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Pig Genome Newsletter #012
PIG GENOME UPDATE No. 12
May 1, 1995
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Two new mapping papers are now published. The PiGMaP linkage map is now in
Mammalian Genome 6:157-175. The paper presents results from 18 labs worldwide
and includes information on 81 genes and 158 anonymous markers. An overall pig
physical map is also now published by Yerle et al. in Mammalian Genome
6:176-186. Just look for the March 1995 Mammalian Genome with the pigs on the
cover. Data from these papers will be in the PiGBASE database edited by Alan
Archibald and Max Rothschild.
The recent Midwest ASAS/ADSA meeting featured several papers on mapping,
cloning and QTL research in pigs. The research presented included mapping on
chromosome 1 (Iowa State University), cloning and mapping OCT1 (Iowa State
University), QTL research with alpha lactalbumin (University of Illinois,
University of Minnesota), identification of QTL on chromosome 7 (Iowa State
University), identification of microsatellites conserved among species
(University of Wisconsin) and database development (Iowa State University and
PiGMaP collaborators). These abstracts will be entered soon into the database.
Primers for an additional 97 microsatellites from the three porcine genetic
linkage maps will be available free of charge after May 10. The primers come in
10,000 pmole units. If you would like a set, please send me a letter or e-mail
(mfrothsc@iastate.edu). There are now 271 published microsatellites for which
primers are available. Thanks to all of you who helped give suggestions on the
choice of these markers. For a list of the microsatellites available, by
chromosome, just go to the http://www.public.iastate.edu/~pigmap. Additional
aliquots of most of the previous 175 microsatellites are also available in
10,000 pmole aliquots. If you would like another set, please contact us. These
are available until the supply runs out.
A new mapping feature in PiGBASE allows you to link up the separate linkage
maps. Have you ever wanted to line up the individual linkage maps and tie them
together using genes mapped in common on the maps? Now you can. To do this
enter the database thru http://www.public.iastate.edu/~pigmap (the U.S. Pig
Genome Home Page) and select the PiGBASE Managers and then the Map manager or
select the PigBASE Browser under http://www.ri.bbsrc.ac.uk/pigmap/pigmap.html
(the Roslin home page for PiGMaP). At present you can select the one physical
map and the three linkage maps (PiGMaP, USDA and Uppsala). After the maps are
drawn you may notice that the orientation of one map may not fit with the
orientaion of the others. (For instance chromosome 1 USDA is not in the same
orientation as the other maps). You then click the "Flip" button below that map
you wish to flip and it will redraw it upside down. Then click the "Common"
button and lines will be drawn between the genes or markers that are in common.
Additional gene mapping news is now available through the Poultry Genome
Newsletter. The newsletter is published quarterly by Dr. Jerry Dodgson, the
U.S. Poultry Genome Coordinator. Look for it on the Angenmap computer
discussion group.
Congratulations to Dr. Noelle Muggli-Cockett and her husband John, on the
arrival of the first member of their own reference/resource family. Their son
Dylan, was born on April 15.
Its not too late to attend some excellent meetings in May: Biotechnology's Role
in the Genetic Improvement of Farm Animals, Beltsville, MD, May 14-17, 1995.
Contact Dr. Joan Lunney at 301-504-9368. NABC 7, Genes For the Future,
Discovery, Ownership and Access, Columbia, MI, May 24-27, 1995. For information
contact Ms. Karen Powell at 314-882-2429.
Also in the near future is a workshop on automated genotyping. The Iowa State
University DNA Sequencing and Synthesis Facility in conjunction with the
Applied Biosystems Division of Perkin Elmer announce a symposium and workshop
on automated genotyping June 6 and 7, 1995 in the auditorium of the Molecular
Biology Building at Iowa State University. There is no registration fee but
registration is requested. June 6th will be a symposium on plant and animal
applications of automated genotyping including the Applied Biosystems Gene Scan
and Genotyper software. Dr. Denis Milan is a participant and will present his
experiences with automated genotyping in pigs. June 7th will be a workshop to
allow participants to view the Applied Biosystems 373 and 377 automated
sequencing instruments in operation and to generate a data set for hands on
manipulation of Gene Scan and Genotyper Software. Symposium participants will
receive complementary beverages and a box lunch on June 6. For further details
and announcements please contact the DNA Sequencing and Synthesis Facility,
hhills@iastate.edu or Harold G. Hills, Ph.D., 1184 Molecular Biology Building,
Iowa State University, Ames, IA 500113260. Phone: 515-2949585, Fax: 515-
2941597.
Keeping with our attempts to inform you on other species here is a report about
the bovine genome project. Several maps of the bovine genome are under
construction. Two published linkage maps continue to grow through genotyping of
families distributed by MARC and an ISAG committee. The International Bovine
Reference Family Panel (IBRP), the ISAG bovine version of the human CEPH
families, has now been typed in 22 different laboratories including six in the
U.S. The NAGRP cattle coordinator is responsible for distribution of the IBRP
DNA in North America. There are presently more than 550 markers on this map,
95% of which are linked. The number of coding sequences on this map has grown
to more than 100. Other linkage data sets, such as the one coordinated by
Harris Lewin at U. Illinois, are also growing rapidly. A current challenge is
to merge these and other maps into consensus linkage maps; an exercise that was
successfully initiated for chromosome 23 at the 1994 ISAG meeting in Prague.
Cytogenetic and comparative maps are growing in parallel to the linkage map. At
least 70 in situ localizations have been made and more than 275 comparative
assignments relative to human are known. A dozen economic trait loci are now
assigned to specific chromosomal regions. The NAGRP is dedicated to making
comprehensive referenced bovine mapping information available through the WWW.
To insure the international scope of such a database, collaboration with BovMap
has been formalized and Alan Hillyard is completing the merger of data into
GBASE format comparable to that in use for pigs, sheep, and poultry. Mr.
Srinivas Kata has been employed at Texas A&M University to share editing
responsibilities with BoVMAP counterparts. (Kindly provided by Dr. James
Womack, JWOMACK@VETMED.TAMU.EDU).
The First International Equine Gene Mapping Workshop will be convened October
1820, 1995 in Lexington, Kentucky by the Dorothy Russell Havemeyer Foundation.
The primary goal for the workshop is to make a linkage map for the horse
through collaborative efforts between laboratories. In addition, the workshop
will also support work on the physical map. Those interested in this workshop
are invited to contact Dr. Ernest Bailey, M.H. Gluck Equine Research Center,
University of Kentucky, Lexington, KY 405460099, phone: 6062571145, fax:
606-2578542, email: vsc003@ukcc.uky.edu. (Kindly provided by Dr. E. Bailey).
Contributions to Pig Genome Update 13 including short meeting announcements are
always welcome. Please send by the 15th of June.
Max F. Rothschild
U.S. Pig Genome Coordinator
225 Kildee Hall
Department of Animal Science
Iowa State University
Ames, Iowa 50011
Phone: 515-294-6202
Fax: 515-294-2401
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