From owner-rapd@net.bio.net Thu Feb 01 22:00:00 1996 Path: biosci!labatt.com!rob.stewart From: rob.stewart@labatt.com ("Stewart, Robert") Newsgroups: bionet.molbio.rapd Subject: RE: experience with comput.RAPD catalogue? Date: 2 Feb 1996 07:50:22 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 51 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Greetings, Ivo posted the following: ---------- From: nfix@jcu.cz[SMTP:nfix@jcu.cz] Sent: Friday, February 02, 1996 8:39AM To: rapd@net.bio.net Subject: [Q]:experience with comput.RAPD catalogue? Hello Netters out there! Could anybody share with me his/her experience with set-up and running of computer-based catalogue of hundreds of RAPD (or elpho, in general) profiles for fingerprinting purposes? There is a lot of various often very expensive SW, so any personal experience is hihgly valuable for me. ThanX much for your answers! Ivo Wiesner From RS: We have used the RFLPscan from Scanalytics. The most updated version is pretty good. The output of the software gives a percent identity between the sample and those in the data base. You can select the cut off value at 70%or 99%, for example. I find that it is not totally automated; that is, some judgment from the analyst is required to designate which bands will be used in the RAPD profile analysis. The analyst has to decide which bands are relevant and which are only minor. It takes some time setting up the data base, but we have found it useful for identifying some lactic acid bacteria. The company Scanalytics can be reached at the following address: Scanalytics 40 Linnell Circle Billerica, MA 01821 I don't have the telephone number, but we deal with the Canadian distributor: Primer Biotech 2 Pride Court Weston, Ontario, Canada M9R 1N4 Tel: 416-243-5130 Fax: 243-3533 I hope this is useful. Feel free to contact me with any further questions. Tallyho RS From owner-rapd@net.bio.net Thu Feb 01 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!swrinde!tank.news.pipex.net!pipex!lade.news.pipex.net!pipex!tube.news.pipex.net!pipex!dish.news.pipex.net!pipex!news00.sunet.se!sunic!news99.sunet.se!news.funet.fi!news.csc.fi!usenet From: Timo Turpeinen Newsgroups: bionet.molbio.rapd Subject: Re: RAPD analysis Date: 2 Feb 1996 11:17:10 GMT Organization: Agricultural Research Centre, Finland Lines: 17 Message-ID: <4esrrm$bvl@ankka.csc.fi> References: <4eqkuf$n4r@mserv1.dl.ac.uk> NNTP-Posting-Host: mttkp2.mtt.fi Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.1N (Windows; I; 16bit) To: pirjo.tanhuanpaa@mtt.fi "J. Cameron" wrote: > >SOS > >Does anyone in the UK, preferably Midlands-ish, have a working copy of >RAPDistance or other analysis package. If so would it be possible to let me >have a copy, or better still allow me to pay a brief visit to analyse one >small data set? I have obtained a copy of RAPDistance from John Armstrong, >but am having trouble getting it to work, and I need to look at my data >urgently. > >Many thanks > >Janet Cameron >Keele University From owner-rapd@net.bio.net Thu Feb 01 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!primus.ac.net!news.cais.net!xara.net!peer-news.britain.eu.net!uknet!ftel.co.uk!bham!bcs152.bham.ac.uk!user From: C.Constantinidou@bham.ac.uk (Chrystala Constantinidou) Newsgroups: bionet.molbio.rapd Subject: Re: Gel analysis using the GelCompar program Date: 2 Feb 1996 13:38:59 GMT Organization: University of Birmingham Lines: 19 Distribution: bionet Message-ID: References: <4en2mi$64i@mserv1.dl.ac.uk> NNTP-Posting-Host: bcs152.bham.ac.uk In article <4en2mi$64i@mserv1.dl.ac.uk>, Roland Koelliker wrote: > Is anybody familiar with the GelCompar program of Applied Maths in Belgium > and can give me some assistance? > > Thank you for your help! > Roland > Roland Koelliker > Swiss Fed Inst Technol > Plant Sciences > ETH-Zentrum, LFW-C47 > CH-8092 Zurich > Tel ++41-1-632 4890 > Fax ++41-1-632 1153 > e-mail: koelliker@ipw.agrl.ethz.ch Yes, I use gelcompar, what is your problem I may be able to help. From owner-rapd@net.bio.net Thu Feb 01 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: nfix@jcu.cz (Ivo Wiesner) Newsgroups: bionet.molbio.rapd Subject: [Q]:experience with comput.RAPD catalogue? Date: 2 Feb 1996 13:39:14 -0000 Lines: 13 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4et462$d4@mserv1.dl.ac.uk> X-URL: http://www.ncsa.uiuc.edu/SDG/Software/Mosaic/NCSAMosaicHome.html Original-To: rapd@dl.ac.uk Hello Netters out there! Could anybody share with me his/her experience with set-up and running of computer-based catalogue of hundreds of RAPD (or elpho, in general) profiles for fingerprinting purposes? There is a lot of various often very expensive SW, so any personal experience is hihgly valuable for me. ThanX much for your answers! Ivo Wiesner From owner-rapd@net.bio.net Thu Feb 01 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!gatech!taco.cc.ncsu.edu!faeppc2.cvm.ncsu.edu!user From: david_ley@ncsu.edu (David Ley) Newsgroups: bionet.molbio.rapd Subject: Gel (RAPD) Analysis Date: Fri, 02 Feb 1996 10:48:54 -0500 Organization: NCSU-CVM Lines: 8 Distribution: bionet Message-ID: References: <4et462$d4@mserv1.dl.ac.uk> NNTP-Posting-Host: faeppc2.cvm.ncsu.edu There have been a few posts recently asking for info. re. gel analysis computer programs that could be applied to RAPDs. Clearly, there are good reasons for this approach and there are lots of programs available, some of them very costly. I have looked at several, had trouble with each, and am still looking. Surely, one or two will rise to the top, and perhaps become commonly used standards. So, this is another plea to those who have searched for, found, used, and are satisfied with gel analysis programs to share your findings. From owner-rapd@net.bio.net Sat Feb 03 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!elroy.jpl.nasa.gov!swrinde!howland.reston.ans.net!nntp.coast.net!swidir.switch.ch!scsing.switch.ch!news.belwue.de!fu-berlin.de!zrz.TU-Berlin.DE!ppc6100.lb.tu-berlin.de!user From: muel1534@mailszrz.zrz.tu-berlin.de (Dirk Mueller) Newsgroups: bionet.molbio.rapd Subject: Looking for RAPD Primers Followup-To: bionet.molbio.rapd Date: Sun, 04 Feb 1996 17:22:03 +0100 Organization: Mikrobiologie und Genetik Lines: 6 Message-ID: NNTP-Posting-Host: ppc6100.lb.tu-berlin.de We intend to do RAPD analysis of aspergillus and related spezies. Is there any database of useful RAPD primers or any company who sells RAPD markers systems? Thanks, Dirk Mueller TU-Berlin From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!howland.reston.ans.net!nntp.coast.net!news.net99.net!news.cyberg8t.com!usenet From: topaz56@cyberg8t.com (Dr. Thomas Porter) Newsgroups: bionet.announce;,bionet.cellbiol;,bionet.general;,bionet.immunology;,bionet.jobs.wanted;,bionet.molbio.genbank;,bionet.molbio.hiv;,bionet.molbio.rapd Subject: NEW - WWW page Development by Molucular Biologists/Programming Experts Date: Sun, 04 Feb 1996 20:48:38 GMT Organization: Cyberg8t Internet Services (800) 399-4NET Lines: 47 Message-ID: <4f3638$gg0@gate.cyberg8t.com> NNTP-Posting-Host: host52.cyberg8t.com X-Newsreader: Forte Free Agent 1.0.82 Hello... First apologise if you've read this in more than one group. We were worried that this would come across as spamming; but we believe that this offer is legitimate, whereas, we are not offering to turn $5->$50,000 in one week!!!!! It won't happen again, but we wanted to make people aware soon about a rather unique approach our company has taken to getting Small & mid-sized Biotech companies on the WWW. If you are a small or midsize (or giant) biotech firm with an interest in having a presence on the WWW, then perhaps you should look at the DTD homepage. I have a Ph.D. in Biochemistry from Baylor College of Medicine in Houston, and currently work on imprinting -- but I have some good WWW gurus who have fun designinh WWW pages & CGI back-up. If your company doesn't yet have a WWW presence, please drop us a note. We'll design the page (w/ you) and host it for a nominal fee. You can even get your own domain name registered. In addition, you can work w/ me (big deal, I know), but I have extensive experience in both biotech & the WWW. And I'm not cheap (I'm free - just like graduate student days) Not to many (or any) companies can offer this. Great method to effective;y & economically get your name out in front of >10^6 educated (well, most) people. At DTD, we also do a spectrum of other activites, but you can see for yourself on our homepage. Best, Tom <<<<<<<<<<<<<<<>>>>>>>>>>>>>>>>>>>>>>>>>> Dr. Thomas Porter DIGITAL TOOL & DIE http://www.cyberg8t.com/tools Phone: 818-796-6759 FAX: 818-796-9184 "All I have learned about life, I can sum up in three words: It goes on." <<<<<<<<<<<<<<>>>>>>>>>>>>>>>>>>>>>>>>>>> From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!cabi.org!D.BRAYFORD From: D.BRAYFORD@cabi.org ("David Brayford ", IMI) Newsgroups: bionet.molbio.rapd Subject: RE: Looking for RAPD Primers Date: 5 Feb 1996 01:24:03 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: <3115CC5A@msm.cgnet.com> NNTP-Posting-Host: net.bio.net The Dendrome WWW server at URL http://s27w007.pswfs.gov/ has an excellent database of RAPDs primers in kits from Operon, Genosys & UBC. Also, try the EBI primers database at http://www.ebi.ac.uk/primers_home.html or through anonymous ftp to: ftp.ebi.ac.uk under: /pub/databases/primers/ Dave Brayford, IMI ---------- From: BIOSCI-REQUEST To: rapd Subject: Looking for RAPD Primers Date: 04 February 1996 5:22 We intend to do RAPD analysis of aspergillus and related spezies. Is there any database of useful RAPD primers or any company who sells RAPD markers systems? Thanks, Dirk Mueller TU-Berlin From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!due.unit.no!usenet From: Hans Stenoien Newsgroups: bionet.molbio.rapd Subject: test Date: Mon, 05 Feb 1996 15:37:00 +0100 Organization: The Norwegian University of Science and Technology Lines: 1 Message-ID: <3116160C.5DD5@vm.unit.no> NNTP-Posting-Host: vm237.ubt.unit.no Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0b6a (Win95; I) CC: hans.stenoien@vm.unit.no test From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!due.unit.no!usenet From: Hans Stenoien Newsgroups: bionet.molbio.rapd Subject: test Date: Mon, 05 Feb 1996 15:32:32 +0100 Organization: The Norwegian University of Science and Technology Lines: 1 Message-ID: <311614FF.3B7C@vm.unit.no> NNTP-Posting-Host: vm237.ubt.unit.no Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0b6a (Win95; I) CC: Hans, Stenoien test From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!howland.reston.ans.net!nntp.coast.net!news00.sunet.se!sunic!news99.sunet.se!news.lth.se!merkurius.lu.se!usenet From: Mikael Quednau Newsgroups: bionet.molbio.rapd Subject: Re: Gel (RAPD) Analysis Date: 5 Feb 1996 12:20:38 GMT Organization: Lund University Lines: 22 Message-ID: <4f4smm$oc4@merkurius.lu.se> References: <4et462$d4@mserv1.dl.ac.uk> NNTP-Posting-Host: michaelq.livsteki.lth.se Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.22 (Windows; I; 16bit) To: david_ley@ncsu.edu david_ley@ncsu.edu (David Ley) wrote: >There have been a few posts recently asking for info. re. gel analysis >computer programs that could be applied to RAPDs. Clearly, there are good >reasons for this approach and there are lots of programs available, some >of them very costly. I have looked at several, had trouble with each, and >am still looking. Surely, one or two will rise to the top, and perhaps >become commonly used standards. So, this is another plea to those who >have searched for, found, used, and are satisfied with gel analysis >programs to share your findings. Even if you didn´t mension it by name, I guess that GelCompar by Applied Maths, Nelgium is one of the programs that you have been looking at. I´m well aware of the fact that it falls under the category "quite costly", but I have found it to be a rather nice program to work with. I´ve used it to analyze RAPD- and REA-gels, as well as some other numerical data such as API and BioLog (via a small program called BioNumerics, that Applied Maths was kind enough to send to me). Even if there are a few minor things about the program that irritates me a bit, I´ve found it to be a very useful program, and, if you can afford it, it is well worth having a look at. From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!howland.reston.ans.net!nntp.coast.net!oleane!in2p3.fr!swidir.switch.ch!scsing.switch.ch!elna.ethz.ch!usenet From: MGCASEY@AEOLUS.VMSMAIL.ETHZ.CH (Casey Michael) Newsgroups: bionet.molbio.rapd Subject: Telephone No. Gene Releaser, Bioventures? Date: 5 Feb 1996 14:34:25 GMT Organization: ETH ZUERICH Lines: 11 Distribution: world Message-ID: <4f54hh$k74@elna.ethz.ch> NNTP-Posting-Host: aeolus-rz.ethz.ch X-News-Reader: VMS NEWS 1.24 Bioventures, TN, USA sell a product called Gene Releaser for preparing DNA for RAPDs. Does anyone have their telephone number? Thank you. Michael Casey mgcasey@aeolus.ethz.ch From owner-rapd@net.bio.net Sun Feb 04 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!howland.reston.ans.net!nntp.coast.net!news00.sunet.se!sunic!news99.sunet.se!news.lth.se!merkurius.lu.se!usenet From: Mikael Quednau Newsgroups: bionet.molbio.rapd Subject: Re: Gel analysis using the GelCompar program Date: 5 Feb 1996 12:10:57 GMT Organization: Lund University Lines: 7 Message-ID: <4f4s4h$m6g@merkurius.lu.se> References: <4en2mi$64i@mserv1.dl.ac.uk> NNTP-Posting-Host: michaelq.livsteki.lth.se Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.22 (Windows; I; 16bit) To: koelliker@ipw.agrl.ethz.ch Sure. I´ve used GelCompar for a while now I used to analyze RAPD-gels, REA-gels, as well as other numerical data (API and BioLog). Please don´t hesitate to tell me about your problems! Who knows, I may be able to help you! Mikael Quednau From owner-rapd@net.bio.net Tue Feb 06 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!howland.reston.ans.net!nntp.crl.com!newshub.cts.com!not-for-mail From: rcdana@cts.com (R. Dana - Green Gene) Newsgroups: bionet.molbio.rapd Subject: RAPD Date: 7 Feb 1996 00:20:12 GMT Organization: CTS Network Services (CTSNET), San Diego, CA Lines: 6 Message-ID: <4f8r7s$715@news3.cts.com> NNTP-Posting-Host: crash-i2.cts.com X-Newsreader: TIN [version 1.2 PL2] Need speakers on RAPD for conference in San Diego Apr 2, 1996 http://www.greengene.com From owner-rapd@net.bio.net Thu Feb 08 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!due.unit.no!usenet From: Hans Stenoien Newsgroups: bionet.molbio.rapd Subject: PCR on bryophytes Date: Fri, 09 Feb 1996 08:30:21 +0100 Organization: The Norwegian University of Science and Technology Lines: 9 Message-ID: <311AF80D.7558@vm.unit.no> NNTP-Posting-Host: vm237.ubt.unit.no Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0b6a (Win95; I) CC: hans.stenoien@vm.unit.no I'm planning to run PCR on some bryophyte (Sphagnum) species. Each shot of these organisms contain both inter- and intracellular algae. Can anyone tell me how great amount of algal DNA compared to total DNA extracted that is necessary to produce contamination problems (let's say I'm doing less than 30 amplification cycles)? Thanks in advance. Hans Stenoien From owner-rapd@net.bio.net Sat Feb 10 22:00:00 1996 Path: biosci!TAMU.EDU!claire-williams From: claire-williams@TAMU.EDU (Claire Williams) Newsgroups: bionet.molbio.rapd Subject: Postdoctoral position Date: 11 Feb 1996 09:58:24 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: <9602111804.AA14866@rsgis4.tamu.edu> NNTP-Posting-Host: net.bio.net Postdoctoral position available in the Department of Forest Science, Texas A&M University to study genetic basis of inbreeding depression in conifers using an integrated population genetics - molecular biology approach. Familiarity with genomic mapping techniques including PCR-based markers and RFLPs as well as a strong statistical and computing background is preferred. This two-year salaried position with generous benefits is available starting April 1996. For more information, send an email inquiry to Dr. Claire Williams (claire-williams@tamu.edu) or request job application information from Shawn McGown, TAMU Personnel Office at phone 409-845-5154/ fax 409-847-8877. Claire Williams Associate Professor Texas A&M University phone (409) 862-3745, fax (409) 845-6049 From owner-rapd@net.bio.net Tue Feb 13 22:00:00 1996 Path: biosci!ACD.TUSK.EDU!Prakash From: Prakash@ACD.TUSK.EDU (C. S. Prakash) Newsgroups: bionet.molbio.rapd Subject: Updated Info on Tuskegee Workshop on Transgenic Plants Date: 13 Feb 1996 19:37:54 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 289 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Here is the updated information on the workshop on transgenic plants at Tuskegee University. Please note that we now require pre-registration with payment to get a reasonable estimate of the audience number. We now have a website for the workshop and please check it up for latest information. A few new speakers have been added since the last announcement. ------------------------------------------------------------------------ The Center for Plant Biotechnology Research, Tuskegee University, USA is hosting a workshop on transgenic plants (April 20-22, 1996) with support from NSF and USDA. The workshop aims to provide a forum for students, teachers and researchers to learn first-hand the latest developments in transgenic plant research from leading scientists, enhance increased student participation in plant molecular biology and promote networking of students with the established plant molecular biologists. May I request you to please publicize this event to your faculty and students through your newsletter, Website and Internet mailings? I also call upon companies to set up exhibit of their products and services. May I also encourage Graduate Program Mangers to send in their representatives to promote your programs and activities at this event? Thank you for your consideration, Yours, C. S. Prakash, Ph. D. Center for Plant Biotechnology Research Tuskegee University. Here is a short announcement for your "Calendar of Events" ---------------------------------------------------------------------------- ----------------- Workshop on Transgenic Plants: Biology and Applications, April 20-22, Tuskegee University. Contact Dr. C. S. Prakash, School of Agriculture, Tuskegee University, Tuskegee, AL 36088, USA. Prakash@Acd.Tusk.Edu; Phone (334) 727-8023; Fax (334) 727-8552. http://www.tusk.edu/tusk/agriculture/workshop/wrkshop.htm Detailed announcement...... ---------------------------------------------------------------------------- ---------------------------- Workshop on Transgenic Plants: Biology and Applications April 20-22, 1996 Tuskegee University Kellogg Executive Conference Center The highlights of the workshop include... * Lectures by nearly 20 eminent scientists on the current status of research on transgenic plants including fundamental biology, techniques, agricultural improvement, commercial applications, ethical issues and social considerations. * Special Session * 'Plant Genome Database'. * 'How Internet Can Enhance Your Research Productivity'. * 'Teaching Transgenic Plants to Undergraduates'. * Panel discussion on strategies for enhancing minority participation in plant molecular biology research. * Talks by federal agency representatives on funding opportunities to support plant research. * Commercial exhibits from biotechnology companies. * Exhibits on various Ph. D. programs around the country with information on graduate assistantships. * Tour of the Plant Molecular Genetics Laboratories at Tuskegee University. * Poster session for exposure of student research * Luncheon and Banquet Lectures A limited travel funding is available for underrepresented minority undergraduate and graduate students from U. S. Please contact Dr. C. S. Prakash immediately for information on this funding. Please check the World Wide Web site on the Internet for latest information on the workshop (including local map and directions from the airport): http://www.tusk.edu/tusk/agriculture/workshop/wrkshop.htm Program Saturday April 20, 1996 6 - 8 PM: Registration 7 PM: Reception/Cocktail -Supported by Private Companies Sunday, April 21, 1996 8 AM: Welcome : Dr. Benjamin Payton, President, Tuskegee University Plenary Lecture Ganesh Kishore, Monsanto Co. "Crop Improvement Via Biotechnology" Morning Sessions: Eugene Nester, University of Washington "Agrobacterium: A Natural Genetic Engineer Exploited for Biotechnology" Maureen Hanson, Cornell University "Transgenic Plants - Cell and Developmental Biology" Brian Larkins, University of Arizona "Enhancing Protein Quality in Crops" =46rederick Perlak, Monsanto "Engineering Insect Resistance in Plants" Virginia Walbot, Stanford University "Regulation of Mutator Transposable Elements of Maize" Luncheon Lecture: Roger Beachy, Scripps Research Institute "Genetic Engineering of Virus Resistance in Plants" Afternoon Sessions Hans Bohnert, University of Arizona "Transgenic Plants and Abiotic Stress" Genichi Kakefuda, American Cyanamid "Designing Herbicide Tolerance in Plants" Susan Wessler, University of Georgia "Transposable Elements Can Be Our Friends" Trevor Thorpe, University of Alberta "Somatic Embryogenesis" Banquet Lecture Charles Arntzen, Boyce Thompson Plant Research Institute "Transgenic Plants Producing Edible Vaccines" Monday, April 22, 1996 Plenary Lecture Chris Somerville, Carnegie Institute of Washington, Stanford U "Biodegradable Plastics from Transgenic Plants" Tim Conner, Monsanto Co. "Transgenic Plants- Fine Tuning of the Expression of Traits" K. V. Raman, ISAAA, Cornell University "International Applications of Transgenic Plants" Robert Fincher, Pioneer Hi-Bred International "Commercialization of Transgenic Crops" Michael Oelck, AgrEvo Canada "Innovator - The first genetically enhanced canola variety in Canad= a in 1995" =46red Buttell, University of Wisconsin, Madison " Socioeconomic Aspects of Transgenic Plants" Paul Thompson, Texas A& M University "Ethical Responsibility and the Unintended Consequences of Plant Biotechnology". Terry Medley, USDA/APHIS "Agricultural Biotechnology and Biosafety Issues" Judy Chambers, U. S. A. I. D. "Global Perspectives of Biotechnology" Panel Discussion 1: "Enhancing Minority Participation in Transgenic Plant Research and Education" Frank Greene, USDA/ARS Walter Hill, Tuskegee University Terry Medley, USDA/APHIS William Gordon, Howard University Jerome Roberts, Alabama A & M University Jacquelyn Jackson, Tuskegee University Karyn Scissum-Gunn, Auburn University Panel Discussion 2: Funding Opportunities for Research on Transgenic Plants Program Managers from USDA, NSF, DOE and NASA Monday P. M. * Susan McCarthy, USDA/NAL- Demonstration of the 'Plant Genome Databas= e' * Pat Traynor, NBIAP/Virginia Tech - 'Information Systems for Biotechnology' * C. S. Prakash, Tuskegee University 'How Internet Can Enhance Your Research Productivity' * Stanton Gelvin, Purdue University-" Teaching Transgenic Research to Undergraduates using "Purdue Blue Plants" * Ramanjini Gowda and Marceline Egnin: Tour of the Plant Molecular Genetics Laboratory and demonstration of the "Gene Gun" The workshop will conclude at 5 PM on Monday, April 22. Additional Speakers to be confirmed Robert Jones, University of Minnesota Maria Ragland, Research Genetics, Inc. Registration: Conference Pre-Registration is $100 and includes admittance to all sessions, cocktail, meals (continental breakfast and luncheon on Sunday and Monday; banquet on Sunday, coffee and snacks during breaks) and abstract book. Payment (check payable to TU Kellogg Conference Center) must be sent to Dr. Prakash by April 1, 1996. Registration on- site is $125 (Credit card, cash or check). Hotel Accommodations (Call Directly!) Rooms are being held under the "Transgenic Plant Workshop" at The Tuskegee University Kellogg Executive Conference Center where all the meetings will be held. It is a new and very modern conference facility with 180 luxury rooms. Conference special rates are $70 Single and $80 Double (plus tax and gratuity). Credit Cards Accepted. For reservations, contact the Conference Center directly-Toll Free: 1-800-949-6161 (334-727-3000; Fax 334-727-5119). Address: Tuskegee University, Old Montgomery Road, Tuskegee, AL 36088, USA. Reduced rates available for U. S. Government Employees. Less expensive ($50) but farther hotels (for those with own transportation) are Hampton Inn (Auburn; 20 miles) (334) 821-4111; Quality Inn (Auburn; 21 miles) (334-821-7001; Days Inn (Shorter; 20 miles to the south) (334) 727-6034; Western Inn (334) 727-5400 (Tuskegee; 6 miles; $43). The legendary scientist George Washington Carver worked at Tuskegee for nearly 50 years and 'Carver Museum' is located right next to the conference center. Getting There: Special discounted air and ground travel (shuttle) rates are available. Please contact the Meeting Management Services at 1-800-821-8751 (Fax 719-473-8750). Atlanta Airport is located about 120 miles (about 2 hours drive) from Tuskegee and has excellent flight connections. Montgomery (Ala.) Airport is about 40 minutes drive. Shuttle service ($45) from both airports is available but reservations must be made in advance; Call the Meeting Management Services at 1-800-821-8751. Car rental is another option as it provides greater flexibility and costs are comparable to the shuttle. Weather: We will order some good sunny weather for you. You may expect 60-75=B0F (15-22=B0C) during April in Tuskegee. April has beautiful bloomin= g blossoms of dogwood and rhododendron around here. To register for the workshop, please complete the following form with your name, address, email, fax and phone numbers and forward with a check for $100 to: Dr. C. S. Prakash "Workshop on Transgenic Plants" Director, Center for Plant Biotechnology Research School of Agriculture and Home Economics Milbank Hall, Tuskegee University Tuskegee, AL 36088-1641. USA Email: Prakash@Acd.Tusk.Edu Phone (334) 727 8023 =46ax (334) 727 8552 http://www.tusk.edu/tusk/agriculture/workshop/wrkshop.htm Remember pre-registration is necessary to get discounted rate. Clip and forward to Dr. Prakash with a check for $100.00 payable to TU Kellogg Center by April 1. ---------------------------------------------------------------------------- ---------------------- Name: Title: Address: Email: Phone: =46ax Number: Payment Enclosed? Check----- (Make Check payable to Tuskegee University Kellogg Conf. Center) Any dietary or other restrictions............................... I am interested in presenting a poster : ------------Yes ---------------No Poster Title: (For minority student travel grant consideration you must send a statement of research interests along with a letter from your advisor by March 10, 1996) ---------------------------------------------------------------- C. S. Prakash Phone (334) 727 8023 Tuskegee University Fax (334) 727 8552 School of Agriculture Email: Prakash@Acd.Tusk.Edu Tuskegee, AL 36088. USA --------------------------------------------------------------- From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!ASRR.ARSUSDA.GOV!abartlet From: abartlet@ASRR.ARSUSDA.GOV ("Alan C. Bartlett") Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 20 Feb 1996 09:46:01 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 31 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <4gbpcb$rsi@mserv1.dl.ac.uk> NNTP-Posting-Host: net.bio.net We found that our extracted insect DNA did not remain stable during freeze thaw cycles. In fact, only two or three cycles caused significant degradation. You need to aliquot it as soon as possible (like on the next thaw) and then only thaw one aliquot at a time. On 20 Feb 1996, Roland Koelliker wrote: > Hi there > I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. > Since I did not aliquot it has to thaw and freeze several time. Do you think > the DNA remains stable or are there better storage procedures? > Thank you for your help. > Roland Koelliker > Swiss Fed Inst Technol > Plant Sciences > ETH-Zentrum, LFW-C47 > CH-8092 Zurich > Tel ++41-1-632 4890 > Fax ++41-1-632 1153 > e-mail: koelliker@ipw.agrl.ethz.ch > > > Alan C. Bartlett "GENES-R-US" "ALTERATIONS AVAILABLE!^" "^some restrictions may apply:)" From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!rutgers!gatech!newsfeed.internetmci.com!tank.news.pipex.net!pipex!oleane!jussieu.fr!saphir.jouy.inra.fr!usenet From: "Christophe Délye" Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 20 Feb 1996 16:10:00 GMT Organization: INRA Lines: 20 Message-ID: <4gcroo$ji2@saphir.jouy.inra.fr> References: <4gbpcb$rsi@mserv1.dl.ac.uk> NNTP-Posting-Host: saphir.jouy.inra.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.22 (Windows; I; 16bit) To: koelliker@ipw.agrl.ethz.ch Roland Koelliker wrote: >Hi there >I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. >Since I did not aliquot it has to thaw and freeze several time. Do you think >the DNA remains stable or are there better storage procedures? >Thank you for your help. >Roland Koelliker Hi! I am performing RAPDs on fungal DNA, and I also resuspend my samples in distilled water. I freeze (-20°C) and thaw them at least 5 times a week, but it remains stable for months. DNA may be a bit degraded, but it doesn't seem to matter for RAPD amplifications. Also, my frozen DNA solutions proved to be stable for RAPD amplifications for at least 30 months, even with occasional freezing and thawing. Hope this helps. Christophe. From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!tank.news.pipex.net!pipex!oleane!jussieu.fr!saphir.jouy.inra.fr!usenet From: "Christophe Délye" Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 20 Feb 1996 16:27:01 GMT Organization: INRA Lines: 38 Message-ID: <4gcsol$ji2@saphir.jouy.inra.fr> References: <4gbv7o$4gn@mserv1.dl.ac.uk> NNTP-Posting-Host: saphir.jouy.inra.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Mailer: Mozilla 1.22 (Windows; I; 16bit) Louis van de Zande wrote: >> Hi there >> I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. >> Since I did not aliquot it has to thaw and freeze several time. Do you think >> the DNA remains stable or are there better storage procedures? >> Thank you for your help. > >There are better ways. Aliquotting is always a good idea. If you have >a lot of genomic DNA then store it at room temp (to prevent shearing >by freezing and thawing) or better still, store it in EtOH after >precipitation. This is for long time storage. Anyway, if you have 1ml >of DNA at 10 ng/ml and use that for RAPD then you can join the "we >get strange bands in our RAPD product" group before you have used the >first 100 ul. >cheers >Louis van de Zande >Netherlands I agree with the idea of aliquotting in the case of large DNA sample, but I store fungal DNA resuspended in water at -20°C, and I frequently freeze and thaw it for RAPD assays (at least 5 times a week). I suppose DNA is a bit degradated, but I never obtained "strange bands" (i.e. artifactual or not repetitive bands) in any of my amplifications. I also performed RAPDs on DNA sample resuspended in water which have been frozen and thawed more than 50 times and then kept at -20°C for 20 months, with occasionnal freezing and thawing. The RAPD patterns were absolutely conserved. I presume that "exogenous" DNA contamination is a greater problem than degradation. Hope this helps. Christophe Délye Institut National de la Recherche Agronomique Bordeaux - France From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Louis van de Zande Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 20 Feb 1996 08:03:04 -0000 Organization: Department of Biology, RUGroningen Lines: 18 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4gbv7o$4gn@mserv1.dl.ac.uk> Reply-To: L.P.W.G.M.van.de.Zande@biol.RUG.NL Original-To: rapd@dl.ac.UK > Hi there > I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. > Since I did not aliquot it has to thaw and freeze several time. Do you think > the DNA remains stable or are there better storage procedures? > Thank you for your help. There are better ways. Aliquotting is always a good idea. If you have a lot of genomic DNA then store it at room temp (to prevent shearing by freezing and thawing) or better still, store it in EtOH after precipitation. This is for long time storage. Anyway, if you have 1ml of DNA at 10 ng/ml and use that for RAPD then you can join the "we get strange bands in our RAPD product" group before you have used the first 100 ul. cheers Louis van de Zande Dept. Genetics Univ. Groningen Netherlands From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Roland Koelliker Newsgroups: bionet.molbio.rapd Subject: DNA storage Date: 20 Feb 1996 06:23:07 -0000 Lines: 14 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4gbpcb$rsi@mserv1.dl.ac.uk> X-Sender: rkoellik@patho1 content-length: 517 Original-To: rapd@dl.ac.uk Hi there I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. Since I did not aliquot it has to thaw and freeze several time. Do you think the DNA remains stable or are there better storage procedures? Thank you for your help. Roland Koelliker Swiss Fed Inst Technol Plant Sciences ETH-Zentrum, LFW-C47 CH-8092 Zurich Tel ++41-1-632 4890 Fax ++41-1-632 1153 e-mail: koelliker@ipw.agrl.ethz.ch From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Roland Koelliker Newsgroups: bionet.molbio.rapd Subject: Ethidium Bromide Date: 20 Feb 1996 06:18:43 -0000 Lines: 13 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4gbp43$rha@mserv1.dl.ac.uk> X-Sender: rkoellik@patho1 content-length: 381 Original-To: rapd@dl.ac.uk Hi there Does anybody know literature about toxcity and mutagenity of Ethidium Bromide? Thank you for your help. Roland Koelliker Swiss Fed Inst Technol Plant Sciences ETH-Zentrum, LFW-C47 CH-8092 Zurich Tel ++41-1-632 4890 Fax ++41-1-632 1153 e-mail: koelliker@ipw.agrl.ethz.ch From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Ivo Wiesner Newsgroups: bionet.molbio.rapd Subject: [Q]:???recommend.for E.coli cultiv.box-ivo w.??? Date: 20 Feb 1996 12:58:52 -0000 Lines: 15 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4gcgic$og2@mserv1.dl.ac.uk> MIME-Version: 1.0 Original-To: rapd@dl.ac.uk Dear Colleagues, we want to clone routinely RAPD fragments and are looking for: 1. small cheap cultivation box for E.coli. 2. pocket-sized fluorimeter or spectrophotometer for routine measuring of DNA conc. in solution in microliter volumes. ANY RECOMMENDATION or EXPERIENCE much APPRECIATED!!!!!!!!!!!!!! (addresses of related companies, pref. WWW or e-mail). thanX in advance for your replies. Ivo Wiesner nfix@marvin.jcu.cz From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!YVAX.BYU.EDU!anderswr From: anderswr@YVAX.BYU.EDU (W. Ralph Andersen) Newsgroups: bionet.molbio.rapd Subject: DNA STORAGE Date: 20 Feb 1996 15:04:26 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 24 Sender: daemon@net.bio.net Distribution: world Message-ID: <01I1FX947J2CAW35NL@yvax.byu.edu> NNTP-Posting-Host: net.bio.net YO ROLAND K. We have RAPD analyzed DNA extractions from several plant taxa. We seem to be very successful (if I may say so myself). We attribute our successes mainly to the fact that we are extremely fussy about our DNA extracts. DNA must not ever be allowed to warm to room temperture (unless the DNA is in 70% ETOH) even when centrifuging during preparation. Immediately after dissolving finally in TE buffer we aliquot and index. There will usually be 3 sets of aliquots. One set to the -80, one set to the -20 and (if we will immediately use it) one sample to be stored at 4 C. We are working on endangered spp. and we archive in the -80. We keep track of our inventory and we never thaw a sample more than 3-times, we store at 4 C no longer than 6 weeks. This in addition to great care with our RAPD reactants, a few good DNA extraction techniques (for different kinds of plants), plus a few good thermocyclers, gives us pretty dependable results with RAPDs (and, oh yes, a fussy technician). Dr. W. Ralph Andersen 297 WIDB Brigham Young University Provo, UT 84602 Ph. 801 378 2468 Fax 801 378 7499 From owner-rapd@net.bio.net Mon Feb 19 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!chi-news.cic.net!news.newnorth.net!news From: Craig Echt Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: Tue, 20 Feb 1996 14:23:27 -0600 Organization: USDA Forest Service Lines: 35 Message-ID: <312A2DBF.74AF@newnorth.net> References: <4gbpcb$rsi@mserv1.dl.ac.uk> Reply-To: cecht@newnorth.net NNTP-Posting-Host: rhin-cs-3.newnorth.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0 (Macintosh; I; PPC) To: Roland Koelliker Roland Koelliker wrote: > > Hi there > I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. > Since I did not aliquot it has to thaw and freeze several time. Do you think > the DNA remains stable or are there better storage procedures? > Thank you for your help. > Roland Koelliker > Swiss Fed Inst Technol > Plant Sciences > ETH-Zentrum, LFW-C47 > CH-8092 Zurich > Tel ++41-1-632 4890 > Fax ++41-1-632 1153 > e-mail: koelliker@ipw.agrl.ethz.ch For microsatellite assays on 10-20ng of pine DNA we aliquot template DNA into microtitre plates, let it dry on the bench or in the hood, and store the plates at -20 C. I have heard that other labs store their dried template in a dessicator at room temp. Subsequent PCR reactions should be adjusted for a zero template volume. This method assures stability of the template and saves time during PCR set-up. Remember that DNA stored in water will be subject to acid hydrolysis, which may explain degredation as much as the shearing forces of freezing and thawing. -- ===================================== Craig S. Echt Research Geneticist, USDA Forest Service Forestry Sciences Lab e-mail: cecht@newnorth.net 5985 County Rd. K Ph: (715) 362-1114 Rhinelander, WI 54501 fax: (715) 362-1166 USA From owner-rapd@net.bio.net Tue Feb 20 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!vixen.cso.uiuc.edu!howland.reston.ans.net!torn!ccshst05.cs.uoguelph.ca!ccshst01.cs.uoguelph.ca!jdulson From: jdulson@uoguelph.ca (Jacqueline Dulson) Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 21 Feb 1996 20:29:28 GMT Organization: University of Guelph Lines: 34 Message-ID: <4gfvb8$rac@ccshst05.cs.uoguelph.ca> References: <4gbpcb$rsi@mserv1.dl.ac.uk> <312A2DBF.74AF@newnorth.net> NNTP-Posting-Host: ccshst01.cs.uoguelph.ca X-Newsreader: TIN [version 1.2 PL2] Craig Echt (cecht@newnorth.net) wrote: : For microsatellite assays on 10-20ng of pine DNA we aliquot template : DNA into microtitre plates, let it dry on the bench or in the hood, : and store the plates at -20 C. I have heard that other labs store : their dried template in a dessicator at room temp. Subsequent PCR : reactions should be adjusted for a zero template volume. This method : assures stability of the template and saves time during PCR set-up. : Remember that DNA stored in water will be subject to acid : hydrolysis, which may explain degredation as much as the shearing : forces of freezing and thawing. : -- : ===================================== : Craig S. Echt : Research Geneticist, USDA Forest Service : : Forestry Sciences Lab e-mail: cecht@newnorth.net : 5985 County Rd. K Ph: (715) 362-1114 : Rhinelander, WI 54501 fax: (715) 362-1166 : USA In regards to drying your DNA, have you found any problems in getting amplification afterwards? I ask because I find I get a higher number of unamplified samples when using dried DNA, and assumed that insufficient amounts were resuspended into the final reaction mix. Jackie Dulson Research Associate Dept of Crop Science Univ. of Guelph Guelph, Ont Canada From owner-rapd@net.bio.net Wed Feb 21 22:00:00 1996 Path: biosci!cenargen.embrapa.br!aegito From: aegito@cenargen.embrapa.br (Andrea Alves do Egito) Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 22 Feb 1996 05:56:31 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 27 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <4gbpcb$rsi@mserv1.dl.ac.uk> NNTP-Posting-Host: net.bio.net On 20 Feb 1996, Roland Koelliker wrote: > Hi there > I'm storing my plant DNA extraction (diluted in water to 10 ng/ul) at -20 C. > Since I did not aliquot it has to thaw and freeze several time. Do you think > the DNA remains stable or are there better storage procedures?. Hi, I usually resuspend DNA in TE (10:01, pH 7,6). After quantification I store the samples at - 20 C. The total amount of DNA usually is large enough and they are used as stock solutions. From these, I dilute the DNA in water (3ng/ul) for RAPDs assays and storage at 4 C. In this temperature, they remain stable for about 3 months. Therefore, I reduce thaw and freeze of DNA stocks, which proved to be stable for several years. I believe that storage of DNA in TE is better than water (acid hydrolysis) and the amount of water used in dilution of DNA stocks avoid EDTA's problems on PCR assays. Even though, I am performing RAPDs on animal DNA, I have knowledge of other researchers that are working on plant genome and the protocol used is the same. Hope this help. Andrea A. Egito National Center for Research on Genetic Resources and Biotechnology-CENARGEN Brazilian Organization for Agricultural Research - EMBRAPA From owner-rapd@net.bio.net Thu Feb 22 22:00:00 1996 Path: biosci!YVAX.BYU.EDU!anderswr From: anderswr@YVAX.BYU.EDU (Ralph Andersen) Newsgroups: bionet.molbio.rapd Subject: My#@$&** PowerMac 9500. Date: 23 Feb 1996 15:03:36 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 18 Sender: daemon@net.bio.net Distribution: world Message-ID: <01I1K44G47IY8ZFTQN@yvax.byu.edu> NNTP-Posting-Host: net.bio.net Anybody out there have a powerMAC Pc 9500? I am having difficulty with some softwares on mine including MapMaker etc. For instance mine won't accept the latest or anyother version of SAM. I have a few other problems such as crashing now and then when I "shut down" (which isn't serious because I have closed and saved everything anyway----but it is annoying ). Also, while I am at it I just purchased the recent versions of Microsoft's Office. I find that Word and Excel (from the latest Mac "Office") will not easily, if at all, translate into any previous versions of Word or Excel nor will it convert in anyway to Mac Word Perfect----nor will any of my older files convert into the new Office software???????. Anyone have suggestions or at least sympathy? Hall-talk has it that Microsoft has used the PC Windows version for their Mac office and dressed it for Mac by inserting translator add-ons (which may explain why Office sucks up so incredibly much memory). Anyone have any knowledge on this? Ralph From owner-rapd@net.bio.net Thu Feb 22 22:00:00 1996 Path: biosci!CC1.UCA.EDU!KENNETHF From: KENNETHF@CC1.UCA.EDU ("Ken Freiley") Newsgroups: bionet.molbio.rapd Subject: NEED THERMAL CYCLER ADVICE Date: 23 Feb 1996 15:24:16 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 42 Sender: daemon@net.bio.net Distribution: world Message-ID: <184C2690E60@cc1.uca.edu> NNTP-Posting-Host: net.bio.net I have a maximum of $5500 to purchase a thermal cycler for use in research and teaching. The primary use of the cycler will be to incorporate the RAPD technique in my studies of genetic variation within and among populations of flowering plants (primarily Asteraceae). My problem is that I lack the background and knowledge to objectively evaluate the many cyclers available on the market. I would very much appreciate your comments and suggestions relating to the following specific questions and any other concerns: 1. Is Perkin Elmer the right choice? Which others should I consider? 2. What sample capacity should I choose for sampling natural populations (24, 48, 96)? 3. Are .2ml tubes the way to go, or should I choose .5ml tubes? 4. Does the heated cover on some models really increase the speed and efficiency of the process? 5. Reproducibility seems to be a (the?) major concern of users of the RAPD technique. Which brands, heating/cooling processes, etc. have proven superior? 6. Does anyone have experience with the Perkin Elmer GeneAmp PCR System 2400? Comments? 7. Can anyone recommend a proven and consistent DNA mini-prep protocol that works well with RAPD as applied to flowering plants (especially members of Asteraceae)? 8. I have numerous journal articles concerning results of RAPD surveys of animal and plant populations, but have not found any "nuts and blots" articles/ books on RAPD procedures. Any recommendations? Thanks in advance for any help you can provide. I must make my decision very soon. Ken Freiley Department of Biology University of Central Arkansas Conway, AR 72035 (501) 450-5926 From owner-rapd@net.bio.net Thu Feb 22 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!chi-news.cic.net!nntp.coast.net!zombie.ncsc.mil!admaix.sunydutchess.edu!ub!newsstand.cit.cornell.edu!news.tc.cornell.edu!newsserver.sdsc.edu!newshub.csu.net!charnel.ecst.csuchico.edu!waldorf.csc.calpoly.edu!isnews.csc.calpoly.edu!smccull From: smccull@jurassic.fisher.calpoly.edu (Bunny Lover) Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 23 Feb 1996 00:27:56 GMT Organization: Micro Biology, DNA, etc, Cal Poly SLO Lines: 18 Message-ID: <4gj1mc$d4m@isnews.csc.calpoly.edu> References: <4gbpcb$rsi@mserv1.dl.ac.uk> NNTP-Posting-User: @jurassic.fisher.calpoly.edu I'd recomend(sp?) aliquoting. I had major problems with storage and the DNA was hard enough to get in the first place!!! It was Actino DNA that started off being about 15,000 bp in length, according to electrophoresis. After 2 freeze-thaws, the largest piece was about 2000 bp and after 5 freeze thaws it was only ~700. Cheers ---------------------------------------------------------------------- ** Scott D. McCulloch(Bunny Lover) | If I knew what I was doing, ** smccull@jurassic.fisher.calpoly.edu | it wouldn't be called ** BioChemical Effects Research | research!!!! ** http://www.calpoly.edu/~smccullo/ | -- ---------------------------------------------------------------------- ** Scott D. McCulloch(Bunny Lover) | If I knew what I was doing, ** smccull@jurassic.fisher.calpoly.edu | it wouldn't be called ** BioChemical Effects Research | research!!!! From owner-rapd@net.bio.net Sun Feb 25 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!in2.uu.net!brighton.openmarket.com!decwrl!tribune.usask.ca!canopus.cc.umanitoba.ca!news From: Khusi Ram Tiwari Newsgroups: bionet.molbio.rapd Subject: Re: DNA storage Date: 26 Feb 1996 00:28:27 GMT Organization: University of Manitoba Lines: 9 Message-ID: <4gqurb$a53@canopus.cc.umanitoba.ca> References: <4gbv7o$4gn@mserv1.dl.ac.uk> <4gcsol$ji2@saphir.jouy.inra.fr> NNTP-Posting-Host: toliman.cc.umanitoba.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.12 (X11; I; SunOS 5.4 sun4m) X-URL: news:4gcsol$ji2@saphir.jouy.inra.fr Hi There, It was interesting to have the same problem as I had. I am working with pea DNA and I diluted my samples to 40 ng/ul and stored at 4 degree celcius. After about a week DNA started degrading and as a result some bands were missed. I had to discard a lot of the prepared samples due to this problem. Therefor I would recommend to aliquat the samples just for a week. I am not sure about freezing and thawing. I hope it helps. From owner-rapd@net.bio.net Sun Feb 25 22:00:00 1996 Path: biosci!ASRR.ARSUSDA.GOV!abartlet From: abartlet@ASRR.ARSUSDA.GOV ("Alan C. Bartlett") Newsgroups: bionet.molbio.rapd Subject: Re: My#@$&** PowerMac 9500. Date: 26 Feb 1996 07:04:42 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 16 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <01I1K44G47IY8ZFTQN@yvax.byu.edu> NNTP-Posting-Host: net.bio.net Dear Ralph, here is a note of sympathy. :-( Lose the Mac, progress into the 19th century and get a PC. My new Win-95 Word and Excel (Microsoft PC Office) are really good programs and have converted all old files successfully both ways, in and out. Even coversions from Powerpoint-95 to ver 4 worked. Of course Windows-95 is a bummer, but you need it to run the new versions of Office. Other than that I do not have any words of hope for you. Sorry about your dilemma. Alan C. Bartlett "GENES-R-US" "ALTERATIONS AVAILABLE!^" "^some restrictions may apply:)" From owner-rapd@net.bio.net Mon Feb 26 22:00:00 1996 Path: biosci!bloom-beacon.mit.edu!gatech!newsfeed.internetmci.com!news-feed.iguide.com!uunet!in2.uu.net!csn!nntp-xfer-2.csn.net!yuma!usenet From: dpicton@lamar.colostate.edu (dpicton) Newsgroups: bionet.molbio.rapd Subject: Thermostability of Taq polymerase Date: 27 Feb 1996 03:05:44 GMT Organization: Colorado State University, Fort Collins, CO 80523 Lines: 4 Message-ID: <4gtse8$3lt8@yuma.ACNS.ColoState.EDU> NNTP-Posting-Host: ts4307.slip.colostate.edu X-Newsreader: SPRY News 3.03 (SPRY, Inc.) Does anyone know the maximum temperature Taq will withstand. I'm having problems with my RAPD's, no amplification. dpicton From owner-rapd@net.bio.net Mon Feb 26 22:00:00 1996 Path: biosci!ASRR.ARSUSDA.GOV!abartlet From: abartlet@ASRR.ARSUSDA.GOV ("Alan C. Bartlett") Newsgroups: bionet.molbio.rapd Subject: Re: Thermostability of Taq polymerase Date: 27 Feb 1996 06:05:27 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <4gtse8$3lt8@yuma.ACNS.ColoState.EDU> NNTP-Posting-Host: net.bio.net I don't know the maximum temperature, but most experimenters use 94 - 95 C as the maximum. Maybe you are putting too much template DNA in your reaction mixture. I have found that to be critical in my work. Try a series of dilutions of your typical template solution and see if you can get amplification. Good luck1 On 27 Feb 1996, dpicton wrote: > Does anyone know the maximum temperature > Taq will withstand. I'm having problems with my > RAPD's, no amplification. > dpicton > > Alan C. Bartlett "GENES-R-US" "ALTERATIONS AVAILABLE!^" "^some restrictions may apply:)" From owner-rapd@net.bio.net Tue Feb 27 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!newsfeed.internetmci.com!news.ac.net!news.cais.net!nntp.uio.no!nntp-oslo.UNINETT.no!nntp-trd.UNINETT.no!daresbury!not-for-mail From: Newsgroups: bionet.molbio.rapd Subject: concentration/amount of Taq Date: 28 Feb 1996 15:04:33 -0000 Lines: 8 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <4h1qu1$14f@mserv1.dl.ac.uk> Original-To: RAPD@DL.AC.UK Hello, Can anybody advise us, if we can reduce the amount of Taq polymerase [1U/50microl - this we use now] by reducing the final volume to 25microl. With other words, must we keep the same amount of Taq or the same concentration of Taq in RAPD reaction mixture to preserve the same reaction conditions? J. J. From owner-rapd@net.bio.net Tue Feb 27 22:00:00 1996 Path: biosci!ACD.TUSK.EDU!WANG115 From: WANG115@ACD.TUSK.EDU Newsgroups: bionet.molbio.rapd Subject: to subscripte rapd@net.bio.net Date: 28 Feb 1996 10:41:17 -0800 Organization: Tuskegee University Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: <01I1QWEKGH6Q001MXC@Acd.Tusk.Edu> NNTP-Posting-Host: net.bio.net I want to enter your bio net. Thank you very much for your help From owner-rapd@net.bio.net Wed Feb 28 22:00:00 1996 Path: biosci!labatt.com!rob.stewart From: rob.stewart@labatt.com ("Stewart, Robert") Newsgroups: bionet.molbio.rapd Subject: RE: concentration/amount of Taq Date: 29 Feb 1996 05:42:24 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Greetings, We reduced our volumes to 25 microlitres without any change in the results. It certainly has saved on the use of Taq. I am not sure about lowering the Taq concentration, this may change the RAPD pattern Cheers ---------- From: j.jakse@uni-lj.si[SMTP:j.jakse@uni-lj.si] Sent: Wednesday, February 28, 1996 10:04AM To: rapd@net.bio.net Subject: concentration/amount of Taq Hello, Can anybody advise us, if we can reduce the amount of Taq polymerase [1U/50microl - this we use now] by reducing the final volume to 25microl. With other words, must we keep the same amount of Taq or the same concentration of Taq in RAPD reaction mixture to preserve the same reaction conditions? J. J. From owner-rapd@net.bio.net Wed Feb 28 22:00:00 1996 Path: biosci!bloom-beacon.mit.edu!newsfeed.internetmci.com!howland.reston.ans.net!nntp.coast.net!fu-berlin.de!news.belwue.de!news.uni-stuttgart.de!uni-regensburg.de!newsserv.uni-bayreuth.de!uni-erlangen.de!news.th-darmstadt.de!news.uni-mainz.de!usenet From: Quicksilver Newsgroups: bionet.molbio.rapd Subject: WAF1 Date: Thu, 29 Feb 1996 13:59:14 +0000 Organization: Johannes Gutenberg-Universität Mainz, Germany Lines: 2 Message-ID: <3135B132.2CCC@vzdmzd.zdv.uni-mainz.de> NNTP-Posting-Host: atobec.toxikologie.uni-mainz.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.0 (Macintosh; I; 68K) Who knows something about the genomic organization and intron sequences of p21WAF1 (CIP1)?