Pig Genome Update No. 82angenmap@animalgenome.orgJanuary 1, 2007 |
Happy Holidays and New Year to you, your families and colleagues!!
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. Hope to
see you there.
QTL database Workshop is planned at PAG in San Diego on Tuesday January
16th at 1PM. The bioinformatics coordinator and his team will be
hosting a workshop involving databases actively curating QTL data from
rat, mouse, chicken, cattle, and swine. The goals of the workshop are
1) Define the minimal amount of information needed for QTL publication.
Can we develop MIAME guidelines for QTL publication? 2) Integration of
phenotype ontologies; and 3) Exchange of curated QTL information. At
3PM, they would like to invite all users of QTL databases to come and
discuss with us what they would like QTL databases to be able to do.
This is your chance to help set priorities for future development of
QTL databases.
The new pig oligo arrays are here and can be ordered. 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. 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. New swine oligo arrays
ordering can now be ordered (http://www.pigoligoarray.org/ ). 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.
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.
Pig Genome Update goes electronic only beginning January 1. For those
who used to get the hard copy version of this newsletter, this issue
will be the first to be distributed in email format only though
Angenmap (http://www.animalgenome.org/community/discuss ) Acrobat
.pdf versions (with graphics) are also posted on our website at
http://www.animalgenome.org/pigs/newsletter/index.html .
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 are 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. Be sure to attend
the international swine genome sequencing meeting on Sunday at PAG
(http://www.intl-pag.org/15/15-swine-seq.html).
The Alliance for Animal Genome Research met in Washington, DC in late
November. This was the first meeting of the year for the Alliance.
The accomplishments have been many and Alliance members reviewed
options for moving forward. It is clear that new members are needed
and that the focus will be more towards functional genomics. More
details will be made available in the future.
The National Swine Improvement Federation met in Nashville, TN in early
December. Several talks covered genetic markers, swine genome
sequencing and other topics of interest. The meeting was well attended
and most producers and company people were interested in the progress
made through genomics. Paper can be seen at www.nsif.com.
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).
Upcoming meetings (see:
http://www.animalgenome.org/pigs/community/meetings.html )
Items for Pig Genome Update 83 can be sent to me by no later than February 15 please.
Max Rothschild
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
mfrothsc@iastate.edu
http://www.animalgenome.org/pigs/
cc: Muquarrab Qureshi, CSREES and Caird Rexroad II, ARS
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