Linkage Mapping And Comparative Genomics Of Red Drum (Sciaenops Ocellatus) Using Next-Generation Sequencing

Details

• Journal Title:
  G3: Genes, Genomes, Genetics
• Personal Author:
  Hollenbeck, Christopher M ; Portnoy, David S ; Wetzel, Dana ; Sherwood, Tracy A ; Samollow, Paul B ; Gold, John R
• NOAA Program & Office:
  Sea Grant ; OAR (Oceanic and Atmospheric Research)
• Sea Grant Program:
  TAMU (Texas Sea Grant)
• Description:
  Developments in next-generation sequencing allow genotyping of thousands of genetic markers across hundreds of individuals in a cost-effective manner. Because of this, it is now possible to rapidly produce dense genetic linkage maps for nonmodel species. Here, we report a dense genetic linkage map for red drum, a marine fish species of considerable economic importance in the southeastern United States and elsewhere. We used a prior microsatellite-based linkage map as a framework and incorporated 1794 haplotyped contigs derived from high-throughput, reduced representation DNA sequencing to produce a linkage map containing 1794 haplotyped restriction-site associated DNA (RAD) contigs, 437 anonymous microsatellites, and 44 expressed sequence-tag-linked microsatellites (EST-SSRs). A total of 274 candidate genes, identified from transcripts from a preliminary hydrocarbon exposure study, were localized to specific chromosomes, using a shared synteny approach. The linkage map will be a useful resource for red drum commercial and restoration aquaculture, and for better understanding and managing populations of red drum in the wild.
• Keywords:
  Atlantic Salmon Genomics Atlantic Salmon
• Source:
  G3 (Bethesda) ; . 2017 Mar 10;7(3):843-850.
• DOI:
  https://doi.org/10.1534/g3.116.036350
• Pubmed Central ID:
  PMC5345714
• Document Type:
  Journal Article
• Funding:
  Grant no. NA10OAR4170099 ; Grant no.NA14AR4170102
• Rights Information:
  CC BY
• Compliance:
  PMC
• Main Document Checksum:
  urn:sha-512:7131435c798599eba1ca74830a77a19a1d88deda2589d298507fc8ee5313b544c5530a26116c11b148eadc5a154014b39e53572bc616ea977d052b9c6881f21d
• Download URL:
  https://repository.library.noaa.gov/view/noaa/24335/noaa_24335_DS1.pdf
• File Type:
  [PDF - 1.56 MB ]