Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research

doi:10.1186/s12864-017-3557-1

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	Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research
	Abdelrahman, Hisham 1; ElHady, Mohamed 2; Alcivar-Warren, Acacia 3; Allen, Standish 4; Al-Tobasei, Rafet 5; Bao, Lisui 1; Beck, Ben 6; Blackburn, Harvey 7; Bosworth, Brian 8; Buchanan, John 9
刊名	BMC GENOMICS
	2017-02-20
卷号	18
关键词	Aquaculture Genetic Resources Genome Transcriptome Qtl Rna-seq Snp Fish Shellfish
DOI	10.1186/s12864-017-3557-1
文献子类	Article
英文摘要	Advancing the production efficiency and profitability of aquaculture is dependent upon the ability to utilize a diverse array of genetic resources. The ultimate goals of aquaculture genomics, genetics and breeding research are to enhance aquaculture production efficiency, sustainability, product quality, and profitability in support of the commercial sector and for the benefit of consumers. In order to achieve these goals, it is important to understand the genomic structure and organization of aquaculture species, and their genomic and phenomic variations, as well as the genetic basis of traits and their interrelationships. In addition, it is also important to understand the mechanisms of regulation and evolutionary conservation at the levels of genome, transcriptome, proteome, epigenome, and systems biology. With genomic information and information between the genomes and phenomes, technologies for marker/causal mutation-assisted selection, genome selection, and genome editing can be developed for applications in aquaculture. A set of genomic tools and resources must be made available including reference genome sequences and their annotations (including coding and non-coding regulatory elements), genome-wide polymorphic markers, efficient genotyping platforms, high-density and high-resolution linkage maps, and transcriptome resources including non-coding transcripts. Genomic and genetic control of important performance and production traits, such as disease resistance, feed conversion efficiency, growth rate, processing yield, behaviour, reproductive characteristics, and tolerance to environmental stressors like low dissolved oxygen, high or low water temperature and salinity, must be understood. QTL need to be identified, validated across strains, lines and populations, and their mechanisms of control understood. Causal gene(s) need to be identified. Genetic and epigenetic regulation of important aquaculture traits need to be determined, and technologies for marker-assisted selection, causal gene/mutation-assisted selection, genome selection, and genome editing using CRISPR and other technologies must be developed, demonstrated with applicability, and application to aquaculture industries. Major progress has been made in aquaculture genomics for dozens of fish and shellfish species including the development of genetic linkage maps, physical maps, microarrays, single nucleotide polymorphism (SNP) arrays, transcriptome databases and various stages of genome reference sequences. This paper provides a general review of the current status, challenges and future research needs of aquaculture genomics, genetics, and breeding, with a focus on major aquaculture species in the United States: catfish, rainbow trout, Atlantic salmon, tilapia, striped bass, oysters, and shrimp. While the overall research priorities and the practical goals are similar across various aquaculture species, the current status in each species should dictate the next priority areas within the species. This paper is an output of the USDA Workshop for Aquaculture Genomics, Genetics, and Breeding held in late March 2016 in Auburn, Alabama, with participants from all parts of the United States.
语种	英语
WOS记录号	WOS:000394419000002
内容类型	期刊论文
版本	出版稿
源URL	[http://ir.qdio.ac.cn/handle/337002/136407]
专题	海洋研究所_实验海洋生物学重点实验室
作者单位	1.Auburn Univ, Sch Fisheries Aquaculture & Aquat Sci, Auburn, AL 36849 USA 2.Auburn Univ, Dept Biol Sci, Auburn, AL 36849 USA 3.Environm Genom Inc, POB 196, Southborough, MA 01772 USA 4.Virginia Inst Marine Sci, Aquaculture Genet & Breeding Technol Ctr, Gloucester Point, VA 23062 USA 5.Middle Tennessee State Univ, Dept Biol, Murfreesboro, TN 37132 USA 6.USDA ARS, Aquat Anim Hlth Res Unit, 990 Wire Rd, Auburn, AL 36832 USA 7.USDA ARS, NL Wheat & Corn Collect Glance GRP, Natl Anim Germplasm Program, 1111 S Mason St, Ft Collins, CO 80521 USA 8.USDA ARS, CGRU, 141 Expt Stn Rd, Stoneville, MS 38701 USA 9.Ctr Aquaculture Technol, 8395 Camino Santa Fe,Suite E, San Diego, CA 92121 USA 10.Oregon State Univ, Dept Fisheries & Wildlife, Corvallis, OR 97331 USA
推荐引用方式 GB/T 7714	Abdelrahman, Hisham,ElHady, Mohamed,Alcivar-Warren, Acacia,et al. Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research[J]. BMC GENOMICS,2017,18.
APA	Abdelrahman, Hisham.,ElHady, Mohamed.,Alcivar-Warren, Acacia.,Allen, Standish.,Al-Tobasei, Rafet.,...&Aquaculture Genomics Genetics & Br.(2017).Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research.BMC GENOMICS,18.
MLA	Abdelrahman, Hisham,et al."Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research".BMC GENOMICS 18(2017).