Channelrhodopsins are a subfamily of retinylidene proteins (rhodopsins) that function as light-gated ion channels. They serve as sensory photoreceptors in unicellular green algae, controlling phototaxis: movement in response to light. Expressed in cells of other organisms, they enable light to control electrical excitability, intracellular acidity, calcium influx, and other cellular processes. Channelrhodopsin-1 (ChR1) and Channelrhodopsin-2 (ChR2) from the model organism Chlamydomonas reinhardtii are the first discovered channelrhodopsins. Variants have been cloned from other algal species, and more are expected.
Structurally, channelrhodopsins are retinylidene proteins. They are seven-transmembrane proteins like rhodopsin, and contain the light-isomerizable chromophore all-trans-retinal (an aldehyde derivative of vitamin A). The retinal chromophore is covalently linked to the rest of the protein through a protonated Schiff base. Whereas most 7-transmembrane proteins are G protein-coupled receptors that open other ion channels indirectly via second messengers (i.e. they are metabotropic), channelrhodopsins directly form ion channels (i.e. they are ionotropic). This makes cellular depolarization extremely fast, robust, and useful for bioengineering and neuroscience applications, including photostimulation.
ChR2 absorbs blue light with an absorption and action spectrum maximum at 480 nm. When the all-trans-retinal complex absorbs a photon, it induces a conformational change from all-trans to 13-cis-retinal. This change introduces a further one in the transmembrane protein, opening the pore to at least 6Å. Within milliseconds, the retinal relaxes back to the all-trans form, closing the pore and stopping the flow of ions. All channelrhodopsins are nonspecific cation channels, conducting H+, Na+, K+, and Ca2+ ions.
The C-terminal end of Channelrhodopsin-2 extends into the intracellular space and can be replaced by fluorescent proteins without affecting channel function. This kind of fusion construct can be useful to visualize the morphology of ChR2 expressing cells. Channel kinetics can be modified by point mutations close to the retinal binding pocket. For example, closing of the channel after optical activation can be substantially delayed by mutating a specific protein residue, C128. This modification results in a super-sensitive Channelrhodopsin that can be opened by a blue light pulse and closed by a green or yellow light pulse. Mutating the E123 residue accelerates channel kinetics, and the resulting ChR2 mutants have been used to spike neurons at up to 200 Hz. T159 mutants display increased photocurrents, and a combination of T159 and E123 (ET/TC) is both faster and more powerful than the original ChR2. To stimulate neurons with green light (540 nm), chimeric channelrhodopsins have been developed by combining transmembrane helices from ChR1 and VChR1. In combination with ChR2, these green-light-sensitive channelrhodopsins allow controlling two populations of neurons independently with light pulses of different color.
Channelrhodopsins can be readily expressed in excitable cells such as neurons using a variety of transfection techniques (viral transfection, electroporation, gene gun). The light absorbing pigment retinal is present in most cells (of vertebrates) as Vitamin A. This makes depolarization of excitable cells straightforward, useful for bioengineering and neuroscience applications such as photostimulation of neurons for probing of neural circuits. The blue-light sensitive ChR2 and the yellow light-activated chloride pump halorhodopsin together enable multiple-color optical activation and silencing of neural activity with millisecond precision. VChR1 from the colonial alga Volvox carteri absorbs maximally at 535 nm and had been used to stimulate cells with yellow light (580 nm), although photocurrents generated by VChR1 are typically very small. However, VChR1-ChR2 hybrids have been developed using directed evolution that display maximal excitation at 560 nm, and 50% of peak absorbance at wavelengths over 600 nm. The emerging field of controlling networks of genetically modified cells with light has been termed Optogenetics.
Using fluorescently labeled ChR2, light-stimulated axons and synapses can be identified in intact brain tissue. This is useful to study the molecular events during the induction of synaptic plasticity. ChR2 has been used to map long-range connections from one side of the brain to the other, and to map the spatial location of inputs on the dendritic tree of individual neurons.
The behavior of transgenic animals expressing ChR2 in subpopulations of neurons can be remote-controlled by intense blue light. This has been demonstrated in nematodes, fruit flies, zebrafish, and in mice. Visual function in blind mice can be partially restored by expressing ChR2 in inner retinal cells. In the future, ChR2 might find medical applications, e.g. in forms of retinal degeneration or for deep brain stimulation.
The nucleotide sequences of ChR1 and ChR2 were uncovered in a large-scale EST sequencing project in C. reinhardtii. Independent submission of the same sequences to GenBank by three research groups generated confusion about their naming: the names cop-3 and cop-4 were used for initial submission by Hegemann's group; csoA and csoB by Spudich's group; and acop-1 and acop-2 by Takahashi's group. When both sequences were found to function as single-component light-activated cation channels in a heterologous system by Georg Nagel, Ernst Bamberg, Peter Hegemann and others, the name "channelrhodopsins" was coined to highlight this unusual property, and the sequences were renamed. Meanwhile, their roles in generation of photoreceptor currents in algal cells were characterized by Oleg Sineshchekov, Kwang-Hwan Jung and John Spudich.
In 2005, three groups sequentially established ChR2 as a tool for genetically targeted optical remote control (optogenetics) of neurons, neural circuits and behavior. At first, Karl Deisseroth's lab (in a paper published in August 2005) demonstrated that ChR2 could be deployed to control mammalian neurons in vitro, achieving temporal precision on the order of milliseconds (both in terms of delay to spiking, as well as in terms of temporal jitter). This was a significant finding, since firstly, all opsins (microbial as well as vertebrate) require retinal as the light-sensing co-factor and it was unclear if central mammalian nerve cells would contain sufficient retinal levels - but surprisingly, they do. Secondly, it showed despite the small single-channel conductance, sufficient potency to drive mammalian neurons above action potential threshold. Thirdly, it demonstrated channelrhodopsin to be the first optogenetic tool, with which neural activity could be controlled with the temporal precision at which neurons operate (a few milliseconds); an earlier tool for photostimulation, cHARGe, demonstrated proof of principle in cultured neurons but was never usable since it operated with a precision on the order of seconds, was highly variable, and did not allow control of individual action potentials.
A second study was published later by Peter Hegemann's and Stefan Herlitze's groups confirming the ability of ChR2 to control the activity of vertebrate neurons, at this time in the chick spinal cord. This study was the first where ChR2 was expressed alongside an optical silencer, vertebrate rhodopsin-4 in this case, demonstrating for the first time that excitable cells could be activated and silenced using these two tools simultaneously, but illuminating the tissue at different wavelengths.
The groups of Alexander Gottschalk and Ernst Bamberg (with Georg Nagel taking the experimental lead) demonstrated that ChR2, if expressed in specific neurons or muscle cells, can evoke predictable behaviours, i.e. can control the nervous system of an intact animal, in this case the invertebrate C. elegans. This was the first study using the remote control using ChR2 to steer the behaviour of an animal. It was the first using ChR2 for an optogenetic experiment - i.e. that rendered genetically specified cell types subject to optical remote control. Although both aspects had been illustrated earlier that year by another group, the Miesenböck lab, deploying the indirectly light-gated ion channel P2X2, it was henceforth microbial opsins like channelrhodopsin that dominated the field of genetically targeted remote control of excitable cells, due to the power, speed, targetability, ease of use, and temporal precision of direct optical activation, not requiring any external chemical compound such as caged ligands.
To overcome its principle downsides - the small single-channel conductance (especially in steady-state), the fixation on one optimal excitation wavelength (~470 nm, blue) as well as the relatively long recovery time, not permitting controlled firing of neurons above 20–40 Hz - ChR2 has been optimized using genetic engineering: The first optimization involved the point mutation H134R (exchanging the amino acid Histidine in position 134 of the native protein for an Arginine), and published in the same paper, that established ChR2 as an optogenetic tool in C. elegans. Further improvements were mainly carried by the close collaboration between the groups of Hegemann and Deisseroth. They included the introduction of the point mutation C128S, which made the resulting ChR2-derivative a step-function tool, that stays in the open state once "switched on" by blue light, until it is switched off by yellow light - a modification that deteriorates temporal precision, but increases light sensitivity by two orders of magnitude. One year later (2010) the same authors introduced a mutation into the native molecule, E123T, yielding the ChR2-derivative ChETA, which has a higher single-channel conductance (in the desensitized/steady state), and a faster on- and off-kinetics, permitting the control of individual action potentials at frequencies of at least up to 200 Hz (in appropriate cell types).
Roger Tsien's lab optimized ChR2 towards the same direction (higher steady-state conductance), by creating chimeras of ChR1 and ChR2 and mutating them at decisive amino acids, yielding the tools ChEF and ChIEF. Finally, the groups of Hegemann and Deisseroth discovered VChR1 in the multicellular algae Volvox carteri. VChR1 produces only tiny photocurrents, but with an absorption spectrum that is red-shifted relative to ChR2. Using parts of the ChR1 sequence, photocurrent amplitude was later improved to allow excitation of two neuronal populations at two distinct wavelengths.
Deisseroth's group is developing viral vectors for genetic targeting of ChR2 and its derivatives and has pioneered many applications in live animals such as genetically targeted remote control in rodents in vivo, the optogenetic induction of learning in rodents, the experimental treatment of Parkinson's disease in rats, and the combination with fMRI (opto-fMRI). Other labs have pioneered the combination of ChR2 stimulation with calcium imaging for all-optical experiments, mapping of long-range and local neural circuits, ChR2 expression from a transgenic locus - directly or in the Cre-lox conditional paradigm - as well as the two-photon excitation of ChR2, permitting the activation of individual cells.
In March 2013, the Brain Prize (Grete Lundbeck European Brain Research Prize) was jointly awarded to Ernst Bamberg, Edward Boyden, Karl Deisseroth, Peter Hegemann, Gero Miesenböck, and Georg Nagel for "their invention and refinement of optogenetics".
- Nagel G, Ollig D, Fuhrmann M, Kateriya S, Musti AM, Bamberg E, Hegemann P (June 2002). "Channelrhodopsin-1: a light-gated proton channel in green algae". Science 296 (5577): 2395–8. doi:10.1126/science.1072068. PMID 12089443.
- Sineshchekov OA, Jung KH, Spudich JL (June 2002). "Two rhodopsins mediate phototaxis to low- and high-intensity light in Chlamydomonas reinhardtii". Proc. Natl. Acad. Sci. U.S.A. 99 (13): 8689–94. doi:10.1073/pnas.122243399. PMC 124360. PMID 12060707.
- Kato HE, Zhang F, Yizhar O, Ramakrishnan C, Nishizawa T, Hirata K, Ito J, Aita Y, Tsukazaki T, Hayashi S, Hegemann P, Maturana AD, Ishitani R, Deisseroth K, Nureki O (February 2012). "Crystal structure of the channelrhodopsin light-gated cation channel". Nature 482 (7385): 369–74. doi:10.1038/nature10870. PMID 22266941.
- Nagel G, Szellas T, Huhn W, Kateriya S, Adeishvili N, Berthold P, Ollig D, Hegemann P, Bamberg E (November 2003). "Channelrhodopsin-2, a directly light-gated cation-selective membrane channel". Proc. Natl. Acad. Sci. U.S.A. 100 (24): 13940–5. doi:10.1073/pnas.1936192100. PMC 283525. PMID 14615590.
- Bamann C, Kirsch T, Nagel G, Bamberg E (January 2008). "Spectral characteristics of the photocycle of channelrhodopsin-2 and its implication for channel function". J. Mol. Biol. 375 (3): 686–94. doi:10.1016/j.jmb.2007.10.072. PMID 18037436.
- Boyden ES, Zhang F, Bamberg E, Nagel G, Deisseroth K (September 2005). "Millisecond-timescale, genetically targeted optical control of neural activity". Nat. Neurosci. 8 (9): 1263–8. doi:10.1038/nn1525. PMID 16116447.
- Zhang YP, Oertner TG (February 2007). "Optical induction of synaptic plasticity using a light-sensitive channel". Nat. Methods 4 (2): 139–41. doi:10.1038/nmeth988. PMID 17195846.
- Berndt A, Yizhar O, Gunaydin LA, Hegemann P, Deisseroth K (February 2009). "Bi-stable neural state switches". Nat. Neurosci. 12 (2): 229–34. doi:10.1038/nn.2247. PMID 19079251.
- Schoenenberger P, Gerosa D, Oertner TG (2009). "Temporal control of immediate early gene induction by light". PLoS ONE 4 (12): e8185. doi:10.1371/journal.pone.0008185. PMC 2780714. PMID 19997631.
- Gunaydin LA, Yizhar O, Berndt A, Sohal VS, Deisseroth K, Hegemann P (March 2010). "Ultrafast optogenetic control". Nat. Neurosci. 13 (3): 387–92. doi:10.1038/nn.2495. PMID 20081849.
- Berndt A, Schoenenberger P, Mattis J, Tye KM, Deisseroth K, Hegemann P, Oertner TG (May 2011). "High-efficiency channelrhodopsins for fast neuronal stimulation at low light levels". Proc. Natl. Acad. Sci. U.S.A. 108 (18): 7595–600. doi:10.1073/pnas.1017210108. PMC 3088623. PMID 21504945.
- Yizhar O, Fenno LE, Prigge M, Schneider F, Davidson TJ, O'Shea DJ, Sohal VS, Goshen I, Finkelstein J, Paz JT, Stehfest K, Fudim R, Ramakrishnan C, Huguenard JR, Hegemann P, Deisseroth K (September 2011). "Neocortical excitation/inhibition balance in information processing and social dysfunction". Nature 477 (7363): 171–8. doi:10.1038/nature10360. PMID 21796121.
- Han X, Boyden ES (2007). "Multiple-color optical activation, silencing, and desynchronization of neural activity, with single-spike temporal resolution". PLoS ONE 2 (3): e299. doi:10.1371/journal.pone.0000299. PMC 1808431. PMID 17375185.
- Zhang F, Wang LP, Brauner M, Liewald JF, Kay K, Watzke N, Wood PG, Bamberg E, Nagel G, Gottschalk A, Deisseroth K (April 2007). "Multimodal fast optical interrogation of neural circuitry". Nature 446 (7136): 633–9. doi:10.1038/nature05744. PMID 17410168.
- Zhang F, Prigge M, Beyrière F, Tsunoda SP, Mattis J, Yizhar O, Hegemann P, Deisseroth K (June 2008). "Red-shifted optogenetic excitation: a tool for fast neural control derived from Volvox carteri". Nat. Neurosci. 11 (6): 631–3. doi:10.1038/nn.2120. PMC 2692303. PMID 18432196.
- Yizhar, Omar; Fenno, Huguenard, Hegemann, Deisseroth (September 2011). "Neocortical excitation/inhibition balance in information processing and social dysfunction". Nature 477: 171–178. doi:10.1038/nature10360.
- Zhang YP, Holbro N, Oertner TG (August 2008). "Optical induction of plasticity at single synapses reveals input-specific accumulation of alphaCaMKII". Proc. Natl. Acad. Sci. U.S.A. 105 (33): 12039–44. doi:10.1073/pnas.0802940105. PMC 2575337. PMID 18697934.
- Petreanu L, Huber D, Sobczyk A, Svoboda K (May 2007). "Channelrhodopsin-2-assisted circuit mapping of long-range callosal projections". Nat. Neurosci. 10 (5): 663–8. doi:10.1038/nn1891. PMID 17435752.
- Petreanu L, Mao T, Sternson SM, Svoboda K (February 2009). "The subcellular organization of neocortical excitatory connections". Nature 457 (7233): 1142–5. doi:10.1038/nature07709. PMC 2745650. PMID 19151697.
- Douglass AD, Kraves S, Deisseroth K, Schier AF, Engert F (August 2008). "Escape behavior elicited by single, channelrhodopsin-2-evoked spikes in zebrafish somatosensory neurons". Curr. Biol. 18 (15): 1133–7. doi:10.1016/j.cub.2008.06.077. PMC 2891506. PMID 18682213.
- Huber D, Petreanu L, Ghitani N, Ranade S, Hromádka T, Mainen Z, Svoboda K (January 2008). "Sparse optical microstimulation in barrel cortex drives learned behaviour in freely moving mice". Nature 451 (7174): 61–4. doi:10.1038/nature06445. PMC 3425380. PMID 18094685.
- Bi A, Cui J, Ma YP, Olshevskaya E, Pu M, Dizhoor AM, Pan ZH (April 2006). "Ectopic expression of a microbial-type rhodopsin restores visual responses in mice with photoreceptor degeneration". Neuron 50 (1): 23–33. doi:10.1016/j.neuron.2006.02.026. PMC 1459045. PMID 16600853.
- Lagali PS, Balya D, Awatramani GB, Münch TA, Kim DS, Busskamp V, Cepko CL, Roska B (June 2008). "Light-activated channels targeted to ON bipolar cells restore visual function in retinal degeneration". Nat. Neurosci. 11 (6): 667–75. doi:10.1038/nn.2117. PMID 18432197.
- Kateriya, S. Fuhrmann, M. Hegemann, P.: Direct Submission: Chlamydomonas reinhardtii retinal binding protein (cop4) gene; GenBank accession number AF461397
- Suzuki T, Yamasaki K, Fujita S, Oda K, Iseki M, Yoshida K, Watanabe M, Daiyasu H, Toh H, Asamizu E, Tabata S, Miura K, Fukuzawa H, Nakamura S, Takahashi T (February 2003). "Archaeal-type rhodopsins in Chlamydomonas: model structure and intracellular localization". Biochem. Biophys. Res. Commun. 301 (3): 711–7. doi:10.1016/S0006-291X(02)03079-6. PMID 12565839.
- Zemelman BV, Lee GA, Ng M, Miesenböck G (January 2002). "Selective photostimulation of genetically chARGed neurons". Neuron 33 (1): 15–22. doi:10.1016/S0896-6273(01)00574-8. PMID 11779476.
- Li X, Gutierrez DV, Hanson MG, Han J, Mark MD, Chiel H, Hegemann P, Landmesser LT, Herlitze S (December 2005). "Fast noninvasive activation and inhibition of neural and network activity by vertebrate rhodopsin and green algae channelrhodopsin". Proc. Natl. Acad. Sci. U.S.A. 102 (49): 17816–21. doi:10.1073/pnas.0509030102. PMC 1292990. PMID 16306259.
- Nagel G, Brauner M, Liewald JF, Adeishvili N, Bamberg E, Gottschalk A (December 2005). "Light activation of channelrhodopsin-2 in excitable cells of Caenorhabditis elegans triggers rapid behavioral responses". Curr. Biol. 15 (24): 2279–84. doi:10.1016/j.cub.2005.11.032. PMID 16360690.
- Lima SQ, Miesenböck G (April 2005). "Remote control of behavior through genetically targeted photostimulation of neurons". Cell 121 (1): 141–52. doi:10.1016/j.cell.2005.02.004. PMID 15820685.
- Zhang F, Wang LP, Boyden ES, Deisseroth K (October 2006). "Channelrhodopsin-2 and optical control of excitable cells". Nat. Methods 3 (10): 785–92. doi:10.1038/nmeth936. PMID 16990810.
- Lin JY, Lin MZ, Steinbach P, Tsien RY (March 2009). "Characterization of engineered channelrhodopsin variants with improved properties and kinetics". Biophys. J. 96 (5): 1803–14. doi:10.1016/j.bpj.2008.11.034. PMC 2717302. PMID 19254539.
- Adamantidis AR, Zhang F, Aravanis AM, Deisseroth K, de Lecea L (November 2007). "Neural substrates of awakening probed with optogenetic control of hypocretin neurons". Nature 450 (7168): 420–4. doi:10.1038/nature06310. PMID 17943086.
- Tsai HC, Zhang F, Adamantidis A, Stuber GD, Bonci A, de Lecea L, Deisseroth K (May 2009). "Phasic firing in dopaminergic neurons is sufficient for behavioral conditioning". Science 324 (5930): 1080–4. doi:10.1126/science.1168878. PMID 19389999.
- Gradinaru V, Mogri M, Thompson KR, Henderson JM, Deisseroth K (April 2009). "Optical deconstruction of parkinsonian neural circuitry". Science 324 (5925): 354–9. doi:10.1126/science.1167093. PMID 19299587.
- Kravitz AV, Freeze BS, Parker PR, Kay K, Thwin MT, Deisseroth K, Kreitzer AC (July 2010). "Regulation of parkinsonian motor behaviours by optogenetic control of basal ganglia circuitry". Nature 466 (7306): 622–6. doi:10.1038/nature09159. PMID 20613723.
- Lee JH, Durand R, Gradinaru V, Zhang F, Goshen I, Kim DS, Fenno LE, Ramakrishnan C, Deisseroth K (June 2010). "Global and local fMRI signals driven by neurons defined optogenetically by type and wiring". Nature 465 (7299): 788–92. doi:10.1038/nature09108. PMC 3177305. PMID 20473285.
- Petreanu L, Huber D, Sobczyk A, Svoboda K (May 2007). "Channelrhodopsin-2-assisted circuit mapping of long-range callosal projections". Nat. Neurosci. 10 (5): 663–8. doi:10.1038/nn1891. PMID 17435752.
- Kätzel D, Zemelman BV, Buetfering C, Wölfel M, Miesenböck G (January 2011). "The columnar and laminar organization of inhibitory connections to neocortical excitatory cells". Nat. Neurosci. 14 (1): 100–7. doi:10.1038/nn.2687. PMC 3011044. PMID 21076426.
- Wang H, Peca J, Matsuzaki M, Matsuzaki K, Noguchi J, Qiu L, Wang D, Zhang F, Boyden E, Deisseroth K, Kasai H, Hall WC, Feng G, Augustine GJ (May 2007). "High-speed mapping of synaptic connectivity using photostimulation in Channelrhodopsin-2 transgenic mice". Proc. Natl. Acad. Sci. U.S.A. 104 (19): 8143–8. doi:10.1073/pnas.0700384104. PMC 1876585. PMID 17483470.
- Mohanty SK, Reinscheid RK, Liu X, Okamura N, Krasieva TB, Berns MW (October 2008). "In-depth activation of channelrhodopsin 2-sensitized excitable cells with high spatial resolution using two-photon excitation with a near-infrared laser microbeam". Biophys. J. 95 (8): 3916–26. doi:10.1529/biophysj.108.130187. PMC 2553121. PMID 18621808.
- Rickgauer JP, Tank DW (September 2009). "Two-photon excitation of channelrhodopsin-2 at saturation". Proc. Natl. Acad. Sci. U.S.A. 106 (35): 15025–30. doi:10.1073/pnas.0907084106. PMC 2736443. PMID 19706471.
- Andrasfalvy BK, Zemelman BV, Tang J, Vaziri A (June 2010). "Two-photon single-cell optogenetic control of neuronal activity by sculpted light". Proc. Natl. Acad. Sci. U.S.A. 107 (26): 11981–6. doi:10.1073/pnas.1006620107. PMC 2900666. PMID 20543137.
Further reading 
- Arenkiel BR, Peca J, Davison IG, et al. (April 2007). "In vivo light-induced activation of neural circuitry in transgenic mice expressing channelrhodopsin-2". Neuron 54 (2): 205–18. doi:10.1016/j.neuron.2007.03.005. PMID 17442243. (Using channelrhodopsin in transgenic mice to study brain circuitry)
- Bi A, Cui J, Ma YP, et al. (April 2006). "Ectopic Expression of a Microbial-Type Rhodopsin Restores Visual Responses in Mice with Photoreceptor Degeneration". Neuron 50 (1): 23–33. doi:10.1016/j.neuron.2006.02.026. PMC 1459045. PMID 16600853. (Using channelrhodopsin potentially to treat blindness)