Calcium reporter gene

Abstract

As a calcium indicator protein having an excellent fluorescent characteristic and calcium reactivity, there is provided DNA in which one of a nucleotide sequence derivative of a calmodulin-binding sequence (ckkap sequence) of calcium/calmodulin-dependent protein kinase kinase and a nucleotide sequence encoding a calcium-binding sequence (CaM sequence) of calmodulin is linked to a 5 end of a nucleotide sequence encoding a fluorescent protein, and the other nucleotide sequence is linked to a 3 end of the nucleotide sequence encoding the fluorescent protein. The calcium indicator protein encoded by this DNA, which based on the derivative of the ckkap sequence as a binding domain for the calcium-bound CaM sequence, exhibits a fluorescent characteristic and calcium reactivity superior to those of conventional calcium indicator proteins.

Claims

1. A DNA comprising: a first nucleotide sequence encoding a calmodulin-binding sequence (ckkap sequence) of calcium/calmodulin-dependent protein kinase kinase, wherein the ckkap sequence is the amino acid sequence set forth in SEQ ID NO: 6; and a second nucleotide sequence encoding a calcium-binding sequence (CaM sequence) of calmodulin, wherein one of the first or second nucleotide sequence is linked to a 5 end of a nucleotide sequence encoding a fluorescent protein, and the other of the first or second nucleotide sequence is linked to a 3 end of the nucleotide sequence encoding the fluorescent protein.

2. The DNA according to claim 1, wherein the first nucleotide sequence and the second nucleotide sequence are each linked to the nucleotide sequence encoding the fluorescent protein via a nucleotide sequence encoding an amino acid linker.

3. The DNA according to claim 2, wherein the first nucleotide sequence is linked to the 5 end of the nucleotide sequence encoding the fluorescent protein, and the second nucleotide sequence is linked to the 3 end of the nucleotide sequence encoding the fluorescent protein, the first nucleotide sequence and the nucleotide sequence encoding the fluorescent protein are linked via a nucleotide sequence encoding an amino acid linker A, and the nucleotide sequence encoding the fluorescent protein and the second nucleotide sequence are linked via a nucleotide sequence encoding an amino acid linker B, and wherein the amino acid linker A is (-Pro-Val-) and the amino acid linker is B (-Thr-Arg-).

4. A vector comprising the DNA according to claim 1.

5. A protein comprising: a first polypeptide sequence comprising a calmodulin-binding sequence (ckkap sequence) of calcium/calmodulin-dependent protein kinase kinase, wherein the ckkap sequence is the amino acid sequence set forth in SEQ ID NO: 6; and a second polypeptide sequence comprising a calcium-binding sequence (CaM sequence) of calmodulin, wherein one of the first or second polypeptide sequence is linked to an N-terminus of a polypeptide sequence comprising a fluorescent protein, and the other of the first or second polypeptide sequence is linked to a C-terminus of the polypeptide sequence comprising the fluorescent protein.

6. The protein according to claim 5, wherein the first polypeptide sequence and the second polypeptide sequence are each linked to the polypeptide sequence comprising the fluorescent protein via an amino acid linker.

7. The protein according to claim 6, wherein the first polypeptide sequence is linked to the N-terminus of the polypeptide sequence comprising the fluorescent protein, and the second polypeptide sequence is linked to the C-terminus of the polypeptide sequence comprising the fluorescent protein, the first polypeptide sequence and the polypeptide sequence comprising the fluorescent protein are linked via an amino acid linker A, and the polypeptide sequence comprising the fluorescent protein and the second polypeptide sequence are linked via an amino acid linker B, and wherein the amino acid linker A is (-Pro-Val-) and the amino acid linker B is (-Thr-Arg-).

8. A calcium indicator reagent for measuring an action potential in a cell and/or imaging a calcium ion in a cell, the reagent comprising: (i) a DNA comprising a first nucleotide sequence encoding a calmodulin-binding sequence (ckkap sequence) of calcium/calmodulin-dependent protein kinase kinase, wherein the ckkap sequence is the amino acid sequence set forth in SEQ ID NO: 6, and a second nucleotide sequence encoding a calcium-binding sequence (CaM sequence) of calmodulin, wherein one of the first or second nucleotide sequence is linked to a 5 end of a nucleotide sequence encoding a fluorescent protein, and the other of the first or second nucleotide sequence is linked to a 3 end of the nucleotide sequence encoding the fluorescent protein, or (ii) a vector comprising the DNA of (i).

9. The reagent according to claim 8, wherein the cell is a neuron.

10. A vector comprising the DNA according to claim 2.

11. A vector comprising the DNA according to claim 3.

Description

BRIEF DESCRIPTION OF DRAWINGS

(1) FIG. 1 shows the structures of the calcium indicator protein R-CaMP2 according to the present invention and the calcium indicator protein R-CaMP1.07 according to a known technique.

(2) FIG. 2A shows examples of amino acid sequences of coding derivatives of ckkap sequences of the calcium indicator protein according to the present invention.

(3) FIG. 2B shows other examples of amino acid sequences of coding derivatives of ckkap sequences of the calcium indicator protein according to the present invention.

(4) FIG. 3 shows Ca.sup.2+ titration curves of R-CaMP1.07, R-CaMP2, and R-GECO2L; the curves were fit according to the Hill equation.

(5) FIG. 4 shows baseline fluorescence intensities and dynamic ranges (Fmax/Fmin) in vitro of R-CaMP1.07, R-CaMP2, and R-GECO2L.

(6) FIG. 5A shows cultured hippocampal neurons expressing EGFP and R-CaMP2. FIG. 5B shows cultured hippocampal neurons expressing EGFP and R-GECO2L. Scale bars: 10 m.

(7) FIG. 6 shows fluorescence changes in response to field stimulation-evoked single action potentials, recorded from synaptic boutons of cultured hippocampal neurons.

(8) FIG. 7 shows fluorescence changes in response to a single UV-uncaging pulse of MNI-glutamate, recorded from the soma of cultured hippocampal neurons.

(9) FIG. 8 shows traces of one trial (gray) and an average response of individual trials of each of R-CaMP1.07, R-CaMP2, and R-GECO2L in single action potential-evoked Ca.sup.2+ imaging in synaptic boutons.

(10) FIG. 9 shows single action potential amplitudes, SNRs, rise times, and decay time constants in single action potential-evoked Ca.sup.2+ imaging in synaptic boutons.

(11) FIG. 10A shows traces of a single trial (n=9) and an average response of individual trials in response to a single pulse of glutamate uncaging in the soma of cultured hippocampal neurons expressing R-CaMP1.07. FIG. 10B shows traces of a single trial (n=9) and an average response of individual trials in response to a single pulse of glutamate uncaging in the soma of cultured hippocampal neurons expressing R-CaMP2.

(12) FIG. 11 shows amplitudes, SNRs, rise times, and decay time constants in response to a single pulse of glutamate uncaging in the soma of cultured hippocampal neurons.

(13) FIG. 12 shows a comparison between R-CaMP2 and R-CaMP1.07 in fluorescence changes (F/F) in response to action potentials in pyramidal cells in the layer of the barrel field in acute slices (n=10 cells).

(14) FIG. 13A shows amplitudes, SNRs, rise times, and decay time constants of single action potential-evoked Ca.sup.2+ responses in acute slices.

(15) FIG. 13B shows a comparison between R-CaMP2_LLA and R-CaMP2 in fluorescence changes (F/F) in response to action potentials in pyramidal cells in the layer of the barrel field in acute slices (n=10 cells).

(16) FIG. 13C shows fluorescence changes (F/F) of X-CaMPGreen in response to action potentials in pyramidal cells in the layer of the barrel field in acute slices (n=10 cells), in comparison with those of the calcium indicator proteins, GCaMP6s and GCaMP6f, according to known techniques.

(17) FIG. 14 shows representative traces (top) and average performance (bottom) of R-CaMP1.07- and R-CaMP2-expressing neurons in response to one, two, four, and eight spikes at 20 Hz, in pyramidal cells in the layer of the barrel field in acute slices.

(18) FIG. 15A shows single-trial responses of R-CaMP1.07 when clamped to five spikes and stimulated at difference frequencies in pyramidal cells in the layer of the barrel field in acute slices.

(19) FIG. 15B shows single-trial responses of R-CaMP2 when clamped to five spikes and stimulated at difference frequencies in pyramidal cells in the layer of the barrel field in acute slices.

(20) FIG. 15C shows single-trial responses of R-CaMP2_LLA when clamped to five spikes and stimulated at difference frequencies in pyramidal cells in the layer of the barrel field in acute slices.

(21) FIG. 15D shows single-trial responses of X-CaMPGreen when clamped to five spikes and stimulated at difference frequencies in pyramidal cells in the layer of the barrel field in acute slices (A); and shows the results for GCaMP6f for comparison (B).

(22) FIG. 16 shows the results obtained by recording air-puff whisker stimulation-evoked Ca.sup.2+ transients in a plurality of neurons by in vivo imaging.

(23) FIG. 17 shows representative traces of simultaneous recording of Ca.sup.2+ transients (top) and action potentials (bottom) in R-CaMP2-expressing neocortical neurons in vivo; the number of spikes in each burst is shown under the traces; scale bars: 5 m.

(24) FIG. 18 shows amplitudes, SNRs, and temporal integral values of Ca.sup.2+ transients evoked by the number of action potentials in a 200 ms bin in in vivo neocortical neurons (one, two, three, four, and five action potentials detected n=254, 115, 45, 26, and 13 events. Nine cells from n=7 mice).

DESCRIPTION OF EMBODIMENTS

(25) Preferred modes for carrying out the present invention will be described hereinafter, with reference to the drawings. Note that the embodiments described below merely illustrate representative embodiments of the present invention, which are not intended to narrow the interpretation of the scope of the present invention.

(26) 1. Calcium Indicator Gene and Calcium Indicator Protein

(27) The calcium indicator gene and the calcium indicator protein according to the present invention will be described, taking the examples of R-CaMP2 and R-GECO2L, for example, described in the Examples.

(28) The calcium indicator protein according to the present invention contains an amino acid sequence of a fluorescent protein, an amino acid sequence of a calmodulin-binding sequence (hereinafter, ckkap sequence) of or derived from calcium/calmodulin-dependent protein kinase kinase (CaMKK), and an amino acid sequence of a calcium-binding sequence (hereinafter, CaM sequence) of calmodulin. Similarly, the calcium indicator gene according to the present invention contains a nucleotide sequence encoding the fluorescent protein, a nucleotide sequence encoding the ckkap sequence, and a nucleotide sequence encoding the CaM sequence.

(29) The calcium indicator protein according to the present invention may also have an amino acid linker that links one coding derivative of the ckkap sequence and the fluorescent protein, and an amino acid linker that links the fluorescent protein and the CaM sequence. Similarly, the calcium indicator gene according to the present invention may also have a nucleotide sequence encoding an amino acid linker that links one coding derivative of the ckkap sequence and the fluorescent protein, and a nucleotide sequence encoding an amino acid linker that links the fluorescent protein and the CaM sequence.

(30) FIG. 1 shows one example of the structure of the calcium indicator protein (or the calcium indicator gene) according to the present invention. The upper section of the figure shows the structure of R-CaMP1.07, which is a conventional calcium indicator protein described in Patent Literature 1, and the lower section of the figure shows the structure of R-CaMP2, which is a calcium indicator protein according to the present invention. The designation ckkap-WL in the figure represents one preferable example of one coding derivative of the ckkap sequence. The designation cpApple represents a red fluorescent protein.

(31) In R-CaMP2 according to the present invention, one coding derivative of the ckkap sequence is linked to the N-terminus, and the CaM sequence is linked to the C-terminus, of the amino acid sequence of the fluorescent protein, cpApple. Similarly, in the R-CaMP2 gene, a nucleotide sequence encoding one coding derivative of the ckkap sequence is linked to the 5 end, and a nucleotide sequence encoding the CaM sequence is linked to the 3 end, of a nucleotide sequence encoding the fluorescent protein, cpApple. This structure corresponds to a structure obtained by substituting the calmodulin-binding sequence of myosin light chain kinase designated by M13 with one coding derivative of the ckkap sequence in conventional R-CaMP1.07. Moreover, R-GECO2L according to the present invention has a structure in which the M13 sequence of R-GECO1, which is a conventional calcium indicator protein described in Non Patent Literature 1, has been substituted with one coding derivative of the ckkap sequence. The full-length amino acid sequences of R-CaMP2 and R-GECO2L are shown in SEQ ID NO: 11 and SEQ ID NO: 13, respectively, and the full-length base sequences of the nucleotide sequences encoding R-CaMP2 and R-GECO2L are shown in SEQ ID NO: 12 and SEQ ID NO: 14, respectively.

(32) R-CaMP2 according to the present invention may have an additional sequence at each of its N-terminus and C-terminus, as in R-CaMP1.07 described in Patent Literature 1. In the figure, the additional sequence (37 amino acid residues) designated by MGS is a tag sequence used in purifying the protein. The additional sequence (21 amino acid residues) designated by F2A functions to localize the protein in the cytoplasm within a cell.

(33) The calcium indicator protein according to the present invention undergoes a change in conformation when calcium is bound to the CaM sequence, and one coding derivative of the ckkap sequence is bound to the calcium-binding CaM sequence. The calcium indicator protein according to the present invention undergoes a change in conformation in the presence of calcium to thereby cause a change in the conformation of the fluorescent protein and hence, a change in the fluorescent characteristic. In this way, the calcium indicator protein according to the present invention functions as a calcium sensor. As described in the Examples, R-CaMP2 and R-GECO2L, for example, according to the present invention, which have one coding derivative of the ckkap sequence as a binding domain for the calcium-binding CaM sequence, exhibits a fluorescent characteristic and calcium reactivity superior to those of conventional calcium indicator proteins such as R-CaMP1.07 and R-GECO1, which have the M13 sequence as the binding domain. More specifically, R-CaMP2 and R-GECO2L, for example, have characteristics superior to those of the conventional calcium indicator proteins, in that they exhibit a greater variation (dynamic range) between fluorescence intensities in the presence and absence of calcium, and exhibit a greater rate of change of the fluorescent characteristic caused by binding and dissociation of calcium.

(34) The amino acid sequence of R-CaMP2 is shown in SEQ ID NO: 11. In the amino acid sequence shown in SEQ ID NO: 11, positions 1 to 37 correspond to the MGS sequence, positions 38 to 63 correspond to one coding derivative of the ckkap sequence (ckkap-WL), positions 66 to 307 correspond to the cpApple sequence, positions 310 to 456 correspond to the CaM sequence, and positions 472 to 492 correspond to the F2A sequence. Each of the MGS sequence, coding derivative of ckkap sequence, cpApple sequence, CaM sequence, and F2A sequence may be linked to an adjacent sequence via a linker. The linker is not particularly limited as long as the functions of the calcium indicator protein are maintained.

(35) A preferable linker structure of R-CaMP2 is such that the amino acid linker A that links the one coding derivative of ckkap sequence and the fluorescent protein is -Pro-Val-, and the amino acid linker B that links the fluorescent protein and the CaM sequence is -Thr-Arg.

(36) Examples of preferable combinations of the amino acid linkers A and B in the calcium indicator protein according to the present invention include, in addition to the above-described combination of -Pro-Val- and -Thr-Arg, the following combinations:

(37) the amino acid linker A (-Leu-Asp-) and the amino acid linker B (-Thr-Asp-);

(38) the amino acid linker A (-Met-Asp-) and the amino acid linker B (-Thr-Asp-);

(39) the amino acid linker A (-Leu-Glu-) and the amino acid linker B (-Thr-Asp-);

(40) the amino acid linker A (-Arg-Asp-) and the amino acid linker B (-Thr-Lys-);

(41) the amino acid linker A (-Arg-Asp-) and the amino acid linker B (-Phe-Pro-);

(42) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Ala-Asp-);

(43) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Thr-Asp-);

(44) the amino acid linker A (-Gln-Asp-) and the amino acid linker B (-Thr-Asp-); and

(45) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Phe-Asp-).

(46) By adopting these linker structures, a calcium indicator protein having high fluorescence intensity in the presence of calcium and having a large dynamic range can be achieved.

(47) The amino acid sequence of R-GECO2L is also shown in SEQ ID NO: 13. In the amino acid sequence shown in SEQ ID NO: 13, positions 1 to 3 correspond to the MGS sequence, positions 4 to 29 correspond to one coding derivative of the ckkap sequence (ckkap-WL), positions 32 to 273 correspond to the cpApple sequence, and positions 276 to 422 correspond to the CaM sequence. Each of the MGS sequence, coding derivative of ckkap sequence, cpApple sequence, and CaM sequence may be linked to an adjacent sequence via a linker.

(48) [Ckkap Sequence]

(49) The ckkap sequence of the calcium indicator protein according to the present invention is the calmodulin-binding sequence of calcium/calmodulin-dependent protein kinase kinase (CaMKK). While there are an subunit and subunit for the calmodulin-binding sequence of CaMKK, the coding derivatives of ckkap sequence of the present invention may either be an subunit-derived sequence (the amino acid sequence is shown in SEQ ID NO: 4, and the nucleotide sequence encoding this amino acid sequence is shown in SEQ ID NO: 1) or a subunit-derived sequence (the amino acid sequence is shown in SEQ ID NO: 5, and the nucleotide sequence encoding this amino acid sequence is shown in SEQ ID NO: 2). Note that although these sequences are derived from rat CaMKK, the coding derivatives of ckkap sequence may be from any biological species as long as it has the property of binding to the calcium-bound CaM sequence.

(50) The coding derivatives of ckkap sequence may also be an amino acid sequence in which one or more (preferably 1 to 5) amino acids in the amino acid sequence shown in SEQ ID NO: 4 or 5 have been deleted, substituted, inserted, or added, as long as it has the property of binding to the calcium-bound CaM sequence. One example of such a coding derivative of ckkap sequence is ckkap-WL described above (the amino acid sequence is shown in SEQ ID NO: 6, and the nucleotide sequence encoding this amino acid sequence is shown in SEQ ID NO: 3). Amino acid sequences obtained by further modifying the amino acid sequence of ckkap-WL (ckkap-WL 2-6) can also be adopted as coding derivatives of the ckkap sequence. In view of enhancing the fluorescent characteristic and calcium reactivity of the calcium indicator protein, the amino acid sequence of the coding derivatives of ckkap sequence is preferably the amino acid sequence shown in any of SEQ ID NOS: 6 and 15 to 19, and most preferably the amino acid sequence shown in any of SEQ ID NOS: 15 to 19. The fluorescent characteristic or calcium reactivity of the calcium indicator protein can also be adjusted to a desired degree, by appropriately selecting the amino acid sequence of the ckkap sequence from the sequences shown in SEQ ID NOS: 6 and 15 to 19. R-CaMP2 and R-GECO2L described in the Examples each contain ckkap-WL as the coding derivative of ckkap sequence. R-CaMP2_LLA contains ckkap-WL5 as the coding derivative of ckkap sequence. FIG. 2A shows the amino acid sequences of the subunit-derived ckkap sequence (ckkap ) and subunit-derived ckkap sequence (ckkap ), as well as the amino acid sequence of ckkap-WL. FIG. 2B shows the amino acid sequences of ckkap-WL2 to 6.

(51) Note that the coding derivatives of ckkap sequence is not limited to those consisting only of the calmodulin-binding sequence of CaMKK. Specifically, the ckkap sequence may contain an amino acid sequence of the amino acid sequence of CaMKK other than the calmodulin-binding sequence, and may contain, for example, several to several tens of amino acid residues at the N-terminus and/or C-terminus of the calmodulin-binding sequence.

(52) [CaM Sequence]

(53) The CaM sequence of the calcium indicator protein according to the present invention is the calcium-binding sequence of calmodulin. The amino acid sequence shown in SEQ ID NO: 9 or SEQ ID NO: 10 can be used as the CaM sequence. The amino acid sequence shown in SEQ ID NO: 9 is the CaM sequence included in R-CaMP2, and the amino acid sequence shown in SEQ ID NO: 10 is the CaM sequence included in R-GECO2L. Each of these CaM sequences, which is derived from an amino acid sequence of rat calmodulin from positions 2 to 148, is an amino acid sequence obtained by introducing a substitution of 4 or 5 amino acid residues into the amino acid sequence. The base sequence of a nucleotide sequence encoding the CaM sequence of R-CaMP2 is shown in SEQ ID NO: 7, and the base sequence of a nucleotide sequence encoding the CaM sequence of R-GECO2L is shown in SEQ ID NO: 8. Note that the CaM sequence may be derived from any biological species as long as it has the property of binding to calcium, and can bind to the ckkap sequence with calcium being bound thereto.

(54) The CaM sequence may also be an amino acid sequence in which one or more (preferably 1 to 5) amino acids in the amino acid sequence shown in SEQ ID NO: 9 or 10 have been deleted, substituted, inserted, or added, as long as it has the property of binding to calcium, and can bind to the ckkap sequence with calcium being bound thereto. Note that the CaM sequence is not limited to those consisting only of the calcium-binding sequence of calmodulin. Specifically, the CaM sequence may contain an amino acid sequence of the calcium-binding sequence of calmodulin other than the calcium-binding sequence, and may contain, for example, several to several tens of amino acid residues at the N-terminus and/or C-terminus of the calcium-binding sequence.

(55) [Fluorescent Protein]

(56) Examples of fluorescent proteins used as the fluorescent protein of the calcium indicator protein according to the present invention include, but are not particularly limited to, a blue fluorescent protein (for example, BFP in X-CaMPBlue described in the Examples), a green fluorescent protein (for example, EGFP in X-CaMPGreen described in the Examples), a yellow fluorescent protein (for example, Venus in X-CaMPYellow described in the Examples), and a red fluorescent protein. In particular, a red fluorescent protein is preferably used, and mApple or a modified product thereof, for example, may be used. Where the calcium indicator protein is used for manipulating cellular functions by photostimulation, and simultaneously measuring the cellular functions by fluorescent calcium imaging, the fluorescent protein is preferably a red fluorescent protein, because its excitation wavelength does not overlap with that of a photostimulation probe, Channelrhodopsin-2, which is generally used for the purpose of cellular function manipulation.

(57) The modified product of mApple is a product obtained by modifying the structure of the protein by cleaving the amino acid sequence of mApple near an amino acid residue that affects the fluorescent characteristic, and by substituting an amino acid residue at a specific site. Specific examples of the modified product of mApple are described in Patent Literature 1.

(58) FIG. 1 illustrates an example of the calcium indicator protein (or calcium indicator gene) according to the present invention in which one coding derivative of the ckkap sequence, the fluorescent protein, and the CaM sequence are aligned in this order from the N-terminus (or the 5 end) to the C-terminus (or the 3 end). In the calcium indicator protein according to the present invention, this order of alignment, i.e., one coding derivative of the ckkap sequence, the fluorescent protein, and the CaM sequence, may be replaced by the CaM sequence, the fluorescent protein, and one coding derivative of the ckkap sequence, from the N-terminus to the C-terminus.

(59) The calcium indicator protein according to the present invention undergoes a change in conformation upon binding with calcium, which affects the conformation of the fluorescent protein included in the calcium indicator protein, thereby causing the fluorescent characteristic of the fluorescent protein to reversibly change. As used herein, the fluorescent characteristic refers to a fluorescent characteristic such as fluorescence intensity, fluorescence wavelength, fluorescence intensity ratio, absorbance, or absorption wavelength. Fluorescence intensity is used in the present invention as one example of the fluorescent characteristic. When the change in the fluorescent characteristic represents a change in fluorescence intensity, a variation in fluorescence, F/F, is preferably at least 0.3, and more preferably 0.6 or more.

(60) The calcium indicator protein according to the present invention includes one coding derivative of the ckkap sequence so that, upon binding with calcium, it causes a greater change in the fluorescent characteristic than that in a conventional calcium indicator protein. As used herein, the greater change in the fluorescent characteristic means that when the change in the fluorescent characteristic represents a change in fluorescence intensity, the variation in fluorescence, F/F, is greater than that in a conventional calcium sensor, and is preferably augmented 3-fold or more.

(61) 2. Vector, Transformed Cell, and Transgenic Animal

(62) The calcium indicator gene according to the present invention can be prepared using a known genetic engineering technique. The calcium indicator gene according to the present invention can be prepared by, for example, amplifying each of the nucleotide sequences encoding one coding derivative of the ckkap sequence, the fluorescent protein, and the CaM sequence by PCR, and connecting the amplified fragments.

(63) The obtained calcium indicator gene can be incorporated into a known vector such as a plasmid or a virus. A transformed cell expressing the calcium indicator protein can be obtained by transfecting the vector carrying the calcium indicator gene into a desired cell. The vector carrying the calcium indicator gene or the calcium indicator gene per se can form a part of the below-described reagent for measuring an action potential in a cell or imaging a calcium ion in a cell.

(64) Moreover, a transgenic animal transfected with the calcium indicator gene can be prepared using a known genetic engineering technique. Such a transgenic animal can be prepared by transfecting the calcium indicator gene into a totipotent cell of a mammal to develop this cell into individuals, and selecting for an individual transfected with the calcium indicator gene in the genome of somatic cells. In this case, the calcium indicator gene may be transfected and incorporated under the control of a tissue-specific promoter to thereby obtain a transgenic animal expressing the calcium indicator protein only in brain neurons, for example.

(65) 3. The Method of Measuring an Action Potential in a Cell and the Method of Imaging a Calcium Ion in a Cell

(66) The calcium indicator protein according to the present invention can detect a change in intracellular calcium concentration with high sensitivity, and thus, can be suitably used for measuring an action potential in a cell and imaging calcium in a cell. One preferable example of the cell is a neuron, although not particularly limited thereto.

(67) For example, a vector carrying the calcium indicator gene according to the preset invention is transfected into a cell to be measured for expression of the calcium indicator protein. Alternatively, a transgenic animal expressing the calcium indicator protein in the cell to be measured is prepared. Then, the cell to be measured is irradiated, using a fluorescence microscope, a multiphoton microscope, or the like, with excitation light at a wavelength corresponding to the excitation wavelength of the fluorescent protein included in the calcium indicator protein, and fluorescence emitted by the calcium indicator protein is detected. Action potentials of the cell can be measured by acquiring changes in fluorescence intensity with time, or intracellular calcium can be imaged by performing real-time image processing of changes in fluorescence intensity.

(68) The method of measuring an action potential in a cell and the method of imaging a calcium ion in a cell, which use the calcium indicator protein according to the present invention, can be applied to the screening for substances that affect the cellular action potential and the intracellular calcium ion concentration. For example, animals to which test substances have been administered or cells treated with the test substances at the individual level, tissue level, or cellular level are used, and cellular action potentials or the like in cells are recorded. The recorded cellular action potentials are then compared with cellular action potentials or the like acquired in the same manner without treatment with the test substances. Then, it is determined whether or not the test substances affect the cellular action potentials or the like. Then, substances that function to increase or suppress the cellular action potentials or the like are selected. The test substances may be various synthetic or natural compounds, peptides, proteins, and nucleic acids such as DNA and RNA, for example. When a nucleic acid is used, the gene encoded by the nucleic acid is expressed in cells by transfection, and then the change of the cellular action potentials or the like are recorded.

Examples

(69) 1. Materials and methods

(70) [R-CaMP2 and R-GECO2L]

(71) An R-CaMP1.07 expression construct was constructed in accordance with the technique described in the document (PLoS One, 2012, 7, e39933). R-GECO1 was obtained from Addgene. R-GECO1 was subcloned into a pCMV vector derived from pEGFP-N1 (Clontech).

(72) The M13 sequence of R-CaMP1.07 and R-GECO1 was substituted with one coding derivative of a Ca.sup.2+/calmodulin-binding sequence (ckkap sequence) corresponding to Va1438-Phe463 of rat CaMKK to prepare R-CaMP2 and R-GECO2L (see FIG. 1). One coding derivative consisting of a hybrid sequence (ckkap-WL, SEQ ID NO: 6) of the sequence of CaMKK (ckkap , SEQ ID NO: 4) and the sequence of CaMKK (ckkap , SEQ ID NO: 5) was prepared by site-directed mutagenesis, and used as the ckkap sequence (see FIG. 2A). The amino acid substitutions described in the document (Nature, 2013, 499, 295-300, J. Biol. Chem., 2009, 284, 6455-6464) were introduced into the CaM sequences (SEQ ID NOS: 8 and 9). R-CaMP2 and R-GECO2L were subcloned into the pCAG vector.

(73) [R-CaMP2_LLA]

(74) One coding derivative of the ckkap sequence (ckkap-WL) of R-CaMP2 was modified by site-directed mutagenesis to prepare R-CaMP2_LLA containing ckkap-WL5 as the ckkap sequence (see FIG. 2B).

(75) [X-CaMPBlue, X-CaMPGreen, and X-CaMPYellow]

(76) The M13 sequence of G-CaMP4.1 described in the document (PLos One, 2010, Vol. 5, No. 2, e8897) was substituted with one coding derivative of the ckkap sequence (ckkap-WL). Then, BFP, EGFP, or Venus was incorporated as the fluorescent protein into the resulting product to obtain X-CaMPBlue, X-CaMPGreen, or X-CaMPYellow, respectively.

(77) The following combinations of the amino acid linker A linking one coding derivative of the ckkap sequence and the fluorescent protein and the amino acid linker B linking the fluorescent protein and the CaM sequence were adopted.

(78) X-CaMPBlue:

(79) the amino acid linker A (-Leu-Asp-) and the amino acid linker B (-Thr-Asp-); or

(80) the amino acid linker A (-Met-Asp-) and the amino acid linker B (-Thr-Asp-).

(81) X-CaMPGreen:

(82) the amino acid linker A (-Leu-Glu-) and the amino acid linker B (-Thr-Asp-);

(83) the amino acid linker A (-Arg-Asp-) and the amino acid linker B (-Thr-Lys-); or

(84) the amino acid linker A (-Arg-Asp-) and the amino acid linker B (-Phe-Pro-).

(85) X-CaMPYellow:

(86) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Ala-Asp-);

(87) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Thr-Asp-);

(88) the amino acid linker A (-Gln-Asp-) and the amino acid linker B (-Thr-Asp-); or

(89) the amino acid linker A (-Phe-Asp-) and the amino acid linker B (-Phe-Asp-).

(90) [In Vitro Ca.sup.2+ Fluorescence Measurement]

(91) Each of the prepared calcium indicator proteins was expressed in HEK293T cells, and the cells were collected in a Ca.sup.2+-free buffer (20 mM MOPS (pH 7.5), 100 mM potassium chloride, 1 mM DTT, 1 Protease Inhibitor Cocktail (Complete, EDTA Free, Roche)). After collected, the cells were subjected to ultrasonic disruption, centrifugation, and supernatant removal to obtain a lysate. This lysate was used for screening or the evaluation of in vitro performance.

(92) In vitro fluorescence measurement was performed at room temperature, using a plate reader (Fusion a; Perkin Elmer) and 96-well plates. The dynamic range was calculated as Fmax/Fmin. Fmax was obtained by measuring the fluorescence intensity when Ca.sup.2+ reached saturation at 0.3 mM Ca.sup.2+, and Fmin was obtained by measuring the fluorescence intensity at zero Ca.sup.2+ in the presence of 15 mM EGTA. Ca.sup.2+ titration curves were calibrated with a mixed solution of 10 mM K.sub.2H.sub.2EGTA and Ca.sub.2EGTA, using a commercial kit (Ca.sup.2+ Calibration Kit #1; Invitrogen). The Kd value and Hill coefficient were calculated by curve fitting, using analysis software (Origin Pro 7.5, Origin Lab).

(93) [Ca.sup.2+ Imaging in Cultured Hippocampal Neurons]

(94) Dissociated hippocampal culture was performed in accordance with the technique described in the document (Cell, 1996, 87, 1203-1214, Cell Rep., 2013, 3, 978-987). The cultured hippocampal neurons were extracted from the hippocampus (CA1/CA3 region) of SD rats (Japan SLC) at the day of birth. At days 10 to 11 after the culture, the gene encoding the calcium indicator protein under the CMV promoter was transfected into the neurons by lipofection. At 2 or 3 days after the transfection, electrical field stimulation-evoked Ca.sup.2+ imaging was performed using Tyrode solution (129 mM NaCl, 5 mM KCl, 30 mM glucose, 25 mM HEPES-NaOH [pH 7.4], 1 mM MgCl.sub.2 and 3 mM CaCl.sub.2). To prevent spontaneous firing, 10 M CNQX (Tocris Bioscience) and 50 M D-AP5 (Tocris Bioscience) were added to the Tyrode solution.

(95) Synaptic boutons (sites at least 100 m away from the axon initial segment, and showing an at least 3-fold increase in axon diameter) were imaged using an inverted microscope (IX81; Olympus) and an EM-CCD (C9100-12 or C9100-13; Hamamatsu Photonics). The neurons were maintained at 37 C. in a stage CO.sub.2 incubator. The neurons were stimulated using an electrical field stimulation (50 mA, 1 msec current pulses). These stimulation conditions were sufficient to reliably evoke somatic spikes, using a pulse stimulator (Master-8; A.M.P.I.).

(96) For UV-uncaging of glutamate, the neurons were imaged in Mg.sup.2+-free Tyrode solution treated with 0.4 mM MNI-glutamate (Tocris Bioscience) and 1 M TTX. UV-uncaging of MNI-glutamate was evoked using an ultraviolet photolysis system (Hamamatsu Photonics) operating on an AQUACOSMOS software platform (Hamamatsu Photonics) and a UV nanosecond pulsed laser (Polaris II, New Wave Research) at 355 nm controlled with the system (Cell Rep., 2013, 3, 978-987).

(97) [Intrauterine Electroporation]

(98) Intrauterine electroporation was performed in accordance with the method described in the document (J. Neurosci., 2009, 29, 13720-13729). About 1.0 l of a purified plasmid solution was injected into the lateral ventricle of anesthetized ICR mice (SLC Japan) at embryonic day 14.5, and five electrical pulses (45 V, 1 Hz, a duration of 50 msec, five times) were delivered by an electroporator (BTX). To visualize the mice or cells expressing the calcium indicator protein, EGFP was co-expressed as a volume control. Mice at postnatal weeks 4 to 7 were subjected to acute slice preparation or in vivo imaging.

(99) [Simultaneous Ca.sup.2+ Imaging and Whole-Cell Recording in Acute Brain Slices]

(100) Acute brain slice experiments were performed in accordance with the technique described in the document (Eur. J. Neurosci., 2014, 39, 1720-1728). The 4- to 7-week-old mice were deeply anesthetized by CO.sub.2 and decapitated. The calcium indicator protein was expressed under a CAG promoter, or with a tetracycline-inducible expression system using a TRE-tight promoter and Tet3G (Clontech and Tet-Systems).

(101) Whole brains were quickly removed and immersed in ice-cold artificial cerebrospinal fluid (ACSF) (125 mM NaCl, 2.5 mM KCl, 1.25 mM NaH.sub.2PO.sub.4, 26 mM NaHCO.sub.3, 2 mM CaCl.sub.2, 1 mM MgCl.sub.2, 25 mM glucose, bubbled with 95% O.sub.2 and 5% CO.sub.2). Acute coronal brain slices of the somatosensory area (thickness: 250 m) were cut using a microtome (VT1200S, Leica). The brain slices were cultured for 30 minutes in oxygenated ACSF at 30 C. and then maintained at room temperature before being transferred to the recording chamber.

(102) The brain slices were mounted on the immersion-type recording chamber on a two-photon microscope stage, and the layer 4 of the barrel field was identified by bright-field imaging. Whole-cell patch-clamp recording was performed in the layer pyramidal cells of the barrel field. During the recording, the recording chamber was continuously perfused with oxygenated ACSF at 30 C. Patch pipettes were pulled from borosilicate glass capillaries using a vertical puller (PC-10; Narishige) and had a resistance of 5 to 8 M ohm when filled with the intracellular solution (133 mM K-MeSO.sub.3, 7.4 mM KCl, 10 mM HEPES, 3 mM Na.sub.2ATP, 0.3 mM Na.sub.2GTP, 0.3 mM MgCl.sub.2). Whole-cell current-clamp recording was performed using an EPC10 amplifier (Heka). All electrophysiological data were filtered at 10 kHz and digitized at 20 kHz.

(103) [Cranial Surgery for In Vivo Imaging]

(104) For in vivo imaging, mice (4-7 weeks old) were anesthetized by intraperitoneal administration of urethane (1.5 to 1.8 mg/g). The body temperature was maintained at 37 C. with a heating pad (FHC, Bowdoin). A stainless steel head plate was glued to the skull, using superglue and dental cement, above the right barrel field (3.0 to 3.5 mm lateral and 1.5 mm posterior to the bregma). A circular craniotomy (1.8 to 2.0 mm in diameter) was made, and the dura mater was carefully removed. The craniotomy was filled with a solution (150 mM NaCl, 2.5 mM KCl, 10 mM HEPES, 2 mM CaCl.sub.2, 1 mM MgCl.sub.2, 1.5% agarose, pH 7.3). To suppress the motion of the exposed brain, a glass coverslip was placed over the agarose. The mice were then transferred to the animal stage under the two-photon microscope.

(105) [In Vivo Two-Photon Ca.sup.2+ Imaging]

(106) In vivo Ca.sup.2+ imaging of calcium indicator protein-expressing neurons was performed in the layer of the right barrel field (about 150 to 300 m below the pia mater). Expression of the calcium indicator protein was driven by a CAG promoter. CAG promoter-driven persistent expression of the calcium indicator protein did not result in measurable neuronal toxicity.

(107) Sensory stimulation was applied to contralateral whiskers by using a brief air puff (40 to 45 psi, 50 msec). Spontaneous and sensory-evoked activities of neuronal populations were acquired at a resolution of 256192 pixels (sampling rate=2.3 Hz) for 3 minutes. For fast imaging of Ca.sup.2+ transients in single neurons, high-speed line scan (sampling rate=650 to 700 Hz) was performed at the soma of the cortical neurons. For dendritic imaging, a focal plane with as many visible spines and dendrites as possible was chosen. Imaging was acquired at a resolution of 23264 pixels (sampling rate=4.3 Hz) for 22 seconds.

(108) [Simultaneous Ca.sup.2+ Imaging and In Vivo Loose-Seal Cell Attached Electrical Recording]

(109) In vivo cell-attached recording was performed using a glass electrode (5 to 7 M ohm) filled with ACSF containing a fluorescent substance (Alexa 488, 50 M). The two-photon targeted patching method (Neuron, 2003, 39, 911-918) was applied to the calcium indicator protein-expressing neurons in the barrel field. About 10 minutes after the establishment of cell attachment, simultaneous measurements of spike recording and fast line-scan Ca.sup.2+ imaging (sampling rate=675 Hz) were performed at the soma. Electrophysiological data were amplified using an EPC10 amplifier (Heka) in clamp mode. The electrophysiological data were filtered at 10 kHz and digitized at 20 kHz. Further, the electrophysiological data were high-pass filtered at 100 Hz off-line. The spikes were detected and counted automatically by thresholding using MATLAB.

(110) For the materials and methods described above, reference may be made to the document (Nature Method, 2015, Vol. 12, No. 1, p. 64-70) published after the priority date of the present application.

(111) 2. Results

(112) R-CaMP2 and R-GECO2L had Kd values of 100 nM or less (see FIG. 3). Moreover, R-CaMP2 and R-GECO2L showed baseline fluorescence values in the absence of Ca.sup.2+ equivalent to or not more than 2-fold higher than that of R-CaMP1.07, and showed dynamic ranges of not less than 5-fold, although inferior to R-CaMP1.07 (see FIG. 4).

(113) R-CaMP2 and R-GECO2L were expressed in primary cultured hippocampal neurons. EGFP, of which fluorescence spectrum is separated from that of the red indicator, was expressed as a volume control. R-CaMP2 showed characteristic extranuclear localization (FIG. 5A). R-GECO2L, on the other hand, showed localization not only into the cytoplasm but also into the nucleus (FIG. 5B). Moreover, R-CaMP2 and R-GECO2L showed uniform distributions in dendrites, axons, and synaptic boutons.

(114) Electrical field stimulation-evoked single action potentials (1APs) (FIG. 6) and uncaging of MNI-glutamate near the soma by a single nanosecond pulse using a UV pulse laser (FIG. 7) generated significant Ca.sup.2+ transients, which could be fitted with single exponential functions.

(115) R-CaMP2 and R-GECO2L showed much higher affinity for Ca.sup.2+ than existing fluorescence calcium indicator proteins in vitro (Table 1). Additionally, R-CaMP2 and R-GECO2L had kinetics in living neurons faster than those of R-GECO1 and R-CaMP1.07 (FIGS. 8 to 11). Moreover, R-CaMP2 had a F/F amplitude response not less than 3-fold larger than that of R-CaMP1.07, and larger than that of R-GECO2L (FIGS. 8 and 9).

(116) TABLE-US-00001 TABLE 1 dynamic range Kd Hill F.sub.max/F.sub.min (nM) coefficient R-GECO1 9.7 0.7 223 95 2.0 0.2 R-CaMP1.07 15.4 1.4 192 4 1.7 0.1 R-CaMP2 5.8 0.6 69 8 1.2 0.1 R-GECO2L 5.1 0.3 26 3 1.3 0.3 GCaMP3 9.4 0.2 365 8 2.6 0.1 GCaMP5G 19.2 1.0 371 13 2.8 0.2 GCaMP6f 23.1 3.0 296 8 2.1 0.1 GCaMP6s 31.8 3.0 152 8 2.7 0.4 G-CaMP6 11.4 0.1 158 4 3.1 0.2 G-CaMP7 36.6 4.1 243 14 2.7 0.4 G-CaMP8 37.5 3.6 200 1 2.2 0.2 see PLOS One, 2012, 7, e51286.

(117) TABLE-US-00002 TABLE 2 Kd Hill (nM) coefficient F.sub.max/F.sub.min R-CaMP2_LLA 97 10 1.1 0.1 5.1 0.3 X-CaMPBlue 71 3 1.3 0.1 7.2 0.7 X-CaMPGreen 128 5 1.3 0.1 5.9 0.1 X-CaMPYellow 182 3 1.6 0.0 30.5 1.8

(118) R-CaMP2 and R-GECO2L have Hill coefficients close to 1 (Table 1). These Hill coefficients are substantially equal to those of chemically synthesized calcium indicators such as 0 GB-1 (J. Neurosci., 2008, 7399-7411). This is clearly distinct from the fact that many of the existing fluorescent calcium indicator proteins have Hill coefficients of 2 or more (Table 1).

(119) To verify the utility of R-CaMP2 in brain tissue, R-CaMP2 was transfected into neurons in the layer of the barrel field by intrauterus electroporation (J. Neurosci., 2009, 29, 13720-13729), and acute slices were prepared in adult mice. Using a titanium sapphire laser for excitation, fast (near 700 Hz) two-photon line-scan Ca.sup.2+ imaging combined with whole-cell patch-clamp was performed in the soma and proximal dendrites of R-CaMP2-expressing neurons. Similar experiments were also performed for R-CaMP2_LLA and X-CaMPGreen.

(120) In line with the results for the primary cultured hippocampal neurons, F/F response amplitudes generated by single depolarizing current injection were significantly larger in R-CaMP2-expressing neurons than in R-CaMP1.07-expressing neurons (FIGS. 12 and 13). R-CaMP2 showed several-fold improvements over R-CaMP1.07 (FIG. 13A) in terms of signal-to-noise ratio (SNR) (4.0-fold higher at maximum), rise time (2.6-fold faster at maximum), and decay time constant (3.4-fold faster at maximum). R-CaMP2_LLA showed a rise time even faster than that of R-CaMP2 (FIG. 13B). Moreover, X-CaMPGreen showed a rise time faster than those of conventional green fluorescent calcium indicator proteins, GCaMP6s and GCaMP6f (Nature, 2013, Vol. 499, p. 295-300) (FIG. 13C). Note that GCaMP6s and GCaMP6f are calcium sensors containing the M13 sequence.

(121) In agreement with these improved parameters, R-CaMP2 showed improvements in F/F amplitude and SNR up to a maximum four pulses of successive pulses of current injection (FIG. 14). Moreover, successive action potentials at 20 to 40 Hz could be distinguished even with a single trial (FIG. 15B). Under the same experimental conditions, Ca.sup.2+ signals recorded from R-CaMP1.07-expressing neurons showed larger baseline noise and a slower rise time, and thus, action potentials could only be distinguished up to pulses with a frequency of 5 Hz (FIG. 15A). R-CaMP2_LLA followed stimulation at frequencies even higher than those for R-CaMP2, and had a resolution at up to 50 Hz (FIG. 15-2). Moreover, X-CaMPGreen followed even ultra-fast frequencies of 80 to 100 Hz (FIG. 15-3).

(122) In vivo Ca.sup.2+ imaging was performed in neurons in the layer of the barrel field of anesthetized head-fixed mice. Under conditions in which about 30 to 60% of pyramidal neurons in the layer were labeled, spontaneous Ca.sup.2+ spikes could be reliably recorded (FIG. 16). The representation of tactile information is encoded by sparse neurons (Neuron, 2010, 67, 1048-1061, Neuron, 2013, 78, 28-48, Trends Neurosci., 2012, 35, 345-355). In agreement with this, air-puff stimulation on the whiskers evoked Ca.sup.2+ transients in only a limited number of cells. Moreover, active neurons that showed stimulus-correlated activity for R-CaMP2-based Ca.sup.2+ transients showed evoked responses upon successive air-puff stimuli. That is, active neurons responsive to sensory stimulation in the barrel field could be identified.

(123) To examine in vivo recording resolution, fast line scan Ca.sup.2+ imaging was performed simultaneously with loose-seal cell-attached electrical recording (FIG. 17). Spontaneous action potentials showed an approximately linear increase in each of the responses of SNR, amplitude, and temporal integral of the amplitude up to five pulses (FIG. 18). The foregoing results reveal that in terms of rise and decay time kinetics of Ca.sup.2+ transients evoked by single action potentials in vivo, R-CaMP2 is comparable to a previously reported green fluorescent calcium indicator protein such as GCaMP6f (Nature, 2013, 499, 295-300) or fast-GCaMP (Nat. Commun., 2013, 4, 2170) having fast kinetics.

SEQUENCE LISTING FREE TEXT

(124) SEQ ID NO: 1: Base sequence of a nucleotide sequence encoding one coding derivative of a ckkap sequence (ckkap ) derived from the subunit of CaMKK.

(125) SEQ ID NO: 2: Base sequence of a nucleotide sequence encoding one coding derivative of a ckkap sequence (ckkap ) derived from the subunit of CaMKK.

(126) SEQ ID NO: 3: Base sequence of a nucleotide sequence encoding one coding derivative of a ckkap sequence, ckkap-WL.

(127) SEQ ID NO: 4: Amino acid sequence of one coding derivative of the ckkap sequence (ckkap ) derived from the subunit of CaMKK.

(128) SEQ ID NO: 5: Amino acid sequence of one coding derivative of the ckkap sequence (ckkap ) derived from the subunit of CaMKK.

(129) SEQ ID NO: 6: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL.

(130) SEQ ID NO: 7: Base sequence of a nucleotide sequence encoding a CaM sequence of R-CaMP2.

(131) SEQ ID NO: 8: Base sequence of a nucleotide sequence encoding a CaM sequence of R-GECO2L.

(132) SEQ ID NO: 9: Amino acid sequence of the CaM sequence of R-CaMP2.

(133) SEQ ID NO: 10: Amino acid sequence of the CaM sequence of R-GECO2L.

(134) SEQ ID NO: 11: Amino acid sequence of R-CaMP2.

(135) SEQ ID NO: 12: Base sequence of a nucleotide sequence encoding R-CaMP2.

(136) SEQ ID NO: 13: Amino acid sequence of R-GECO2L.

(137) SEQ ID NO: 14: Base sequence of a nucleotide sequence encoding R-GECO2L.

(138) SEQ ID NO: 15: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL2.

(139) SEQ ID NO: 16: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL3.

(140) SEQ ID NO: 17: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL4.

(141) SEQ ID NO: 18: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL5.

(142) SEQ ID NO: 19: Amino acid sequence of one coding derivative of a ckkap sequence, ckkap-WL6.