Receptors for the amino acid glutamate have a crucial role in the nervous system of nearly all animals. These proteins are split between two families: metabotropic glutamate receptors modulate the activity of neural networks, while ionotropic glutamate receptors mediate the transmission of signals between neurons. While we know a great deal about glutamate receptors, the gigabytes of data from recent genome sequencing projects provide a new opportunity to dissect how they have evolved.
These growing genomic data have also prompted new ideas about the evolution of animals. According to a new – and still controversial – version of the animal tree of life (Figure 1), comb jellies, or ctenophores, evolved first (Moroz et al., 2014; Ryan et al., 2013). Sponges (porifera) appeared next, followed by placozoans, jellyfishes (cnidarians) and, finally, bilaterians, vertebrates and invertebrates with bilateral body symmetry. If this revised tree is correct (Jékely et al., 2015; Ryan, 2014), neurons could have been lost twice during evolution because comb jellies have a nervous system but sponges and placozoans do not. Now, in eLife, Àlex Bayés of the Biomedical Research Institute Sant Pau in Barcelona and colleagues – including David Ramos-Vicente as first author – report new insights into the evolution of glutamate receptors by conducting a comprehensive study of these proteins across different animal groups (Ramos-Vicente et al., 2018).
Previously, researchers had identified four sub-families of ionotropic glutamate receptors, but they had mainly looked at vertebrate species. Now, Ramos-Vicente et al. muster data from other animal groups and propose a major reclassification that contains two new sub-families called Epsilon and Lambda. The NMDA receptors, which play a special role in vertebrates (Collingridge and Bliss, 1995), remain from the old classification, and the AKDF sub-family combines three other sub-families from the former model. Moreover, the team argues that all four sub-families were present in the last common ancestor of animals, with some being lost repeatedly during evolution (Figure 1A).
This would explain why the Epsilon sub-family is present in most animals today, whereas Lambda is only found in sponges. AKDF is carried by sponges, placozoans, jellyfish and bilaterians, but NMDA receptors exist only in these last two groups. However, we favor an alternative model in which the Epsilon sub-family evolved first, followed by the AKDF proteins. The Lambda receptors came next but only in sponges; then finally, the NMDA sub-family emerged in a common ancestor of jellyfish and bilaterians, persisting in these species (Figure 1B).
Amongst the newly identified sub-families, the Epsilon receptors are especially interesting because, like NMDA receptors, some of them are activated by glycine and others by glutamate. Such glycine receptors have previously been found in comb jellies (Alberstein et al., 2015; Yu et al., 2016), and now Ramos-Vicente et al. have identified them in a group of bilateral animals called lancelets, even though these organisms are separated from comb jellies by hundreds of millions of years of evolution. The receptors that get activated by glycine were more widespread than expected, with three receptors preferring glycine for every two favoring glutamate.
Deciphering the genetic sequence of a protein helps to predict its final structure. These analyses revealed that in comb jellies and lancelets, a subset of ionotropic glutamate receptors lacks the molecular features required to bind neurotransmitter amino acids, which suggests that they attach to other, as yet unidentified molecules. Surprisingly, when modeling the structure of one of the Epsilon receptors found in lancelets, it appeared that it might not be able to bind a ligand at all. This feature was seen in five Epsilon subunits and six AKDF subunits in these animals.
Many of the new receptors reported by Ramos-Vicente et al. have been identified only by analyzing their genetic sequences; their functional properties have yet to be studied either in native tissues, which is a challenge for many marine creatures, or by expressing these proteins in model organisms. When this is done, our understanding of the diversity of glutamate receptors will expand enormously.
- Version of Record published: December 28, 2018 (version 1)
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Evolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either two proteins with different functions (IbpA and IbpB) or a secondarily single sHsp that performs both functions in an equally efficient way. Secondarily single sHsp evolved from IbpA, an ancestor specialized in strong substrate binding. Evolution of an intermolecular binding site drove the alteration of substrate binding properties, as well as the formation of higher-order oligomers. Upon two mutations in the α-crystallin domain, secondarily single sHsp interacts with aggregated substrates less tightly. Paradoxically, less efficient binding positively influences the ability of sHsp to stimulate substrate refolding, since the dissociation of sHps from aggregates is required to initiate Hsp70-Hsp100-dependent substrate refolding. After the loss of a partner, IbpA took over its role in facilitating the sHsp dissociation from an aggregate by weakening the interaction with the substrate, which became beneficial for the refolding process. We show that the same two amino acids introduced in modern-day systems define whether the IbpA acts as a single sHsp or obligatorily cooperates with an IbpB partner. Our discoveries illuminate how one sequence has evolved to encode functions previously performed by two distinct proteins.
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