Dataset Information

Tissue-based mapping of the fathead minnow (Pimephales promelas) transcriptome and proteome

ABSTRACT: Omics approaches are broadly used to explore endocrine and toxicity-related pathways and functions. Nevertheless, there is still a significant gap in knowledge in terms of understanding the endocrine system and its numerous connections and intricate feedback loops, especially in non-model organisms. The fathead minnow (Pimephales promelas) is a widely used small fish model for aquatic toxicology and regulatory testing, particularly in North America. A draft genome has been published but the amount of available genomic or transcriptomic information is still far behind that of other more broadly studied species, such as the zebrafish. Here, we surveyed the tissue-specific proteome and transcriptome profiles in adult male fathead minnow. To do so, we generated a draft transcriptome using short and long sequencing reads. We also performed RNA sequencing and proteomics analysis on the telencephalon, hypothalamus, liver, and gut of male fish. The main purpose of this analysis was to generate tissue-specific omics data in order to support future aquatic ecotoxicogenomic and endocrine-related studies as well as to improve our understanding of the fathead minnow as an ecological model.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Pimephales Promelas

TISSUE(S): Intestine, Liver, Telencephalon, Hypothalamus

SUBMITTER: Ley Smith

LAB HEAD: Tara Sabo-Attwood

PROVIDER: PXD010216 | Pride | 2018-10-15

REPOSITORIES: Pride

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Publications

Tissue-Based Mapping of the Fathead Minnow (<i>Pimephales promelas</i>) Transcriptome and Proteome.

Lavelle Candice C Smith Ley Cody LC Bisesi Joseph H JH Yu Fahong F Silva-Sanchez Cecilia C Moraga-Amador David D Buerger Amanda N AN Garcia-Reyero Natàlia N Sabo-Attwood Tara T Denslow Nancy D ND

Frontiers in endocrinology 20181106

Omics approaches are broadly used to explore endocrine and toxicity-related pathways and functions. Nevertheless, there is still a significant gap in knowledge in terms of understanding the endocrine system and its numerous connections and intricate feedback loops, especially in non-model organisms. The fathead minnow (<i>Pimephales promelas</i>) is a widely used small fish model for aquatic toxicology and regulatory testing, particularly in North America. A draft genome has been published, but ...[more]

PMID: 30459712

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			Action	DRS
	ICBR-PM-21-Sabo.group	Other
	cciITRAQ_F1.mgf	Mgf
	cciITRAQ_F1.raw	Raw
	cciITRAQ_F10.mgf	Mgf
	cciITRAQ_F10.raw	Raw