From: "John Liu" [firstname.lastname@example.org] To: "aquaculturegenomics" [email@example.com] Cc: "Grant Burgess" [Grant.Burgess@newcastle.ac.uk] Subject: [aquaculturegenomics] Aquaculture genomics Newsletter 34 Date: Fri, 20 Dec 2013 14:14:55 -0600 Aquaculture Genomics Workshop at PAGXXII: The Aquaculture Genomics Workshop will be held on January 11th of 2014 as part of the International Plant & Animal Genome XXII meeting (http://www.intlpag.org/) in San Diego, CA, USA. In addition to an array of presentations on current research efforts, there will be three invited presentations which will provide a fresh perspective on genomics and aquaculture. The invited speakers include Chris Amemiya (Benaroya Research Institute), Chris Ashwell (North Carolina State University), and John Rawls (Duke University). More information including a complete schedule can be found at (http://eagle.fish.washington.edu/aqua_pag/). ENCODE Workshop: Prior to PAG, a one day meeting on 10 January 2014 dedicated to the deployment of ENCODE-like strategies for animal genomics will take place. The morning sessions are open to all interested parties and will feature presentations by Elise Feingold (National Institutes of Health, ENCODE Program Director), Bing Ren (UC San Diego, Institute for Genomic Medicine and ENCODE researcher) and Ewan Birney (Associate Director of EMBL-EBI and lead analysis coordinator of ENCODE). The afternoon is organized around smaller, closed session breakout workshops, one of which will focus on Aquaculture. Aquaculture Species Coordinators: Dr. Dina Proestou, an ARS scientist located at the University of Rhode Island, has agreed to serve as the NRSP8 Species Leader representing oysters, we look forward to working with her on the project objectives. We are still seeking a Species Leader for shrimp, please contact John Liu and Caird Rexroad if you are interested. Annual Report: We are currently working on the Aquaculture Genome Annual Report, Species Leaders have been asked to document progress under NRSP8 objectives. If you would like to contribute to this report, please send a brief description of progress for each objective and 2013 publications with full citations to your Species Leader (Salmonids: Dr. Yniv Palti; Catfish: Dr. Sylvie Quiniou; Striped bass: Dr. Craig Sullivan, and Oysters: Dr. Dina Proestou). This report must be submitted prior to PAG, please send your updates at your earliest convenience. The NRSP8 Objectives are: 1) Advance the status of reference genomes for all species, including basic annotation of worldwide genetic variation, by broad sequencing among different lines and breeds of animals; 2) Develop strategies to identify and exploit genes and allelic variation that contribute to economically relevant phenotypes and traits, in part through improving functional annotation of the genomes of our species; 3) Facilitate analysis, curation, storage, distribution and application of the enormous datasets now being generated by next-generation sequencing and related "omics" technologies with regard to animal species of agricultural interest. Rainbow trout SNP chip: The rainbow trout 57K SNP chip (O_my_50K) is now commercially available from Affymetrix (P/N 550468).For questions on pricing and ordering information, please contact LuAnn Glaser from Affymetrix (LuAnn_Glaser@affymetrix.com). If you want to coordinate your order with the SNP chip consortium, please contact Dr. Yniv Palti (firstname.lastname@example.org). A manuscript describing the SNP discovery effort and the SNP database resource that was generated to facilitate the development of the SNP chip was accepted for publication in Molecular Ecology Resources, and another manuscript on the SNP chip validation is in progress. NRSP-8 Aquaculture Travel Awards: The Aquaculture Genomics group of the NRSP-8 is pleased to announce the travel award winners: Miyako Kodama, University of Washington A Genome Map for a Species with Male Tetrasomic Inheritance, Coho Salmon, and Location of Quantitative Trait Loci Ali Ali Middle, Tennessee State University Characterization of Rainbow Trout Spleen Transcriptome and Identification of Immune-Related Genes Xi Xue, Memorial University of Newfoundland Atlantic Salmon Liver Transcriptome Response to Diets Containing Camelina Products Lisui Bao, Auburn University Bulk Segregant RNA-Seq Reveals Expression and Positional Candidate Genes and Allele-Specific Expression for Disease Resistance Against Enteric Septicemia of Catfish Congratulations to these winners! Happy Holidays!