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From: "John Liu" []
To: "aquaculturegenomics" []
Cc: "Grant Burgess" []
Subject: [aquaculturegenomics] Aquaculture genomics Newsletter 19
Date: Tur, 8 May 2008 14:43:53 -0500

PAG Aquaculture Genomics Workshop planning under way: Planning activities are already on the way for the 2009 PAG Aquaculture Genome Workshop to be held January 10-14, 2009. Dr. Yniv Palti of the National Center for Cool and Cold Water Aquaculture will be our organizer for this Workshop. If you have any suggestions on the format of the Workshop, please contact Dr. Palti (

Dr. John Benzie appointed as interim coordinator for shrimp genome: Dr. John Benzie of Moana Technologies, Hawaii has been appointed as the interim coordinator for Shrimp Genome of the Aquaculture Genome Project under the USDA National Animal Genome Project NRSP-8. Please join me to welcome Dr. Benzie for this new function. He has been serving as our industry rep in the last a few years as well.

Aquaculture Stakeholder Meeting: An aquaculture stakeholder meeting was held in April 15 and 16th in Kansas City, Mo. A large number of aquaculture industry members were present in the meeting. The meeting was conducted in whole sessions as well as commodity-based and science-based breakout sessions. The most significant issues facing the aquaculture industries were discussed, and the corresponding resolving measures were proposed. A large number of aquaculture researchers and extension specialists were also present in the meeting. NRSP-8 Aquaculture Genome Industry Representative Dr. Nagaraj Chatakondi was in the meeting. Leaders of the USDA ARS and CSREES were present in the meeting. Among many ARS and CREES leaders were Dr. Steve Kappes, Deputy Administrator of USDA ARS Animal Production and Protection, Dr. Meryl Broussard, Deputy Administrator of USDA SCREES Plant and Animal Systems, and Dr. Jeff Silverstein, USDA ARS National Program Leader for Aquaculture.

Major Progress in oyster genomics: A team led by Pat Gaffney has completed fingerprinting of a BAC library made with DNA from a fourth generation inbred male. Construction of BAC contigs-based physical map is well under way.

Oyster Genome Consortium is distributing BAC pools and Superpools: distribution of BAC pools and superpools are under way among the members of the Oyster Genome Consortium for associating markers from the genetic map with BAC clones and the physical map via PCR;

Tiling path of the oyster genome are being selected: A proposal was submitted by Pierre Boudry and Pat Gaffney to French National Genome Center in Evry, Franceto to do end-sequencing of the oyster BAC library used for the construction of the physical map in order to select for the minimal tiling path in preparation for genome sequencing.

Major progress of JGI oyster EST and BAC sequencing project: The Joint Genome Institute of DOE has sequenced 60 BACs for oyster and over 20,000 ESTs. Additional ESTs (~60,,000) will be completed soon.

EST sequencing of oyster larvae and hemocytes: Genoscope has completed the first step (i.e. 30,000 ESTs) of an EST sequencing project led by Pascal Favrel. Sequences will soon be submitted to GeneBank.

China is planning sequencing the oyster genome: A proposal has been submitted to the Beijing Genomics Institute, China, to sequence the genome of the Pacific oyster. Assumed starting date is August 2008;

Oyster Researchers to develop SNP technology in oysters: Dr. Dennis Hedgecock is heading up a team of Pat Gaffney, Ximing Guo, and Kim Reece to submit a proposal to USDA Animal Genome Tools & Resources Program to develop a high density SNP linkage map for the Pacific oyster.

JGI to complete catfish EST project: The Joint Genome Institute of DOE is completing the EST sequencing project. To date, over 380,000 ESTs have been produced for catfish, and the entire project is projected to finish in July 2008.

Dr. Rexroad to head the National Center for Cool and Cold Water Aquaculture: Dr Caird E. Rexroad has been selected to be the new Center Director and Research Leader for the National Center for Cool and Cold Water Aquaculture located in Lee Town, West Virginia.

Postdoctoral Fellow Position in Aquaculture Quantitative Genetics Available: Flinders University and SARDI are seeking a high calibre research scientist to lead their research in aquaculture genetics within the newly formed Australian Seafood Cooperative Research Centre ( This is an exciting opportunity to play a leading role in the development of genetic programs for a range of aquaculture species in Australia. The CRC has an active research program in aquaculture genetics and the involvement of the incumbent will be focused on genetic management and improvement of species such as Yellowtail Kingfish, Abalone and Barramundi. The position will be based with the School of Biological Sciences at Flinders University. The key R&D skills required of the incumbent will be a detailed knowledge of quantitative genetic theory and practice and direct experience of the implementation of selective breeding programs. The successful applicant should also be able to demonstrate the ability to prepare and submit research and development proposals in consultation with industry sectors and/or companies within these sectors; investigate quantitative genetic and associated issues and their impact on production; and to communicate the results of research to relevant industry groups. The applicant will require high level science skills (with a focus on quantitative genetics), such as innovation, breeding program and experimental design, data analysis, the interpretation and reporting of results, and effective communication, as well as strong technical know-how and knowledge of commercial breeding programs in commercial agriculture (aquaculture experience desirable but not essential). In addition the incumbent may be required to assess and help develop collaborative educational and training opportunities based around the teaching program at Flinders University (including the supervision of honours and postgraduate students) and the education and training programs of the Seafood CRC, and to contribute to relevant discussion groups, meetings and teaching. The position is available on a fixed-term, full time basis until for 3 years (with the possibility of extension depending on funding). Closes: 5.00pm, Monday 19 May 2008. Applications must address the specified selection criteria. Detailed position information (including selection criteria) and essential information for intending applicants are available via the website: or from or by contacting If you require further information on the position, please contact