Abstract
Sweet taste is a primary sensation for the preference and adaption of primates to diet, which is crucial for their survival and fitness. It is clear now that the sweet perception is mediated by a G protein-coupled receptor (GPCR)-sweet taste receptor T1R2/T1R3, and many behavioral or physiological experiments have described the diverse sweet taste sensitivities in primates. However, the structure-function relationship of T1R2s/T1R3s in primates, especially the molecular basis for their species-dependent sweet taste, has not been well understood until now. In this study, we performed a comprehensive sequence, structural and functional analysis of sweet taste receptors in primates to elucidate the molecular determinants mediating their species-dependent sweet taste recognition. Our results reveal distinct taxonomic distribution and significant characteristics (interaction, coevolution and epistasis) of specific key function-related residues, which could partly account for the previously reported behavioral results of taste perception in primates. Moreover, the prosimians Lemuriformes species, which were reported to have no sensitivity to aspartame, could be proposed to be aspartame tasters based on the present analysis. Collectively, our study provides new insights and promotes a better understanding for the diversity, function and evolution of sweet taste receptors in primates.
Introduction
The sweet taste sensation is one of the five primary taste qualities (sweet, bitter, umami, sour and salty) enabling animals to distinguish beneficial foods and facilitating their adaption to environmental niches (; ). Diversification of sweet taste preferences in primate species toward various sweeteners has been extensively reported, and the sweet sensory system of primates shows remarkable flexibility that essentially increases their survival capabilities (). It is well known that the sweet taste is mediated by a G protein-coupled receptor (GPCR)-sweet taste receptor located on the membrane of oral gustatory buds (Jordan et al., 2009). Therefore, information of the structure and function of this receptor in primates is meaningful for understanding the molecular basis of their species-dependent sweet taste as well as evolution.
The sweet taste receptor is a heterodimer composed of two subunits T1R2 and T1R3, which belongs to the family C GPCRs (; ; Zhao et al., 2003). This receptor is characterized by a large extracellular domain, which consists of an N-terminal Venus flytrap module (VFTM) and a cysteine-rich domain (CRD), a heptahelical transmembrane domain (TMD) and an intracellular domain (ID) (Figure 1A) (; Xu et al., 2004). With the methods of molecular simulations and functional mutagenesis/chimera analysis, previous studies have revealed that there are multiple binding sites in the receptor for various sweeteners (; ; ; ; Winnig et al., 2007; ; ). However, the spatial structure information of sweet taste receptor and its complexes with sweeteners is still unavailable due to some experimental obstacles.
FIGURE 1
It has been demonstrated that the basic and simple sugars or amino acids can be perceived by all of the primates found so far, as evidenced in many previous behavioral or electrophysiological tests (
Another intriguing species-dependent taste is toward the intensively sweet proteins. Previous studies have shown that the sweet-tasting proteins could be perceived by Old World monkeys, apes and humans, but not by New World monkeys and rodents (
Analysis of the genomic and proteomic information available indicates that the sweet taste receptor T1R2/T1R3 is widely distributed in all kingdoms of mammalia including primates (
Materials and methods
Collection of the data resources
The protein sequences of the sweet taste receptors T1R2 and T1R3 in primates were initially retrieved from the InterPro database (http://www.ebi.ac.uk/interpro) (
Phylogenetic analysis and sequence similarity networks
The phylogenetic trees of T1R2 and T1R3 were generated using the MEGA 4.0 program. The trees are constructed using the method of neighbor-joining (NJ) and bootstrapping with 1,000 replications (Saitou and Nei, 1987). Construction of the sequence similarity networks (SSNs) based on the analyzed protein sequences was carried out with the Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST, https://efi.igb.illinois.edu/efi-est/), and the results were visualized with the Cytoscape 3.9 software (Shannon et al., 2003;
Multiple sequence alignments and analysis of coevolving protein residues
Multiple sequence alignments (MSAs) of the T1R2s and T1R3s were performed with the ClustalW (version 1.83) program (Thompson et al., 1994). The coevolutionary relationship between two residues in the T1R2 and T1R3 families were analyzed based on the mutual information (MI), which was obtained according to the results of MSAs using the MISTIC web server (http://mistic.leloir.org.ar/index.php) (Simonetti et al., 2013). MI indicates the extent to which knowledge of the amino acid at one position can allow prediction of the amino acid at the other position.
Molecular simulation of the sweet taste receptors
The homology model of full-length human T1R2/T1R3 was constructed using the Swiss-Model program (http://swissmodel.expasy.org/) with the heterodimeric human metabotropic GABA(B) receptor (PDB: 6UO8) as the template. A sequence alignment of the human T1R2 and T1R3 and template sequences was carried out with ClustalW, and the human T1R2 and T1R3 were uploaded as hetero targets for modeling, respectively. The resulted model was evaluated with the Verify 3D program with acceptable scores and was selected for following simulation (
To construct the complex of aspartame and the modeled human T1R2/T1R3, molecular docking was performed using the Vina protocol in Yinfo Cloud Computing Platform (https://cloud.yinfotek.com/), with the previously well-characterized aspartame-receptor interactive residues (Y103, D142, Y215, P277, D278, L279, S303, D307, R383 and V384) as the constraints (
Results
Taxonomic distribution and classification of T1R2s and T1R3s in primates
Our initial search in the InterPro database revealed that mammals harboring sweet taste receptors could be devided into four categories: primates, ungulates, pterodactyls and carnivores. Moreover, the species in primate kingdom can be subclassified into three taxonomic groups which include simians Platyrrhini (New World monkeys), Catarrhini (Old World monkeys, great apes, gibbons and humans), and prosimians Lemuriformes (Figures 2, 3). All the T1R2 and T1R3 sequences in primates show the typical seven trans-membrane helix domain and nine conserved cysteine residues motif as revealed by the TMHMM and clustalW analysis, respectively, suggesting their intact functionality, although pseudogenization and sweet taste loss have been found in some other species, such as carnivora (
FIGURE 2

The phylogenetic tree analysis of sweet taste receptor T1R2 in primates. The percentages of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) are shown next to the branches, with branch lengths indicating the number of substitutions per site. The phyla and taxonomy of analyzed species are shown on the right.
FIGURE 3

The phylogenetic tree analysis of sweet taste receptor T1R3 in primates. The percentages of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) are shown next to the branches, with branch lengths indicating the number of substitutions per site. The phyla and taxonomy of analyzed species are shown on the right.
To gain a detailed view of the evolutionary relationships, phylogenetic analysis was performed. The results show that the three taxonomic groups of T1R2s in primates mentioned above are well separated and clustered in the phylogenetic tree (Figure 2). All subgroups appear to be in separate clade in the phylogenetic tree, suggesting distinct evolutionary pressure and course for sweet taste recognition among these primate species. The varieties of ecological environment and adaption histories for these species could confer their multifarious sequence distributions of sweet taste receptors in evolution (Yarmolinsky et al., 2009;
Phylogenetic analysis of T1R3s in primates was performed as that of T1R2s (Figure 3). The results show that similar clusters of taxonomic distribution in the phylogenetic tree for T1R3s as that for T1R2s, implying a coevolutionary history between T1R2 and T1R3, which is in accordance with the essential roles of each subunit for the integrated functionality of the heterodimeric sweet taste receptor T1R2/T1R3 (
To further clarify the relationships among these sweet taste receptors, a SSN for the analyzed T1R2 or T1R3 sequences was constructed respectively by EFI-EST with an e-value threshold of 10–5 (Figure 4A) (
FIGURE 4

The protein sequence similarity networks (SSNs) of T1R2s and T1R3s in primates. (A) Protein sequences of T1R2s were analyzed to generate the network with an e-value threshold 10–5 (>96% sequence identity). The three nodes denoting T1R2 sequences of blue monkey and sykes’ monkey, rhesus macaque and stump-tailed macaque, and assam macaque and crab-eating macaque are overlapped respectively due to their same sequences. (B) Protein sequences of T1R3s were analyzed to generate the network with an e-value threshold 10–5 (>98% sequence identity). The three nodes denoting T1R3 sequences of blue monkey and sykes’ monkey, crab-eating macaque and stump-tailed macaque, and golden-bellied mangabey and sooty mangabey are overlapped respectively due to their same sequences. Each node represents one protein. Nodes from the same family in the networks are shown with the same color, and the colors corresponding to different families are listed on the right.
Analysis of the molecular determinants of T1R2s/T1R3s in primates for their function, diversity and evolution
Molecular determinants in T1R2
It should be meaningful to elaborate the key receptor residues determining the species-dependent taste toward aspartame in primates based on previous findings and our present analysis. The MSA clearly show that most of the previously identified aspartame binding residues (Y103, Y215, P277, D278, L279, S303, D307, R383 and V384 in human T1R2) are conserved except the two critical residues at sites 40 and 142 described above (Figure 5; Supplementary Figure S1). Specifically, it was found that all species of Old World monkeys, great apes, gibbons and humans harbor D142 (taster type) while New World monkeys harbor E142 (non-taster type), in agreement with the crucial role of residue at site 142 for the switch of sensitivity to aspartame (
FIGURE 5

Multiple sequence alignment of T1R2s in primates. (A) Sequence logo representation of the conservation region and key residues mediating the sweet taste toward aspartame. The conservation level of each residue is indicated by the height of the bar above it. Residues involved in the sweet taste toward aspartame are underlined, and the two critical residues responsible for the species-dependent sweet taste toward aspartame are colored in red. This figuer was generated with the WebLogo 3 (https://weblogo.threeplusone.com/). (B) Sequence alignment of the two critical residues responsible for the species-dependent sweet taste toward aspartame. The proposed aspartame tasters are colored in light red while aspartame non-tasters are colored in blue.
Surprisingly, it is found that the three prosimians Lemuriformes species, which exhibited no sensitivity to aspartame in behavioral tests (
Molecular determinants in T1R3
Jiang et al. revealed the critical roles of residues A537 and F540 in the CRD of human T1R3 for the sensitivity to brazzein (
FIGURE 6

Multiple sequence alignment of T1R3s in primates. (A) Sequence logo representation of the conservation region and key residues mediating the sweet taste toward brazzein, thaumatin and cyclamate. The conservation level of each residue is indicated by the height of the bar above it. The two critical residues responsible for the species-dependent sweet taste toward brazzein are colored in green. This figuer was generated with the WebLogo 3 (https://weblogo.threeplusone.com/). (B) Sequence alignment of the two critical residues responsible for the species-dependent sweet taste toward brazzein. The proposed brazzein tasters are colored in light red while brazzein non-tasters are colored in blue.
Cyclamate is an artificial sweetener which has been identified to bind within the TMD of human T1R3 (
Analysis of coevolving residues in primate T1R2s/T1R3s
The residues involved in aspartame, cyclamate and sweet-tasting proteins recognition described above that exhibit almost conserved taxonomic distribution, cooperatively mediate the species-dependent taste toward these sweeteners, suggesting their interactive and coevolving relationships. To gain a deeper insight for the diversity and relationship among residues of sweet taste receptors in primates, sequence mutual information (MI) analysis of T1R2s and T1R3s was carried out, and the results are shown in Supplementary Figure S3. In this figure, A and C show the conserved and coevolving residues of T1R2s and T1R3s, and B and D show the residues with high cumulative MI (cMI) values form a connected distance network, respectively, indicating that these residues share a high MI score and are evolutionarily correlated. These results suggest significant conversation and coevolution of specific amino acids of sweet taste receptors in primates during their evolution.
It should be informative to relate the MI signal to the molecular determinant residues of T1R2s/T1R3s in primates. Most of the residues at the positions of human T1R2 (S40, Y103, D142, Y215, P277, D278, L279, S303, D307, R383 and V384) involved in aspartame recognition display considerable MI values with other residues, suggesting their coevolving interrelationships (Supplementary Data Sheet S2). Moreover, the two critical residues at human T1R2 sites (S40 and D142) for species-dependent taste toward aspartame exhibit high cMI scores 883.8 and 909.8, respectively (Table 1), highlighting their significant degree of shared mutual information and implying their important roles in the evolution of sweet taste receptors in primates. Similar patterns are also found for the determinative residues in sweet-tasting proteins recognition that Q504, I536, A537, F540, R556, and S559 at the positions of human T1R3 show remarkable cMI scores, and considerable MI values of these residues are also present (Table 1, Supplementary Data Sheet S3).
TABLE 1
| Subunit | Position in human sweet taste receptor | cMI scores |
|---|---|---|
| T1R2 | S40 | 883.798002 |
| D142 | 909.760677 | |
| V384 | 452.2915 | |
| Y103, Y215, P277, D278, L279, S303, D307, R383 | 0 | |
| T1R3 | Q504 | 669.414593 |
| I536 | 1075.411256 | |
| A537 | 719.624656 | |
| F540 | 1268.504506 | |
| R556 | 94.624677 | |
| S559 | 1886.547787 | |
| R560, Q636, Q637, H641, H721, R723, F 778, L782 | 0 |
cMI (cumulative mutual information) scores of crucial residues in T1R2s and T1R3s.
For the residues at the binding of cyclamate located at human T1R3 (Q636, Q637, H641, H721, R723, F778 and L782), it turns out that none of them display observable cMI scores (Table 1), which could be related to the fact that these residues are not involved in the species-dependent taste toward cyclamate. Furthermore, essential roles of the two T1R subunits for the functional integrity of the sweet taste receptor have been described (Xu et al., 2004), and previous studied have indicated that mutations of residues in the binding site of one sweetener located at one monomer could also affect the sensitivity of other sweeteners which bind at another monomer of the heterodimeric T1R2/T1R3 (
Epistasis in the evolution of sweet taste receptors in primates
Epistasis means that the phenotypic consequences of a mutation depend on the genetic background (genetic sequence) in which it occurs (
Structural analysis of the molecular determinant residues of T1R2s/T1R3s in primates
Molecular modeling and docking were performed to elucidate the structural basis of key residues determining the species-dependent taste. As shown in Figure 1B, aspartame binds into a pocket via its interactions with the receptor residues. The two critical residues S40 and D142 are located near the binding site of aspartame, and the D142 can interact with the O1 atom of aspartame via hydrogen bonds bridge of a water molecule. Replacement of D142 by E (font in blue) that has a larger side chain in the squirrel monkey T1R2 could presumably reduce the volume of the binding pocket, leading to a failure of entrance into the site for aspartame. Moreover, S40 interacts with E142 via a hydrogen bond, which could stabilize the appropriate conformation of E142 for aspartame binding, thus exhibiting a cooperative role with D142 in aspartame recognition (
Figure 1A shows the binding with sweet-tasting proteins brazzein or thaumatin in the CRD region of the sweet taste receptor. It is noteworthy that the two proteins could probably interact with the receptor via long distance surface charge complementarity due to their large bulk/volume, as proposed by the wedge model (Temussi, 2011). The binding pocket of another sweetener cyclamate, which has been characterized by Jiang et al. (
Discussion
In this research, we carried out a comprehensive sequence, structure and function analysis of the sweet taste receptors-heterodimeric T1R2s/T1R3s in primates. Our results show well taxonomic distribution and classification of these receptors, as illustrated by phylogenetic tree and sequence similarity networks analysis (Figures 2–4). Furthermore, we reveal that the conservation/variation of molecular determinant residues of sweet taste receptors in primates, whose functions have been identified in previous mutagenesis experiments, can account for the previously reported behavioral or physiological results of sweet taste in primates toward several typical sweeteners to a large extent. These findings illuminate the relationships between the sequence/structure of sweet taste receptors in primates and their functional roles for taste perception. Nevertheless, a few exceptions were found that the prosimians Lemuriformes species, which were reported to have no sensitivity to aspartame in behavioral test (
The sweet taste receptor belongs to the class C GPCRs. By quantitatively mapping the global network of amino acid interactions in GPCRs, a comparative analysis has revealed a conserved network of non-covalent contacts that defines the GPCR fold (named as “molecular signatures”) (Venkatakrishnan et al., 2013), and a small subset of residues forms physically connected networks (named as “protein sectors”) that link distant functional sites, while each sector has a distinct functional role (Süel et al., 2003;
Statements
Data availability statement
The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/Supplementary Material.
Author contributions
CW and YL performed data curation and analysis. MC and BL designed the research, supervised the work and wrote the article. All authors read and approved the final manuscript.
Funding
This work was supported by the National Natural Science Foundation of China (31970935) and Natural Science Foundation of Shandong Province (ZR2020KC035).
Conflict of interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Publisher’s note
All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.
Supplementary material
The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fmolb.2023.1037966/full#supplementary-material
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Summary
Keywords
primate, sweet taste receptor, taxonomic distribution, coevolution, epistasis, species-dependent sweet taste, molecular determinants
Citation
Wang C, Liu Y, Cui M and Liu B (2023) Systematic analysis reveals novel insight into the molecular determinants of function, diversity and evolution of sweet taste receptors T1R2/T1R3 in primates. Front. Mol. Biosci. 10:1037966. doi: 10.3389/fmolb.2023.1037966
Received
06 September 2022
Accepted
13 January 2023
Published
25 January 2023
Volume
10 - 2023
Edited by
Irina Sousa Moreira, University of Coimbra, Portugal
Reviewed by
Lim Heo, Michigan State University, United States
Giulia Morra, Giulio Natta Institute of Chemical Sciences and Technologies, Department of Chemical Sciences and Materials Technologies (CNR), Italy
Supriyo Bhattacharya, City of Hope National Medical Center, United States
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© 2023 Wang, Liu, Cui and Liu.
This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
*Correspondence: Meng Cui, m.cui@northeastern.edu; Bo Liu, ertrdfgg@qlu.edu.cn
† These authors have contributed equally to this work
This article was submitted to Structural Biology, a section of the journal Frontiers in Molecular Biosciences
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