Genomics and Genome Sequencing: Benefits for Finfish Aquaculture

Quinn, Nicole L.; Gutiérrez, Alejandro P.; Koop, Ben F.; Davidson, William S.

doi:10.5772/30316

Cited by 2 publications

(1 citation statement)

References 114 publications

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“…Recently next-generation sequencing (NGS) technologies (Xuan et al 2013) have drastically transformed the way researchers can address genomic questions on model and non-model fish species (Quinn et al 2012). NGS platforms can quickly generate (in hours to days) large-scale genomic information (from megabases to gigabases) even for those species for which limited or no previous genomic information was available.…”

Section: Genomes and Genomicsmentioning

confidence: 99%

Molecular and biochemical tricks of the research trade: -omics approaches in finfish aquaculture

Lokman

Symonds

2014

New Zealand Journal of Marine and Freshwater Research

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Profitability of fish farming can be undermined by a suite of biological constraints. Effects of these constraints on the biology of the animal, the functioning of a tissue, or the quality of the final filleted product can be detected with very sensitive hi-tech approaches, grouped by the term '-omics'. These -omics technologies further present powerful tools for the genetic selection of diverse traits and, as such, will contribute substantially to the future development of the aquaculture sector. Sustainability issues of importance to the industry, such as environmental impacts, use of therapeutants, fish health management and fishmeal replacement, can again be aided, at least in part, through the effective use of -omics technologies. It thus appears that -omics technologies may be a key tool for the responsible growth of intensive aquaculture in the 21st century. In this paper we review the current status of -omics technologies and the potential for application within the aquaculture industry.

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Section: Genomes and Genomicsmentioning

confidence: 99%

Molecular and biochemical tricks of the research trade: -omics approaches in finfish aquaculture

Lokman

Symonds

2014

New Zealand Journal of Marine and Freshwater Research

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Insights into teleost sex determination from the Seriola dorsalis genome assembly

et al. 2018

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BackgroundThe assembly and annotation of a genome is a valuable resource for a species, with applications ranging from conservation genomics to gene discovery. Genomic resource development is especially important for species in culture, such as the California Yellowtail (Seriola dorsalis), the likely candidate for the establishment of commercial offshore aquaculture production in southern California. Genomic resource development for this species will improve the understanding of sex and other phenotypic traits, and allow for rapid increases in genetic improvement for and economic gain in culture production.ResultsWe describe the assembly and annotation of the S. dorsalis genome, and present resequencing data from 45 male and 45 female wild-caught S. dorsalis used to identify a sex-determining region and marker in this species. The genome assembly captured approximately 93% of the total 685 MB genome with an average coverage depth of 180×. Using the assembled genome, resequencing data from the 90 fish were aligned to place boundaries on the sex-determining region. Sex-specific markers were developed based on a female-specific, 61 nucleotide deletion identified in that region. We hypothesize that Estradiol 17-beta-dehydrogenase is the putative sex-determining gene and propose a plausible genetic mechanism for ZW sex determination in S. dorsalis involving a female-specific deletion of a transcription factor binding motif that may be targeted by Sox3.ConclusionsUnderstanding the mechanism of sex determination and development of assays to determine sex is critical both for management of wild fisheries and for development of efficient and sustainable aquaculture practices. In addition, this genome assembly for S. dorsalis will be a substantial resource for a variety of future research applications.Electronic supplementary materialThe online version of this article (10.1186/s12864-017-4403-1) contains supplementary material, which is available to authorized users.

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Genomics and Genome Sequencing: Benefits for Finfish Aquaculture

Cited by 2 publications

References 114 publications

Molecular and biochemical tricks of the research trade: -omics approaches in finfish aquaculture

Molecular and biochemical tricks of the research trade: -omics approaches in finfish aquaculture

Insights into teleost sex determination from the Seriola dorsalis genome assembly

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