CoChat
Sign Up
Cited by 86Genomics and Phylogenetic StudiesNeurobiology and Insect Physiology ResearchNeuroscience and Neuropharmacology Research

The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.

Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation

Open access
Northcutt, Adam J., Lett, Kawasi M., Garcia, Virginia B., Diester, Clare M., Lane, Brian J., Marder, Eve, Schulz, David J.·2016·BMC Genomics
DOI 10.1186/s12864-016-3215-zPMC PMC5096308
Open this paper in CoChat — free accountOpen PDF

Abstract

BACKGROUND: Crustaceans have been studied extensively as model systems for nervous system function from single neuron properties to behavior. However, lack of molecular sequence information and tools have slowed the adoption of these physiological systems as molecular model systems. In this study, we sequenced and performed de novo assembly for the nervous system transcriptomes of two decapod crustaceans: the Jonah crab (Cancer borealis) and the American lobster (Homarus americanus). RESULTS: Forty-two thousand, seven hundred sixty-six and sixty thousand, two hundred seventy-three contigs were assembled from C. borealis and H. americanus respectively, representing 9,489 and 11,061 unique coding sequences. From these transcripts, genes associated with neural function were identified and manually curated to produce a characterization of multiple gene families important for nervous system function. This included genes for 34 distinct ion channel types, 17 biogenic amine and 5 GABA receptors, 28 major transmitter receptor subtypes including glutamate and acetylcholine receptors, and 6 gap junction proteins - the Innexins. CONCLUSION: With this resource, crustacean model systems are better poised for incorporation of modern genomic and molecular biology technologies to further enhance the interrogation of fundamentals of nervous system function.

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1186/s12864-016-3215-z

Cites

3 of 3 references verified0 citation errors · 0 not checkable

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • In wild-type populations of animals with similar performance profiles, 2-7 fold variations in the mRNA expression of most cellular components are seen in identified neurons across individuals.

    “In wild-type populations of animals with similar performance profiles, 2-7 fold variations in the mRNA expression of most cellular components are seen in identified neurons across individuals [25-30]”

    From A feature and not a bug: Replication failures can lead to new biology (2026) · cites this paper as [29]

    The Discussion discusses gene-expression differences across tissues and says this study provides a reference for subsequent expression analyses. Neither it nor the retrieved Results passages report 2–7-fold mRNA variation across individuals with similar performance profiles. Searches for that range and for variability in identified neurons found relevant titles in the References, but no passage in this paper stating the claimed finding. (LLM, conf=0.74)

    Experimental — accuracy not yet measured

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

Flagged first, then by citations

Research works printed but not linked: 129

  1. Colbourne JK, Pfrender ME, Gilbert D, Thomas WK, Tucker A, Oakley TH, et al. The ecoresponsive genome of Daphnia pulex. Science. 2011;331:555–61. · DOI
  2. Zeng V, Villanueva KE, Ewen-Campen BS, Alwes F, Browne WE, Extavour CG. De novo assembly and characterization of a maternal and developmental transcriptome for the emerging model crustacean Parhyale hawaiensis. BMC Genomics. 2011;12:581. · DOI
  3. Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, et al. The genome sequence of Drosophila melanogaster. Science. 2000;287:2185–95. · DOI
  4. Christie AE, Chi M, Lameyer TJ, Pascual MG, Shea DN, Stanhope ME, et al. Neuropeptidergic signaling in the american lobster homarus americanus: New insights from high-throughput nucleotide sequencing. PLoS One. 2015;10:e0145964. · DOI
  5. McGrath LL, Vollmer SV, Kaluziak ST, Ayers J. De novo transcriptome assembly for the lobster Homarus americanus and characterization of differential gene expression across nervous system tissues. BMC Genomics. 2016;17:63. · DOI
  6. Wiersma CA, Ikeda K. Interneurons commanding swimmeret movements in the crayfish, Procambarus clarkii (girard). Comp Biochem Physiol. 1964;12:509–25. · DOI
  7. Furshpan EJ, Potter DD. Transmission at the giant motor synapses of the crayfish. J Physiol. 1959;145:289–325. · DOI
  8. Dudel J, Kuffler S. The quantal nature of transmission and spontaneous miniature potentials at the crayfish neuromuscular junction. J Physiol. 1961;155:514–29. · DOI
  9. Otsuka M, Iversen LL, Hall ZW, Kravitz EA. Release of gamma-aminobutyric acid from inhibitory nerves of lobster. Proc Natl Acad Sci U S A. 1966;56:1110–5. · DOI
  10. Otsuka M, Kravitz EA, Potter DD. Physiological and chemical architecture of a lobster ganglion with particular reference to gamma-aminobutyrate and glutamate. J Neurophysiol. 1967;30:725–52. · DOI
  11. Connor JA, Walter D, McKown R. Neural repetitive firing: modifications of the Hodgkin-Huxley axon suggested by experimental results from crustacean axons. Biophys J. 1977;18:81–102. · DOI
  12. Connor JA. Neural repetitive firing: a comparative study of membrane properties of crustacean walking leg axons. J Neurophysiol. 1975;38:922–32. · DOI
  13. Remler M, Selverston A, Kennedy D. Lateral giant fibers of cray fish: location of somata by dye injection. Science. 1968;162:281–3. · DOI
  14. Stretton AO, Kravitz EA. Neuronal geometry: determination with a technique of intracellular dye injection. Science. 1968;162:132–4. · DOI
  15. Hartline D. Impulse identification and axon mapping of the nine neurons in the cardiac ganglion of the lobster Homarus americanus. J Exp Biol. 1967;47:327–41. · DOI
  16. Maynard DM. Simpler networks. Ann N Y Acad Sci. 1972;193:59–72. · DOI
  17. Mulloney B, Selverston AI. Organization of the stomatogastric ganglion of the spiny lobster - III. Coordination of the two subsets of the gastric system. J Comp Physiol. 1974;91:53–78. · DOI
  18. Heitler WJ. Coupled motoneurones are part of the crayfish swimmeret central oscillator. Nature. 1978;275:231–4. · DOI
  19. Marder E, Bucher D. Understanding circuit dynamics using the stomatogastric nervous system of lobsters and crabs. Annu Rev Physiol. 2007;69:291–316. · DOI · Paper page
  20. Diehl F, White RS, Stein W, Nusbaum MP. Motor circuit-specific burst patterns drive different muscle and behavior patterns. J Neurosci. 2013;33:12013–29. · DOI
  21. Williams AH, Kwiatkowski MA, Mortimer AL, Marder E, Lou ZM, Dickinson PS. Animal-to-animal variability in the phasing of the crustacean cardiac motor pattern: an experimental and computational analysis. J Neurophysiol. 2013;109:2451–65. · DOI
  22. Simão FA, Waterhouse RM, Ioannidis P, Kriventseva EV, Zdobnov EM. BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs. Bioinformatics. 2015;31:3210–2. · DOI · Paper page
  23. Conesa A, Götz S, García-Gómez JM, Terol J, Talón M, Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics. 2005;21:3674–6. · DOI
  24. Zahavi T, Stelzer G, Strauss L, Salmon AY, Salmon-Divon M. VennBLAST—whole transcriptome comparison and visualization tool. Genomics. 2015;105:131–6. · DOI
  25. Subramaniam S. The Biology Workbench--a seamless database and analysis environment for the biologist. Proteins. 1998;32:1–2. · DOI
  26. Elmer KR, Fan S, Gunter HM, Jones JC, Boekhoff S, Kuraku S, et al. Rapid evolution and selection inferred from the transcriptomes of sympatric crater lake cichlid fishes. Mol Ecol. 2010;19:197–211. · DOI
  27. Gu XC, Zhang YN, Kang K, Dong SL, Zhang LW. Antennal transcriptome analysis of odorant reception genes in the red turpentine beetle (RTB), Dendroctonus valens. PLoS One. 2015;10:e0125159. · DOI
  28. Theissinger K, Falckenhayn C, Blande D, Toljamo A, Gutekunst J, Makkonen J, et al. De Novo assembly and annotation of the freshwater crayfish Astacus astacus transcriptome. Mar Genomics. 2016;28:7–10. · DOI
  29. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994;22:4673–80. · DOI · Paper page
  30. Ransdell JL, Temporal S, West NL, Leyrer ML, Schulz DJ. Characterization of inward currents and channels underlying burst activity in motoneurons of crab cardiac ganglion. J Neurophysiol. 2013;110:42–54. · DOI
  31. Lu B, Su Y, Das S, Liu J, Xia J, Ren D. The neuronal channel NALCN contributes resting sodium permeability and is required for normal respiratory rhythm. Cell. 2007;129:371–83. · DOI · Paper page
  32. Ouyang Q, Goeritz M, Harris-Warrick RM. Panulirus interruptus Ih-channel gene PIIH: modification of channel properties by alternative splicing and role in rhythmic activity. J Neurophysiol. 2007;97:3880–92. · DOI
  33. Podda MV, Grassi C. New perspectives in cyclic nucleotide-mediated functions in the CNS: the emerging role of cyclic nucleotide-gated (CNG) channels. Pflügers Arch. Eur J Physiol. 2014;466:1241–57. · DOI
  34. Schulz DJ, Goaillard J-M, Marder EE. Quantitative expression profiling of identified neurons reveals cell-specific constraints on highly variable levels of gene expression. Proc Natl Acad Sci U S A. 2007;104:13187–91. · DOI · Paper page
  35. Baro DJ, Coniglio LM, Cole CL, Rodriguez HE, Lubell JK, Kim MT, et al. Lobster shal: comparison with Drosophila shal and native potassium currents in identified neurons. J Neurosci. 1996;16:1689–701. · DOI
  36. Baro DJ, Cole CL, Harris-Warrick RM. The lobster shaw gene: Cloning, sequence analysis and comparison to fly shaw. Gene. 1996;170:267–70. · DOI
  37. Kim M, Baro DJ, Lanning CC, Doshi M, Moskowitz HS, Farnham J, et al. Expression of Panulirus shaker potassium channel splice variants. Receptors Channels. 1998;5:291–304.
  38. Baro DJ, Quiones L, Lanning CC, Harris-Warrick RM, Ruiz M. Alternate splicing of the shal gene and the origin of IA diversity among neurons in a dynamic motor network. Neuroscience. 2001;106:419–32. · DOI
  39. Robbins J. KCNQ potassium channels: physiology, pathophysiology, and pharmacology. Pharmacol Ther. 2001;90:1–19. · DOI
  40. Wissenbach U, Niemeyer BA, Flockerzi V. TRP channels as potential drug targets. Biol Cell. 2004;96:47–54. · DOI
  41. Lee Y, Lee Y, Lee J, Bang S, Hyun S, Kang J, et al. Pyrexia is a new thermal transient receptor potential channel endowing tolerance to high temperatures in Drosophila melanogaster. Nat Genet. 2005;37:305–10. · DOI
  42. Bobkov YV, Ache BW. Pharmacological properties and functional role of a TRP-related ion channel in lobster olfactory receptor neurons. J Neurophysiol. 2005;93:1372–80. · DOI
  43. Rydqvist B, Purali N. Transducer properties of the rapidly adapting stretch receptor neurone in the crayfish (Pacifastacus leniusculus). J Physiol. 1993;469:193–211. · DOI
  44. Dudel J. Facilitatory effects of 5-hydroxy-tryptamine on the crayfish neuromuscular junction. Naunyn Schmiedebergs Arch Exp Pathol Pharmakol. 1965;249:515–28. · DOI
  45. Barker DL, Kushner PD, Hooper NK. Synthesis of dopamine and octopamine in the crustacean stomatogastric nervous system. Brain Res. 1979;161:99–113. · DOI
  46. Livingstone MS, Harris-Warrick RM, Kravitz EA. Serotonin and octopamine produce opposite postures in lobsters. Science. 1980;208:76–9. · DOI
  47. Glanzman DL, Krasne FB. Serotonin and octopamine have opposite modulatory effects on the crayfish’s lateral giant escape reaction. J Neurosci. 1983;3:2263–9. · DOI
  48. Marder E, Eisen JS. Transmitter identification of pyloric neurons: electrically coupled neurons use different transmitters. J Neurophysiol. 1984;51:1345–61. · DOI
  49. Flamm RE, Harris-Warrick RM. Aminergic modulation in lobster stomatogastric ganglion. I. Effects on motor pattern and activity of neurons within the pyloric circuit. J Neurophysiol. 1986;55:847–65. · DOI
  50. Flamm RE, Harris-Warrick RM. Aminergic modulation in lobster stomatogastric ganglion. II. Target neurons of dopamine, octopamine, and serotonin within the pyloric circuit. J Neurophysiol. 1986;55:866–81. · DOI
  51. Beltz B, Eisen JS, Flamm R, Harris-Warrick RM, Hooper SL, Marder E. Serotonergic innervation and modulation of the stomatogastric ganglion of three decapod crustaceans (Panulirus interruptus, Homarus americanus and Cancer irroratus). J Exp Biol. 1984;109:35–54. · DOI
  52. Cleland TA, Selverston AI. Dopaminergic modulation of inhibitory glutamate receptors in the lobster stomatogastric ganglion. J Neurophysiol. 1997;78:3450–2. · DOI
  53. Ayali A, Johnson BR, Harris-Warrick RM. Dopamine modulates graded and spike-evoked synaptic inhibition independently at single synapses in pyloric network of lobster. J Neurophysiol. 1998;79:2063–9. · DOI
  54. Johnson BR, Kloppenburg P, Harris-Warrick RM. Dopamine modulation of calcium currents in pyloric neurons of the lobster stomatogastric ganglion. J Neurophysiol. 2003;90:631–43. · DOI
  55. Johnson BR, Schneider LR, Nadim F, Harris-Warrick RM. Dopamine modulation of phasing of activity in a rhythmic motor network: contribution of synaptic and intrinsic modulatory actions. J Neurophysiol. 2005;94:3101–11. · DOI
  56. Harris-Warrick RM, Johnson BR. Checks and balances in neuromodulation. Front Behav Neurosci. 2010;4:1–9.
  57. Kiehn O, Harris-Warrick RM. 5-HT modulation of hyperpolarization-activated inward current and calcium-dependent outward current in a crustacean motor neuron. J Neurophysiol. 1992;68:496–508. · DOI
  58. Clark MC, Baro DJ. Molecular cloning and characterization of crustacean type-one dopamine receptors: D1alphaPan and D1betaPan. Comp Biochem Physiol B Biochem Mol Biol. 2006;143:294–301. · DOI
  59. Clark MC, Khan R, Baro DJ. Crustacean dopamine receptors: Localization and G protein coupling in the stomatogastric ganglion. J Neurochem. 2008;104:1006–19. · DOI
  60. Clark MC, Dever TE, Dever JJ, Xu P, Rehder V, Sosa MA, et al. Arthropod 5-HT2 receptors: a neurohormonal receptor in decapod crustaceans that displays agonist independent activity resulting from an evolutionary alteration to the DRY motif. J. Neurosci. 2004;24:3421–35. · DOI
  61. Sosa MA, Spitzer N, Edwards DH, Baro DJ. A crustacean serotonin receptor: Cloning and distribution in the thoracic ganglia of crayfish and freshwater prawn. J Comp Neurol. 2004;473:526–37. · DOI
  62. Reyes-Colón D, Vázquez-Acevedo N, Rivera NM, Jezzini SH, Rosenthal J, Ruiz-Rodríguez EA, et al. Cloning and distribution of a putative octopamine/tyramine receptor in the central nervous system of the freshwater prawn Macrobrachium rosenbergii. Brain Res. 2010;1348:42–54. · DOI
  63. Lind U, Alm Rosenblad M, Hasselberg Frank L, Falkbring S, Brive L, Laurila JM, et al. Octopamine receptors from the barnacle Balanus improvisus are activated by the alpha2-adrenoceptor agonist medetomidine. Mol Pharmacol. 2010;78:237–48. · DOI
  64. Jezzini SH, Reyes-Colón D, Sosa MA. Characterization of a prawn OA/TA receptor in Xenopus oocytes suggests functional selectivity between octopamine and tyramine. PLoS One. 2014;9:e111314. · DOI
  65. Roeder T. Metabotropic histamine receptors—nothing for invertebrates? Eur J Pharmacol. 2003;466:85–90. · DOI
  66. McClintock TS, Ache BW. Histamine directly gates a chloride channel in lobster olfactory receptor neurons. Proc Natl Acad Sci U S A. 1989;86:8137–41. · DOI
  67. Claiborne BJ, Selverston AI. Histamine as a neurotransmitter in the stomatogastric nervous system of the spiny lobster. J Neurosci. 1984;4:708–21. · DOI
  68. Ferraguti F, Shigemoto R. Metabotropic glutamate receptors. Cell Tissue Res. 2006;326:483–504. · DOI
  69. Hirono C, Ito I, Yamagishi S, Sugiyama H. Characterization of glutamate receptors induced in Xenopus oocytes after injection of rat brain mRNA. Neurosci Res. 1988;6:106–14. · DOI
  70. Krenz WD, Nguyen D, Pérez-Acevedo NL, Selverston AI. Group I, II, and III mGluR compounds affect rhythm generation in the gastric circuit of the crustacean stomatogastric ganglion. J Neurophysiol. 2000;83:1188–201. · DOI
  71. Pérez-Acevedo NL, Krenz WD. Metabotropic glutamate receptor agonists modify the pyloric output of the crustacean stomatogastric ganglion. Brain Res. 2005;1062:1–8. · DOI
  72. Takeuchi A, Takeuchi N. The effect on crayfish muscle of iontrophoretically applied glutamate. J Physiol. 1964;170:296–317. · DOI
  73. Pfeiffer-Linn C, Glantz RM. An arthropod NMDA receptor. Synapse. 1991;9:35–42. · DOI
  74. Troncoso J, Maldonado H. Two related forms of memory in the crab Chasmagnathus are differentially affected by NMDA receptor antagonists. Pharmacol Biochem Behav. 2002;72:251–65. · DOI
  75. Gafurov BS, Urazaev AK, Grossfeld RM, Lieberman EM. Mechanism of NMDA receptor contribution to axon-to-glia signaling in the crayfish medial giant nerve fiber. Glia. 2002;38:80–6. · DOI
  76. Cleland TA, Selverston AI. Glutamate-gated inhibitory currents of central pattern generator neurons in the lobster stomatogastric ganglion. J Neurosci. 1995;15:6631–9. · DOI
  77. Contractor A, Mulle C, Swanson GT. Kainate receptors coming of age: milestones of two decades of research. Trends Neurosci. 2011;34:154–63. · DOI · Paper page
  78. King AE, Wheal HV. The excitatory actions of kainic acid and some derivatives at the crab neuromuscular junction. Eur J Pharmacol. 1984;102:129–34. · DOI
  79. Shinozaki H, Ishida M. Electrophysiological studies of kainate, quisqualate, and ibotenate action on the crayfish neuromuscular junction. Adv Biochem Psychopharmacol. 1981;27:327–36.
  80. Cull-Candy SG. Two types of extrajunctional L-glutamate receptors in locust muscle fibres. J Physiol. 1976;255:449–64. · DOI
  81. Marder E, Paupardin-Tritsch D. The pharmacological properties of some crustacean neuronal acetylcholine, gamma-aminobutyric acid, and L-glutamate responses. J Physiol. 1978;280:213–36. · DOI
  82. Semenov EP, Pak WL. Diversification of Drosophila chloride channel gene by multiple posttranscriptional mRNA modifications. J Neurochem. 1999;72:66–72. · DOI
  83. Kravitz E, Potter DD, Van Gelder N. Gamma-aminobutyric acid and other blocking substances extracted from crab muscle. Nature. 1962;194:382–3. · DOI
  84. Iversen LL, Kravitz EA, Otsuka M. Release of gamma-aminobutyric acid (GABA) from lobster inhibitory neurones. J Physiol. 1967;188:21P–2.
  85. Dudel J, Gryder R, Kaji A, Kuffler SW, Potter DD. Gamma-aminobutyric acid and other blocking compounds in crustacea. I. Central nervous system. J Neurophysiol. 1963;26:721–8. · DOI
  86. Florey E, Chapman DD. The non-identity of the transmitter substance of crustacean inhibitory neurons and gamma-aminobutyric acid. Comp Biochem Physiol. 1961;3:92–8. · DOI
  87. Fuchs PA, Getting PA. Ionic basis of presynaptic inhibitory potentials at crayfish claw opener. J Neurophysiol. 1980;43:1547–57. · DOI
  88. Swensen AM, Golowasch J, Christie AE, Coleman MJ, Nusbaum MP, Marder E. GABA and responses to GABA in the stomatogastric ganglion of the crab Cancer borealis. J Exp Biol. 2000;203:2075–92. · DOI
  89. Beg AA, Jorgensen EM. EXP-1 is an excitatory GABA-gated cation channel. Nat Neurosci. 2003;6:1145–52. · DOI
  90. Gisselmann G, Plonka J, Pusch H, Hatt H. Drosophila melanogaster GRD and LCCH3 subunits form heteromultimeric GABA-gated cation channels. Br J Pharmacol. 2004;142:409–13. · DOI
  91. Xu F, Hollins B, Landers TM, McClintock TS. Molecular cloning of a lobster Gbeta subunit and Gbeta expression in olfactory receptor neuron dendrites and brain neuropil. J Neurobiol. 1998;36:525–36. · DOI
  92. Jiménez-Vázquez EN, Díaz-Velásquez CE, Uribe RM, Arias JM, García U. Molecular cloning and expression of a GABA receptor subunit from the crayfish Procambarus clarkii. J Neurosci Res. 2016;94:190–203. · DOI
  93. Padgett CL, Slesinger PA. GABAB receptor coupling to G-proteins and ion channels. Adv Pharmacol. 2010;58:123–47. · DOI
  94. Ren GR, Folke J, Hauser F, Li S, Grimmelikhuijzen CJP. The A- and B-type muscarinic acetylcholine receptors from Drosophila melanogaster couple to different second messenger pathways. Biochem Biophys Res Commun. 2015;462:358–64. · DOI
  95. Collin C, Hauser F, Gonzalez de Valdivia E, de Valdivia EG, Li S, Reisenberger J, et al. Two types of muscarinic acetylcholine receptors in Drosophila and other arthropods. Cell. Mol. Life Sci. 2013;70:3231–42.
  96. Florey E. Acetylcholine in Invertebrate Nervous Systems. Can J Biochem Physiol. 1963;41:2619–26. · DOI
  97. Hildebrand JG, Townsel JG, Kravitz EA. Distribution of acetylcholine, choline, choline acetyltransferase and acetylcholinesterase in regions and single identified axons of the lobster nervous system. J Neurochem. 1974;23:951–63. · DOI
  98. Marder E, Paupardin-Tritsch D. The pharmacological profile of the acetylcholine response of a crustacean muscle. J Exp Biol. 1980;88:147–59. · DOI
  99. Marder E. Cholinergic motor neurones in the stomatogastric system of the lobster. J Physiol. 1976;257:63–86. · DOI
  100. van Nierop P, Bertrand S, Munno DW, Gouwenberg Y, van Minnen J, Spafford JD, et al. Identification and functional expression of a family of nicotinic acetylcholine receptor subunits in the central nervous system of the mollusc Lymnaea stagnalis. J Biol Chem. 2006;281:1680–91. · DOI
  101. Touroutine D, Fox RM, Von Stetina SE, Burdina A, Miller DM, Richmond JE. acr-16 encodes an essential subunit of the levamisole-resistant nicotinic receptor at the Caenorhabditis elegans neuromuscular junction. J Biol Chem. 2005;280:27013–21. · DOI
  102. Phelan P. Innexins: Members of an evolutionarily conserved family of gap-junction proteins. Biochim Biophys Acta. 2005;1711:225–45. · DOI
  103. Shruti S, Schulz DJ, Lett KM, Marder E. Electrical coupling and innexin expression in the stomatogastric ganglion of the crab Cancer borealis. J Neurophysiol. 2014;112:2946–58. · DOI
  104. Ducret E, Alexopoulos H, Le Feuvre Y, Davies JA, Meyrand P, Bacon JP, et al. Innexins in the lobster stomatogastric nervous system: cloning, phylogenetic analysis, developmental changes and expression within adult identified dye and electrically coupled neurons. Eur J Neurosci. 2006;24:3119–33. · DOI
  105. Getting PA. Mechanisms of pattern generation underlying swimming in Tritonia. II Network reconstruction. J Neurophysiol. 1983;49:1017–35. · DOI
  106. Castellucci V, Kandel E. Presynaptic facilitation as a mechanism for behavioral sensitization in Aplysia. Science. 1976;194:1176–8. · DOI
  107. Baxter DA, Byrne JH. Feeding behavior of Aplysia: A model system for comparing cellular mechanisms of classical and operant conditioning. Learn Mem. 2006;13:669–80. · DOI
  108. Moroz LL, Edwards JR, Puthanveettil SV, Kohn AB, Ha T, Heyland A, et al. Neuronal transcriptome of Aplysia: Neuronal compartments and circuitry. Cell. 2006;127:1453–67. · DOI
  109. Senatore A, Edirisinghe N, Katz PS. Deep mRNA sequencing of the Tritonia diomedea brain transcriptome provides access to gene homologues for neuronal excitability, synaptic transmission and peptidergic signalling. PLoS One. 2015;10:e0118321. · DOI
  110. Kravitz EA. Serotonin and aggression: insights gained from a lobster model system and speculations on the role of amine neurons in a complex behavior. J Comp Physiol A. 2000;186:221–38. · DOI
  111. Grundfest H, Reuben JP, Rickles WH. The electrophysiology and pharmacology of lobster neuromuscular synapses. J Gen Physiol. 1959;42:1301–23. · DOI
  112. Krasne FB, Edwards DH. Modulation of the crayfish escape reflex--physiology and neuroethology. Integr Comp Biol. 2002;42:705–15. · DOI
  113. Stepanyan R, Day K, Urban J, Hardin DL, Shetty RS, Derby CD, et al. Gene expression and specificity in the mature zone of the lobster olfactory organ. Physiol Genomics. 2006;25:224–33. · DOI
  114. Towle DW, Smith CM. Gene discovery in Carcinus maenas and Homarus americanus via expressed sequence tags. Integrative Comp Biol. 2006;46:912–18. · DOI
  115. McClintock TS, Ache BW, Derby CD. Lobster olfactory genomics. Integr Comp Biol. 2006;46:940–7. · DOI
  116. Harms L, Frickenhaus S, Schiffer M, Mark FC, Storch D, Held C, et al. Gene expression profiling in gills of the great spider crab Hyas araneus in response to ocean acidification and warming. BMC Genomics. 2014;15:789. · DOI
  117. Harms L, Frickenhaus S, Schiffer M, Mark FC, Storch D, Pörtner HO, et al. Characterization and analysis of a transcriptome from the boreal spider crab Hyas araneus. Comp Biochem Physiol Part D Genomics Proteomics. 2013;8:344–51. · DOI
  118. Ventura T, Fitzgibbon QP, Battaglene SC, Elizur A, Medina M, Anger K, et al. Redefining metamorphosis in spiny lobsters: molecular analysis of the phyllosoma to puerulus transition in Sagmariasus verreauxi. Sci Rep. 2015;5:13537. · DOI
  119. Ventura T, Cummins SF, Fitzgibbon Q, Battaglene S, Elizur A. Analysis of the central nervous system transcriptome of the Eastern rock lobster Sagmariasus verreauxi reveals its putative neuropeptidome. PLoS One. 2014;9:e97323. · DOI
  120. Christie AE, Chi M. Prediction of the neuropeptidomes of members of the Astacidea (Crustacea, Decapoda) using publicly accessible transcriptome shotgun assembly (TSA) sequence data. Gen Comp Endocrinol. 2015;224:38–60. · DOI
  121. Christie AE. Prediction of Scylla olivacea (Crustacea; Brachyura) peptide hormones using publicly accessible transcriptome shotgun assembly (TSA) sequences. Gen Comp Endocrinol. 2016;230–231:1–16. · DOI
  122. Buckley SJ, Fitzgibbon QP, Smith GG, Ventura T. In silico prediction of the G-protein coupled receptors expressed during the metamorphic molt of Sagmariasus verreauxi (Crustacea: Decapoda) by mining transcriptomic data: RNA-seq to repertoire. Gen Comp Endocrinol. 2016;228:111–27. · DOI
  123. MacLean JN, Zhang Y, Johnson BR, Harris-Warrick RM. Activity-independent homeostasis in rhythmically active neurons. Neuron. 2003;37:109–20. · DOI
  124. Krenz W-D, Parker AR, Rodgers E, Baro DJ. Monoaminergic tone supports conductance correlations and stabilizes activity features in pattern generating neurons of the lobster. Panulirus interruptus. Front Neural Circuits. 2015;9:63. · DOI
  125. Marder E. Variability, compensation, and modulation in neurons and circuits. Proc Natl Acad Sci U S A. 2011;108(Suppl):15542–8. · DOI
  126. Hamood AW, Marder E. Animal-to-animal variability in neuromodulation and circuit function. Cold Spring Harb Symp Quant Biol. 2014;79:21–8. · DOI
  127. Marder E, O’Leary T, Shruti S. Neuromodulation of circuits with variable parameters: Single neurons and small circuits reveal principles of state-dependent and robust neuromodulation. Annu Rev Neurosci. 2014;37:329–46. · DOI · Paper page
  128. Temporal S, Lett KM, Schulz DJ. Activity-dependent feedback regulates correlated ion channel mRNA levels in single identified motor neurons. Curr Biol. 2014;24:1899–904. · DOI
  129. Ball JM, Franklin CC, Tobin A-E, Schulz DJ, Nair SS. Coregulation of ion channel conductances preserves output in a computational model of a crustacean cardiac motor neuron. J Neurosci. 2010;30:8637–49. · DOI

Cited by

Sorted by citations

Metadata

Authors
Northcutt, A. J., Lett, K. M., Garcia, V. B., Diester, C. M., Lane, B. J., Marder, E., & Schulz, D. J.
Affiliations
  • University of Missouri (US)
  • Brandeis University (US)
Corresponding author
Schulz, David J.
ORCID
Venue
BMC Genomics
Publisher
Springer Science and Business Media LLC
Published
2016-11-04
Volume
17
Issue
1
Pages
868-868
ISSN
1471-2164 (ISSN-L)
DOI
10.1186/s12864-016-3215-z
PMC
PMC5096308
OpenAlex
W2547773721
Cited by
86
References
3
Citations by year
2026: 5 · 2025: 4 · 2024: 14 · 2023: 7 · 2022: 3 · 2021: 8 · 2020: 9 · 2019: 11 · 2018: 16 · 2017: 8
FWCI
4.98
Type
journal article
Language
en
Open access
Licence
Locations
  • BMC Genomics (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
Funders
  • National Institute of Mental Health (MH46742)
  • National Institute of General Medical Sciences (5T32GM008396)
  • University of Missouri Research Board
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neurobiology and Insect Physiology Research
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
Keywords
Decapoda, Jonah crab, Cancer borealis, Homarus americanus, de novo transcriptome assembly, ion channels, biogenic amines, GABA receptors, glutamate receptors, acetylcholine receptor, innexins, gap junction proteins, neural circuit function, crustacean nervous system
MeSH terms
Animals, Ion Channels, Nervous System Physiological Phenomena, Cluster Analysis, Neurotransmitter Agents, Computational Biology, Gene Expression Profiling, Decapoda, Genetic Association Studies, Molecular Sequence Annotation, High-Throughput Nucleotide Sequencing, Transcriptome, Gene Ontology

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review