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

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, w...

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Autores principales: Northcutt, Adam J., Lett, Kawasi M., Garcia, Virginia B., Diester, Clare M., Lane, Brian J., Marder, Eve, Schulz, David J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5096308/
https://www.ncbi.nlm.nih.gov/pubmed/27809760
http://dx.doi.org/10.1186/s12864-016-3215-z
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author Northcutt, Adam J.
Lett, Kawasi M.
Garcia, Virginia B.
Diester, Clare M.
Lane, Brian J.
Marder, Eve
Schulz, David J.
author_facet Northcutt, Adam J.
Lett, Kawasi M.
Garcia, Virginia B.
Diester, Clare M.
Lane, Brian J.
Marder, Eve
Schulz, David J.
author_sort Northcutt, Adam J.
collection PubMed
description 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.
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spelling pubmed-50963082016-11-07 Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation Northcutt, Adam J. Lett, Kawasi M. Garcia, Virginia B. Diester, Clare M. Lane, Brian J. Marder, Eve Schulz, David J. BMC Genomics Research Article 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. BioMed Central 2016-11-04 /pmc/articles/PMC5096308/ /pubmed/27809760 http://dx.doi.org/10.1186/s12864-016-3215-z Text en © The Author(s). 2016 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Northcutt, Adam J.
Lett, Kawasi M.
Garcia, Virginia B.
Diester, Clare M.
Lane, Brian J.
Marder, Eve
Schulz, David J.
Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title_full Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title_fullStr Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title_full_unstemmed Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title_short Deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
title_sort deep sequencing of transcriptomes from the nervous systems of two decapod crustaceans to characterize genes important for neural circuit function and modulation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5096308/
https://www.ncbi.nlm.nih.gov/pubmed/27809760
http://dx.doi.org/10.1186/s12864-016-3215-z
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