Copy Link
Add to Bookmark
Report
Pig Genome Newsletter #001
PIG GENOME UPDATE No. 1
July 1, 1993
-------------------------------------------------------------------------------
This has been a busy few weeks relative to coordinating swine genome
activities. A number of you have been kind enough to visit with me about your
interests and concerns. In addition, there was a database meeting in Washington
and the PiGMaP meeting in Ghent, Belgium. The following represents some of the
results from these meetings and some of the other events which have occurred
recently.
PiGMaP Meeting
* The PiGMaP meeting was attended by 54 individuals from the PiGMaP group
and representatives of the genome groups from the U.S., Japan and
Australia. Presentations were made from all groups. I gave a presentation
about all U.S. labs using the information Joan and Larry had put together
for the genome newsletter edited by Harris Lewin. The PiGMaP collaboration
continues to bear fruit. The PiGMaP group has been active in adding a
number of genes and markers to the genetic map. The public genetic map
will be published shortly in Animal Genetics. In addition, those
individuals, from any lab, who have mapped any genes to the PiGMaP gene
map are allowed to have access to the "non-public map." This map probably
has 300 markers or genes.
* The PiGMaP participants are eager to have individual labs in the U.S.
participate. Toward that end, Alan Archibald has promised to send more DNA
for the Edinburgh 40 F2 animals. A copy of the APHIS permit form has been
included in this mailing. If you desire to get DNA from the Edinburgh pigs
please fill out the enclosed form, sign it and send it to me by August 1.
I will send them in to APHIS with a letter explaining the need to speed
approval. In addition, I have requested permission to import DNA from 20
F2 animals from France, 10 F2 animals from the Netherlands and 20 F2 from
Sweden. When the general permits are available I will help to coordinate
getting the permit extended to those individuals who desire to use the
PiGMaP DNA.
* On the subject of access to the PiGBASE database, the PiGMaP group agreed
to make it available to anyone who wants access. The database is like
GBase, the mouse database, and is developing well. Access to it is
important until we have reached decisions on our approach to developing a
database. (Please see my comments on the database meeting.) One question
that has come up is who can have access to the "private lab data" from the
PiGMaP group. They are developing a database with lab type data and it
will be called RESPIG. It was decided that any lab putting five markers on
the map using 80 of the PiGMaP pigs will have access to this database.
This should be ready in the Fall.
* Other details on results are numerous and a report is being prepared. If
you have particular questions about certain results from any labs please
give me a call.
*
Database Meeting
* A few weeks ago in Washington a database meeting was held to discuss some
of the options. John Keele chaired the meeting and Joan Lunney served as
the representative from the swine group. The three options discussed were
1) using the Clay Center database, 2) using the PiGMaP database (PiGBASE)
or a U.S. version of PiGBASE, or 3) developing a new database. There was
good discussion but no decisions except to say that there was agreement
that cooperation with international efforts was to be encouraged. Dick
Frahm plans to request funds for database development in FY95. I have
visited with some members of the committee and am planning to visit with
other members of the technical committee to get suggestions and reach a
consensus. If you have comments or concerns please relay those to the
committee or to me. The final report of the committee will be released in
November. For the moment, you may want to apply for access to the PiGMaP
database. I have enclosed a form to send to Alan Archibald and a
description of PiGBASE. Alan Hillyard has also agreed to consider creating
a node from the Jackson labs.
Somatic Cell Hybrid Panel
* Richard Giles has announced that he probably will be leaving his work in
gene mapping. He wishes to make his panel available to others. The
description of his material is as follows. A rodent- swine hybrid cell
clone collection has been produced for mapping swine genes by somatic cell
genetics using the clone panel approach. Isozyme segregation data are
available for a number of enzymes (see enclosed attachment). Synteny
testing may be performed with clones to established synteny groups.
Synteny testing can be used to indirectly assign a marker to a chromosome
when synteny is detected with a marker assigned to a specific chromosome.
The isozyme data are available in dBase IV version 1.5 format together
with application programs for synteny testing. For further information
please contact Richard E. Giles, Department of Animal Sciences, 228 PABL
MC-051, 1201 W. Gregory Dr. University of Illinois, Urbana, IL 61801 until
July 31, 1993 (Tel: 217-333-3816; Fax: 217-244-5617). After July 31 please
contact Max Rothschild.
Gene Maps
* Included in this mailing are some reprints concerning comparative gene
mapping. I hope you will find them interesting and useful. If you have
reprints from your work please send me a copy.
That is the update for now. I will keep you informed of our progress. I look
forward to working with all of you. Thank you again for your help and
cooperation.
Max F. Rothschild
Swine Genome Coordinator
225 Kildee Hall
Department of Animal Science
Iowa State University
Ames, Iowa 50011
Phone: 515-294-6202 or 3629
Fax: 515-294-2401
-------------------------------------------------------------------------------
* Return to Previous Menu
