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BMC Genomics Aug 2017The electric organ of Tetronarce californica (an electric ray formerly known as Torpedo californica) is a classic preparation for biochemical studies of cholinergic...
Draft de novo transcriptome assembly and proteome characterization of the electric lobe of Tetronarce californica: a molecular tool for the study of cholinergic neurotransmission in the electric organ.
BACKGROUND
The electric organ of Tetronarce californica (an electric ray formerly known as Torpedo californica) is a classic preparation for biochemical studies of cholinergic neurotransmission. To broaden the usefulness of this preparation, we have performed a transcriptome assembly of the presynaptic component of the electric organ (the electric lobe). We combined our assembled transcriptome with a previous transcriptome of the postsynaptic electric organ, to define a MetaProteome containing pre- and post-synaptic components of the electric organ.
RESULTS
Sequencing yielded 102 million paired-end 100 bp reads. De novo Trinity assembly was performed at Kmer 25 (default) and Kmers 27, 29, and 31. Trinity, generated around 103,000 transcripts, and 78,000 genes per assembly. Assemblies were evaluated based on the number of bases/transcripts assembled, RSEM-EVAL scores and informational content and completeness. We found that different assemblies scored differently according to the evaluation criteria used, and that while each individual assembly contained unique information, much of the assembly information was shared by all assemblies. To generate the presynaptic transcriptome (electric lobe), while capturing all information, assemblies were first clustered and then combined with postsynaptic transcripts (electric organ) downloaded from NCBI. The completness of the resulting clustered predicted MetaProteome was rigorously evaluated by comparing its information against the predicted proteomes from Homo sapiens, Callorhinchus milli, and the Transporter Classification Database (TCDB).
CONCLUSIONS
In summary, we obtained a MetaProteome containing 92%, 88.5%, and 66% of the expected set of ultra-conserved sequences (i.e., BUSCOs), expected to be found for Eukaryotes, Metazoa, and Vertebrata, respectively. We cross-annotated the conserved set of proteins shared between the T. californica MetaProteome and the proteomes of H. sapiens and C. milli, using the H. sapiens genome as a reference. This information was used to predict the position in human pathways of the conserved members of the T. californica MetaProteome. We found proteins not detected before in T. californica, corresponding to processes involved in synaptic vesicle biology. Finally, we identified 42 transporter proteins in TCDB that were detected by the T. californica MetaProteome (electric fish) and not selected by a control proteome consisting of the combined proteomes of 12 widely diverse non-electric fishes by Reverse-Blast-Hit Blast. Combined, the information provided here is not only a unique tool for the study of cholinergic neurotransmission, but it is also a starting point for understanding the evolution of early vertebrates.
Topics: Animals; Cholinergic Neurons; Electric Organ; Evolution, Molecular; Gene Expression Profiling; High-Throughput Nucleotide Sequencing; Proteomics; Synapses; Synaptic Transmission; Torpedo
PubMed: 28806931
DOI: 10.1186/s12864-017-3890-4 -
Journal of Neurophysiology Apr 2012Physiological measurements from an unrestrained, untethered, and freely moving animal permit analyses of neural states correlated to naturalistic behaviors of interest....
Physiological measurements from an unrestrained, untethered, and freely moving animal permit analyses of neural states correlated to naturalistic behaviors of interest. Precise and reliable remote measurements remain technically challenging due to animal movement, which perturbs the relative geometries between the animal and sensors. Pulse-type electric fish generate a train of discrete and stereotyped electric organ discharges (EOD) to sense their surroundings actively, and rapid modulation of the discharge rate occurs while free swimming in Gymnotus sp. The modulation of EOD rates is a useful indicator of the fish's central state such as resting, alertness, and learning associated with exploration. However, the EOD pulse waveforms remotely observed at a pair of dipole electrodes continuously vary as the fish swims relative to the electrodes, which biases the judgment of the actual pulse timing. To measure the EOD pulse timing more accurately, reliably, and noninvasively from a free-swimming fish, we propose a novel method based on the principles of waveform reshaping and spatial averaging. Our method is implemented using envelope extraction and multichannel summation, which is more precise and reliable compared with other widely used threshold- or peak-based methods according to the tests performed under various source-detector geometries. Using the same method, we constructed a real-time electronic pulse detector performing an additional online pulse discrimination routine to enhance further the detection reliability. Our stand-alone pulse detector performed with high temporal precision (<10 μs) and reliability (error <1 per 10(6) pulses) and permits longer recording duration by storing only event time stamps (4 bytes/pulse).
Topics: Action Potentials; Algorithms; Animals; Discrimination, Psychological; Electric Fish; Electric Organ; Electric Stimulation; Electrodes; Electrodes, Implanted; Locomotion; Orientation; Reproducibility of Results; Time Factors; Wakefulness
PubMed: 22190625
DOI: 10.1152/jn.00757.2011 -
The Journal of Cell Biology Aug 1984The synaptic portion of a muscle fiber's basal lamina sheath has molecules tightly bound to it that cause aggregation of acetylcholine receptors (AChRs) on regenerating...
The synaptic portion of a muscle fiber's basal lamina sheath has molecules tightly bound to it that cause aggregation of acetylcholine receptors (AChRs) on regenerating myofibers. Since basal lamina and other extracellular matrix constituents are insoluble in isotonic saline and detergent solutions, insoluble detergent-extracted fractions of tissues receiving cholinergic input may provide an enriched source of the AChR-aggregating molecules for detailed characterization. Here we demonstrate that such an insoluble fraction from Torpedo electric organ, a tissue with a high concentration of cholinergic synapses, causes AChRs on cultured chick muscle cells to aggregate. We have partially characterized the insoluble fraction, examined the response of muscle cells to it, and devised ways of extracting the active components with a view toward purifying them and learning whether they are similar to those in the basal lamina at the neuromuscular junction. The insoluble fraction from the electric organ was rich in extracellular matrix constituents; it contained structures resembling basal lamina sheaths and had a high density of collagen fibrils. It caused a 3- to 20-fold increase in the number of AChR clusters on cultured myotubes without significantly affecting the number or size of the myotubes. The increase was first seen 2-4 h after the fraction was added to cultures and it was maximal by 24 h. The AChR-aggregating effect was dose dependent and was due, at least in part, to lateral migration of AChRs present in the muscle cell plasma membrane at the time the fraction was applied. Activity was destroyed by heat and by trypsin. The active component(s) was extracted from the insoluble fraction with high ionic strength or pH 5.5 buffers. The extracts increased the number of AChR clusters on cultured myotubes without affecting the number or degradation rate of surface AChRs. Antiserum against the solubilized material blocked its effect on AChR distribution and bound to the active component. Insoluble fractions of Torpedo muscle and liver did not cause AChR aggregation on cultured myotubes. However a low level of activity was detected in pH 5.5 extracts from the muscle fraction. The active component(s) in the muscle extract was immunoprecipitated by the antiserum against the material extracted from the electric organ insoluble fraction. This antiserum also bound to extracellular matrix in frog muscles, including the myofiber basal lamina sheath. Thus the insoluble fraction of Torpedo electric organ is rich in AChR-aggregating molecules that are also found in muscle and has components antigenically similar to those in myofiber basal lamina.
Topics: Animals; Cells, Cultured; Electric Organ; Immune Sera; Kinetics; Microscopy, Electron; Muscles; Receptors, Cholinergic; Solubility; Synapses; Torpedo
PubMed: 6746740
DOI: 10.1083/jcb.99.2.615 -
Current Biology : CB Jul 2018Molecular variation contributes to the evolution of adaptive phenotypes, though it is often difficult to understand precisely how. The adaptively significant electric...
Molecular variation contributes to the evolution of adaptive phenotypes, though it is often difficult to understand precisely how. The adaptively significant electric organ discharge behavior of weakly electric fish is the direct result of biophysical membrane properties set by ion channels. Here, we describe a voltage-gated potassium-channel gene in African electric fishes that is under positive selection and highly expressed in the electric organ. The channel produced by this gene shortens electric organ action potentials by activating quickly and at hyperpolarized membrane potentials. The source of these properties is a derived patch of negatively charged amino acids in an extracellular loop near the voltage sensor. We demonstrate that this negative patch acts by contributing to the global surface charge rather than by local interactions with specific amino acids in the channel's extracellular face. We suggest a more widespread role for this loop in the evolutionary tuning of voltage-dependent channels.
Topics: Animals; Electric Fish; Electric Organ; Fish Proteins; Gene Expression; Ion Channel Gating; Membrane Potentials; Potassium Channels, Voltage-Gated; Selection, Genetic
PubMed: 29937349
DOI: 10.1016/j.cub.2018.05.012 -
Nature Dec 2017Progress towards the integration of technology into living organisms requires electrical power sources that are biocompatible, mechanically flexible, and able to harness...
Progress towards the integration of technology into living organisms requires electrical power sources that are biocompatible, mechanically flexible, and able to harness the chemical energy available inside biological systems. Conventional batteries were not designed with these criteria in mind. The electric organ of the knifefish Electrophorus electricus (commonly known as the electric eel) is, however, an example of an electrical power source that operates within biological constraints while featuring power characteristics that include peak potential differences of 600 volts and currents of 1 ampere. Here we introduce an electric-eel-inspired power concept that uses gradients of ions between miniature polyacrylamide hydrogel compartments bounded by a repeating sequence of cation- and anion-selective hydrogel membranes. The system uses a scalable stacking or folding geometry that generates 110 volts at open circuit or 27 milliwatts per square metre per gel cell upon simultaneous, self-registered mechanical contact activation of thousands of gel compartments in series while circumventing power dissipation before contact. Unlike typical batteries, these systems are soft, flexible, transparent, and potentially biocompatible. These characteristics suggest that artificial electric organs could be used to power next-generation implant materials such as pacemakers, implantable sensors, or prosthetic devices in hybrids of living and non-living systems.
Topics: Animals; Artificial Organs; Biomimetics; Electric Organ; Electric Power Supplies; Electrophorus; Hydrogels; Microfluidics; Printing, Three-Dimensional; Prostheses and Implants
PubMed: 29239354
DOI: 10.1038/nature24670 -
Anais Da Academia Brasileira de Ciencias Sep 2000The electric eel Electrophorus electricus is a fresh water teleost showing an electrogenic tissue that produces electric discharges. This electrogenic tissue is... (Review)
Review
The electric eel Electrophorus electricus is a fresh water teleost showing an electrogenic tissue that produces electric discharges. This electrogenic tissue is distributed in three well-defined electric organs which may be found symmetrically along both sides of the eel. These electric organs develop from muscle and exhibit several biochemical properties and morphological features of the muscle sarcolema. This review examines the contribution of the cytoskeletal meshwork to the maintenance of the polarized organization of the electrocyte, the cell that contains all electric properties of each electric organ. The cytoskeletal filaments display an important role in the establishment and maintenance of the highly specialized membrane model system of the electrocyte. As a muscular tissue, these electric organs expresses actin and desmin. The studies that characterized these cytoskeletal proteins and their implications on the electrophysiology of the electric tissues are revisited.
Topics: Actin Cytoskeleton; Animals; Cytoskeleton; Densitometry; Electric Organ; Electrophoresis, Gel, Two-Dimensional; Electrophorus; Microscopy, Electron
PubMed: 11028099
DOI: 10.1590/s0001-37652000000300008 -
The Journal of Experimental Biology Jun 2022Within-species variation in male morphology is common among vertebrates and is often characterized by dramatic differences in behavior and hormonal profiles. Males with...
Within-species variation in male morphology is common among vertebrates and is often characterized by dramatic differences in behavior and hormonal profiles. Males with divergent morphs also often use communication signals in a status-dependent way. Weakly electric knifefish are an excellent system for studying variation in male morphology and communication and its hormonal control. Knifefish transiently modulate the frequency of their electric organ discharge (EOD) during social encounters to produce chirps and rises. In the knifefish Compsaraia samueli, males vary extensively in jaw length. EODs and their modulations (chirps and rises) have never been investigated in this species, so it is unclear whether jaw length is related to the function of these signals. We used three behavioral assays to analyze EOD modulations in male C. samueli: (1) artificial playbacks, (2) relatively brief, live agonistic dyadic encounters, and (3) long-term overnight recordings. We also measured circulating levels of two androgens, 11-ketotestosterone and testosterone. Chirp structure varied within and across individuals in response to artificial playback, but was unrelated to jaw length. Males with longer jaws were more often dominant in dyadic interactions. Chirps and rises were correlated with and preceded attacks regardless of status, suggesting these signals function in aggression. In longer-term interactions, chirp rate declined after 1 week of pairing, but was unrelated to male morphology. Levels of circulating androgens were low and not predictive of jaw length or EOD signal parameters. These results suggest that communication signals and variation in male morphology are linked to outcomes of non-breeding agonistic contests.
Topics: Aggression; Androgens; Animal Communication; Animals; Electric Fish; Electric Organ; Gymnotiformes; Male
PubMed: 35603444
DOI: 10.1242/jeb.243452 -
BMC Evolutionary Biology Jan 2020Understanding the genomic basis of phenotypic diversity can be greatly facilitated by examining adaptive radiations with hypervariable traits. In this study, we focus on...
BACKGROUND
Understanding the genomic basis of phenotypic diversity can be greatly facilitated by examining adaptive radiations with hypervariable traits. In this study, we focus on a rapidly diverged species group of mormyrid electric fish in the genus Paramormyrops, which are characterized by extensive phenotypic variation in electric organ discharges (EODs). The main components of EOD diversity are waveform duration, complexity and polarity. Using an RNA-sequencing based approach, we sought to identify gene expression correlates for each of these EOD waveform features by comparing 11 specimens of Paramormyrops that exhibit variation in these features.
RESULTS
Patterns of gene expression among Paramormyrops are highly correlated, and 3274 genes (16%) were differentially expressed. Using our most restrictive criteria, we detected 145-183 differentially expressed genes correlated with each EOD feature, with little overlap between them. The predicted functions of several of these genes are related to extracellular matrix, cation homeostasis, lipid metabolism, and cytoskeletal and sarcomeric proteins. These genes are of significant interest given the known morphological differences between electric organs that underlie differences in the EOD waveform features studied.
CONCLUSIONS
In this study, we identified plausible candidate genes that may contribute to phenotypic differences in EOD waveforms among a rapidly diverged group of mormyrid electric fish. These genes may be important targets of selection in the evolution of species-specific differences in mate-recognition signals.
Topics: Animals; Electric Fish; Electric Organ; Gabon; Gene Expression; Gene Expression Profiling; Genome; Phenotype; Reproduction; Species Specificity
PubMed: 31918666
DOI: 10.1186/s12862-019-1572-3 -
Journal of Comparative Physiology. A,... May 2021Anthropogenic environmental degradation has led to an increase in the frequency and prevalence of aquatic hypoxia (low dissolved oxygen concentration, DO), which may...
Anthropogenic environmental degradation has led to an increase in the frequency and prevalence of aquatic hypoxia (low dissolved oxygen concentration, DO), which may affect habitat quality for water-breathing fishes. The weakly electric black ghost knifefish, Apteronotus albifrons, is typically found in well-oxygenated freshwater habitats in South America. Using a shuttle-box design, we exposed juvenile A. albifrons to a stepwise decline in DO from normoxia (> 95% air saturation) to extreme hypoxia (10% air saturation) in one compartment and chronic normoxia in the other. On average, A. albifrons actively avoided the hypoxic compartment below 22% air saturation. Hypoxia avoidance was correlated with upregulated swimming activity. Following avoidance, fish regularly ventured back briefly into deep hypoxia. Hypoxia did not affect the frequency of their electric organ discharges. Our results show that A. albifrons is able to sense hypoxia at non-lethal levels and uses active avoidance to mitigate its adverse effects.
Topics: Anaerobiosis; Animals; Avoidance Learning; Behavior, Animal; Ecosystem; Electric Organ; Fresh Water; Gymnotiformes; Oxygen; Swimming
PubMed: 33751182
DOI: 10.1007/s00359-021-01470-w -
The Journal of Neuroscience : the... May 1995Electric fish of the genus Sternopygus produce a sinusoidal electric organ discharge (EOD) of low frequencies in males, high frequencies in females, and overlapping and... (Comparative Study)
Comparative Study
Electric fish of the genus Sternopygus produce a sinusoidal electric organ discharge (EOD) of low frequencies in males, high frequencies in females, and overlapping and intermediate frequencies in juveniles. Correspondingly, the cells of the electric organ, the electrocytes, generate action potentials which are of long duration in mature males, short duration in females, and intermediate duration in immatures. The androgen dihydrotestosterone (DHT) lowers EOD frequency and increases electrocyte action potential duration. We examined the electrocytes under voltage clamp to determine whether variations in the kinetic properties of the Na+ current might underlie these phenomena. We found that the fast inactivation time constants of the peak Na+ current (0 mV) ranged from 0.5 to 4.7 msec and varied systematically with EOD frequency and action potential duration. Voltage dependence of steady-state inactivation also varied with EOD frequency with the midpoint of inactivation being more positive in fish with low EOD frequencies. There was no correlation between the voltage at which the Na+ current activates, voltage at peak current, reversal potential, rate of recovery from inactivation, or TTX sensitivity and EOD frequency. We tested whether DHT influenced Na+ current inactivation by recording from electrocytes before and after juvenile fish of both sexes were implanted with a DHT-containing or empty capsule. We found that inactivation time constants were significantly slower in DHT implanted, but not control, fish. This is the first observation of functionally relevant individual variation in the kinetics of a Na+ current and the first demonstration that the kinetics of a Na+ current may be modulated by an androgen.
Topics: Animals; Dihydrotestosterone; Electric Fish; Electric Organ; Female; In Vitro Techniques; Kinetics; Male; Membrane Potentials; Patch-Clamp Techniques; Sex Characteristics; Sodium Channels; Time Factors
PubMed: 7751963
DOI: 10.1523/JNEUROSCI.15-05-04023.1995