From owner-rapd@net.bio.net Mon Mar 02 22:00:00 1998 Path: biosci!AVA.BCC.ORST.EDU!martinej From: martinej@AVA.BCC.ORST.EDU ("J. Pat Martinez") Newsgroups: bionet.molbio.rapd Subject: AFLP adaptors Date: 3 Mar 1998 11:18:23 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 22 Sender: daemon@net.bio.net Distribution: world Message-ID: <199803031915.LAA08790@ava.bcc.orst.edu> Reply-To: "J. Pat Martinez" NNTP-Posting-Host: net.bio.net Hello, I'm interested in synthesizing my own AFLP primers, to be used with the radioactive or fluourescent method. However, I do not know the sequence of the adaptor that is ligated to the restriction fragments. Are the MseI and EcoRI adaptors standard between companies that offer AFLP kits such as BRL and Perkin-elmer? Does anyone know the sequence of the adaptors for either of these companies? Can I legally synthesize primers based on this adaptor information? Thanks. Pat M. ps Is this the appropriate spot to post AFLP questions, or is there another news group that is more appropriate? ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~ J. Pat Martinez ~ martinej@bcc.orst.edu ~ Oregon St. Univ. ~ Ph: 541-753-3557 ~ Dept. of Botany and Plant Path ~ Corvallis, OR 97331 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ From owner-rapd@net.bio.net Mon Mar 02 22:00:00 1998 Path: biosci!BGUMAIL.BGU.AC.IL!skafkas From: skafkas@BGUMAIL.BGU.AC.IL (Salih KAFKAS) Newsgroups: bionet.molbio.rapd Subject: (none) Date: 3 Mar 1998 02:40:32 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 15 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net subscribe rapd end Salih KAFKAS Desert Plant Biotechnology Laboratory Jacob Blaustein Institute for Desert Research Ben-Gurion University of the Negev Sede Boker Campus 84990 Israel Email: skafkas@bgumail.bgu.ac.il Tel: (972)7-6596754 Fax:(972)7-6596742 From owner-rapd@net.bio.net Mon Mar 02 22:00:00 1998 Path: biosci!SNARL.BIOTECH.UFL.EDU!teresa From: teresa@SNARL.BIOTECH.UFL.EDU (Teresa Stevens, by way of C. S. Prakash) Newsgroups: bionet.molbio.rapd Subject: WORKSHOP ANNOUNCEMENT Date: 3 Mar 1998 11:28:48 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 139 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net >TOOLS FOR DEVELOPING MOLECULAR MARKERS >(Microsatellite libraries construction and analysis) > >Interdisciplinary Center for Biotechnology Research & >The Whitney Laboratory > >May 3-8, 1998 >Marineland, FL > >CONTENT: >Already in its fifth consecutive year, this continuosly updated, intensive, >laboratory and lecture workshop allows participants to build a >microsatellite-enriched, plasmid library using the genomic DNA of their >choice. Other experiments in the workshop will include procedures for >library screening, amplified fragment length polymorphism (AFLP) and >allozyme analysis. In addition, participants will be introduced to the >GeneScan software for automated fluorescent scanning detection of DNA >fragments. Further exercises will involve the use of the Genotyper program >for subsequent data analysis such as identification and scoring of alleles. >Those wanting to bring their own DNA source should bring approximately 10 >micrograms of a pool of high molecular weight genomic DNA (0.25-1.0 >micrograms/microliter concentration). > Lecture topics will focus on use of microsatellites in determining >genetic relationships, molecular markers for analysis of population >structures, applications of random amplification of polymorphic DNA (RAPD) >population genetics, and DNA sequence analysis. > >THE SITE: >The Whitney Laboratory (WL) is a research facility where scientists employ >marine animals as models to study biological phenomena. The WL is located >about 10 miles south of Crescent Beach, in an area that abounds with >recreational opportunities. This breathtaking site brings together nature >and science to create a stimulating environment where learning can be truly >enjoyable. Historical St Augustine City is only 20 minutes away, while >Jacksonville, Orlando and the University of Florida main campus at >Gainesville are less than a two and a half hour drive. > >REGISTRATION DEADLINE: April 13th, 1998 >Limited to 24 participants > >REGISTRATION FEE: $750.00 (fee includes lunch, printed workshop manual and >hand-outs, and a sightseeing trip to St Augustine). A $25 late >registration fee applies. > >LODGING: Available only 7 miles from the workshop site at the Beacher's >Lodge. Transportation to and from the workshop, as well as a continental >breakfast will be provided. A special rate per night is available for >participants (please inquire). A limited number of rooms will be held >until April 1st to accomodate those interested in attending. In addition a >few dormitory-style rooms is also available at the Whitney laboratory on a >first come, first serve basis. >***************************************************************************** >ICBR Workshop Registration Form > > >_______________________________________________________________________________ >First Name Last Name MI > >Title-Circle One: Graduate Student Post Doc Fellow Faculty Other > > >_______________________________________________________________________________ >Institution/Organization/Department > > >_______________________________________________________________________________ >Address City State Zip > > >_______________________________________________________________________________ >Work Phone Fax Number > > >________________________________________ >E-mail address > >Research Interest > > >_______________________________________________________________________________ > > >_______________________________________________________________________________ > >COST AND PAYMENT > >Course Name: Tools for Developing Microsatellite Libraries, May 3-8, 1998 > Whitney Marine Biology Laboratories > Crescent Beach, FL > >Cost: $750 (Includes breakfast, lunch, printed workshop manual and >hand-outs, and a sightseeing trip to St. Augustine). A $25 late >registration fee applies. > >Payment Method: Personal Check:____________ > Other:____________ > >Check is payable to: University of Florida Research Foundation, Inc. > >Send payment & registration to: ICBR-Education & Training > Box 110580 > University of Florida > Gainesville, FL 32611 > >PAYMENT PROCEDURE: >If registration is being paid through the university, prepare a Travel >Authorization Request (TAR) to encumber the registration fee. Once >encumbered, process a Registration Payment Request using Object Code >261051, payable to the UF Research Foundation, Inc. The vendor ID No. is VP >59 2729133. > >CONTACT: Phone: Email: Fax: >Teresa Stevens (352) 392-8408 teresa@biotech.ufl.edu (352) 392-8598 >*************************************************************************** >I also want to bring to your attention the following information about future >biotechnology training programs: > >ANTIBODIES: Tools in Molecular Sciences > June 22-26, 1998 > Communicore Health Science Center > University of Florida > >PROTEIN CHEMISTRY: Purification & Characterization > July 20-24, 1998 > Communicore Health Science Center > University of Florida > >Thank you. ****************************************************************************** Teresa Stevens Phone: (352) 392-8408 Administrative Assistant Fax: (352) 392-8598 University of Florida E-mail: teresa@biotech.ufl.edu ICBR - Biotechnology Box 110580 Gainesville, FL 32611 ****************************************************************************** u From owner-rapd@net.bio.net Tue Mar 03 22:00:00 1998 Path: biosci!BGUMAIL.BGU.AC.IL!skafkas From: skafkas@BGUMAIL.BGU.AC.IL (Salih KAFKAS) Newsgroups: bionet.molbio.rapd Subject: method for genetic inheritance between parent and F1 Date: 4 Mar 1998 13:21:58 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Hi, I have very good materials intra and interspecific wild Pistacia hybrids which is parennial crop. I want to determine genetic inheritance. I am thinking to use RAPD technique. Do you have suggestion about that. Thank you very much Salih KAFKAS Desert Plant Biotechnology Laboratory Jacob Blaustein Institute for Desert Research Ben-Gurion University of the Negev Sede Boker Campus 84990 Israel Email: skafkas@bgumail.bgu.ac.il Tel: (972)7-6596754 Fax:(972)7-6596742 From owner-rapd@net.bio.net Tue Mar 03 22:00:00 1998 Path: biosci!bloom-beacon.mit.edu!news.kodak.com!news-pen-14.sprintlink.net!207.41.200.15!news-pen-15.sprintlink.net!newsfeed.nysernet.net!news.nysernet.net!news.sprintlink.net!Sprint!128.122.253.90!newsfeed.nyu.edu!news.idt.net!news1.chicago.iagnet.net!news2.chicago.iagnet.net!qual.net!iagnet.net!129.79.6.160!news.indiana.edu!willow.bio.indiana.edu!user From: dewolf@bio.indiana.edu (Diana Wolf) Newsgroups: bionet.molbio.rapd Subject: Re: Assessing genetic variation using RAPD's Date: Tue, 03 Mar 1998 20:19:46 -0600 Organization: Indiana University Lines: 24 Message-ID: References: <34F6E57F.239B@uvic.ca> NNTP-Posting-Host: willow.bio.indiana.edu Tom, Check out: Lynch & Milligan. 1994. Analysis of population genetic structure with RAPD markers. Molecular Ecology 3: 91-99. It includes a section on "Gene diversity within populations" Diana In article <34F6E57F.239B@uvic.ca>, Bug Hunter wrote: > Hi, > > Does anyone know of a statistical test that will quantify the > genetic variation observed from RAPD bands in a population, if each > individual has a different banding pattern? > > -Tom Clarke- > Dept. of Biology > University of Victoria -- Diana Wolf Biology Department Indiana University From owner-rapd@net.bio.net Tue Mar 03 22:00:00 1998 Path: biosci!TUSK.EDU!prakash From: prakash@TUSK.EDU ("C. S. Prakash") Newsgroups: bionet.molbio.rapd Subject: Plant Genome Articles in PNAS Date: 3 Mar 1998 18:19:28 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 90 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net The current issue of Proc. Natl. Acad. Sci. (USA) (March 3, 1998) has an excellent series of articles by many experts on plant genome. I reproduce below here some excerpts from the Introduction and all the titles of articles. Check http://www.pnas.org (you can read abstracts for free; full text access requires subscription and your institution may have already subscribed to that). Papers from an NAS Colloquium on Protecting Our Food Supply: The Value of Plant Genome Initiatives: PNAS Vol. 95; Pages 1969-2032 Ronald L. Phillips and Michael Freeling: Plant genomics and our food supply: An introduction (Some Excerpts from this article: Plant genome research is more than biology; it is also about producing food for our planet. Agriculture accounts for about 18% of U.S. jobs, 15% of the gross domestic product, and 31% of exports. Estimates are that agricultural research provides a 35% return on the investment, and the value of agriculture is increasing rapidly as demand increases. The goals of agricultural plant science are to increase crop productivity, improve crop quality, and maintain the environment............ ............Genomics research will lead to new and innovative ways to achieve such trait improvement. The opinion of colloquium attendees seemed to be that if there is one single priority as the most important research investment, it should be genomics because it provides a critical focus and benefits all researchers. We grow about 200 crops for food, feed, or fiber, and almost all were introduced to the U.S.; they were modified genetically to be adapted to climate and consumer desires. Clearly, genomics can help in issues related to food safety, food quality, and food diversity. Genomics provides objectivity in breeding as never before possible; it allows hypothesis testing of quantitative genetics applications in plant improvement) Michael D. Gale and Katrien M. Devos : Comparative genetics in the grasses Jeffrey L. Bennetzen, Phillip SanMiguel, Mingsheng Chen, Alexander Tikhonov, Michael Francki, and Zoya Avramova : Grass genomes Junko Kyozuka, Saeko Konishi, Keisuke Nemoto, Takeshi Izawa, and Ko Shimamoto: Down-regulation of RFL, the FLO/LFY homolog of rice, accompanied with panicle branch initiation Susan McCouch : Toward a plant genomics initiative: Thoughts on the value of cross-species and cross-genera comparisons in the grasses Steven P. Briggs : Plant genomics: More than food for thought Robert W. Herdt : Assisting developing countries toward food self-reliance R. James Cook: Toward a successful multinational crop plant genome initiative M. D. McMullen, P. F. Byrne, M. E. Snook, B. R. Wiseman, E. A. Lee, N. W. Widstrom, and E. H. Coe : Quantitative trait loci and metabolic pathways Michael Lee : Genome projects and gene pools: New germplasm for plant breeding? Elizabeth A. Kellogg : Relationships of cereal crops and other grasses Michael D. Bennett : Plant genome values: How much do we know? Joachim Messing and Victor Llaca: Importance of anchor genomes for any plant genome project Robert A. Martienssen : Functional genomics: Probing plant gene function and expression with transposons Takuji Sasaki: The rice genome project in Japan E. H. Coe : Potentials of the National Corn Genome Initiative ************************************************ C. S. Prakash Tuskegee University Center for Plant Biotechnology Research Tuskegee, AL 36088, USA mailto:Prakash@tusk.edu http://agriculture.tusk.edu Phone (334) 727 8023; Fax (334) 727 8067 ************************************************ From owner-rapd@net.bio.net Wed Mar 04 22:00:00 1998 Path: biosci!SUNM.SHCNC.AC.CN!xbshu From: xbshu@SUNM.SHCNC.AC.CN (hugenxi) Newsgroups: bionet.molbio.rapd Subject: there will not be so many bands. Date: 5 Mar 1998 03:38:49 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 5 Sender: daemon@net.bio.net Distribution: world Message-ID: <34FE8E3D.14B1@sunm.shcnc.ac.cn> Reply-To: xbshu@sunm.shcnc.ac.cn NNTP-Posting-Host: net.bio.net Hi, As I know from my work result, there won't many bands in a limited length of DNA, say 200 bp, in a 5000 thousand group. We tested the polymorphism in a few fragments, and did not found 10000 different bands but only one or two major band with 0 to 5 minor frequency bands. From owner-rapd@net.bio.net Mon Mar 09 22:00:00 1998 Path: biosci!NETVISION.NET.IL!mordan From: mordan@NETVISION.NET.IL Newsgroups: bionet.molbio.rapd Subject: Micro pH, pO2, pCO2 probes Date: 10 Mar 1998 13:12:55 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 20 Sender: daemon@net.bio.net Distribution: world Message-ID: <199803102110.XAA07886@alpha.netvision.net.il> NNTP-Posting-Host: net.bio.net Micro flow through probes for organ perfusion studies, biotechnology, and bioreactors A low cost instrument has been developed for continuously monitoring the levels of pH, pO2, and pCO2 in organ perfusion studies, microbiology, bioreactors, and biotechnology. The system features micro flow through electrodes and flow cells with a total internal volume of less than 200 microliters. Instrument has digital readouts or can be hooked up to strip chart recorder or PC computer. The system is more efficient and significantly less expensive than a blood gas analyzer. Individual micro electrodes for measuring pH, pO2, and pCO2 of samples as small as 5 microliters are also available. For further information press reply and ask for details. From owner-rapd@net.bio.net Mon Mar 09 22:00:00 1998 Path: biosci!AVA.BCC.ORST.EDU!reedbm From: reedbm@AVA.BCC.ORST.EDU (Barbara_M Reed, by way of C. S. Prakash) Newsgroups: bionet.molbio.rapd Subject: Post doc in South Africa Date: 10 Mar 1998 06:18:05 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 29 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net I am forwarding this position announcement. Please do not use the reply function or reply to the list. Send your reply to the address below. B. Reed >Please respond to Dr H J Meyer >>Date: Fri, 6 Mar 1998 11:03:49 -0200 >>X-Sender: meyer@mail.uniqwa.ac.za >>From: Dr H J Meyer >>Content-Length: 485 >> >>I have a post for a post doctoral fellowship to do research on one of the >>following: Micropropagation or nutrition or identification of cultivars of >>black and raspberries with isozymes and RADPs. >>If you know of any candidates please let them contact me on email. I must >>have a candidate before 15th March. Renumeration is between $15000 - $20000 >>(before tax) for a one year contract that can be extended depending on >>performance. >>Thank you. >>Kind regards, >>Hendrik Meyer >> >> > From owner-rapd@net.bio.net Tue Mar 10 22:00:00 1998 Path: biosci!ACS.UCALGARY.CA!twhidden From: twhidden@ACS.UCALGARY.CA (Troy Whidden) Newsgroups: bionet.molbio.rapd Subject: DNA extraction from parasites Date: 11 Mar 1998 10:28:28 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 25 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Hello there. I am looking for any information (specific/general references, etc.) that involve extracting DNA from endoparasites (which live off of host tissue/fluids, etc.) in which RAPD-PCR was later used to quantify genetic variation. How can one ensure that host DNA is not being amplified in cases of endoparasites when molecular markers such as RAPDs are being used? All comments are welcomed. Please respond to my personal e-mail address. Thanks. Cheers, Troy Whidden Dept. of Biological Sciences University of Calgary Calgary, Alberta Canada T2N 1N4 e-mail: twhidden@acs.ucalgary.ca From owner-rapd@net.bio.net Tue Mar 10 22:00:00 1998 Path: biosci!TUSK.EDU!prakash From: prakash@TUSK.EDU ("C. S. Prakash") Newsgroups: bionet.molbio.rapd Subject: LARGEST SEGMENT OF PLANT DNA SEQUENCED TO DATE Date: 10 Mar 1998 17:34:28 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 50 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Forwarding a commentary from ISB News Report (http://www.nbiap.vt.edu) ---------------------------------------------------------------- LARGEST SEGMENT OF PLANT DNA SEQUENCED TO DATE Ten years ago few people had heard of Arabidopsis but now the weed is a favorite of plant molecular biologists. With its compact genome - at 120 million base pairs (Mb) it's only a tenth that of many crop plants - petite size, and hurried life cycle, Arabidopsis lends itself neatly to genome studies. It is easier to identify and isolate genes from this model plant than genetically more complex crop plants. A significant piece of the Arabidopsis genome has now been sequenced and analyzed, as reported by Michael Bevan and coworkers in the journal Nature (1). The 1.9 Mb catalog (on the Internet at http://www.mips.biochem.mpg.de/mips/athaliana/) provides 'a tantalizing preview of the bricks and mortar needed to build a plant' says Joseph Ecker of the University of Pennsylvania (2). The mammoth effort of sequencing the largest contiguous plant DNA so far involved 68 scientists from 21 institutions located in nine countries spanning the Atlantic. Although this sequence is just a small fraction of the total, it provides an intriguing glimpse into the architecture of a higher plant genome. Among the 389 genes that are packed densely in the region, over half are already known to be present in other organisms, while the function of 46% of the genes is unknown. The study confirms an earlier prediction that Arabidopsis has 21,000 protein-coding (active) genes. The entire genome is expected to be sequenced through collective international effort by the year 2004. This may be accomplished even sooner because of a new funding initiative by the U.S. Congress. References 1. Bevan, M. et al., 1998. Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana. Nature 391:485-488. 2. Ecker, J. E. 1998. Genes blossom from a weed. Nature 391:438-9. C. S. Prakash Center for Plant Biotechnology Research Tuskegee University prakash@tusk.edu ---------------------------------------------------------------- From owner-rapd@net.bio.net Wed Mar 11 22:00:00 1998 Path: biosci!agate!newsfeed.wli.net!feed2.news.erols.com!erols!news.maxwell.syr.edu!nntp.news.xara.net!xara.net!server5.netnews.ja.net!daresbury!not-for-mail From: Dirk Lehmann Newsgroups: bionet.molbio.rapd Subject: DNA extraction from endoparasites Date: 12 Mar 1998 11:15:54 -0000 Lines: 44 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <6e8g5a$iso@mserv1.dl.ac.uk> X-MIME-Autoconverted: from quoted-printable to 8bit by mserv1.dl.ac.uk id LAA19341 MIME-Version: 1.0 X-Priority: 3 Original-To: rapd@dl.ac.uk > Troy Whidden wrote: > > > I am looking for any information (specific/general references, > etc.) > > that involve extracting DNA from endoparasites (which live off of > host > > tissue/fluids, etc.) in which RAPD-PCR was later used to quantify > genetic > > variation. > > > How can one ensure that host DNA is not being amplified in cases > of > > endoparasites when molecular markers such as RAPDs are being used? > > > Hello Netters, > > I am interested in this subject, too. Is there a method described for > instance to subtract the RAPD fingerprint of the host from that of the > parasite? > > Any suggestions/informations welcome. Please respond to my personal > e-mail adress. > > > ---------------------------------------------------------------------- > ----------------------- > Dirk LEHMANN > (Dipl.Biol) > Theoretische Medizin > AG Gesundheitswissenschaften > Universität Osnabrueck > Albrechtstrasse 28 > D-49076 OSNABRUECK > F.R.GERMANY > > E-Mail: LEHMANN@mail.biologie.uni-osnabrueck.de > > ---------------------------------------------------------------------- > ----------------------- > > > From owner-rapd@net.bio.net Wed Mar 11 22:00:00 1998 Path: biosci!NTSVDCFB.BIOLOGIE.UNI-OSNABRUECK.DE!Lehmann From: Lehmann@NTSVDCFB.BIOLOGIE.UNI-OSNABRUECK.DE (Dirk Lehmann) Newsgroups: bionet.molbio.rapd Subject: DNA extraction from endoparasites Date: 12 Mar 1998 03:15:52 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: <800836B99112D11189F60000C00C77C404C24A@ntsvdcfb.biologie.Uni-Osnabrueck.DE> NNTP-Posting-Host: net.bio.net > Troy Whidden wrote: >=20 > > I am looking for any information (specific/general references, > etc.) > > that involve extracting DNA from endoparasites (which live off of > host > > tissue/fluids, etc.) in which RAPD-PCR was later used to quantify > genetic > > variation. >=20 > > How can one ensure that host DNA is not being amplified in cases > of > > endoparasites when molecular markers such as RAPDs are being = used? >=20 >=20 > Hello Netters, >=20 > I am interested in this subject, too. Is there a method described for > instance to subtract the RAPD fingerprint of the host from that of = the > parasite? >=20 > Any suggestions/informations welcome. Please respond to my personal > e-mail adress. >=20 >=20 > = ---------------------------------------------------------------------- > ----------------------- > Dirk LEHMANN > (Dipl.Biol) > Theoretische Medizin > AG Gesundheitswissenschaften > Universit=E4t Osnabrueck > Albrechtstrasse 28 > D-49076 OSNABRUECK > F.R.GERMANY >=20 > E-Mail: LEHMANN@mail.biologie.uni-osnabrueck.de >=20 > = ---------------------------------------------------------------------- > ----------------------- >=20 >=20 From owner-rapd@net.bio.net Wed Mar 11 22:00:00 1998 Path: biosci!agate!ihnp4.ucsd.edu!munnari.OZ.AU!news.mel.connect.com.au!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!nntp.news.xara.net!xara.net!server5.netnews.ja.net!daresbury!not-for-mail From: Dirk Lehmann Newsgroups: bionet.molbio.rapd Subject: DNA extraction from endoparasites Date: 12 Mar 1998 09:58:20 -0000 Lines: 44 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <6e8bjs$e2a@mserv1.dl.ac.uk> X-MIME-Autoconverted: from quoted-printable to 8bit by mserv1.dl.ac.uk id JAA14402 MIME-Version: 1.0 X-Priority: 3 Original-To: rapd@dl.ac.uk > Troy Whidden wrote: > > > I am looking for any information (specific/general references, > etc.) > > that involve extracting DNA from endoparasites (which live off of > host > > tissue/fluids, etc.) in which RAPD-PCR was later used to quantify > genetic > > variation. > > > How can one ensure that host DNA is not being amplified in cases > of > > endoparasites when molecular markers such as RAPDs are being used? > > > Hello Netters, > > I am interested in this subject, too. Is there a method described for > instance to subtract the RAPD fingerprint of the host from that of the > parasite? > > Any suggestions/informations welcome. Please respond to my personal > e-mail adress. > > > ---------------------------------------------------------------------- > ----------------------- > ¦ Dirk LEHMANN > ¦ (Dipl.Biol) > ¦ Theoretische Medizin > ¦ AG Gesundheitswissenschaften > ¦ Universität Osnabrueck > ¦ Albrechtstrasse 28 > ¦ D-49076 OSNABRUECK > ¦ F.R.GERMANY > ¦ > ¦ E-Mail: LEHMANN@mail.biologie.uni-osnabrueck.de > > ---------------------------------------------------------------------- > ----------------------- > > From owner-rapd@net.bio.net Wed Mar 11 22:00:00 1998 Path: biosci!NTSVDCFB.BIOLOGIE.UNI-OSNABRUECK.DE!Lehmann From: Lehmann@NTSVDCFB.BIOLOGIE.UNI-OSNABRUECK.DE (Dirk Lehmann) Newsgroups: bionet.molbio.rapd Subject: DNA extraction from endoparasites Date: 12 Mar 1998 01:43:49 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 43 Sender: daemon@net.bio.net Distribution: world Message-ID: <800836B99112D11189F60000C00C77C404C242@ntsvdcfb.biologie.Uni-Osnabrueck.DE> NNTP-Posting-Host: net.bio.net Troy Whidden wrote: > I am looking for any information (specific/general references, = etc.) > that involve extracting DNA from endoparasites (which live off of host > tissue/fluids, etc.) in which RAPD-PCR was later used to quantify genetic > variation. > How can one ensure that host DNA is not being amplified in cases of > endoparasites when molecular markers such as RAPDs are being used? Hello Netters, I am interested in this subject, too. Is there a method described for instance to subtract the RAPD fingerprint of the host from that of the parasite? Any suggestions/informations welcome. Please respond to my personal e-mail adress. ------------------------------------------------------------------------= --------------------- =A6 Dirk LEHMANN =A6 (Dipl.Biol) =A6 Theoretische Medizin =A6 AG Gesundheitswissenschaften =A6 Universit=E4t Osnabrueck =A6 Albrechtstrasse 28 =A6 D-49076 OSNABRUECK =A6 F.R.GERMANY =A6 =A6 E-Mail: LEHMANN@mail.biologie.uni-osnabrueck.de ------------------------------------------------------------------------= --------------------- From owner-rapd@net.bio.net Mon Mar 16 22:00:00 1998 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.molbio.rapd Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 17 Mar 1998 02:00:06 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 233 Sender: daemon@net.bio.net Distribution: world Message-ID: <199803171000.CAA13643@net.bio.net> NNTP-Posting-Host: net.bio.net (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than the one in your mail message header, you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. From owner-rapd@net.bio.net Sun Mar 22 22:00:00 1998 Path: biosci!lakshya.kalptaru.com!Skatiyar From: Skatiyar@lakshya.kalptaru.com (Skatiyar) Newsgroups: bionet.molbio.rapd Subject: Subscribe Date: 23 Mar 1998 11:21:38 -0800 Organization: Kalptaru Net ! Central India. Lines: 8 Sender: daemon@net.bio.net Distribution: world Message-ID: <07d_9803232250@kalptaru.com> NNTP-Posting-Host: net.bio.net Subscribe -=- | E-mail: Skatiyar@lakshya.kalptaru.com | Free WebPage: info@kalptaru.com | http://www.kalptaru.com +------------------------------------------------------------------+ | KALPTARU First Fidonet/Internet/Usenet Gateway for Central India | +------------------------------------------------------------------+ From owner-rapd@net.bio.net Fri Mar 27 22:00:00 1998 Path: biosci!rutgers!rockyd.rockefeller.edu!newsfeed.nyu.edu!ptdnetP!newsgate.ptd.net!news-spur1.maxwell.syr.edu!news.maxwell.syr.edu!news-ge.switch.ch!news-zh.switch.ch!ubnnews.unisource.ch!newssrv.ita.tip.net!dante.italia.com!news From: Raoul Ciappelloni Newsgroups: bionet.molbio.rapd Subject: JOB OPPORTUNITIES IN BIOTECHNOLOGY: INVESTIGATION BY NEWSGROUP. Date: Fri, 27 Mar 1998 22:28:45 GMT Organization: -- Lines: 57 Message-ID: <351c281a.4511209@news.cline.it> Reply-To: r.ciappelloni@cline.it NNTP-Posting-Host: nu-peru.cline.it X-Newsreader: Forte Free Agent 1.11/16.235 JOB OPPORTUNITIES IN BIOTECHNOLOGY: INVESTIGATION BY NEWSGROUP. Dear Sir/Madam, We, at the scientific magazine Ambiente Risorse Salute (A_R_S), are investigating job opportunities in biotechnology in European countries This research is being done by the ARS in cooperation with the Italian "Istituto per Studi, Ricerche e Informazioni sul Mercato Agricolo (I.S.M.E.A.)" We hope that the Newsgroup readers may help us understand the point of view of people already engaged in the biotechnological sector all over the world. ARS would be interested in getting answers to these questions from biotechnologists, young researchers, students, managers and economists. QUESTIONS: Q1: What among biomedical, pharmaceutical, microbiological biotechnology, plant and animal breeding will have the largest diffusion in the next 5 years? Q2: What are your job expectations in the biotechnology area? Please include the name of your organization (institute, university or firm) and your place of residence in your answer. Thank you in advance to all those who can give us assistance. Raoul Ciappelloni. ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: FURTHER INFORMATION: If you need more information on the Project, please contact: Raoul Ciappelloni c/o Parco Tecnologico Agroalimentare dell'Umbria. Pantalla di Todi PG - ITALY - phone +39-75-8957214 / fax +39-75-8957257 email r.ciappelloni@cline.it or the ARS Magazine Director: Domenico Ceravolo phone +39-49-8759622 / fax +39-49-8761954 email: scienzaegoverno@scienzaegoverno.com http://www.scienzaegoverno.com For regular correspondance the address is: Ambiente Risorse e Salute Via delle Palme, 13 35137 PADOVA - ITALY. From owner-rapd@net.bio.net Mon Mar 30 23:00:00 1998 Path: biosci!DUNX1.OCS.DREXEL.EDU!saboovm From: saboovm@DUNX1.OCS.DREXEL.EDU (Vandana Saboo) Newsgroups: bionet.molbio.rapd Subject: PCR problems Date: 30 Mar 1998 16:25:25 -0800 Organization: Drexel University Lines: 17 Sender: daemon@net.bio.net Distribution: world Message-ID: <3520372F.17CE@dunx1.ocs.drexel.edu> NNTP-Posting-Host: net.bio.net Hi I am in a fix. I had PCR bands and then they disappeared. Don't know what's going on? Has anyone faced the same problem. I have tried changing all PCR parameters-annealing temp. prim. conc., Mg conc. even made new DNA. I am not doing RAPDs, just standard PCR. I am using cross-genus primers. They worked fine and I was getting good bands from my strains-a few soil isolates for 2 years and now when I tried to repeat it they just stopped appearing. Its really frustrating. If anyone has any ideas, I will be grateful. Thanks Vandana saboovm@post.drexel.edu From owner-rapd@net.bio.net Tue Mar 31 23:00:00 1998 Path: biosci!NCGR.ORG!bws From: bws@NCGR.ORG ("Bruno W. S. Sobral", by way of C. S. Prakash) Newsgroups: bionet.molbio.rapd Subject: Journal of Ag Genomics - news release Date: 1 Apr 1998 12:09:22 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 90 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear Colleagues, Please excuse, in advance, any double posting. Please pass along to colleagues. To go directly to the URL and pass the Ag front page, use: http://www.ncgr.org/ag/jag/Index.html Cheers, Bruno Sobral >This press release was distributed to the media this morning ... > >NATIONAL CENTER FOR GENOME RESOURCES AND JOURNAL ANNOUNCE PARTNERSHIP TO >PUBLISH =EBJAG=ED > >SANTA FE, N.M., April 1 -- The National Center for Genome Resources and the >electronic genetic research publication Journal of Quantitative Trait Loci >today announced a partnership to develop and expand the journal, renamed >the Journal of Agricultural Genomics and now hosted on the center=EDs >agricultural genomics Web site. > >Editor Thomas Blake, a professor of barley breeding and genetics at Montana >State University, began JQTL in 1995 as a free, public resource for the >plant genetics research community. The journal is a peer-reviewed, fully >electronic forum publishing articles dealing with the theory and practice >of quantitative trait loci analysis. > >The partnership will allow the Journal of Agricultural Genomics, or JAG, to >electronically publish up to 100 research articles a year, with links to >data and findings, and expand its content to include articles on all >aspects of genetics involving crops and livestock. Interpretive summaries, >editorials and discussion rooms will augment the role of JAG beyond that of >its more static paper counterparts. Already, the publication format >facilitates links to related publications and databases and permits the >inclusion of more complete analyses than is generally feasible in bound med= ia. > >=ECThe National Center for Genome Resources has the personnel, the vision a= nd >the commitment to make JQTL the premier journal in its field,=EE Blake said= =2E >=ECTogether we hope to make the science of agricultural genetics available >and accessible to all who are interested.=EE > >JAG is an important component of NCGR=EDs burgeoning public program in >agricultural genomics. The center has established the Phytophthora Genome >Initiative, an international consortium researching Phytophthora, the >pathogenic fungus causing billions of dollars in crop damage worldwide. > >NCGR also is collaborating with other groups conducting leading-edge >research in the genetics of plants, animals and agricultural microbes >worldwide. And the center has begun developing a comprehensive public >agricultural database and associated analytical tools to combine genomic >and other data. Partnerships like the journal collaboration are planned >with a variety of organizations. > >=ECWe=EDre eager to have JAG join the growing NCGR organization,=EE said= Bruno W.S. >Sobral, team leader of agricultural genomics at the center. =ECThis is a >wonderful opportunity for us to provide more data to researchers, along >with stimulating articles and discussion.=EE > >New articles will be posted on the JAG Web site frequently. Blake and 11 >other genetic researchers from universities across the country comprise the >editorial board, which approves all articles. The board welcomes the >submission of articles from a broad range of disciplines. To submit a paper >or for more information, please contact Blake: blake@hordeum.oscs.montana.e= du. > >Readers can link to the magazine through the NCGR agricultural genomics Web >site, www.ncgr.org/ag. > > >The National Center for Genome Resources is a nonprofit bioinformatics >organization based in Santa Fe, N.M., serving science and society. > >* * * >Janine Sieja Hagerman >Communications Manager >National Center for Genome Resources >1800 Old Pecos Trail, Suite A >Santa Fe, NM 87505 >505/995-4459, 505/995-4432 (fax) >http://www.ncgr.org > From owner-rapd@net.bio.net Tue Mar 31 23:00:00 1998 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsfeed.wli.net!news-peer-west.sprintlink.net!news-peer.sprintlink.net!news.sprintlink.net!Sprint!vixen.cso.uiuc.edu!news.indiana.edu!pumpkin.bio.indiana.edu!user From: dewolf@bio.indiana.edu (Diana Wolf) Newsgroups: bionet.molbio.rapd Subject: Re: PCR problems Date: Tue, 31 Mar 1998 21:30:39 -0600 Organization: Indiana University Lines: 35 Distribution: world Message-ID: References: <3520372F.17CE@dunx1.ocs.drexel.edu> NNTP-Posting-Host: pumpkin.bio.indiana.edu I had this happen with RAPDs - something was wrong with the TE in which I was diluting the primers - contaminated or something. Try changing all of your reagents, and use new containers for them you might not get rid if whatever the problem is by washing (like if its an RNAase, if that can actually cause problems). First change your water and TE and mineral oil and other cheap things you can toss. If that doesnt' work, change everything else. Good Luck! Diana In article <3520372F.17CE@dunx1.ocs.drexel.edu>, saboovm@DUNX1.OCS.DREXEL.EDU (Vandana Saboo) wrote: > Hi > > I am in a fix. I had PCR bands and then they disappeared. Don't know > what's going on? Has anyone faced the same problem. I have tried > changing all PCR parameters-annealing temp. prim. conc., Mg conc. even > made new DNA. I am not doing RAPDs, just standard PCR. I am using > cross-genus primers. They worked fine and I was getting good bands from > my strains-a few soil isolates for 2 years and now when I tried to > repeat it they just stopped appearing. Its really frustrating. > > > If anyone has any ideas, I will be grateful. > > Thanks > > Vandana > saboovm@post.drexel.edu -- Diana Wolf Biology Department Indiana University