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      The evolution of synaptic and cognitive capacity: Insights from the nervous system transcriptome of Aplysia

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          Significance

          An influential proposal for the evolution of intelligence in behaviorally sophisticated vertebrates is that increased diversity of synaptic proteins enabled enhanced neural plasticity. We recently completed an improved transcriptome for the nervous system of a simple neurobiological model, the marine mollusk Aplysia. A comparison of proteins that form synaptic scaffolds in Aplysia, in Octopus (a mollusk with an elaborate brain and complex behaviors), and in vertebrates revealed that several families of synaptic scaffold proteins in mollusks are absent in the vertebrate lineage. Despite dramatic differences in cognitive capacity, Octopus and Aplysia have very similar synaptic proteins. This suggests that another factor, such as increases in neural circuit complexity, may be the major contributor to the evolution of intelligence.

          Abstract

          The gastropod mollusk Aplysia is an important model for cellular and molecular neurobiological studies, particularly for investigations of molecular mechanisms of learning and memory. We developed an optimized assembly pipeline to generate an improved Aplysia nervous system transcriptome. This improved transcriptome enabled us to explore the evolution of cognitive capacity at the molecular level. Were there evolutionary expansions of neuronal genes between this relatively simple gastropod Aplysia (20,000 neurons) and Octopus (500 million neurons), the invertebrate with the most elaborate neuronal circuitry and greatest behavioral complexity? Are the tremendous advances in cognitive power in vertebrates explained by expansion of the synaptic proteome that resulted from multiple rounds of whole genome duplication in this clade? Overall, the complement of genes linked to neuronal function is similar between Octopus and Aplysia. As expected, a number of synaptic scaffold proteins have more isoforms in humans than in Aplysia or Octopus. However, several scaffold families present in mollusks and other protostomes are absent in vertebrates, including the Fifes, Lev10s, SOLs, and a NETO family. Thus, whereas vertebrates have more scaffold isoforms from select families, invertebrates have additional scaffold protein families not found in vertebrates. This analysis provides insights into the evolution of the synaptic proteome. Both synaptic proteins and synaptic plasticity evolved gradually, yet the last deuterostome-protostome common ancestor already possessed an elaborate suite of genes associated with synaptic function, and critical for synaptic plasticity.

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          Most cited references82

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          The Amphimedon queenslandica genome and the evolution of animal complexity.

          Sponges are an ancient group of animals that diverged from other metazoans over 600 million years ago. Here we present the draft genome sequence of Amphimedon queenslandica, a demosponge from the Great Barrier Reef, and show that it is remarkably similar to other animal genomes in content, structure and organization. Comparative analysis enabled by the sequencing of the sponge genome reveals genomic events linked to the origin and early evolution of animals, including the appearance, expansion and diversification of pan-metazoan transcription factor, signalling pathway and structural genes. This diverse 'toolkit' of genes correlates with critical aspects of all metazoan body plans, and comprises cell cycle control and growth, development, somatic- and germ-cell specification, cell adhesion, innate immunity and allorecognition. Notably, many of the genes associated with the emergence of animals are also implicated in cancer, which arises from defects in basic processes associated with metazoan multicellularity.
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            The evolution of self-control.

            Cognition presents evolutionary research with one of its greatest challenges. Cognitive evolution has been explained at the proximate level by shifts in absolute and relative brain volume and at the ultimate level by differences in social and dietary complexity. However, no study has integrated the experimental and phylogenetic approach at the scale required to rigorously test these explanations. Instead, previous research has largely relied on various measures of brain size as proxies for cognitive abilities. We experimentally evaluated these major evolutionary explanations by quantitatively comparing the cognitive performance of 567 individuals representing 36 species on two problem-solving tasks measuring self-control. Phylogenetic analysis revealed that absolute brain volume best predicted performance across species and accounted for considerably more variance than brain volume controlling for body mass. This result corroborates recent advances in evolutionary neurobiology and illustrates the cognitive consequences of cortical reorganization through increases in brain volume. Within primates, dietary breadth but not social group size was a strong predictor of species differences in self-control. Our results implicate robust evolutionary relationships between dietary breadth, absolute brain volume, and self-control. These findings provide a significant first step toward quantifying the primate cognitive phenome and explaining the process of cognitive evolution.
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              The Ctenophore Genome and the Evolutionary Origins of Neural Systems

              The origins of neural systems remain unresolved. In contrast to other basal metazoans, ctenophores, or comb jellies, have both complex nervous and mesoderm-derived muscular systems. These holoplanktonic predators also have sophisticated ciliated locomotion, behaviour and distinct development. Here, we present the draft genome of Pleurobrachia bachei, Pacific sea gooseberry, together with ten other ctenophore transcriptomes and show that they are remarkably distinct from other animal genomes in their content of neurogenic, immune and developmental genes. Our integrative analyses place Ctenophora as the earliest lineage within Metazoa. This hypothesis is supported by comparative analysis of multiple gene families, including the apparent absence of HOX genes, canonical microRNA machinery, and reduced immune complement in ctenophores. Although two distinct nervous systems are well-recognized in ctenophores, many bilaterian neuron-specific genes and genes of “classical” neurotransmitter pathways either are absent or, if present, are not expressed in neurons. Our metabolomic and physiological data are consistent with the hypothesis that ctenophore neural systems, and possibly muscle specification, evolved independently from those in other animals.
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                Author and article information

                Journal
                Proc Natl Acad Sci U S A
                Proc Natl Acad Sci U S A
                pnas
                PNAS
                Proceedings of the National Academy of Sciences of the United States of America
                National Academy of Sciences
                0027-8424
                1091-6490
                8 July 2022
                12 July 2022
                8 January 2023
                : 119
                : 28
                : e2122301119
                Affiliations
                [1] aInstitute for Genome Sciences, University of Maryland School of Medicine , Baltimore, MD 21201;
                [2] bEugene Bell Center for Regenerative Biology and Tissue Engineering, Marine Biological Laboratory, Woods Hole, MA 02543;
                [3] cDepartment of Pharmacology, University of Maryland School of Medicine , Baltimore, MD 21201;
                [4] dDepartment of Biomedical Engineering, Center for Computational Biology, Johns Hopkins University , Baltimore, MD 21205;
                [5] eCirculomics Inc., Baltimore, MD 21202;
                [6] fDepartment of Neuroscience, Columbia University , New York, NY 10032;
                [7] gNew York State Psychiatric Institute , New York, NY 10032;
                [8] hHHMI, New York, NY 10032;
                [9] iDepartment of Neurology and Neurosurgery, Montreal Neurological Institute, McGill University , Montreal, QC H3A 2B4, Canada;
                [10] jProgram in Neuroscience, University of Maryland School of Medicine , Baltimore, MD 21201
                Author notes
                1To whom correspondence may be addressed. Email: erk5@ 123456columbia.edu or tabrams@ 123456som.umaryland.edu .

                Contributed by Eric R. Kandel; received December 9, 2021; accepted April 26, 2022; reviewed by John Byrne, Elizabeth Cropper, and Sathyanarayanan Puthanveettil

                Author contributions: J.O., L.J.T., A.M., E.R.K., C.M.F., and T.W.A. designed research; J.O., C.B.A., P.S., C.J.R., A.V.Z., M.K., and K.L. performed research; J.O., C.B.A., P.S., S.C., M.Z., A.M., A.V.Z., W.S., and T.W.A. analyzed data; and J.O., C.B.A., P.S., W.S., and T.W.A. wrote the paper.

                Author information
                https://orcid.org/0000-0001-7851-6902
                https://orcid.org/0000-0003-1927-9315
                Article
                202122301
                10.1073/pnas.2122301119
                9282427
                35867761
                496df881-61f4-4a28-a2fe-12365e96ff07
                Copyright © 2022 the Author(s). Published by PNAS.

                This article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND).

                History
                : 26 April 2022
                Page count
                Pages: 11
                Funding
                Funded by: Howard Hughes Medical Institute (HHMI) 100000011
                Award ID: n/a
                Award Recipient : Eric R. Kandel
                Funded by: National Science Foundation (NSF) 100000001
                Award ID: IOS-1255695
                Award Recipient : Tom Abrams
                Funded by: HHS | National Institutes of Health (NIH) 100000002
                Award ID: R01 MH 55880
                Award Recipient : Tom Abrams
                Categories
                424
                Biological Sciences
                Neuroscience

                neural plasticity,synaptic plasticity,evolution,neuromodulation,aplysia

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