The new pig oligo arrays are here. Thanks to efforts of a number of groups
and individuals we have developed a novel 70-mer oligonucleotide microarray
for profiling expression of the pig (Sus scrofa) genome. This microarray
will enable rapid and simultaneous comparison of mRNA levels for thousands
of genes. Such global analysis of transcript abundance will provide valuable
information about the genes/proteins important for specific functional
activities, the coordination of gene expression and function, and the
complex regulatory networks that control swine cellular physiology. This
information will contribute to animal agriculture by advancing our
understanding of pig growth, development, reproduction, nutrition and
health. In addition, pigs provide important biomedical models and are the
most likely source of donor tissues for the developing field of
xenotransplantation. Therefore, the information developed using the swine
oligonucleotide microarray will contribute both to the quality and safety
of our food supply, and to the understanding and treatment of human disease.
The Swine Protein-Annotated Oligonucleotide Microarray has been developed
as an OPEN SOURCE collaboration between investigators and institutions with
an interest in pig physiology. The sequences of the oligonucleotides, the
consensus sequences they represent, and the annotation of the consensus
sequences are provided at no cost to the entire research community.
Finally a big thank you goes to Scott Fahrenkrug, Michael Murtaugh and
Bhupinder S. Juneja, University of Minnesota, Christine Elsik , Michael
Dickens and Anand Venkatraman, Texas A&M University, Joan Lunney, USDA
ARS Beltsville Agricultural Research Center, Joe Cassady, North Carolina
State University, Cathy Ernst, Michigan State University, Max Rothschild
and James Reecy Iowa State University, David Galbraith and Leukena Cheam,
University of Arizona.
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New swine oligo arrays ordering can begin November 10. Microarrays spotted
with already synthesized oligonucleotides can be purchased (see availability
/ordering) at a reasonable price based on investment by the sponsors. See
http://www.pigoligoarray.org/ to order them. Please note ordering depends
on the source of your funding. Labs associated with agriculture (at US
Colleges or Universities, US government laboratories, or foreign
Universities or governments) please order using the "Arrays for USDA
NAGRP-8 supported activities" button. If you are a PRRS researcher please
order using the "Arrays for PRRS CAP supported activities" button.
Commercial concerns (domestic or foreign) or any biomedical researchers
(domestic or foreign) please order using the "Array for Biomedical and
Commercial Applications" resource button.
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Validation of arrays will take place. Thanks to efforts of a number of the
swine genome community a validation experiment, funded in part by the
participants and the USDA Pig Genome Coordinator will take place over the
next few months. The plan is to report the information to the community
at the earliest possible date.
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Pig Genome Update goes electronic only beginning January 1. For those who
also get the hard copy version of this newsletter, this issue will be the
last to be distributed in that format. It will be only available from
Angenmap (http://www.animalgenome.org/community/discuss ), you will
continue to receive the electronic version in this way. Acrobat .pdf
versions (with graphics) are also posted on our website at
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Swine Sequencing Committee met recently in Toulouse France. Progress on the
sequencing continues at an excellent pace and was reported to those attending
by the project directors. Minutes of the latest meeting will be posted at
www.piggenome.org . The website also provides access to all of the
newsletters and permits direct communication with the Project Directors.
There is also an opportunity for users to participate more fully and to
become a SGSC member.
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The CSREES FY 2006 National Research Initiative (competitive grant program)
request for proposals can be found at
http://www.csrees.usda.gov/funding/rfas/nri_rfa.html . Total FY 2006 NRI
funding was $181.7M. The House FY 2007 budget and the Senate Appropriations
Committee allocate about $190M for next year's NRI, but almost all
appropriations bills failed to get through by the Oct. 1 deadline and it
seems likely that another Omnibus Appropriations Act will be required, and
one can never tell what that may contain. Note: next year's FY 2007 NRI
applications will require electronic submission through http://grants.gov/
(provided by Jerry Dodgson).
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PAG-XV will be held January 13-17, 2007 at the usual spot, the Town and
Country Hotel, San Diego, CA. The program is available at www.intl-pag.org/.
See the PAG website for more information or to register on-line. The
deadline for reduced fee registration is Nov. 1. The program for porcine
genomics can be found at http://www.intl-pag.org/15/15-swine.html and looks
quite good. Please register soon.
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Upcoming meetings (see: http://www.animalgenome.org/pigs/community/meetings.html )
Seventh International Long-oligonucleotide Microarray Workshop,
January 7- 12, 2007, Univ. of Arizona, Tucson, AZ. See
- Plant and Animal Genome XV, joint with NC-1008 and NAGRP annual
meetings, Jan. 13-17, 2007, Town & Country Convention Center, San Diego,
CA. See www.intl-pag.org/.
- Chicken Development and Genomics, April 12-15, 2007, Barcelona, Spain.
- 3rd International Conference on Quantitative Genetics, August 18-24,
2007, Zheijiang University, Hangzhou, China. Conference Organizers:
Jun Zhu (firstname.lastname@example.org) and Zhao-Bang Zeng (email@example.com)
- Convergence of Genomics and the Land Grant Mission: Emerging Trends in the
Application of Genomics in Agricultural Research, September 10-12, 2007,
Purdue U., West Lafayette, Indiana. See www.entm.purdue.edu/conference.
- International Symposium on Animal Genomics for Animal Health, October
23-25, 2007, OIE Headquarters, World Organization for Animal Health, Paris,
France. For information contact Cyril Gay, firstname.lastname@example.org, or
Marie-Hélène Pinard, email@example.com
Items for Pig Genome Update 82 can be sent to me by no later than December 15
U.S. Pig Genome Coordinator
2255 Kildee Hall, Department of Animal Science
Iowa State University
Ames, Iowa 50011
Phone: 515-294-6202, Fax: 515-294-2401
cc: Muquarrab Qureshi, CSREES and Caird Rexroad II, ARS
© US Pig Genome Coordination Program