by the two CRDs of Yap1 (OxyFRET,
Figure 4n)
[127][77] or by Orp1 linked with the C-terminal CRD of Yap1 (PerFRET,
Figure 4o)
[127][77].
3.6. ROS Sensors Based on Peroxiredoxin
Peroxiredoxins (Prxs) (
Figure 3d) belonging to the “AhpC-Prx1” subfamily, such as mammalian Prx1 and Prx2, carry the peroxidatic and resolving cysteines on two different subunits. Upon oxidation in response to H
2O
2 increases, these Prx undergo a conformational rearrangement followed by dimerization. This mechanism has been used to devise a fusion-protein FRET couple with FPs perClover and mRuby2 separated by human Prx2 (
Figure 4p)
[130][78]. Upon excitation at 488 nm, the 625/525 nm emission ratio increased in function of H
2O
2 sensing, without the interference of pH fluctuations. The probe was highly selective toward H
2O
2, with the only exception of TBHP, which naturally reacted with Prxs. To characterize the response of the cytosolic probe to H
2O
2, HeLa cells were transfected with the probe-encoding gene, put in contact with an external bolus addition of H
2O
2, and imaged with a widefield microscope
[130][78].