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Pig Genome Newsletter #053
P I G G E N O M E U P D A T E
__________________________________________________________________
A Bimonthly Newsletter of the U.S. Pig Genome Coordination Program
************** No. 53 **************
* *
* <angenmap@db.genome.iastate.edu> *
* March 1, 2002 *
**************************************
+==========================================================================+
1. An excellent PAG X conference.
2. A successful NC210-NRSP joint pig genome workshop.
3. A symposium "Exploring Horizons for Domestic Animal Genomics"
4. Mouse Genome Monthly Newsletter.
5. Chips, arrays, sequencing - what is your interest?
6. New tools still are available.
7. Upcoming meetings.
+==========================================================================+
o o o o o o o o o o o
On the road again!! An excellent pig genome workshop and PAGX were held
in sunny San Diego. Over 1,700 participants from 30 countries came
this year for a full and interesting meeting featuring a wide range of
science and policy talks. Some highlights included Dr. Francis
Collins, "Czar" of the Human Genome Program at NIH, who gave an
excellent public overview of the progress in the human genome project
and Ralph Greenspan, who gave a superb talk on the genetic architecture
of behavioral genetics. Also, Steve Brown presented an interesting talk
on ENU mutagenisis in mice and Eric Green gave an excellent overview on
new approaches to comparative genome sequencing. As usual, there was a
plethora of posters and plenty of interesting displays and discussion.
o o o o o o o o o o o
The NC210-NRSP joint pig genome workshop at PAGX was also quite
successful. It was chaired by Jon Beaver from University of Illinois.
Station reports and invited speakers presented information on the pig
genome. The featured speakers were Denis Milan, INRA who presented
"Integration of Genetic and RH Porcine Maps with Carthagene", Craig
Beattie, University of Nevada-Reno, presented "Progress Towards a
Comprehensive Map for the Porcine Genome", Daniel Ciobanu, Iowa State
University, presented "Discovery of New Genetic Markers Affecting Meat
Quality in Pigs" and Jack Dekkers, Iowa State University ended the
program with a presentation on "Mapping and Use of QTL for
Marker-Assisted Improvement of Meat Quality in Pigs". In addition to
the many participants from NC210 and NRSP-8 about 30 guests were also
present. Considerable progress was made during the past year at the
research stations. For Objective 1: Develop and apply technology for
positional cloning of ETL with the pig the IA station presented
evidence for finding QTL for many traits of interest in the pig
including those associated with growth, backfat and meat quality. Other
stations (IL, MI) reported their work on developing new QTL projects
and on expanding collaborations with an existing project (IA).
Candidate gene research was also presented (IA, MI, USDA-BARC). This
research has significant opportunities to impact pig producers. For
Objective 2: Analyze the function and expression of genes that regulate
traits of economic importance in the pig results were presented
concerning the development of EST and microarray projects in the pig by
several stations (IL, IA, MI, NE, Purdue, USDA-BARC). Considerable
progress has been made in these areas. Many tools (BACs, ESTs,
databases) are now being developed to help future activities. No NC210
meeting is planned for next year as NC210 is ending and a new project
involving NC210 and NC220 members has been submitted (see below).
o o o o o o o o o o o
A symposium "Exploring Horizons for Domestic Animal Genomics" was held
at the National Academy of Science in Washington DC on February 19.
Featured speakers included Dr. Stephen O'Brien (National Cancer
Institute) "The Landscape of Comparative Genomics in Mammals", Dr.
Steve Kappes (USDA): "Animal Genomics Research in the U.S.-Where We Are
and Where We're Going", Dr. Harris Lewin (University of Illinois):
"Livestock Genome Sequencing Initiative: Status and Importance", Dr.
Eric Green: (NIH): "Multi-Species Comparative Sequencing of Targeted
Genomic Regions", Dr. Richard Gibbs (Baylor College of Medicine): "The
Rat Genome Sequencing Project" and Dr. Roger Wyse (Burrill & Company):
"A Private Sector Perspective: Financing Innovation." Following lunch
there were three group discussions involving: "Priorities for Genome
Sequencing: Which Species?", "What are the Roles of the Public,
Private, and NGO Sectors for Advancing Genomics Research?" and "How Can
We Facilitate Data Sharing and Access?" The meeting was well attended
and discussion was quite engaging especially as it related to which
species to sequence. Clearly the largest interest and discussion was
related to which species to sequence first. Most comments suggested
doing the pig, cattle, and chicken genomes first amongst livestock
species, though order was not determined and doing sheep and the horse
later. Sequencing of cat and dog species was also a high priority but
again order was debated. Targeted sequencing of other species for
evolutionary information was also suggested. Support for the
conference from the Alliance for Animal Genome Research, USDA and the
National Research Council is appreciated. A summary from this meeting
is expected in the near future.
o o o o o o o o o o o
Mouse Genome Monthly Newsletter Issue #3 January 2002 is now available.
This is the third in a series of newsletters that are being produced on
approximately a monthly schedule. The goals of the newsletter are of
informing the scientific community about the progress in sequencing and
annotating the mouse genome and about updates on the availability of
information and resources generated by this project. The newsletter
can be downloaded from http://www.ensembl.org/Mus_musculus/newsletter/
or from http://www.informatics.jax.org/mgihome/news/index.shtml as well
as from several NIH web sites.
o o o o o o o o o o o
Chips, arrays, sequencing - what is your interest?? One of the
projects the US Pig Genome Coordinator is now working on is to make
either gene chips or microarray materials available to each lab at a
reduced cost. To date several parties have suggested some interest.
Another important consideration is a white paper for sequencing the pig
genome. The Coordinator is in discussions with others concerning this
opportunity. If you have an opinion or an interest in helping, please
contact the US Pig Genome Coordinator at mfrothsc@iastate.edu.
o o o o o o o o o o o
New tools still are available. New pig microsatellite diversity primers
(set XI) of primers were made in response to requests and suggestions
concerning pig diversity research and selected from markers across all
19 pig chromosomes. More information on all sets of primers can be
found at the web site:
http://www.genome.iastate.edu/resources/fprimerintr.html. A new public
porcine expressed sequence tagged (EST) database, a set of tools for
EST analysis and a web query tool for public access to this database
has been developed (http://pigest.genome.iastate.edu).
o o o o o o o o o o o
Upcoming meetings (for more details see:
http://www.genome.iastate.edu/community/meetings.html)
NC220 Swine genetics regional project meeting, May 31-June 1, 2002,
Ames, Iowa. For details contact Jack Dekkers at jdekkers@iastate.edu.
17th International Pig Veterinary SocietyCongress, June 2-5, 2002,
Ames, Iowa. For details see http://www.ipvs2002.vetmed.iastate.edu.
International Society of Animal Genetics, Göttingen, Germany, August
11-15, 2002. See http://www.gwdg.de/~bbrenig/ISAG2002.html for further
information.
7th World Congress of Genetics Applied to Livestock Production, August
19-23, 2002, Montpellier, France. See http://www.wcgalp.org for more
information.
Additional items can be found at:
http://www.agbiotechnet.com/calendar/index.asp.
<> <> <> <> <> <> <> <> <> <> <>
Contributions to Pig Genome Update 54 including short meeting announcements
are always welcome. Please send by April 10.
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
cc: Dick Frahm, CSREES and Caird Rexroad II, ARS
+==========================================================================+
U.S. PIG GENOME COORDINATION PROJECT
+-----------------------------------+
| Paid for by funds from the NRSP-8 | Web: http://www.genome.iastate.edu
| USDA/CSREES sponsored Pig Genome | Mailing list:
| Coordination Program | angenmap@db.genome.iastate.edu
+-----------------------------------+
+==========================================================================+
