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Biosci Rep. 2015 October; 35(5): e00255.
Published online 2015 October 8. Prepublished online 2015 August 28. doi:  10.1042/BSR20150108
PMCID: PMC4613725

Genetic variants affecting human TRPA1 or TRPM8 structure can be classified in vitro as ‘well expressed’, ‘poorly expressed’ or ‘salvageable’

Abstract

Multiple mis-sense variants of TRPA1 (transient receptor potential A1) and TRPM8 (transient receptor potential M8) are recorded in the human genome single nt polymorphism (SNP) database, but their potential impact on channel signalling in patho-physiology is not fully explored. Variants, mostly quite rare in the general human population, alter sites in different structural domains of these homo-tetrameric ion channel proteins. The effects of individual SNPs affecting the large cytoplasmic N-terminal domain have not been completely documented for TRPM8 or TRPA1. We examined the Ca2+ signalling properties of a short-list of eight variants affecting the N-terminal domain by individual expression in human embryonic kidney HEK293 or neuroblastoma (SH-SY5Y) cell lines (four SNP variants for TRPM8: G150R, K423N, R475C, R485W and four for TRPA1: Y69C, A366D, E477K, D573A). These were compared with TRPA1 SNP variants affecting intracellular loops located beyond the N-terminal domain and associated with gain of function (such as increased sensitivity to agonists: TRPA1 R797T and N855S). A substitution in TRPA1 (Y69C) exhibited high expression/sensitivity to agonists (high iCa2+max (maximum level of intracellular calcium ion), similar to R797T, but less sensitive than N855S), whereas each of the other non-conservative substitutions exhibited poor signalling response (low iCa2+max). Responses from these poorly expressed variants could be salvaged, to different extents, by pre-treating cells with the Src (Src protein) family inhibitor protein kinase inhibitor PP2 (PP2: 4-Amino-3-(4-chlorophenyl)-1-(t-butyl)-1H-pyrazolo[3,4-d]pyrimidine, 4-Amino-5-(4-chlorophenyl)-7-(t-butyl)pyrazolo[3,4-d]pyrimidine), or with micromolar Zn2+. The TRPA1 variants and several experimental mutants (TRPA1 Y97F, Y226F and YY654–655FF) expressed poorly in SH-SY5Y compared with HEK293 cells. More in-depth studies are needed to identify SNP variants eliciting gain of function in these TRP (transient receptor potential) channels and to assess their roles in medical conditions.

Keywords: expression levels, human TRP channels, single nucleotide polymorphisms (SNPs)

INTRODUCTION

The cold-temperature-sensitive TRPA1 (transient receptor potential A1) and TRPM8 (transient receptor potential M8) Na+, Ca2+ ion channels are interesting pharmacological targets due to their roles in sensory nerve activation, pain and inflammation [1,2]. These channels are formed as homo-tetrameric complexes, with each subunit containing approximately 1100 amino acid residues. Data from the human genome sequencing project indicates the existence of multiple genetic variants altering the code for single amino acid residues distributed across the length of the TRPA1 and TRPM8 genes. Approximately 130 single residues TRPA1 and 200 TRPM8 variants are currently recorded, including allele frequency data for 30%–40% of these [see summaries in NCBI single nt polymorphism (SNP) database]. A ‘gain-of-function’ variant affecting TRPA1 (N855S) associated with episodic pain syndrome was identified recently [35]. Genetic-association studies are emerging for TRPM8 in relation to airway physiology [6,7]. Previous discoveries regarding structure–function relationships in TRPA1 E179K, TRPM8 and heat-sensitive TRPV1 (transient receptor potential V1), and the information regarding gene sequence variation, suggest that further screening of the properties of variants may aid implementation of targeted clinical studies [39].

Hypothetically, some variants may be expected to possess differences in various aspects of their poly-modal regulation and exogenous agents, such as zinc ions (Zn2+), may modify their behaviour [10], perhaps with relevance to particular physiological circumstances [11]. However, the functional properties of most of the variants have not been reported. We recently described increased sensitivity to agonists for TRPA1 R797T and interesting modulatory effects of PP2 on cells transfected with TRPA1 or TRPM8 [12]. Therefore, we initiated a preliminary survey of the properties of variants that alter single residues in the large N-terminal domains of each channel and characterized them in terms of agonist-induced transient effects on intracellular Ca2+ levels.

Prioritization of which of the multiple variants listed in the SNP database to study was informed by protein structural information, but remained relatively simplistic. For TRPM8, we selected variants representing four non-conservative substitutions located in two evolutionarily conserved sections of the N-terminal domain. Structure–function studies for TRPM8 have focused mainly on amino acid residues in the transmembrane bundle [5,1319] rather than the N-terminal domain [20], although a potential structure for the latter has been proposed as part of a whole molecule model [21].

For TRPA1, we selected variants representing non-conservative substitutions located in the ankyrin repeat (AR) sequences (Y69C in AR1, A366D in AR9, E477K in AR12 and D573A in AR16). The ARs form short helices assembled into an asymmetrical cylindrical tertiary structure possessing a surface available for protein interactions [22]. The influence of alterations within the individual ARs is relatively unexplored [23,24] compared with studies examining the transmembrane bundle [2529] or C-terminal domain [30,31].

By electing to study SNPs causing non-conservative substitutions, we expected to observe evidence for altered channel properties.

EXPERIMENTAL

Reagents and chemicals

Most reagents were purchased from Sigma–Aldrich or Tocris, including WS 12 (4-methoxyphenyl-5-methyl-2-1-methylethyl-cyclohexanecaboxamide), menthol, AMTB (N-3-aminopro-pyl-2-3-methylphenyl-methoxy-N-2-thienylmethylbenzamide) hydrochloride, allyl-isothiocyanate (AITC), cinnamaldehyde, carvacrol, eugenol and A967079 (4-fluorophenyl-2-methyl-1-pentene-3-one oxime). Stock solutions of agonists and antagonists were prepared in DMSO and were stored at–20°C (except for A967079, stored at 4°C).

Bioinformatics

The NCBI database and the 1000 genomes deep catalogue of human genetic variation (http://browser.1000genomes.org/index.html) were used to access human gene and cDNA sequences and SNP data for TRPA1 and TRPM8 (http://www.ncbi.nlm.nih.gov/snp/). The NetPhos2.0 (www.cbs.dtu.dk/services/NetPhos/) and Scansite (scansite.mit.edu/) servers were used to locate putative tyrosine phosphorylation sites in each TRP (transient receptor potential) channel. Clustalw2 (http://www.ebi.ac.uk/Tools/msa/clustalw2/) was used to align the primary sequence of TRPM8 with TRPM2.

DNA manipulation

A series of mutations were made at sites affecting the structure of human TRPM8 or TRPA1 (Figures 1a and and3a).3a). Oligonucleotides were purchased from Eurofins-MWG-Operon. Mutated TRP channel cDNAs were created in plasmid pcDNA3.1neo(+) using quick-change PCR mutagenesis with velocity DNA polymerase (Bioline)-mediated amplification. Methylated template DNA was removed by digestion with DpnI (Promega) and mutated plasmids were cloned and isolated following transformation of competent Escherichia coli (Bioline). DNA sequences were confirmed using automated sequencing (Eurofins Genomics) with appropriate primers.

Figure 1
Properties of TRPM8 variants in HEK293 cells
Figure 3
Properties of TRPA1 variants in HEK293 cells

Cell culture, transfection and clone isolation

Human embryonic kidney (HEK)293 cells were cultured on matrigel-coated plasticware. HEK293 or SH-SY5Y cells grown in Dulbecco's modified Eagle's medium (DMEM), 10% fetal calf serum supplemented with glutamine were transfected in 6 cm diameter culture dishes using DNA mixed with Fugene 6 (Promega) in Optimem I (Invitrogen) and multiple distinct clones for each construct were isolated using glass cloning cylinders (Sigma–Aldrich) following selection with G418. On average, eight clones for each construct were screened for response to TRP channel agonists.

Intracellular Ca2+ assay

Cells detached from culture flasks using HEPES buffered saline, pH 7.4, containing 1.7 mM EDTA were diluted with 10 volumes PBS, pelleted by centrifugation and loaded with Fluo-3AM (2.2 μg/ml) at room temperature for 25 min in HEPES-buffered assay solution, pH 7.4, (containing physiological NaCl, KCl, MgCl2, glucose and 1 mM CaCl2 without BSA, sulfinpyrazone or probenecid). The cells were washed with PBS and re-suspended in HEPES-buffered assay solution, pH 7.4, for fluorescence measurements performed, as described previously [12].

Quantitative and statistical analyses

Measurements of peak amplitudes from real-time traces of Fluo3-Ca2+ fluorescence were collected and analysed to determine mean change in relative fluorescence units (ΔRFU) with S.D. compared with the effect of 2 μM ionophore (A23187). Statistical significance of differences between clones or responses to different agents was calculated using Student's ttest or ANOVA with Tukey's post-hoc honest significant difference test (using Graphpad Prism software or online tools). Statistically significant differences were denoted by an asterisk in graphical summaries of data (*P < .05 in all cases and P < 0.01 in most cases).

RESULTS

Several TRPM8 variants appeared to be poorly expressed in transfected HEK293 cells compared with non-mutated TRPM8

Mutated and sequence-validated cDNA expression constructs generating the TRPM8 variants G150R, K423N, R475C, R485W and the experimental mutant Y516E were individually transfected into HEK293 cells. Figure 1(a) indicates the location of mutated SNP residues in regions of evolutionarily conserved sequence in the protein subunit and Y516E in a putative connecting region. Multiple G418 resistant clones were isolated for each variant and characterized alongside a clone expressing non-mutated TRPM8 (‘wild-type’ or ‘reference sequence’). The responses of clones to different concentrations of specific agonist (WS 12 or menthol), including pre-treatments with antagonist (AMTB), were recorded in measurements of intracellular Fluo3-Ca2+ and were compared with each other and to responses from untransfected cells (Figures 1b and and1c;1c; Supplementary Data). The results indicated significant differences in maximum achievable amplitude of fluo3-Ca2+ signal (iCa2+max) in response to WS 12 for clones expressing the different constructs. For multiple clones isolated and screened, each of the SNP variants exhibited weaker responses to agonist compared with cells expressing non-mutated wild-type TRPM8. (Un-transfected HEK293 cells did not exhibit intracellular Ca2+ signals in response to WS 12 or menthol; see Supplementary Data).

Although iCa2+max (maximum level of intracellular calcium ion) values were relatively low, it was possible to accurately estimate agonist EC50 values and antagonist IC50 values for variants K423N and R475C (Figures 1b and and1c).1c). The right-side dose-response curve in Figure 1(c) demonstrates an expanded y-axis for the data in the left-side graph. The apparent EC50 for TRPM8 R475C response to WS12 was elevated approximately 3-fold relative to non-mutated TRPM8 and that for K423N was elevated approximately 7-fold. Both TRPM8 R475C and K423N appeared to be marginally more sensitive to the antagonist AMTB compared with non-mutated TRPM8, with K423N apparently more sensitive to antagonist than R475C, although differences failed to reach statistical significance (see bar graphs in Figures 1b and and1c).1c). Representative examples of real time fluo3-Ca2+ signals are presented in Figure 1(d).

Responses to TRPM8 agonists from cells transfected with the variants G150R or R485W or with the experimental mutant Y516E were undetectable. However, responses to agonist could be detected from these cells after a short pre-treatment with low micromolar concentrations of PP2 or divalent zinc (Zn2+, added from 1000× concentrated stock solutions of ZnCl2; Figure 2). These agents have previously been shown to modify signals from TRP channels in a mutation-specific fashion. Although relatively high doses of WS 12 were required to elicit responses from these variants after treatment with PP2 (Figure 2a) or Zn2+, the responses were agonist dose-dependent (Figure 2b).

Figure 2
Effects of PP2 or Zn2+ on TRPM8 variant signalling

Brief pre-treatment of cells with 5 μM PP2 enabled detection of agonist-induced responses ranging from 4% to 22% of the ionophore (A23187)-induced maximum Fluo3-Ca2+ signal in a mutant-specific fashion. This effect is expressed relative to signal from wild-type TRPM8 in Table 1. Addition of Zn2+ to Fluo-3-loaded cells caused a dose-dependent transient increase in fluorescence during assays but it also quenched the maximum signal elicited following addition of A23187 (result not shown). These effects did not prevent qualitative detection of enhanced signals from these poorly responsive clones (Figure 2b), but the quenching effect precluded standardized quantitative assessment.

Table 1
Comparisons of sensitivity to agonist and degree of salvage by PP2

Interestingly, pre-treatment of cells expressing TRPM8 K423N with PP2 or Zn2+ did not result in enhanced response to agonist (result not shown) and non-mutated TRPM8 responses were inhibited by pre-treatment with PP2 (Figure 2a).

The effects of TRPM8 SNP variants on iCa2+signalling can be compared and contrasted with those occurring with TRPA1 SNP variants.

Certain TRPA1 variants and tyrosine-to-phenylalanine mutants exhibited good function compared with non-mutated TRPA1 in transfected HEK293 cells

Mutated cDNA expression constructs generating the TRPA1 variants Y69C, A366D, E477K and D573A were individually transfected into HEK293 cells. The locations of mutations in the TRPA1 subunit are depicted in Figure 3(a). Multiple G418 resistant clones were isolated for each variant and characterized alongside clones expressing non-mutated TRPA1 and the ‘gain-of-function’ variants N855S and R797T in addition to un-transfected cells (Figure 3; Supplementary Data).

TRPA1 agonist concentrations (AITC, cinnamaldehyde, carvacrol and menthol) and antagonist (A967079) were carefully titrated to elicit signals for measurements of intracellular Ca2+ from multiple clones. Responses were compared between different clones expressing the same or different mutated channel.

HEK293 cells expressing the variants N855S, Y69C and R797T responded well to TRPA1 agonists (iCa2+max comparable to non-mutated TRPA1) and it was possible to estimate apparent agonist EC50 and antagonist IC50 values using measurements of peak amplitudes of intracellular Fluo3-Ca2+ (Figures 3b and and3c).3c). Clones expressing these particular TRPA1 variants exhibited apparently increased sensitivity to agonists relative to non-mutated TRPA1, with reductions in estimated EC50 values of approximately 5-, 3- and 1.3-fold respectively. Differences in apparent sensitivities to the antagonist A967079 were also detected (Figures 3b and and3c),3c), suggesting that N855S and Y69C may both be ~8-fold less sensitive than non-mutated TRPA1. Agonist potency followed the order: AITC > cinnamaldehyde > carvacrol > menthol in all cases (Figure 3d).

The variants A366D and E477K exhibited poor responses to agonists (relatively low iCa2+max) that could be enhanced using brief pre-treatment of cells with PP2 (Figure 4), similar to the situation with TRPM8 SNP variants (Figure 2). Interestingly, the highly responsive TRPA1 variants N855S and Y69C were not affected by pre-treatment with PP2. Higher doses of agonist were required to elicit responses from TRPA1 A366D and E477K compared with TRPA1 N855S and Y69C. The apparent EC50 value for activation of TRPA1 A366D by AITC was estimated to be ~76 μM, approximately 13-fold higher than for non-mutated TRPA1. Pre-treatment of cells expressing either variant with micromolar concentrations of PP2 or Zn2+ elicited modest, but detectable increases in signal following addition of agonist, reproducibly elevating the signal in average up to 10% (A366D) or 4% (E477K) of the ionophore (A23187)-induced maximum Fluo3-Ca2+ signal with moderate doses of AITC (10 or 20 μM). The effect of PP2 is presented relative to responses from wild-type TRPA1 and compared with TRPM8 variants in Table 1.

Figure 4
Effects of PP2 or Zn2+ on TRPA1 variant signalling

Responses to agonist from cells transfected with TRPA1 D573A were very small (almost undetectable) and were hardly affected by PP2 or Zn2+. In contrast, responses to low-dose agonist (1 or 3 μM AITC) from TRPA1 N855S or Y69C were not enhanced by pre-treatment by PP2 or Zn2+, but responses from TRPA1 R797T to 3 μM AITC were modestly enhanced by 5 μM PP2.

Several experimental mutants in which tyrosine residues were converted into phenylalanine residues each responded well to agonist (Y97F, Y226F and YY654–655FF), with sensitivities similar to non-mutated TRPA1. Responses from these mutants could be enhanced using PP2 (Supplementary Figure S1b; Figure 5). (Untransfected HEK293 cells did not exhibit intracellular Ca2+ signals in response to TRPA1 agonists, with the exception of off-target effects of AITC when applied at 60 μM or higher; see Supplementary Data).

Figure 5
Properties of TRPA1 variants and experimental mutants compared in HEK293 and SH-SY5Y cells

TRPA1 variants and tyrosine-phenylalanine mutants responded poorly in transfected SH-SY5Y cells

When SH-SY5Y cells were transfected with TRPA1 expression constructs, multiple G418-resistant clones responded only poorly to agonists compared with transfected HEK293 cells. Responses from TRPA1 N855S were small but detectable using moderate doses of AITC (10–30 μM; Figure 5a).

Responses from TRPA1 could be modestly enhanced following brief pre-treatment with PP2 (Figure 5b) or Zn2+ plus 60 μM AITC (eliciting an average 1.5-fold increase in relative amplitude and reaching an average 24% of the ionophore-induced maximum). Responses from SH-SY5Y cells transfected with Y69C were very small. Likewise, responses from the experimental mutants Y97F, Y226F and YY654–655FF were also very small in SHSY5Y cells compared with HEK293 cells (Figure 5a) and could only be enhanced by pre-treatment with PP2 followed by high-dose AITC (60 μM; Figures 5a and and5b;5b; Supplementary Figure S1b). In Figure 5(b), the effect of PP2 failed to reach statistical significance for TRPA1 N855S and R797T, similar to a lack of demonstrable effect on TRPA1 N855S when expressed in HEK293 cells (Figure 4). These particular variants are highly sensitive to TRPA1 agonist such that enhancement by PP2 pre-treatment may require more in-depth titration of both agonist and PP2 concentrations to achieve a combination of agents that leads to an enhanced iCa2+ signal amplitude [12]. (Untransfected SH-SY5Y cells did not exhibit intracellular Ca2+ signals in response to TRPA1 agonists, including AITC when added at concentrations up to 60 μM, in contrast with HEK293 cells; see Supplementary Data).

DISCUSSION

In our survey of stably transfected HEK293 cell clones we found that non-conservative substitutions in the TRPM8 or TRPA1 N-terminal domain were generally associated with poor response to agonists. Only one of the variants studied, TRPA1 Y69C, exhibited good responses with high sensitivity to agonists. This variant was only marginally less sensitive to agonists than TRPA1 N855S and both appeared more sensitive than wild-type TRPA1 in measurements of apparent EC50. Interestingly, these two variants also appeared to be less sensitive to the antagonist A967079 than wild-type TRPA1. Determining whether these differences are due to structural changes in the protein or merely reflect an elevated level of channel protein expression will require further investigation, as discussed later.

Since all clones expressing the TRPM8 variants K423N and R475C responded relatively poorly to agonist treatment, one interpretation could be that each residue change may compromise formation of fully functional TRPM8 channels. However, such a conclusion must be considered alongside other possibilities. Poor levels of protein expression could simply be the cause of the reduced signal strengths (typified by relatively low iCa2+max observed in the intracellular Ca2+ assay). Therefore, further studies aimed at measuring levels of mutated channel protein and, of equal of importance, its sub-cellular localization [32] in transfected clones are required to interpret the current findings. However, this will most probably require use of epitope-tagged versions of each variant compared with tagged wild-type channel. Similar considerations apply to further studies of poorly responsive TRPA1 variants A366D and E477K cloned into HEK293 cells.

It will be interesting to investigate whether TRPA1 A366D, E477K or D573A are poorly expressed, retained in the endoplasmic reticulum or miss-localized elsewhere since these residues are thought to contribute to the formation of a putative regulatory EF hand structure [22] in the channel.

Responses to TRPM8 or TRPA1 agonists were modulated by pre-treatment of cells with micromolar PP2 or Zn2+ in a mutation- or clone-specific fashion. The specific findings are summarized in Table 1. Interestingly, PP2 inhibited responses from non-mutated TRPM8 and from TRPM8 R475C, but enhanced the responses from TRPM8 G150R, K423N and R485W. Thus PP2 may exert more than one effect on channels in cells. Perhaps it may bind directly to channels or it may indirectly cause channel modification by inhibiting phosphorylation at tyrosine residues. Alternatively, PP2 may alter vesicular trafficking such that more channel protein is delivered to areas accessible to gate Ca2+ ions.

Addition of Zn2+ had a similar effect to PP2 on the responses of TRPM8 variants to agonist, with the most noticeable enhancing effects on K423N and R485W. Rescue of TRPM8 mutants by Zn2+ is a novel observation, but with similarities to the effects of Zn2+ on mutated TRPA1 and suggestive of stabilization of miss-folded protein [10].

Weak responses to TRPA1 agonist from A366D or E477K could also be enhanced by pre-treating transfected HEK293 cells with PP2, similar to our previous observations in SH-SY5Y cells [12] or with Zn2+. Interestingly, micromolar concentrations of Zn2+ activate TRPA1 in patho-physiological settings [33,34].

When TRPA1 variant cDNA constructs were transfected into SH-SY5Y cells, the responses to TRPA1 agonists were smaller than those observed in transfected HEK293 cells, similar to our previous findings [12]. Interestingly, even N855S and Y69C appeared to be poorly expressed in SH-SY5Y relative to expression in HEK293. Also, individual tyrosine-to-phenylalanine mutations (Y97F, Y226F and YY654–655FF) did not improve responses of TRPA1 in SH-SY5Y cells. This is an interesting preliminary result in view of the potential for these tyrosine residues to be phosphorylation sites within TRPA1 (as suggested by NetPhos 2.0 and Scansite algorithms). A more in-depth screen would be required to identify sites of regulatory phosphorylation in TRPA1.

In summary, the present study indicates that further analyses of the properties of genetic variants affecting the structure of human TRPA1 and TRPM8 are required to identify candidates possessing altered activity. Altered channel activity may be an important pre-disposing property in particular disease states. Interestingly, a non-conservative substitution near the extreme N-terminal region of TRPA1 (Y69C), within AR1, was associated with good expression and increased sensitivity to agonist. Combined with the other findings, this suggests that genetic variants of TRPA1 and TRPM8 may be classified as ‘well expressed’, ‘poorly expressed’ or ‘salvageable’ in in vitro studies. The ability of PP2 and Zn2+ to enhance responses from particular variants with poor responses may be a useful tool. The in vitro classifications will be helpful in comparisons with other genetic variants of TRPA1 and TRPM8.

Acknowledgments

We thank Chris Crow and Wayne Sheedy for logistical support.

Abbreviations

A967079
4-fluorophenyl-2-methyl-1-pentene-3-one oxime
AITC
allyl-isothiocyanate
AMTB
N-3-aminopropyl-2-3-methylphenyl-methoxy-N-2-thienylmethylbenzamide
AR
ankyrin repeat
HEK
human embryonic kidney
RFU
relative fluorescence units
SNP
single nt polymorphism
WS 12
4-methoxyphenyl-5-methyl-2-1-methylethyl-cyclohexanecaboxamide

AUTHOR CONTRIBUTION

Kevin Morgan planned and performed experiments, analysed data and wrote the manuscript. Laura Sadofsky analysed data and wrote the manuscript. Alyn Morice analysed data, wrote the manuscript and directed focus.

FUNDING

Studies were financed using departmental funds.

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