From owner-evolution@net.bio.net Sun Dec 01 22:00:00 1996 Path: biosci!agresearch.cri.nz!Farr From: Farr@agresearch.cri.nz ("Farr, Tracy") Newsgroups: bionet.molbio.evolution Subject: suggestions for restrctn frag data treat Date: 1 Dec 1996 18:07:19 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 117 Sender: daemon@net.bio.net Distribution: world Message-ID: <01ICJEQTQ192002EPN@INVERMAY.CRI.NZ> NNTP-Posting-Host: net.bio.net --Boundary (ID 1+OwlqeCXYiZAabDSJOp6w) Content-type: TEXT/PLAIN Can anyone suggest methods and software appropriate for analysis that might help us classify"supertypes" obtained from restriction enzyme analysis of Mycobacterium bovis (i.e. bacterial) DNA using three separate enzymes? We are currently using Whole Band Analysis software from Bio Image on a Sun workstation to match samples on scanned gels to reference type patterns for each of three restriction enzymes. Types differ in the position of bands (from 22 to around 30 bands depending on enzyme), as well as their intensity and width, in some cases. So, bands are not just present or absent (1/0), but can also be higher, lower, narrower, broader, or of higher or lower intensity compared to any other particular reference type within the enzyme set of patterns. The Bio Image software can report matching results in dendrogram form (minimum, UPGMA, maximum, neighbour joining methods), and I am starting to investigate using this tool to generate a classification, a measure of relatedness, for the types for each enzyme. My question is this, though: what methodology might we use to go one step further, to infer/generate measures of similarity or clustering or relatedness between the "supertypes" we obtain for each sample by combining the types from each of the three enzymes? We have recorded over 160 "supertypes", comprising the 70, 70 and 45 different types recorded, respectively, for each of the three enzymes. Some of these supertypes differ from others by just one band difference in one of the three enzymes, while others show numerous pattern differences for all three enzymes. While a novice in the field of molecular systematics, my preliminary reading has made me aware of the inherent problems in dealing with this sort of restriction fragment data as opposed to restriction site data. Still, we would like to generate some measure of relatedness for these supertypes. I realise that some simplification of the data may be in order (reducing it to 1/0 for each possible band position, for instance). Thanks in advance for any assistance or advice. ---------------------------------------------------------------------- Tracy Farr AgResearch, Wallaceville A.R.C., Upper Hutt, Phone 64-04-528.6089 New Zealand Fax 64-04-528.1380 ---------------------------------------------------------------------- Disclaimer: The above is a personal opinion and does not reflect the official view of AgResearch Ltd. ---------------------------------------------------------------------- --Boundary (ID 1+OwlqeCXYiZAabDSJOp6w) Content-type: APPLICATION/X-TNEF; NAME=WINMAIL.DAT Content-transfer-encoding: BASE64 eJ8+IhcBAQaQCAAEAAAAAAABAAEAAQeQBgAIAAAA5AQAAAAAAADoAAEIgAcAGAAA AElQTS5NaWNyb3NvZnQgTWFpbC5Ob3RlADEIAQ2ABAACAAAAAgACAAEEgAEALgAA AHN1Z2dlc3Rpb25zIGZvciByZXN0cmN0biBmcmFnIGRhdGEgdHJlYXRtZW50PwBk EQEFgAMADgAAAMwHDAACAA4AOgATAAEAPQEBIIADAA4AAADMBwwAAgAOADgAOQAB AGEBAQmAAQAhAAAANThCRjU1NjY0RTRDRDAxMThCNjAwMDAwRjgwMjc0QzcA9gYB BJAGADgBAAABAAAADAAAAAMAADACAAAACwAPDgAAAAACAf8PAQAAAFgAAAAAAAAA AGCUZGBBuAEIACsriikAAHMCAABkABoAQwAVAAAAFAAnbW9sIGV2b2x1dGlvbiBi aW9uZXQgbmV3c2dycCcAbW9sLWV2b2xAbmV0LmJpby5uZXQAHgACMAEAAAAFAAAA U01UUAAAAAAeAAMwAQAAABUAAABtb2wtZXZvbEBuZXQuYmlvLm5ldAAAAAADABUM AQAAAAMA/g8GAAAAHgABMAEAAAAfAAAAJ21vbCBldm9sdXRpb24gYmlvbmV0IG5l d3NncnAnAAACAQswAQAAABoAAABTTVRQOk1PTC1FVk9MQE5FVC5CSU8uTkVUAAAA AwAAOQAAAAALAEA6AAAAAAIB9g8BAAAABAAAAAAAAAK5OQEDkAYABAgAABEAAAAL ACMAAAAAAAMAJgAAAAAACwApAAAAAAADADYAAAAAAEAAOQBg9mNK9N+7AR4AcAAB AAAALgAAAHN1Z2dlc3Rpb25zIGZvciByZXN0cmN0biBmcmFnIGRhdGEgdHJlYXRt ZW50PwAAAAIBcQABAAAAFgAAAAG73/RKU2ZVv1lMThHQi2AAAPgCdMcAAAMABhCi R85BAwAHEDkIAAAeAAgQAQAAAGUAAABDQU5BTllPTkVTVUdHRVNUTUVUSE9EU0FO RFNPRlRXQVJFQVBQUk9QUklBVEVGT1JBTkFMWVNJU1RIQVRNSUdIVEhFTFBVU0NM QVNTSUZZIlNVUEVSVFlQRVMiT0JUQUlORURGAAAAAAIBCRABAAAAowYAAJ8GAABm CwAATFpGdSb9bYD/AAoBDwIVAqQD5AXrAoMAUBMDVAIAY2gKwHNldG4yBgAGwwKD MgPFAgBw3HJxEiAHEwKDMwPGE+X+fQqACM8J2QKACoENsQtg4G5nMTAzFIALChSC WQHQIEMDkQBweQIgZeAgc3VnZweQBUAHgFx0aARwBCAAcGQaUG9NAYB3CsAaQGFw E5Bv+xOQBzB0GkACEAXAAHAHQD55AJAEIBsAHLAa0GlnAmgFQGhlbHAgdZ0EIGML YAQQBpB5IhpgEnAEkHR5H6BzIiB8b2IBkAuACYAc4ANhIEcWYBqwBRBjdGkCICB9 CfB6BsAcER1GG7AF0HndBaBiANAcwAUQdSEABuCCdh2RKGkuZS4j4IMjZAdAKSBE TkEesd0LgGcdsQnRGlBlCrEcstkh5HM/CoUKhVccERwBvmMIcBZgAjAdYCWVVxsQ 6mwaQEIbYkEdRhunINPyQiGgIEkAwBqQIDAZ0dUGAHUDoHcFsGsasBywbSGidCwA AMB0EbAaUGH+bQtQB5EhsQTwAHAgkhqQbmwdoSwAFmBmBJAJ8GP7GkAf0iAKsAJA BJEEIBzy/mUA0C5AIuEmBCEvB5AkkLJUH+IgZAaQMDEgC4D7HbEw4W8AkCGTIuEj UBtw+yQxINMyEiAt0QrACGAbcf4zGZA2BA2wH6AbcCXCIbfsKSwZ4AQgdx6AAyA5 gf01AWk0shzAAIEf0BtTA/D+ZBsAOWA00RugIiEvIBHwOTPRU285YDYEG/Jub/0F QGoewAVAE5AHkCkBIDCFHRFiPnMoMS8wOVF8YnUFQC8hGeAvsCwAYv0aQGgeIQSQ OWAV8DmwQSHXHUAo4EFkYgNgYQSBOWD/BbEi4UDUPrJBUzqJBaAugP8b8RuANvIa ACAwNQEFwAqx/yGQKMALYAXAMB0D8BsANNX/IeUR8SLSMQYz4TURK+gbp/9AEhZg NUAAIC30JcIysUaw/nQEIDTRDbAbcANgCcAucNsc4iEAKB4QAwBtI8A5YGBVUEdN QTlgAMB4v07EGjAeIQbgCHA94G9Ooe8l0RrlOVIbcUkZ4CEALVHvRnEl0iwAC4B2 GqEeIByy+yWmHZJvBvAtwhqQGjAmo/8ssB7mIXAtczlhGtEfEAhw3yxhIvAWYAtg HMBkGjAEEP85YBzyNQIf0zGIIeQkkCd8+SMQIHEKUFNxIbEdkwQA5zlgGwEacGg6 LQAd0xrz/RXhZylAHhQ5sB6xMJFVAe8sABojHMAeoGYIcEYCXIH7UxIwMS9VJ1cF IsMAkB4Q/0bBOvIFsR7wPgEGcTiSRuL/V9dAkRvQCeE08x97XpEgRO8xiC5kI+BE 02JQ5FjJIOL/MdgwkSYTJvZabShREcBTUD8yoQWhDbAbgCQANKExNn8ZkB96OWBE 8gUQJbUaQDfOMDlgb9AbUzQ1NFU+gv9ZBGzmOWAysR+gIYFTUB1g/1hkad8zaDzQ IiFzxF7RH4j/NFYg00XzZMEpQD3zGiI2Av9wpzCBNNEaInPPB4E5YF0gtwMQLGF3 hHMbEAfgbiPA/wSQCGAEIDEFeOkxdAdAVNH/dEtrjXuDLLA9sCQQeXQ1An9WQB6A bVEi8ARgKfBGpHPfHXAcwC4BIXBYUW0pQD5B/mxicUHBKUAWYEKQJcIRwP8EIADA DbAa0RngG+N6FQuA/0EBPoIcUQJgg3BNNQdAJcL/R/JURBugTBFXgyFIA1AsQPsH gD6RZBywLLA5gRxwNUH/RVQyujVhGkCLQjyxIZA50N97UUfRCGCCMYRga17kVTb/ PBNXD2SEWIV123+9UiCE8f+EYF7SHdI8E2JhC1BWN3oGf4tDAMApQECheaJtIQXA KPkWYXVjJcI1cC3CP3ExiP81QQCQh8F4lDVGWGQLgC1R/TBxKX+9SiAAcC1ANMJC kP52m6Ic5TsRHyGbhD6znZD3gVF/vQqFLaEvoj+jT6Rf1i2cdiagYylARkHRa4y4 QWdSPmEKwBGwLCfmO36hANBlJBA50BpAQS7QUi5DLqgWVRxANKFySD/gdCwMggMw qwJQhxsQGjCq8zY0LTCsQJA1MjgubdA4OQqFvQfCWohhG2Gq+KZQeKvt+DEzOAp2 pH+xr7K/s8/dpWdEBAAe8Qdxcl0ASiL/AaBtcVwCLLAfoRugHUGLsfdOoSyCeMJv B5E9sQqFMBG/grFxMTURG7BWQQcxICQQhwfRIuGneCBMdGR/tv+z/72fvq+/v6Vn CvsS8hmBC8D1FYEAw1AAAwAQEAAAAAADABEQAAAAAEAABzBAipQZ9N+7AUAACDBA ipQZ9N+7AR4APQABAAAAAQAAAAAAAAADAA00/TcAAHqz --Boundary (ID 1+OwlqeCXYiZAabDSJOp6w)-- From owner-evolution@net.bio.net Sun Dec 01 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!swrinde!cs.utexas.edu!howland.erols.net!news-peer.gsl.net!news.gsl.net!ix.netcom.com!tor-nn1.netcom.ca!news From: Allan Newsgroups: bionet.molbio.evolution Subject: Help needed for biology project!!! Date: Sun, 01 Dec 1996 19:35:49 -0500 Organization: Netcom Canada Lines: 5 Message-ID: <32A22465.1460@netcom.ca> NNTP-Posting-Host: trt-on17-16.netcom.ca Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-NETCOM-Date: Sun Dec 01 7:35:15 PM EST 1996 X-Mailer: Mozilla 3.0C-NC320 (Win95; U) Hello! Would anyone who has a career in biology be interested in letting me do an e-mail interview with them for my OAC (if you don't live in Ontario Canada you will know OAC as grade 13) biology project. If anyone is interested PLEASE e-mail me. My name is Allan Graham, and my e-mail address is bod@netcom.ca . From owner-evolution@net.bio.net Mon Dec 02 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!news.sprintlink.net!news-peer.sprintlink.net!news.sprintlink.net!news-hub.sprintlink.net!news.sprintlink.net!news-stk-11.sprintlink.net!news.dx.net!portal.dx.net!not-for-mail From: Xtra_Cash@your.home.com (MoMoney) Newsgroups: bionet.molbio.bio-matrix,bionet.molbio.embldatabank,bionet.molbio.evolution,bionet.molbio.gdb,bionet.molbio.genbank Subject: Earn extra cash for the holidays working from home. Date: 2 Dec 1996 20:42:35 -0500 Organization: Work from Home Network Lines: 13 Sender: user@portal.dx.net Message-ID: <5800ib$ek@portal.dx.net> Reply-To: No one! NNTP-Posting-Host: portal.dx.net Xref: biosci bionet.molbio.bio-matrix:803 bionet.molbio.embldatabank:725 bionet.molbio.evolution:5391 bionet.molbio.gdb:539 bionet.molbio.genbank:2433 Homeworkers Urgently Needed! Earn weekly paychecks from the comfort of your home. FREE details. Send long, self-addressed, stamped envelope to: S.P.E.L., Dept IN-2 PO Box 211-111 Royal Palm Bch, FL 33421-1111 From owner-evolution@net.bio.net Mon Dec 02 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: martar@porthos.bio.ub.es (Marta Riutort) Newsgroups: bionet.molbio.evolution Subject: re: ribosomal RNAs Date: 3 Dec 1996 11:36:13 -0000 Lines: 23 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5813bd$kb4@mserv1.dl.ac.uk> X-Sender: martar@porthos.bio.ub.es (Unverified) Original-To: mol-evol@dl.ac.uk In response to the existence of different sequences for the rDNAs in some species, we have also found a case, within the Platyhelminthes, in which various species of a same family have two different types of 18S rDNA sequences. These two types diverge by around an 8% in their sequence, and although both seem to be functional (because the secondary structure is conserved), we have only found one in the form of RNA. (Mol. Biol. Evol. 13(6):824-832). Of course the existence of these two types can affect the use of this molecule as a phylogenetic tool, if one have (inadvertedly) sequences of different types for the different species to compare, one will get a wrong phylogeny. ************************************************ Marta Riutort Dpt. de Genetica Fac. de Bilogia Av. Diagonal, 645 08071 Barcelona (Spain) Tel: 34-3 402 15 00 Fax: 34-3 411 09 69 e-mail: martar@porthos.bio.ub.es From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!ed.ac.uk!Mark.Dorris From: Mark.Dorris@ed.ac.uk (Mark Dorris) Newsgroups: bionet.molbio.evolution Subject: Re: DCSE-Nexus-Treecon-help! Date: 4 Dec 1996 09:12:54 -0800 Organization: Nematode Genetics, ICAPB, University of Edinburgh Lines: 23 Sender: daemon@net.bio.net Distribution: world Message-ID: <32A5B169.640C@ed.ac.uk> Reply-To: Mark.Dorris@ed.ac.uk NNTP-Posting-Host: net.bio.net Bart Nelissen wrote: > The software package TREECON for Windows includes the ReadSeq module, > with the extra possibility to convert from and to the TREECON format, > and the LINUX/UNIX version of DCSE (tkDCSE) contains the program > tkCONVERS which converts from the DCSE alignment format to the TREECON > format and also includes the ReadSeq module. I run the UNIX version DCSE and am aware of the tkCONVERS program. My original enquiry was more concerned with conversion to and from Nexus format from the formats used by DCSE and Treecon. A perl program may do the trick. Does anyone know if one exists? Thanks Mark Dorris ________________________________________________ Mark Dorris email Mark.Dorris@ed.ac.uk Institute of Cell, Animal and Population Biology Ashworth Laboratories, King's Buildings University of Edinburgh, West Mains Road EDINBURGH EH9 3JT, United Kingdom phone: (+44) 131 650 6760 Fax :...650 5450 From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Newsgroups: bionet.molbio.evolution Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!news-peer.gsl.net!news.gsl.net!news-dc.gsl.net!news.gsl.net!news.belnet.be!news.vub.ac.be!hnets.uia.ac.be!news From: Bart Nelissen Subject: Re: DCSE-Nexus-Treecon-help! X-Nntp-Posting-Host: pulsed.uia.ac.be Content-Type: text/plain; charset=us-ascii Message-ID: <32A54CD7.6307@uia.ua.ac.be> Sender: news@uia.ua.ac.be (News database) Reply-To: nelissen@uia.ua.ac.be Content-Transfer-Encoding: 7bit Organization: Universiteit Antwerpen (U.I.A.) References: <3290653D.83C@ed.ac.uk> Mime-Version: 1.0 Date: Wed, 4 Dec 1996 10:05:11 GMT X-Mailer: Mozilla 3.0Gold (Win95; I) Lines: 28 B.L.Cohen wrote: > Unlikely, because the Antwerp group have been very bad about/ignorant of > interchange formats. Please do not make statements that are completely incorrect. Both TREECON and DCSE can convert between different file formats. So it is you who is ignorant about the possibilities of TREECON and DCSE. The software package TREECON for Windows includes the ReadSeq module, with the extra possibility to convert from and to the TREECON format, and the LINUX/UNIX version of DCSE (tkDCSE) contains the program tkCONVERS which converts from the DCSE alignment format to the TREECON format and also includes the ReadSeq module. More information can be found at the following URL's DCSE: http://www-rrna.uia.ac.be/~peter/dcse/index.html TREECON: http://bioc-www.uia.ac.be/u/yvdp/treecon.html Best wishes, Bart Nelissen -- Dr. Bart Nelissen | Tel: + 32 3 820 23 16 Department of Biochemistry | Fax: + 32 3 820 22 48 University of Antwerp (UIA) | E-mail: nelissen@uia.ua.ac.be Universiteitsplein 1 | WWW: http://www.uia.ac.be/u/nelissen B-2610 Antwerp (Wilrijk) | Belgium | From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!math.ohio-state.edu!jussieu.fr!infobiogen.fr!lovelace.infobiogen.fr!coulier From: Francois Coulier Newsgroups: bionet.molbio.evolution Subject: Re: ANTIBIOTICS PROMOTE CANCER Date: Wed, 4 Dec 1996 08:19:30 +0100 Organization: "GIS INFOBIOGEN, 7 rue Guy Moquet BP8, 94801 VILLEJUIF, France" Lines: 15 Message-ID: References: <32A4FEB5.3455@nol.net> NNTP-Posting-Host: lovelace.infobiogen.fr Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII To: Mark Peters In-Reply-To: <32A4FEB5.3455@nol.net> Are you sure you choosed the right newsgroup? * * * * * * * * * * * * * Francois Coulier INSERM Unite 119 27 bd Lei Roure 13009 Marseille France tel 33 (0) 4 91 75 84 11 fax 33 (0) 4 91 26 03 64) email: coulier@infobiogen.fr * * * * * * * * * * * * * From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!swrinde!cs.utexas.edu!howland.erols.net!newsfeed.internetmci.com!nol.net!not-for-mail From: Mark Peters Newsgroups: bionet.molbio.evolution Subject: ANTIBIOTICS PROMOTE CANCER Date: Tue, 03 Dec 1996 20:31:49 -0800 Organization: GENIUS QUEST Lines: 42 Message-ID: <32A4FEB5.3455@nol.net> Reply-To: bionet.molbio.evolution NNTP-Posting-Host: ip38-84.nol.net Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win16; U) Who cares? Anyone? Antibiotics kill the bad germs. (The ones that don't become antibiotic resitant). Antibiotics also kill the good germs that help prevent the spread of bad germs. (loss of the good germs makes open season for antibiotic resistant bad germs) "Antibiotics" that do not kill yeast (open the season) and promote their growth. The yeast C. albicans can catalyze nitrosamine (a carcinogen) that causes cancer. Wide spread usage of antibiotics gained momentum in the 1950's. The incidence of cancer has been rising yearly since then. Who cares anyway? More cancer, more money for doctors, more money for research, more new antibiotics. The FDA approved them, doctors fear loss of customers($money) if they don't prescribe them and the patients (victoms)feel cheeted if they don't get them. Patients THINK antibiotics cure everything and then come to rely on the wolves (capitalism) to guard their health while the system herds them like sensless sheep into human petrie dishes to test their latest and greatest kill everyting antibiotic. It's not really anybody's fault in perticular(we didn't know yeast cause cacner in 1950) so lets just pretend we didn't even read this message. Forget it completely so you won't feel responsible when you or your loved one is the next one in your family who draws the short straw. (Murder by cancer is not illegal.) Infact, it it isn't even recognized as a "STING", THE. (great movie) OR. Challenge me, you fearless sole, (hope you have some legal teeth in your bark or you will be just waisting my time) to back my statements. At least act like you care even though you can't do anything about this world wide medical macicality. The Presidents have ignored me, the television stations are silent, the FBI has no jurisdiction, the doctors are to far along out of medical school to read technical relatinships from mainstreem medical material. WHEN THE LINE OF PRECEPTIN BETWEEN FACT AND FICTION DISAPPEARES, EVIL HAS WON. From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!news.idt.net!enews.sgi.com!news.sgi.com!esiee.fr!jussieu.fr!univ-angers.fr!ciril.fr!usenet From: pingouin@crystal.u-strasbg.fr (Francois Jeanmougin) Newsgroups: bionet.molbio.evolution Subject: Re: ANTIBIOTICS PROMOTE CANCER Followup-To: alt.conspiracy Date: 4 Dec 1996 08:43:06 GMT Organization: IGBMC Lines: 31 Message-ID: <583diq$89g@arcturus.ciril.fr> References: <32A4FEB5.3455@nol.net> NNTP-Posting-Host: crystal.u-strasbg.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: knews 0.9.6 In article <32A4FEB5.3455@nol.net>, Mark Peters writes: >Who cares? Anyone? > >Antibiotics kill the bad germs. (The ones that don't become antibiotic >resitant). Antibiotics also kill the good germs that help prevent the >spread of bad germs. (loss of the good germs makes open season for >antibiotic resistant bad germs) "Antibiotics" that do not kill yeast >(open the season) and promote their growth. The yeast C. albicans can >catalyze nitrosamine (a carcinogen) that causes cancer. It is not the right group, but I have to answer. AFAIK, C albicans is a pathogen yeast, present in minority in mocous membrane. If the selection by antibiotics make it the majority, then it provocs a disease called candidose. So don't worry, each desequilibrium in epiderm or mucus microorganic flora is visible. If this helps, Francois. P.S.: Follow-Up to alt.conspiracy -- Francois Jeanmougin Service de bioinformatique / bioinformatics service IGBMC BP 163 67404 Illkirch France tel :(France) 03 88 65 32 71 / (international) (+33) 3 88 65 32 71 e-mail : jeanmougin@igbmc.u-strasbg.fr "C'est pas parcequ'on monte au banc, qu'il faut descendre a jeun." (Thiefaine) From owner-evolution@net.bio.net Tue Dec 03 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!news.sgi.com!news.bbnplanet.com!su-news-hub1.bbnplanet.com!www.nntp.primenet.com!nntp.primenet.com!ix.netcom.com!news From: Jeffrey Allan Simon Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: Wed, 04 Dec 1996 23:14:44 GMT Organization: Netcom Lines: 50 Message-ID: <58505p$oi7@sjx-ixn10.ix.netcom.com> References: NNTP-Posting-Host: jac-fl3-01.ix.netcom.com X-NETCOM-Date: Wed Dec 04 3:06:33 PM PST 1996 X-Newsreader: NETCOMplete/3.0 In article , ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") wrote: >> To: mol-evol@net.bio.net >> From: Jeff Bush >> Subject: Re: Anyone Seen Evolution? >> Date: Mon, 18 Nov 1996 17:02:34 -0500 > >Jeff trawled... > >>... My question was pointing at *observing* a >> benifitial mutation in the genetic code. > >sp: beneficial B-) > >And yes, if you take BK virus (a polyomavirus) out of the urine of >immunosuppressed patients, and cycle it in tissue culture (in which >it initially refuses to grow), checking it frequently by PCR and >sequencing, you will find that tissue culture-adapted mutants arise, >all of which independently have rearranged their "control regions". >In other words, the viruses mutate at a hot-spot, and the ones which >are viable come through. VERY beneficial, for the virus. And can be >found in the lit in J Virol by Rubinstein and Harley some years ago. > >So sorry, Jeff, one can and does observe beneficial mutations. >Another is the one(s) which allow Mycobacterium tuberculosis (causes >TB) to become resistant to certain antibiotics - and yes, one can >prove it is mutation and not pre-existing sequence by PCRing the >gene(s) in question before and after seeing the resistance arise in >culture, making a library, and looking for it/them. > >Back to the Book, Jeff.... > > > > Ed Rybicki, PhD > Dept Microbiology | ed@molbiol.uct.ac.za > University of Cape Town | rybicki@uctvms.uct.ac.za > Private Bag, Rondebosch | phone: x27-21-650-3265 > 7700, South Africa | fax: x27-21-689 7573 > WWW URL: http://www.uct.ac.za/microbiology/ed.html > > "Out here on the perimeter, there are no stars..." Fascinating Ed, but tell me, what is the name of this new species that has "evolved?" These appear to be examples of microevolution. These examples cannot be used to extrapolate from E coli to man. An organism adapting to its environment is a great example of natural selection, but natural selection is just as compatible with creation. With the billions of years of evolution, there should be better examples of evolution, both in the present and in the past. Back to your hypothesizing Ed..... From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!MOLBIOL.UCT.AC.ZA!ed From: ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 04:40:24 -0800 Organization: Dept Microbiology, UCT Lines: 22 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: ed@molbiol.uct.ac.za NNTP-Posting-Host: net.bio.net > To: mol-evol@net.bio.net > From: un691cs@genius.embnet.dkfz-heidelberg.de (slavemaster) > Subject: Re: Anyone Seen Evolution? > Problem is the definition of what a species is ! as I recall correctly from > biology 107: aspecies is defined as an organism that can produce fertile > offspring if mated with an organism of the same species. > With E.coli (a-sexual multiplication) or a virus, the definition of a species is almost > impossible, ...but has been done: taxonomy committees for both groups of organisms have defined species for both, so the mating concept falls away. Ed Rybicki, PhD Dept Microbiology | ed@molbiol.uct.ac.za University of Cape Town | rybicki@uctvms.uct.ac.za Private Bag, Rondebosch | phone: x27-21-650-3265 7700, South Africa | fax: x27-21-689 7573 WWW URL: http://www.uct.ac.za/microbiology/ed.html "Out here on the perimeter, there are no stars..." From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!insync!Gamma.RU!srcc!news.uni-stuttgart.de!news.urz.uni-heidelberg.de!usenet From: un691cs@genius.embnet.dkfz-heidelberg.de (slavemaster) Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 10:04:55 GMT Organization: not the pizza hut delivery sevrice Lines: 26 Message-ID: <5866o7$sdi@sun0.urz.uni-heidelberg.de> References: <58505p$oi7@sjx-ixn10.ix.netcom.com> NNTP-Posting-Host: pc7.ana.uni-heidelberg.de Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.7 In article <58505p$oi7@sjx-ixn10.ix.netcom.com>, jbsimon@ix.netcom.com says... >Fascinating Ed, but tell me, what is the name of this new species that has "evolved?" These >appear to be examples of microevolution. These examples cannot be used to extrapolate from E >coli to man. An organism adapting to its environment is a great example of natural selection, >but natural selection is just as compatible with creation. With the billions of years of >evolution, there should be better examples of evolution, both in the present and in the past. >Back to your hypothesizing Ed..... Problem is the definition of what a species is ! as I recall correctly from biology 107: aspecies is defined as an organism that can produce fertile offspring if mated with an organism of the same species. With E.coli (a-sexual multiplication) or a virus, the definition of a species is almost impossible, and thus talking about observing actual evolution taking place may be difficult. Even though IMHO opinion micro-evolution (sounds like a creationist invention, such an un-word) does point towards evolution taking place. We humans may simply live too short to observe the actual evolution taking place ? But certainly there must be numerous breeds of cattle or other animals that have been bred to such an extend, that they can't be mated with their forefathers anymore ? Anybody seen the production of a novel species of sheep or anything ? Clemens From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!MOLBIOL.UCT.AC.ZA!ed From: ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 00:45:12 -0800 Organization: Dept Microbiology, UCT Lines: 40 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: ed@molbiol.uct.ac.za NNTP-Posting-Host: net.bio.net > From: Jeffrey Allan Simon > Subject: Re: Anyone Seen Evolution? I wrote: > >And yes, if you take BK virus (a polyomavirus) out of the urine of > >immunosuppressed patients, and cycle it in tissue culture (in which > >it initially refuses to grow), checking it frequently by PCR and > >sequencing, you will find that tissue culture-adapted mutants arise, > >all of which independently have rearranged their "control regions". > >In other words, the viruses mutate at a hot-spot, and the ones which > >are viable come through. VERY beneficial, for the virus. And can be > >found in the lit in J Virol by Rubinstein and Harley some years ago. ... > >Back to the Book, Jeff.... Jeff wrote: > Fascinating Ed, but tell me, what is the name of this new species that has "evolved?" These > appear to be examples of microevolution. These examples cannot be used to extrapolate from E > coli to man. An organism adapting to its environment is a great example of natural selection, > but natural selection is just as compatible with creation. With the billions of years of > evolution, there should be better examples of evolution, both in the present and in the past. > Back to your hypothesizing Ed..... You asked for an example one could see/watch: I gave you one. Now you ask for a new species...OK, recombinant geminiviruses, with hybrid genomes, that infect wider / different host ranges of plants (to be found all over S and N America presently) - and evidence that an ancient recombination gave rise to an entire GENUS of Geminiviridae (hybrid genome betweem Subgroup I and III geminiviruses), with new properties / host range / etc. Buth that won't satisfy you either, will it? Ed Rybicki, PhD Dept Microbiology | ed@molbiol.uct.ac.za University of Cape Town | rybicki@uctvms.uct.ac.za Private Bag, Rondebosch | phone: x27-21-650-3265 7700, South Africa | fax: x27-21-689 7573 WWW URL: http://www.uct.ac.za/microbiology/ed.html "Out here on the perimeter, there are no stars..." From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Newsgroups: bionet.molbio.evolution Path: biosci!ihnp4.ucsd.edu!swrinde!news.sgi.com!news.sprintlink.net!news-peer.sprintlink.net!uunet!in1.uu.net!192.35.48.11!hearst.acc.Virginia.EDU!murdoch!avery.med.Virginia.EDU!cbw2c From: "C.B. Wiegand" Subject: Re: ANTIBIOTICS PROMOTE CANCER In-Reply-To: <32A4FEB5.3455@nol.net> X-Nntp-Posting-Host: avery.med.virginia.edu Content-Type: TEXT/PLAIN; charset=US-ASCII Message-ID: Sender: usenet@murdoch.acc.Virginia.EDU Organization: University of Virginia References: <32A4FEB5.3455@nol.net> Mime-Version: 1.0 Date: Thu, 5 Dec 1996 07:16:56 GMT Lines: 46 On Tue, 3 Dec 1996, Mark Peters wrote: > Who cares? Anyone? > > Antibiotics kill the bad germs. (The ones that don't become antibiotic > resitant). Antibiotics also kill the good germs that help prevent the > spread of bad germs. (loss of the good germs makes open season for > antibiotic resistant bad germs) "Antibiotics" that do not kill yeast > (open the season) and promote their growth. The yeast C. albicans can > catalyze nitrosamine (a carcinogen) that causes cancer. [excess conspiracy rant deleted] First, ain't this a little off-topic for this newsgroup? Nitrosamine IS a mutagen and potential carcinogen, along with about 10000 other sustances we are exposed to on a daily basis. It is formed by Candida albicans BUT it is also formed from nitrites via a reaction with gastric enzymes. So you'd better include the processed-food folks in your circle of conspirators--hot dog consumption is even more common than yeast infections. :) BTW, the push these days in medical education is to use antibiotics very sparingly. Gone are the days when docs would throw penicillin at every cough, sneeze, and bellyache. If you think nitrosamines are scary, try MRSA and VRE! Ciao, Chris -- Christopher B. Wiegand UVa School of Medicine `99 But nowadays men cannot love seven night but they must have all their desires: that love may not endure by reason; for where they be soon accorded and hasty, heat soon it cooleth. Right so fareth love nowadays, soon hot soon cold: this is no stability. --from _Le Morte D'Arthur_, Book XVIII, Chapter 25 Sir Thomas Malory, 1485 From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: James McInerney Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 10:02:47 -0000 Organization: The Natural History Museum Lines: 12 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5866k7$3kv@mserv1.dl.ac.uk> References: <96124232921.~INN-ZSAa00210.bionet-news@dl.ac.uk> Reply-To: j.mcinerney@nhm.ac.uk MIME-Version: 1.0 Original-To: Molecular Evolution Group Ed, Don't do it, man. We have debated what to do about creationists and the accepted wisdom is to ignore these posts. The place for that kind of discussion is on talk.origins or somewhere like that. This is an entirely different newsgroup and this discussion is off limits. James. -- James O. McInerney, The Natural History Museum, Cromwell Road, London SW7 5BD, UK. From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-hub1.bbnplanet.com!uunet!in2.uu.net!158.250.39.26!Gamma.RU!srcc!news.uni-stuttgart.de!news.urz.uni-heidelberg.de!usenet From: un691cs@genius.embnet.dkfz-heidelberg.de (slavemaster) Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 16:58:29 GMT Organization: not the pizza hut delivery sevrice Lines: 30 Distribution: world Message-ID: <586uvl$7k2@sun0.urz.uni-heidelberg.de> References: NNTP-Posting-Host: pc7.ana.uni-heidelberg.de Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.7 In article , ed@MOLBIOL.UCT.AC.ZA says... > >> To: mol-evol@net.bio.net >> From: un691cs@genius.embnet.dkfz-heidelberg.de (slavemaster) >> Subject: Re: Anyone Seen Evolution? > >> Problem is the definition of what a species is ! as I recall correctly from >> biology 107: aspecies is defined as an organism that can produce fertile >> offspring if mated with an organism of the same species. >> With E.coli (a-sexual multiplication) or a virus, the definition of a species is almost >> impossible, > >...but has been done: taxonomy committees for both groups of >organisms have defined species for both, so the mating concept falls >away. Hm interesting. I'm not familiar with this: how is a species defined nowadays ? (aslo: I remember a dixussion once on the telly between creationists and normal people and in the end the creationist had to admit that new species are being formed. But they THEN went ahead and stated that this is still no proof for evolution, because its unimaginable that a complete new genus or even taxa are being formed ! But anyway: do you have examples of higher organsims where evolution is more or less obvious ? clemens From owner-evolution@net.bio.net Wed Dec 04 22:00:00 1996 Path: biosci!BELOIT.EDU!jungck From: jungck@BELOIT.EDU (John R. Jungck) Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 5 Dec 1996 12:44:18 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 48 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Dear unnamed participant, I have to say that this discussion seems enormously misplaced, but look at plants: allopolyploidy in the Brassica family is an excellent example. John >In article , ed@MOLBIOL.UCT.AC.ZA says... >> >>> To: mol-evol@net.bio.net >>> From: un691cs@genius.embnet.dkfz-heidelberg.de (slavemaster) >>> Subject: Re: Anyone Seen Evolution? >> >>> Problem is the definition of what a species is ! as I recall correctly from >>> biology 107: aspecies is defined as an organism that can produce fertile >>> offspring if mated with an organism of the same species. >>> With E.coli (a-sexual multiplication) or a virus, the definition of a >>>species is almost >>> impossible, >> >>...but has been done: taxonomy committees for both groups of >>organisms have defined species for both, so the mating concept falls >>away. > >Hm interesting. I'm not familiar with this: how >is a species defined nowadays ? >(aslo: I remember a dixussion once on the telly >between creationists and normal people and in the end >the creationist had to admit that new species are being >formed. But they THEN went ahead and stated that this is still >no proof for evolution, because its unimaginable that >a complete new genus or even taxa are being formed ! > >But anyway: do you have examples of higher organsims >where evolution is more or less obvious ? > >clemens John R. Jungck Biology Beloit College 700 College Street Beloit, WI 53511 Web site for the BioQUEST Curriculum Consortium: http://www.beloit.edu/~bquest From owner-evolution@net.bio.net Thu Dec 05 22:00:00 1996 Path: biosci!bcm.tmc.edu!cs.utexas.edu!swrinde!www.nntp.primenet.com!nntp.primenet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-hub1.bbnplanet.com!news.idt.net!cdc2.cdc.net!news.stealth.net!newsfeed.uk.ibm.net!news-m01.ny.us.ibm.net!news-s01.ny.us.ibm.net!not-for-mail From: "Antonio Machado" Newsgroups: bionet.molbio.evolution Subject: Soft introduction to molbio concepts. HELP. Date: 6 Dec 1996 19:24:00 GMT Organization: IBCER Lines: 6 Message-ID: <01bbe3ab$48835560$c1115c8b@NONE.ny.us.ibm.net> NNTP-Posting-Host: slip139-92-17-193.pt.uk.ibm.net X-Newsreader: Microsoft Internet News 4.70.1155 Hallo. I am interested in understanding the basics of molbio assessment of evolutionary changes (oriented to phylogeny). I work in classic phylogeny & cladistics via external morphology. Is there a "userfriendly" article or book to start with? Thanks & gracias Antonio From owner-evolution@net.bio.net Thu Dec 05 22:00:00 1996 Path: biosci!biosci!not-for-mail From: "E. Kolker" Newsgroups: bionet.general,bionet.info-theory,bionet.molbio.proteins,sci.med.pharmacy,bionet.molbio.embldatabank,bionet.population-bio,bionet.molbio.evolution,sci.bio.systematics,bionet.software Subject: New deadline & Web site Date: 6 Dec 1996 05:44:32 -0800 Organization: University of Washington Lines: 88 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <327E21BF.167E@bioinformatics.weizmann.ac.il> NNTP-Posting-Host: net.bio.net Xref: biosci bionet.general:24391 bionet.info-theory:4414 bionet.molbio.proteins:9500 sci.med.pharmacy:37773 bionet.molbio.embldatabank:729 bionet.population-bio:2126 bionet.molbio.evolution:5408 sci.bio.systematics:1449 bionet.software:17299 ANNOUNCEMENT AND CALL FOR PAPERS Computational Biology Session: "Computing in the Genome Era" March 31 - April 1, 1997 Eleventh International Conference on Mathematical and Computer Modelling and Scientific Computing March 31 - April 3, 1997 Georgetown University Conference Center Washington, DC, USA The Eleventh International Conference on Mathematical and Computer Modelling and Scientific Computing is scheduled to take place March 31 - April 3, 1997 at the Georgetown University Conference Center, Washington, DC, U.S.A. The objective of the Computational Biology Session "Computing in the Genome Era" (March 31 - April 1, 1997) is to discuss the current state of computational biology, its approaches, methods, general problems, achievements, and future developments with emphasis on sequence research and analysis for the Genome Projects. SPEAKERS of the session include: S. Altschul (Natl Center for Biotechnology Iinformation, Bethesda), A. Bairoch (Geneva University, Switzerland), T. Clark (Millenium Pharmaceuticals, Cambridge), W. Gish (Washington University, St. Louis), T. Gojobori (Natl Institute of Genetics, Mishima, Japan), P. Green (University of Washington, Seattle), S. Henikoff (Fred Hutchinson Cancer Research Center, Seattle), L. Hood (University of Washington, Seattle), A. Kerlavage (Institute for Genomic Research, Rockville), E. Koonin (Natl Center for Biotechnology Iinformation, Bethesda), O. Ritter (German Cancer Research Center, Heidelberg, Germany), D. Searls (SmithKline Beecham Pharmaceuticals, King of Prussia), E. Shpaer (Perkin-Elmer Applied Biosystems, Foster City), E. Trifonov (Weizmann Institute of Science, Israel). STEERING COMMITTEE: S. Altschul, A. Bairoch, W. Gish, P. Green, S. Henikoff, E. Koonin, E. Trifonov Papers (Abstracts) are invited on all relevant aspects of computational biology for presentation at the session (a new deadline is DECEMBER 23, 1996), to be selected on competitive basis by the steering committee (notification of acceptance is JANUARY 4, 1997). One-page abstracts should clearly describe the work and its conclusions. Full length manuscripts (limited to six pages) of papers presented at the conference will be published in the Conference Proceedings, in a special issue of the journal MATHEMATICAL MODELLING AND SCIENTIFIC COMPUTING, Vol. 8, 1997 (ISSN 1067-0688). The manuscripts for the special issue are due JUNE 15, 1997. The special issue of the journal will be published by SEPTEMBER 1997. ALL participants shall pay the registration fee. Abstracts (ONE PAGE, about 200 words, PLAIN JUSTIFIED TEXT) may be submitted in hard copy or via fax or by e-mail (PREFERRED) under subject "Abstract". The abstracts must be formatted to fit on 8-1/2 x 11 inch (approximately 21.5 cm x 28 cm or European Standard A-4 size) paper, typed in single space. The title must be capitalized and centered followed by the author's name(s), institution, and full address, including fax and e-mail. Send two copies (ONE copy if sent by fax or e-mail) of the abstract to the session organizer before DECEMBER 23, 1996: Eugene Kolker Dept of Molecular Biotechnology and Genome Center Box 357730, University of Washington Seattle, WA 98195-7730, USA Fax: +1-206-685-7301 E-mail: egn@u.washington.edu The Computational Biology Session is proudly sponsored by SMITHKLINE BEECHAM and MILLENIUM. You can find additional info on our Web site: http://www.genome.washington.edu/~eugene/meeting.html From owner-evolution@net.bio.net Thu Dec 05 22:00:00 1996 Path: biosci!BELOIT.EDU!jungck From: jungck@BELOIT.EDU (John R. Jungck) Newsgroups: bionet.molbio.evolution Subject: Re: Soft introduction to molbio concepts. HELP. Date: 6 Dec 1996 13:46:39 -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 The Maddison brothers' MacClade manual (Sinauer Publishers) has an excellent introduction to phylogenetic systematics (including molecular characters) which is exceptional readable. Enjoy, John >Hallo. I am interested in understanding the basics of molbio assessment of >evolutionary changes (oriented to phylogeny). I work in classic phylogeny & >cladistics via external morphology. Is there a "userfriendly" article or >book to start with? >Thanks & gracias >Antonio John R. Jungck Biology Beloit College 700 College Street Beloit, WI 53511 Web site for the BioQUEST Curriculum Consortium: http://www.beloit.edu/~bquest From owner-evolution@net.bio.net Fri Dec 06 22:00:00 1996 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!howland.erols.net!newsfeed.internetmci.com!news.microagewny.com!usenet From: Douglas Easton Newsgroups: bionet.molbio.evolution Subject: Genetics Position Date: Sat, 07 Dec 1996 11:19:52 -0500 Organization: State University College at Buffalo (Biology) Lines: 40 Message-ID: <32A99926.5347@wzrd.com> Reply-To: dpeaston@wzrd.com NNTP-Posting-Host: ppp15.microagewny.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (Win95; I) GENETICIST STATE UNIVERSITY(SUNY)COLLEGE AT BUFFALO Applications are invited for a tenure-track ASSISTANT PROFESSOR to begin September 1997. We are seeking a colleague who is enthusiastic about teaching undergraduates. Teaching responsibilities will include Genetics, Introductory Biology for non-majors, and either Botany or Cell Biology. The successful candidate will be expected to develop an active research program involving undergraduate and master's students. Applicants must have a Ph.D., and postdoctoral teaching and research experience is preferred but not required. The State University College at Buffalo (Buffalo State College) is the largest arts and science college in the SUNY system with an enrollment of 13,000 students (including 2000 in graduate programs). The campus is located in a residential district in the city of Buffalo. The Department of Biology enrolls about 250 undergraduate and about 30 graduate students in MA and MSEd programs. Of our 16 faculty, one-half have received their doctorates within the last 13 years. We maintain greenhouse facilities, environmental chambers and research laboratories. The College's newly renovated Aquatic Research Laboratory provides laboratories and research vessels to faculty and students. Applicants should send a curriculum vitae with a thoughtful statement of teaching philosophy, research goals and three letters of recommendation by January 20, 1997 to: Dr. Randal Snyder, Chair of Search Committee, Department of Biology, Buffalo State College, 1300 Elmwood Avenue, Buffalo, NY 14222. Email: SNYDERRJ@SNYBUFAA.CS.SNYBUF.EDU Telephone: 716- 878-4314. We especially encourage applications from women and minorities. From owner-evolution@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!news.alaska.edu!ftjrd From: ftjrd@aurora.alaska.edu (John Demboski) Newsgroups: bionet.molbio.evolution Subject: 2 job announcements -U Alaska Fairbanks Date: Sun, 08 Dec 1996 16:20:27 -0800 Organization: University of Alaska Computer Network Lines: 108 Message-ID: NNTP-Posting-Host: lab3.uafbio.alaska.edu Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: Yet Another NewsWatcher 2.3.1 The University of Alaska Fairbanks is seeking qualified applicants for two tenure-track Assistant Professor positions: Cellular/Molecular Biologist and Vertebrate Nutritional Physiologist/Ecologist. Descriptions of both vacancies follow below and you can see these announcements at this URL: http://zorba.uafadm.alaska.edu/iab/index.html. Please respond to the appropriate Chair of each search committee for more information. -------------------------------------------------------------------------- CELL & MOLECULAR BIOLOGY DEPARTMENT OF BIOLOGY & WILDLIFE INSTITUTE OF ARCTIC BIOLOGY UNIVERSITY OF ALASKA FAIRBANKS ALASKA The Department of Biology and Wildlife and Institute of Arctic Biology at the University of Alaska Fairbanks seek qualified applicants for the tenure-track position of Assistant Professor of Cellular/Molecular Biology. The appointee is expected to establish a productive research program at the cellular or molecular level that ideally will integrate with existing faculty interests including: high latitude physiology, neurobiology, endocrinology, or chronobiology. The successful applicant will be expected to teach two courses/year including cell biology and an additional course such as developmental biology or molecular biology, and to supervise graduate students. An earned Ph.D. in biology or related field is mandatory; post-doctoral and teaching experience are preferred. Initial support for graduate student teaching assistants, laboratory space, and start-up funds are included in this appointment which is expected to begin in fall of 1997. Qualified women and minorities are encouraged to apply. Send applications including: statements of research interest, teaching philosophy, curriculum vitae, and three letters of reference by January 15, 1997 to: Dr. Gerald Shields Chair, Cellular/Molecular Search Department of Biology and Wildlife and Institute of Arctic Biology, University of Alaska Fairbanks Fairbanks AK 99775 (907) 474-7656, Fax (907) 474-6967 E-mail: gshields@redback.lter.alaska.edu The University of Alaska Fairbanks is the Land Grant, Sea Grant, and Space Grant institution in Alaska. The University of Alaska is an Educational Institution and an EEO and Affirmative Action Employer. Your Application for Employment with The University of Alaska May Be Subject to Public Disclosure ........................................................................... Tenure Track Position Vertebrate Nutritional Physiologist/Ecologist The Department of Biology and Wildlife and the Institute of Arctic Biology at the University of Alaska Fairbanks seek a faculty member for a tenure-track position at the level of ASSISTANT PROFESSOR. Candidates are expected to have an earned doctorate in Biology or closely related field with expertise in both laboratory and field research, and interests in working at levels from molecular to the whole animal. The successful candidate will be a critical member of a group of researchers by bridging the disciplines of wildlife ecology, physiology, and molecular biology. This individual also will be expected to: develop a strong externally funded research program, mentor graduate students, and teach two courses per year, including Nutritional and Physiological Ecology of Wildlife. Extensive facilities are available including: captive research herds of muskox and caribou (Large Animal Research Station), a remote field station north of the Arctic circle (Toolik Field Station), animal vivarium equipped to conduct research in environmental physiology, and a Core DNA Sequencing Facility. We encourage candidates with the potential for forming collaborative research programs with applied resource agencies and with existing faculty having interests in physiological and ecological adaptations to northern environments and ruminant physiological ecology. We especially encourage the application of qualified women and minority candidates. The possibility exists for a shared tenure-track position forcandidates with spouses. Preference will be given to candidates with postdoctoral and university teaching experience, and a strong publication record. To apply, send curriculum vitae, statements of research interests and teaching philosophy, copies of pertinent reprints, and have three letters of reference sent to: Dr. James Sedinger Search Chair Institute of Arctic Biology University of Alaska Fairbanks Fairbanks, AK 99775-7000 (907) 474-6598 E-mail: ffjss@aurora.alaska.edu Closing date: 15 December 1996 From owner-evolution@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!howland.erols.net!math.ohio-state.edu!jussieu.fr!u-psud.fr!univ-lyon1.fr!pasteur.fr!infobiogen.fr!lovelace.infobiogen.fr!coulier From: Francois Coulier Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: Mon, 9 Dec 1996 20:55:31 +0100 Organization: "GIS INFOBIOGEN, 7 rue Guy Moquet BP8, 94801 VILLEJUIF, France" Lines: 46 Message-ID: References: NNTP-Posting-Host: lovelace.infobiogen.fr Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII To: Wolfgang Wuster In-Reply-To: On Mon, 9 Dec 1996, Wolfgang Wuster wrote: > > I was wondering whether there is a widespread consensus among molecular > biologists regarding the extent to which published sequences can be > re-used, and published in one's own name without it becoming a case of > plagiarism. > > For instance, if researcher A is working on the phylogeny of a group of > organisms, would he be within his rights to to download a bunch of DNA > sequences for the same group of organisms, obtained by researcher B, > integrate them within his analysis, and pubish the results without > discussion with the researcher who spent years obtaining the sequences in > the first place? Are there any limits depending on what proportion of > another worker's data one uses? > > I'd be grateful for any input from readers of the ng/list. > -- > Wolfgang Wuster > School of Biological Sciences, University of Wales, Bangor, UK > e-mail: w.wuster@bangor.ac.uk > > Thought for the day: If you see a light at the end of the tunnel, > it is probably a train coming your way. > > I would say that when a sequence is release in a public database, it fall in the bublic domain, and therefore can be used to the same extent as a sequence published on paper. It is not the same with private databases (i.e. TIGR database), but for accessing these, you need to sign an agreement on the first place, which usually restrict your right to use the sequences. * * * * * * * * * * * * * Francois Coulier INSERM Unite 119 27 bd Lei Roure 13009 Marseille France tel 33 (0) 4 91 75 84 11 fax 33 (0) 4 91 26 03 64) email: coulier@infobiogen.fr * * * * * * * * * * * * * From owner-evolution@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!rutgers!uwm.edu!cs.utexas.edu!howland.erols.net!www.nntp.primenet.com!nntp.primenet.com!mindspring!uunet!in2.uu.net!192.109.159.3!news.gtn.com!inn.aball.de!on-line.leine.de!yamato.leine.de From: mapstool@B-52.zer Newsgroups: bionet.molbio.evolution Subject: Autoinit-Mail Date: 8 Dec 96 01:51:44 +0100 Message-ID: <239DD22014MM001@mapstool.chatline.zer> X-Gateway: ZCONNECT UH online.leine.de [UUCPfZ V5.81 U055] Lines: 2 ! From owner-evolution@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!bcm.tmc.edu!watson!roxanney From: roxanney@bcm.tmc.edu (Roxanne A Yamashita) Newsgroups: bionet.molbio.evolution Subject: Aspergillus in the wild Date: 9 Dec 1996 20:37:56 GMT Organization: Baylor College of Medicine, Houston, Tx Lines: 11 Message-ID: <58htb4$3s5@gazette.bcm.tmc.edu> NNTP-Posting-Host: bcm.tmc.edu NNTP-Posting-User: roxanney X-Newsreader: TIN [version 1.2 PL2] Dear Friends, Hi! I posted a question about 2 weeks ago and got three responses. I would like to know exactly waht is happening on plates where a wild type strain like GR5 or R153 sectors. Are rearrangements, etc being made. I would like to know this because I have made a number of mutants that show slowed growth and increase sectoring. Please send any ideas you have to me at: roxanney@bcm.tmc.edu Thank you for your time! From owner-evolution@net.bio.net Sun Dec 08 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!usenet.eel.ufl.edu!warwick!yama.mcc.ac.uk!hydraulix.bangor.ac.uk!manager From: Wolfgang Wuster Newsgroups: bionet.molbio.evolution Subject: Use of sequence databases - ethics? Date: Mon, 9 Dec 1996 16:51:30 +0000 (GMT) Organization: University of Wales, Bangor. Lines: 22 Message-ID: NNTP-Posting-Host: thunder.bangor.ac.uk Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Sender: bss166@thunder I was wondering whether there is a widespread consensus among molecular biologists regarding the extent to which published sequences can be re-used, and published in one's own name without it becoming a case of plagiarism. For instance, if researcher A is working on the phylogeny of a group of organisms, would he be within his rights to to download a bunch of DNA sequences for the same group of organisms, obtained by researcher B, integrate them within his analysis, and pubish the results without discussion with the researcher who spent years obtaining the sequences in the first place? Are there any limits depending on what proportion of another worker's data one uses? I'd be grateful for any input from readers of the ng/list. -- Wolfgang Wuster School of Biological Sciences, University of Wales, Bangor, UK e-mail: w.wuster@bangor.ac.uk Thought for the day: If you see a light at the end of the tunnel, it is probably a train coming your way. From owner-evolution@net.bio.net Mon Dec 09 22:00:00 1996 Path: biosci!MOLBIOL.UCT.AC.ZA!ed From: ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 10 Dec 1996 05:11:51 -0800 Organization: Dept Microbiology, UCT Lines: 27 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: ed@molbiol.uct.ac.za NNTP-Posting-Host: net.bio.net > From: Wolfgang Wuster > Subject: Use of sequence databases - ethics? > Date: Mon, 9 Dec 1996 16:51:30 +0000 (GMT) > > I was wondering whether there is a widespread consensus among molecular > biologists regarding the extent to which published sequences can be > re-used, and published in one's own name without it becoming a case of > plagiarism. I have been in exactly this position a couple of times, with sequence analyses of both poty- and geminiviruses - and I took the view that if a sequence is published in a database (which with plant viruses usually means it has been published in print as well), then it is "public domain" in that I can use it as long as I correctly cite who sequenced it. I think this constitutes "fair use" as far as databased sequences are concerned. Ed Rybicki, PhD Dept Microbiology | ed@molbiol.uct.ac.za University of Cape Town | rybicki@uctvms.uct.ac.za Private Bag, Rondebosch | phone: x27-21-650-3265 7700, South Africa | fax: x27-21-689 7573 WWW URL: http://www.uct.ac.za/microbiology/ed.html "Out here on the perimeter, there are no stars..." From owner-evolution@net.bio.net Mon Dec 09 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!news.sprintlink.net!news-peer.sprintlink.net!howland.erols.net!math.ohio-state.edu!news.cis.ohio-state.edu!nntp.sei.cmu.edu!fs7.ece.cmu.edu!casaba.srv.cs.cmu.edu!das-news2.harvard.edu!oitnews.harvard.edu!purdue!haven.umd.edu!hecate.umd.edu!phelix.umd.edu!not-for-mail From: moths@Glue.umd.edu (Andrew Mitchell) Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 9 Dec 1996 16:12:13 -0500 Organization: Project Glue, University of Maryland, College Park, MD Lines: 15 Message-ID: <58hvbd$91n@phelix.umd.edu> References: NNTP-Posting-Host: phelix.umd.edu Surely once you publish a DNA sequence it becomes part of the public domain, and anybody can use it in a manner they see fit (eg. phylogenetic analysis), as long as they cite their source - otherwise there appears to be no point in publishing sequences in the first place. DNA sequence data are no different in this regard from descriptions of morphological characters, being simply observations of tangible biological phenomena. ******************************************************************************* Andrew Mitchell Department of Entomology E-MAIL: moths@phelix.umd.edu University of Maryland College Park, MD 20742 U.S.A. ******************************************************************************* From owner-evolution@net.bio.net Mon Dec 09 22:00:00 1996 Path: biosci!agate!howland.erols.net!feed1.news.erols.com!worldnet.att.net!uunet!in2.uu.net!128.250.1.21!munnari.OZ.AU!news.ecn.uoknor.edu!news.ou.edu!aardvark.ucs.ou.edu!roossinck From: roossinck@aardvark.ucs.ou.edu (ROOSSINCK,MARILYN) Newsgroups: bionet.molbio.evolution Subject: Postdoctoral Position Date: 10 Dec 1996 09:22 CST Organization: University of Oklahoma - University Computing Services Lines: 31 Distribution: world Message-ID: <10DEC199609220541@aardvark.ucs.ou.edu> NNTP-Posting-Host: aardvark.ucs.ou.edu News-Software: VAX/VMS VNEWS 1.41 POSTDOCTORAL FELLOW Mechanisms of Viral Evolution A postdoctoral scientist is sought to fill a position at the Samuel Roberts Noble Foundation, to join a team of scientists studying the molecular mechanisms of viral evolution using members of the plant Cucumovirus genus. Requirements: A Ph.D. degree in Virology, Molecular Biology, or related area. Experience in Virology or Molecular Evolution helpful. Salary and Apointment: Base salary of $24,000/year plus benefits, increasing with experience, with funding available for 3 years. Starting Date: January 1997 Please send a complete CV, with the names, addresses, phone numbers and e-mail addresses of at least three referees Apply to: Dr. Marilyn J. Roossinck Plant Biology Division The Samuel Roberts Noble Foundation P.O. Box 2180 Ardmore, OK 73402 Phone: 405 223-5810 FAX: 405 221-7380 e-mail: mroossinck@noble.org From owner-evolution@net.bio.net Mon Dec 09 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!news.bbnplanet.com!su-news-hub1.bbnplanet.com!news.sgi.com!esiee.fr!jussieu.fr!lepesant1.ijm.jussieu.fr!user From: burmeste@ccr.jussieu.fr (Thorsten Burmester) Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 10 Dec 1996 20:59:26 GMT Organization: Institut Jacques-Monod Lines: 24 Distribution: world Message-ID: References: NNTP-Posting-Host: lepesant1.ijm.jussieu.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit >> I was wondering whether there is a widespread consensus among molecular >> biologists regarding the extent to which published sequences can be >> re-used, and published in one's own name without it becoming a case of >> plagiarism. > >I have been in exactly this position a couple of times, with >sequence analyses of both poty- and geminiviruses - and I took the >view that if a sequence is published in a database (which with plant >viruses usually means it has been published in print as well), then >it is "public domain" in that I can use it as long as I correctly >cite who sequenced it. I think this constitutes "fair use" as far as >databased sequences are concerned. Dear all, And what is the status of a _patented_ sequence in GenBank etc.? May one use it e.g. for phylogenetic analysis as if they were "public domain"? -- Thorsten Burmester Tel: (+33) 1 44 27 40 94 Institut Jacques-Monod Fax: (+33) 1 44 27 52 65 CNRS et Universite Paris 7 email: burmeste@ccr.jussieu.fr (preferred) 2 place Jussieu or tburmest@infobiogen.fr F-75251 Paris CEDEX 05, France From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!rutgers!uwm.edu!www.nntp.primenet.com!nntp.primenet.com!usenet.eel.ufl.edu!warwick!news.nott.ac.uk!evol.nott.ac.uk!pdxkrb From: pdxkrb@evol.nott.ac.uk (Keith Bradnam) Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 11 Dec 1996 22:38:50 GMT Organization: Department of Genetics, University of Nottingham UK. Lines: 31 Message-ID: <58nd5q$d2t@paperboy.ccc.nottingham.ac.uk> References: NNTP-Posting-Host: evol.gene.nottingham.ac.uk Ed Rybicki wrote: >> From: Wolfgang Wuster >> I was wondering whether there is a widespread consensus among molecular >> biologists regarding the extent to which published sequences can be >> re-used, and published in one's own name without it becoming a case of >> plagiarism. > >I have been in exactly this position a couple of times, with >sequence analyses of both poty- and geminiviruses - and I took the >view that if a sequence is published in a database (which with plant >viruses usually means it has been published in print as well), then >it is "public domain" in that I can use it as long as I correctly >cite who sequenced it. I think this constitutes "fair use" as far as >databased sequences are concerned. I think it would get rather unfeasible to end up citing all references to all sequences referred to in any given study. This is particular true when you are dealing with analyses that compare whole chromosomes or even whole genomes. This sort of genome anaylis will continue with the advent of more genome sequences being published. For genomes such as yeast, the total number of references needed to make sure all sequencing groups had been acknowledged would be immense. Keith B. -- -_-_-_-_-_-_- The strongest of hearts, are easily broken, -_-_-_-_- by the softest of words, so easily spoken -_-_- - http://evol.nott.ac.uk/~pdxkrb/ From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!rutgers!gatech!EU.net!usenet2.news.uk.psi.net!uknet!usenet1.news.uk.psi.net!uknet!uknet!newsfeed.ed.ac.uk!singer.cent.gla.ac.uk!b-cohen.molgen.gla.ac.uk!user From: gbga13@udcf.gla.ac.uk (B.L.Cohen) Newsgroups: bionet.molbio.evolution Subject: Re: DCSE-Nexus-Treecon-help! Date: 11 Dec 1996 17:10:10 GMT Organization: Genetics, University of Glasgow Lines: 28 Message-ID: References: <3290653D.83C@ed.ac.uk> <32A54CD7.6307@uia.ua.ac.be> NNTP-Posting-Host: b-cohen.molgen.gla.ac.uk And I am very embarrassed to have written that because I realised almost at once that it was an unfriendly, uncharitable and badly expressed comment. Indeed, the Antwerp files used to be convertible into standard formats only with extreme difficulty, and I was careless about stating the current position, with which I am not very familiar. Apologies to my friends (ex-friends?) in Antwerp! In article <32A54CD7.6307@uia.ua.ac.be>, nelissen@uia.ua.ac.be wrote: > B.L.Cohen wrote: > > > Unlikely, because the Antwerp group have been very bad about/ignorant of > > interchange formats. > > Please do not make statements that are completely incorrect. Both > TREECON and DCSE can convert between different file formats. So it is > you who is ignorant about the possibilities of TREECON and DCSE. -- Bernie Cohen Phone (+44) (0)141 339 8855 ext. 5103/5101 Molecular Genetics Fax 330 5994 University of Glasgow 56 Dumbarton Rd, Glasgow G11 6NU Scotland, UK. From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!rutgers!uwm.edu!news-peer.gsl.net!news.gsl.net!news.sprintlink.net!news-peer.sprintlink.net!news.bbnplanet.com!su-news-hub1.bbnplanet.com!news.sgi.com!esiee.fr!jussieu.fr!univ-angers.fr!ciril.fr!usenet From: pingouin@crystal.u-strasbg.fr (Francois Jeanmougin) Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 11 Dec 1996 08:00:57 GMT Organization: IGBMC Lines: 26 Message-ID: <58lpnp$6q0@arcturus.ciril.fr> References: NNTP-Posting-Host: crystal.u-strasbg.fr Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: knews 0.9.6 In article , burmeste@ccr.jussieu.fr (Thorsten Burmester) writes: [...] >And what is the status of a _patented_ sequence in GenBank etc.? May one >use it e.g. for phylogenetic analysis as if they were "public domain"? [...] I think it's public domain. You can use it for research, but you can't use it for commercial applications. I don't think you can sale your phylogenetic analysis, so it's a non-profit use. The only thing I found about that at NCBI is : "The patent sequences are from the U.S. Patent and Trademark Office and from the European Patent Office and are being entered into the database as part of an ongoing cooperative project among the U.S., European, and Japanese patent offices and the sequence databases." So... I anyone know how this works...We have patented sequences in some team in the building. I can ask. Francois. -- Francois Jeanmougin Service de bioinformatique / bioinformatics service IGBMC BP 163 67404 Illkirch France tel :(France) 03 88 65 32 71 / (international) (+33) 3 88 65 32 71 e-mail : jeanmougin@igbmc.u-strasbg.fr "C'est pas parcequ'on monte au banc, qu'il faut descendre a jeun." (Thiefaine) From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!MOLBIOL.UCT.AC.ZA!ed From: ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 10 Dec 1996 23:55:40 -0800 Organization: Dept Microbiology, UCT Lines: 18 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: ed@molbiol.uct.ac.za NNTP-Posting-Host: net.bio.net > From: burmeste@ccr.jussieu.fr (Thorsten Burmester) > Subject: Re: Use of sequence databases - ethics? > And what is the status of a _patented_ sequence in GenBank etc.? May one > use it e.g. for phylogenetic analysis as if they were "public domain"? If it is in GenBank, it is published: one can certainly refer to accession numbers in a publication, so why shouldn't one use the sequence in an analysis? It's not as if one is actually synthesising the sequence and using it for expression purposes. Ed Rybicki, PhD Dept Microbiology | ed@molbiol.uct.ac.za University of Cape Town | rybicki@uctvms.uct.ac.za Private Bag, Rondebosch | phone: x27-21-650-3265 7700, South Africa | fax: x27-21-689 7573 WWW URL: http://www.uct.ac.za/microbiology/ed.html "Out here on the perimeter, there are no stars..." From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!online.no!sn.no!nntp.uio.no!news-feed.inet.tele.dk!enews.sgi.com!news.sgi.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-hub1.bbnplanet.com!howland.erols.net!swrinde!ihnp4.ucsd.edu!scripps.edu!NewsWatcher!user From: anthonyp@scripps.edu (Anthony J. Pelletier, Ph.D.) Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: Wed, 11 Dec 1996 08:23:04 -0800 Organization: The Scripps Research Institute Lines: 22 Message-ID: References: <58505p$oi7@sjx-ixn10.ix.netcom.com> NNTP-Posting-Host: emu.scripps.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit In article <58505p$oi7@sjx-ixn10.ix.netcom.com>, Jeffrey Allan Simon > Fascinating Ed, but tell me, what is the name of this new species that has "evolved?" Name of a new species? That's easy: Triticum estivum. There are more. But, I imagine you will find reasons to dismiss all of them. > but natural selection is just as compatible with creation. Well, OF COURSE IT IS. That's why creation is not a scientific hypothesis. Everything is consistent with creation. Afterall, you believe in an omnipotent god, don't you? So, there can be nothing that God cannot have done, right? -- Anthony J. Pelletier, Ph.D. Assistant Member, Department of Cell Biology The Scripps Research Institute La Jolla, CA anthonyp@scripps.edu From owner-evolution@net.bio.net Tue Dec 10 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!feed1.news.erols.com!howland.erols.net!vixen.cso.uiuc.edu!news.indiana.edu!indyvax.iupui.edu!indyvax.iupui.edu!nntp Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Message-ID: <32AF3D3D.2755@infect.dmed.iupui.edu> From: "Diane R. Stothard" Date: Wed, 11 Dec 1996 18:01:17 -0500 References: Organization: Indiana Univeristy Medical Center Nntp-Posting-Host: 134.68.197.41 X-Mailer: Mozilla 2.02 (Win95; I) MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 43 I have published papers with others' sequences in them. I think they are public domain, yes, but I have always cited the references for data that are not mine. In this way, the data can be used but credit is still given. I think it would be a mistake not to use data in databases...it would be like ignoring it. Sometimes, additional data can support or refute a previous hypothesis. Therefore, it is always good to include whatever is available. Francois Coulier wrote: > > On Mon, 9 Dec 1996, Wolfgang Wuster wrote: > > > > > I was wondering whether there is a widespread consensus among molecular > > biologists regarding the extent to which published sequences can be > > re-used, and published in one's own name without it becoming a case of > > plagiarism. > > > > For instance, if researcher A is working on the phylogeny of a group of > > organisms, would he be within his rights to to download a bunch of DNA > > sequences for the same group of organisms, obtained by researcher B, > > integrate them within his analysis, and pubish the results without > > discussion with the researcher who spent years obtaining the sequences in > > the first place? Are there any limits depending on what proportion of > > another worker's data one uses? > > > > I'd be grateful for any input from readers of the ng/list. > > -- > > Wolfgang Wuster > > School of Biological Sciences, University of Wales, Bangor, UK > > e-mail: w.wuster@bangor.ac.uk > > > > Thought for the day: If you see a light at the end of the tunnel, > > it is probably a train coming your way. > > > > > I would say that when a sequence is release in a public database, it fall > in the bublic domain, and therefore can be used to the same extent as a > sequence published on paper. > It is not the same with private databases (i.e. TIGR database), but for > accessing these, you need to sign an agreement on the first place, which > usually restrict your right to use the sequences. From owner-evolution@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!MOLBIOL.UCT.AC.ZA!ed From: ed@MOLBIOL.UCT.AC.ZA ("Ed Rybicki") Newsgroups: bionet.molbio.evolution Subject: Re: Use of sequence databases - ethics? Date: 12 Dec 1996 00:35:46 -0800 Organization: Dept Microbiology, UCT Lines: 21 Sender: daemon@net.bio.net Distribution: world Message-ID: Reply-To: ed@molbiol.uct.ac.za NNTP-Posting-Host: net.bio.net > From: pdxkrb@evol.gene.nottingham.ac.uk (Keith Bradnam) > Subject: Re: Use of sequence databases - ethics? > I think it would get rather unfeasible to end up citing > all references to all sequences referred to in any given study. ...For genomes such as yeast, the total number > of references needed to make sure all sequencing groups had been > acknowledged would be immense. An accession number - or group thereof - is a reference, in that it leads straight to the authors of any sequence(s). As long as some ay is figured for credit to be given for citation of accession numbers, I can see no problem for their use instead of list of names. Ed Rybicki, PhD Dept Microbiology | ed@molbiol.uct.ac.za University of Cape Town | rybicki@uctvms.uct.ac.za Private Bag, Rondebosch | phone: x27-21-650-3265 7700, South Africa | fax: x27-21-689 7573 WWW URL: http://www.uct.ac.za/microbiology/ed.html "Out here on the perimeter, there are no stars..." From owner-evolution@net.bio.net Wed Dec 11 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!feed1.news.erols.com!news.bbnplanet.com!cpk-news-hub1.bbnplanet.com!portc02.blue.aol.com!audrey01.news.aol.com!not-for-mail From: teachertom@aol.com (TeacherTom) Newsgroups: bionet.molbio.evolution Subject: Re: Anyone Seen Evolution? Date: 12 Dec 1996 01:44:27 GMT Organization: AOL http://www.aol.com Lines: 3 Message-ID: <19961212014400.UAA13827@ladder01.news.aol.com> References: NNTP-Posting-Host: ladder01.news.aol.com X-Admin: news@aol.com I was Bill Clinton evolve into a moderate conservative Republican. That should clinch any doubt about the truth of evolution. From owner-evolution@net.bio.net Thu Dec 12 22:00:00 1996 Path: biosci!UCRWCU.RWC.UC.EDU!cooperlj From: cooperlj@UCRWCU.RWC.UC.EDU (Lesta Cooper-Freytag) Newsgroups: bionet.molbio.evolution Subject: Unsubscribe Date: 13 Dec 1996 09:55:39 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 6 Sender: daemon@net.bio.net Distribution: world Message-ID: <199612131755.JAA21856@net.bio.net> NNTP-Posting-Host: net.bio.net Please unsubscribe me until Jan. 10, 1997. Lesta J. Cooper-Freytag E-MAIL: cooperlj@ucrwcu.rwc.uc.edu From owner-evolution@net.bio.net Thu Dec 12 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!feed1.news.erols.com!insync!uunet!in3.uu.net!138.95.18.2!wilbur.sequent.com!newsfeed.orst.edu!news.orst.edu!sslab.FSL.ORST.EDU!krutovsk From: krutovsk@fsl.orst.edu (Konstantin Krutovskii) Newsgroups: bionet.molbio.evolution Subject: Faculty Research Assistant/Plant Molecular Geneticist Date: Wed, 11 Dec 1996 23:01:19 Organization: Forestry Sciences Lab Lines: 102 Message-ID: NNTP-Posting-Host: sslab.fsl.orst.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] Position Number: 002-825 Faculty Research Assistant/Research Associate, Plant Molecular Genetics Location: Department of Forest Science, Oregon State University, Corvallis, OR Date Available: March 1, 1997 Closing Date: January 13, 1997 Position Responsibilities: We seek a molecular geneticist to work as part of the Tree Genetic Engineering Research Cooperative (TGERC) at Oregon State University. The TGERC is a consortium supported by 13 Members, mostly forest industries, that are seeking improved means for genetic manipulation of poplar trees. The applicant's primary responsibility in the Coop will be production of novel plasmid constructs to be used in Agrobacterium transformation, and analysis of the transgenic trees produced. They will work closely with other TGERC staff doing tissue culture, transformation, and gene isolation. The constructs will be composed primarily of floral homeotic genes intended for induction of sexual sterility; however, they will also work with other genes relevant to ongoing Cooperative projects on insect, disease, and herbicide resistance. Specifically, responsibilities will include: 1. Development of strategies for producing binary constructs with various genes for Agrobacterium transformation of poplar. 2. Configuration of genes and plasmid vectors, verifying structure/sequence, and transformation into Agrobacterium strains. 3. Analysis of transgenic plants for gene incorporation, expression, and delivery of desired traits. 5. Supervision of students, technicians, and other workers to help carry out laboratory studies. 6. Participation in writing Coop reports and publications for scientific journals. 7. Effective oral communication of results at annual Coop meeting and other scientific forums. 8. Collaboration with Coop staff to write grants to obtain supplemental funding for research. Education and experience: A B.S. degree in molecular genetics or a related field, and at least two years of experience with recombinant DNA manipulation, are essential. Knowledge of plant molecular biology and experience in plant transformation techniques are desirable. Experience and demonstrated competence in the following areas are particularly important: 1. Advanced recombinant DNA manipulation of plasmid vectors. 2. Molecular analyses, including DNA sequencing, PCR, and Southern, northern, and western blots. 3. Written and oral communication. 4. Collaboration with colleagues, subordinates, and superiors. 5. Long- and short-term organization and planning of work. Employment conditions: The job will be filled at the rank of either Research Assistant (B.S., M.S., or Ph.D.) or Research Associate (Ph.D.), depending upon career track of candidate, in the Department of Forest Science at Oregon State University. We are also open to the applicant taking a more scientific role in the work, as would Ph.D.s in a Research Associate position (e.g., writing papers for publication), or a more technical role, as would most with only a B.S. (limited writing, mostly directed lab work). The appointment is a full-time, 12-month, fixed-term position; reappointment is at the discretion of the Dean. The employee will report directly to Cooperative Director. The salary will be in the range of $24,000 to $32,004/year, depending on qualifications. Medical, dental, and life insurance plans are available. To apply: Send a letter of application describing your qualifications and interests in the position, a resume, transcripts, and the names, email addresses, and fax numbers of four references by January 13, 1997 to Sandra Lewis, Office Manager, Dept. of Forest Science, 020 Forestry Sciences Laboratory, Oregon State University, Corvallis, OR 97331-7501. For more information contact Prof. Steve Strauss, phone 541/737-6578, email strauss@FSL.orst.edu, fax 541/737-1393. OREGON STATE UNIVERSITY IS AN AFFIRMATIVE ACTION/EQUAL OPPORTUNITY EMPLOYER AND HAS A POLICY OF BEING RESPONSIVE TO THE NEEDS OF DUAL-CAREER COUPLES. From owner-evolution@net.bio.net Fri Dec 13 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Wolfgang Wuster Newsgroups: bionet.molbio.evolution Subject: Re: Post your AD to 26,000 newsgroups at once for $35.00 , 16551324033101655 Date: 14 Dec 1996 10:35:13 -0000 Lines: 21 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <58tvt1$7av@mserv1.dl.ac.uk> X-Sender: bss166@thunder Original-To: IGMG On Fri, 13 Dec 1996, IGMG wrote: > To reply to this message use the email address at the end=85=20 >=20 > I have developed a Windows 95 and Windows NT Internet Marketing Solution = that will > revolutionize the way you conduct direct marketing over the Internet. Wit= h one sophisticated > program your company can contact over 3 MILLION Internet Users. More det= ail later, right Imagine getting your sorry ass flamed by only 0.1% of those users for=20 spamming this into their group - should be quite an experience... -- Wolfgang Wuster School of Biological Sciences, University of Wales, Bangor, UK e-mail: w.wuster@bangor.ac.uk Thought for the day: If you see a light at the end of the tunnel, it is probably a train coming your way. From owner-evolution@net.bio.net Sat Dec 14 22:00:00 1996 Path: biosci!rutgers!uwm.edu!news-peer.gsl.net!news.gsl.net!news-hk.gsl.net!news.gsl.net!newsgate.cuhk.edu.hk!news.att.net.hk!elausrv2.att.net.au!zonk.geko.net.au!usenet From: Neil Aitchison Newsgroups: bionet.molbio.evolution Subject: truth??...evolution?? Date: Mon, 16 Dec 1996 03:03:49 -0800 Organization: Geko Internet Pty Ltd Lines: 7 Message-ID: <32B52C95.2AC2@adelaide.on.net> NNTP-Posting-Host: dialup2030.geko.net.au Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02 (Win95; I; 16bit) Hi....I'm wondering if evolution is true or not....this web site says it's not.... -> http://www.on.net/users/mec/answers/_3_sci.htm What do you think? From owner-evolution@net.bio.net Sun Dec 15 22:00:00 1996 Path: biosci!daresbury!not-for-mail From: Wolfgang Wuster Newsgroups: bionet.molbio.evolution Subject: Re: truth??...evolution?? Date: 16 Dec 1996 09:20:33 -0000 Lines: 18 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <593491$oon@mserv1.dl.ac.uk> X-Sender: bss166@thunder Original-To: Neil Aitchison On Mon, 16 Dec 1996, Neil Aitchison wrote: > Hi....I'm wondering if evolution is true or not....this web site says > it's not.... > > -> http://www.on.net/users/mec/answers/_3_sci.htm Wow - when someone told me that the bible says that evolution is not true, I laughed. But if a web site says so - now that's authoritative! Take it to talk.origins, or, better than that, get a clue and a life. -- Wolfgang Wuster School of Biological Sciences, University of Wales, Bangor, UK e-mail: w.wuster@bangor.ac.uk Thought for the day: If you see a light at the end of the tunnel, it is probably a train coming your way. From owner-evolution@net.bio.net Mon Dec 16 22:00:00 1996 Path: biosci!rutgers!uwm.edu!www.nntp.primenet.com!nntp.primenet.com!howland.erols.net!vixen.cso.uiuc.edu!usenet From: dneece@students.uiuc.edu (David Neece) Newsgroups: bionet.molbio.evolution Subject: Need reformatting program for DNASIS Date: 17 Dec 1996 16:30:38 GMT Organization: University of Illinois Lines: 16 Message-ID: <596hre$9sc@vixen.cso.uiuc.edu> NNTP-Posting-Host: erml55-151.animal.uiuc.edu Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.6 Hello, I'm looking for a Windows based program to reformat DNA sequence files before pasting them into DNASIS. Specifically, I need something that will take line-breaks and spaces out of text file sequences. All suggestions appreciated, Dave. ________________________________________ David J. Neece, Research Specialist Department of Animal Sciences University of Illinois "There is no meaning; it's all just a bunch of stuff that happened." -Homer (Simpson) From owner-evolution@net.bio.net Mon Dec 16 22:00:00 1996 Path: biosci!rutgers!csn!nntp-xfer-1.csn.net!magnus.acs.ohio-state.edu!infoserver.bgsu.edu!m254-152.bgsu.edu!user From: anikiti@opie.bgsu.edu (Alex Nikitin) Newsgroups: bionet.molbio.evolution Subject: Re: truth??...evolution?? Date: Tue, 17 Dec 1996 12:01:20 +0200 Organization: Bowling Green State University Lines: 58 Message-ID: References: <32B52C95.2AC2@adelaide.on.net> NNTP-Posting-Host: m254-152.bgsu.edu In article <32B52C95.2AC2@adelaide.on.net>, Neil Aitchison wrote: > Hi....I'm wondering if evolution is true or not....this web site says > it's not.... > > > -> http://www.on.net/users/mec/answers/_3_sci.htm > > What do you think? Although it is not wise to even attempt to answer such a question (no offence), I'd like to mention a few things from that netpage mentioned in the post, just for the fun of it, and give my brief point of view on each of the points rised. Quote 1: "11. All Mankind came from One Woman. "Adam called his wife's name Eve : because she was the mother of all living." Genesis 3:20. DNA is found in every cell, in both the nucleus and the mitochondrion (energy station). Mitochondrial DNA is always and only inherited from the mother. Analysis of this DNA in humans from all over the world shows unmistakably that all humans on earth have inherited it from one woman. This research was done by Wilson, Cann, and Stoneking from the University of California, Berkeley." Whoever whrote this should probably try to read the source again and also get some background in population genetics and anthropology. The authors of the mentioned investigation never claimed our mtDNA to decent from one woman, it is plain impossible from a population genetics point of view. Besides, the author of the quote did't mention Adam; according to that logic, there had to be a single Adam, preferrably living in the same georgaphical regin as mitochondrial Eve. There's a lot more to this discussion, but it is mostly about the phylogenetic implications of molecular findings, the basic knowledge of wich the author of the quote lacks. Quote 2 (talking about the tapeworm that can be found in pork meat): "God, by forbidding people to eat or touch pork, shows His care for us. Question:How did the Bible know about the dangers of pork in 1500 BC? Answer: God wrote the Bible." Well, how about salmonella in poultry? Bowine tapeworm? Whole bunch of different parasites in mollusks? Why such a specificity? Besides, in Eastern Europe pork is the major food source (that and potatoes), and they are Christians too (most of them, anyway). Now, the question about how did the Bible know of the dangers of eating pork is very simple to answer: SOMEBODY TASTED PORK AND GOT SICK! It desn't require God to write the Bible in order for people to understand such simple things, unless they (people) are incredibly dumb, which, of course, was not the case. Overall suggestion: don't try to use netpages like that for a guide through science; either read the Bible, or read "Science" and "Nature", the mixture of the two opposite points of view can be dangerous! :) From owner-evolution@net.bio.net Mon Dec 16 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!news-peer.gsl.net!news.gsl.net!news-lond.gsl.net!news.gsl.net!netcom.net.uk!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!susx.ac.uk!inmanh From: inmanh@cogs.susx.ac.uk (Inman Harvey) Newsgroups: bionet.molbio.evolution,bionet.neuroscience Subject: ECAL97 Final CFP Date: 17 Dec 1996 17:10:12 GMT Organization: University of Sussex Lines: 100 Distribution: world Message-ID: <596k5k$49i@infa.central.susx.ac.uk> NNTP-Posting-Host: rsunx.crn.cogs.susx.ac.uk Xref: biosci bionet.molbio.evolution:5440 bionet.neuroscience:17259 Full details on our website http://www.cogs.susx.ac.uk/ecal97 FINAL CALL FOR PAPERS 4th. EUROPEAN CONFERENCE ON ARTIFICIAL LIFE ECAL97 Brighton, UK, July 28-31 1997 This interdisciplinary conference aims to provoke new understandings of the relationships between the natural and the artificial. Artificial Life is often described as the endeavour to synthesize life-like phenomena in artificial media in an attempt to establish a formal and general understanding of life. In practice it is something much broader. At its core are exchanges of ideas and blurring of boundaries between disciplines traditionally constrained to just the natural or just the artificial. ECAL97 will foster further cross-fertilisation and hopes to extend the Artificial Life community by encouraging contributions from people involved in the Arts and Humanities. The conference will involve oral presentations, both invited and contributed, poster sessions, debates, exhibitions, demonstrations, installations and related activities. Scientific topics to be covered will include, but not be limited to, the list below. Contributions from biologists are particularly welcome. Self-organisation. Origins of Life. Prebiotic evolution. RNA Systems. Fitness Landscapes. Natural Selection. Sexual Selection. Ecosystem evolution. Evolutionary Optimisation. Evolutionary Computation. Immune Networks. Neural Networks. Multicellular Development. Natural and Artificial Morphogenesis. Learning and Development. Communication. Artificial Worlds. Simulations of Ecological and Evolving Systems. Mobile Agents. Autonomous Robots. Evolutionary Robotics. Software Agents. Collective Behaviour. Swarm Intelligence. Cooperation. Evolution of Social Behaviour. Philosophical Issues in Alife. Ethical problems. NEW --- Publisher will now be: MIT Press/Bradford Books. Papers should not be longer than 10 pages (including figures) in MIT Press format. Format instructions and LaTeX template are available on our web-page. We encourage paper submissions via the Internet (see web-page) though traditional paper is also acceptable (4 hard-copies). Demonstrations, Videos, and proposals for associated workshops are also welcomed. IMPORTANT DATES Feb 28, 1997 -- Submission deadline Apr 12 -- Notification of acceptance May 1 -- Camera-ready due May 31 -- Early registration deadline July 28-31, 1997 -- Conference dates ECAL97 will be held in Brighton on the South Coast of England. There are good travel connections; it is just one hour by train from London and conveniently close to London Gatwick airport. The conference will be inside the Metropole Hotel on Brighton seafront. Special accomodation rates will be available for those staying at the hotel, with other cheaper accommodation available elsewhere. Please PRE-REGISTER your interest by filling out a form via our WWW site. All new announcements will be emailed to those who have pre-registered, and will also be available on this site: http://www.cogs.susx.ac.uk/ecal97/ Conference organizers: Phil Husbands and Inman Harvey Local organization: Medeni Fordham and Joseph Faith Conference Secretariat: Medeni Fordham ECAL97 COGS, University of Sussex Brighton BN1 9QH, UK EMAIL: ecal97@cogs.susx.ac.uk PROGRAM COMMITTEE Riccardo Antonini (I) Randall D. Beer (US) Wolfgang Banzhaf (D) George Bekey (US) Hugues Bersini (B) Maggie Boden (UK) Peter de Bourcier (UK) Paul Bourgine (F) Rodney Brooks (US) Scott Camazine (D) Peter Cariani (US) Pablo Chacon (E) Andy Clark (UK) Dave Cliff (UK) Michael Conrad (US) Holk Cruse (D) Jaques Demongeot (F) Jean-L. Deneubourg (B) Michael Dyer (US) Claus Emmeche (DK) Dario Floreano (CH) Terry Fogarty (UK) Walter Fontana (A) Brian C. Goodwin (UK) Howard Gutowitz (US) Horst Hendriks-Jansen (UK) Paulien Hogeweg (NL) George Kampis (H) Kunihiko Kaneko (JP) Hiroaki Kitano (JP) Chris Langton (US) Antonio Lazcano (MX) Pier L. Luisi (CH) David McFarland (UK) Pattie Maes (US) Barry McMullin (IE) Juan J. Merelo (E) Jean-Arcady Meyer (F) Eric Minch (US) Melanie Mitchell (US) Federico Moran (E) Alvaro Moreno (E) Jim D. Murray (US) Stefano Nolfi (I) Daniel Osorio (UK) Domenico Parisi (I) Howard Pattee (USA) Rolf Pfeifer (CH) Steen Rasmussen (US) Tom Ray (JP) Robert Rosen (CA) Chris Sander (D) Peter Schuster (D) Moshe Sipper (CH) Tim Smithers (E) M.V. Srinivasan (AU) Luc Steels (B) John Stewart (F) Peter Todd (D) Jon Umerez (US) Francisco Varela (F) Gunter Wagner (US) Barbara Webb (UK) Hans V. Westerhoff (NL) Michael Wheeler (UK) William C. Wimsatt (US) Chris Winter (UK) Rene Zapata (F) ==================================================================== NEW -- European Workshop on Learning Robots EWLR-6, the 1997 European Workshop on Learning Robots, will be held in association with ECAL97 on the day after, Friday August 1st 1997, in the same location, the Metropole Hotel Brighton. The Call For Papers for EWLR-6 will be issued some time in January 1997; for further information contact Andreas Birk cyrano@arti14.vub.ac.be. ==================================================================== From owner-evolution@net.bio.net Mon Dec 16 22:00:00 1996 Path: biosci!bcm.tmc.edu!cs.utexas.edu!www.nntp.primenet.com!nntp.primenet.com!howland.erols.net!news-peer.gsl.net!news.gsl.net!portc01.blue.aol.com!newsstand.cit.cornell.edu!news.acsu.buffalo.edu!dsinc!netnews.upenn.edu!central.cis.upenn.edu!tandy From: tandy@central.cis.upenn.edu (Tandy Warnow) Newsgroups: bionet.molbio.evolution Subject: postdoctoral and doctoral fellowships Date: 17 Dec 1996 15:02:21 GMT Organization: University of Pennsylvania Lines: 269 Message-ID: <596clt$jhq@netnews.upenn.edu> NNTP-Posting-Host: central.cis.upenn.edu Doctoral and Postdoctoral Fellowships in Computational Biology The Computational Biology Training Program at the University of Pennsylvania has several fellowships available for highly qualified students and postdoctoral researchers. No previous experience with computational biology is required! The program enjoys the participation of many faculty throughout the University, drawing from the schools of Medicine, Engineering, and Arts and Sciences, and has participants from nearby Biotech companies as well. For the doctoral fellowships, applicants should be interested in pursuing a PhD in Computer Science, Biology, Genetics, Mathematics, or Statistics. Cross-disciplinary training is provided. For postdoctoral fellowships, applicants should already have a PhD in one of the relevant fields (see above), and should have interest and ability in both scientific and quantitative reasoning. Research areas of interest to the program are primarily: multiple sequence alignment, sequence comparison, molecular evolution and phylogenetics, bioinformatics, biological databases, physical and genetic mapping, and statistical inference in Biology. Additional information is given below. ************************************************************** APPLICANTS FOR THE DOCTORAL PROGRAM: If you are applying for the doctoral programs, you will have to apply directly to one of the participating departments. We do not offer an interdisciplinary PhD, but rather supplementary training. Information on how to apply to a doctoral program is given below. After you have applied to the appropriate doctoral program you should contact us by email, letting us know which department you have applied to. We will keep track of your application, and if it is accepted, we will consider you for funding through our training program. APPLICANTS FOR POSTDOCTORAL POSITIONS: If you are applying for a postdoctoral position, please send us the following: (a) Completed application form. (b) Statement (maximum one page) of your research interests, academic goals, and why you are interested in computational biology. (c) Four letters of reference -- these should be sent directly by the referees. (d) Curriculum vita. Yours sincerely, Dr. Warren Ewens (PI), Computational Biology Training Program Department of Biology University of Pennsylvania Philadelphia PA 19104 University of Pennsylvania Training Program in Computational Biology The University of Pennsylvania has established an interdisciplinary training program for PhD students and postdoctoral researchers in computational biology. Areas of interest include: biological databases, multiple sequence alignment, molecular evolution and phylogeny construction, physical and genetic mapping, sequence search and analysis, statistical methods, discrete algorithms and combinatorial optimization in biology. The research training program provides core training in molecular biology and genetics, discrete algorithms, mathematical modelling, and probability and statistics, so that important biological problems can be addressed effectively through a collaborative effort between researchers in these different fields. Advanced training draws on the expertise of the faculty, and includes both advanced seminars and laboratory research opportunities. Participating faculty include the following: Peter Buneman (Computer and Information Science): Programming languages: applicative and functional languages, type systems. Fan Chung (Mathematics): Combinatorics and algorithms. Susan Davidson (Computer and Information Science): Real-time database systems: language support and formal methods for distributed real-time programs. Arthur Dunham (Biology): Mathematical models at the interface of physiological ecology and population dynamics. Joe Ecker (Biology): Biochemical mechanisms involved in plant hormone signalling; genome mapping. Warren Ewens (Biology): Mathematical population genetics. Ellis Golub (Biochemistry, Dental School): The relationship between protein sequence, structure and function. Greg Guild (Biology): Sequential activation of ecdysone-regulated genes in Drosophila development; mechanisms of transcriptional regulation. Aravind Joshi (Computer and Information Science): Problems that overlap computer science and linguistics. Sampath Kannan (Computer and Information Science): algorithms in computational biology, complexity theory, randomization and computation. Haig Kazazian (Genetics): The analysis of mutational mechanisms in humans. Steve Liebhaber (Genetics): DNA structure-function relationships. Mitch Marcus (Computer and Information Science): Natural language processing. Max Mintz (Computer and Information Science): Decision making under uncertainty. Chris Overton (Genetics): Genome informatics and biological databases. Peter Petraitis (Biology): Community ecology of marine ecosystems: theoretical ecology. David Roos (Biology): Molecular genetics and cell biology of protozoan parasites; Host-pathogen interactions; Eukaryotic evolution. David Searls (Genetics): Linguistics of biological sequences; genome informatics. Neil Shubin (Biology): Evolution of developmental patterns; origins of the vertebrate limb; Comparative molecular and paleontological phylogenies. Eero Simoncelli (Computer and Information Science): Representation and analysis of visual imagery: distributed parallel representation and computation. Rich Spielman (Genetics): Genetics of susceptibility to complex human diseases. Chris Stoeckert (Children's Hospital of Philadelphia): Understanding the regulation of fetal and adult globin genes in human adults. Santosh Venkatesh (Electrical Engineering): computational learning theory. Tandy Warnow (Computer and Information Science): combinatorial and graph-theoretic algorithms for evolutionary tree construction. All applicants (predoctoral and postdoctoral) to this interdisciplinary program should contact: Computational Biology Training Program Department of Biology University of Pennsylvania Philadelphia, PA 19104-6018 compbio@central.cis.upenn.edu Admission to the predoctoral program requires acceptance into a regular PhD program at the University of Pennsylvania. For application materials contact one of the following: Graduate Admissions Department of Computer and Information Science 200 S. 33rd Street University of Pennsylvania, Philadelphia PA 19104-6389 Graduate Admissions Department of Biology University of Pennsylvania Philadelphia, PA 19104-6018 Biomedical Graduate Studies (Molecular Biology) 240 John Morgan University of Pennsylvania Philadelphia, PA 19104-6064 **************************************************************************** Please return this form with the information filled out to Computational Biology Training Program Department of Biology University of Pennsylvania Philadelphia PA 19104-6018 compbio@central.cis.upenn.edu Computational Biology at Penn Application Name U.S. Citizen, Permanent Resident, or other? Address Email Fax Phone Degree(s) Coursework (undergraduate and graduate) in Mathematics, Computer Science, Probability and Statistics: Coursework (undergraduate and graduate) in Biology, Molecular Genetics, etc.: Coursework (undergraduate and graduate) in other relevant disciplines: Undergraduate GPA and institution Graduate GPA and institution Research interests From owner-evolution@net.bio.net Tue Dec 17 22:00:00 1996 Path: biosci!rutgers!gatech!csulb.edu!hammer.uoregon.edu!news.uoregon.edu!newsfeed.orst.edu!news.orst.edu!gus.FSL.ORST.EDU!krutovsk From: krutovsk@fsl.orst.edu (Konstantin Krutovskii) Newsgroups: bionet.molbio.evolution Subject: GRADUATE ASSISTANTSHIPS - PLANT/TREE MOLECULAR GENETICS Date: Tue, 17 Dec 1996 21:12:29 Organization: Forestry Sciences Lab Lines: 44 Message-ID: NNTP-Posting-Host: gus.fsl.orst.edu X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] GRADUATE ASSISTANTSHIPS - PLANT/TREE MOLECULAR GENETICS Two Graduate Research Assistantships are available in the Department of Forest Science at Oregon State University beginning July 1997. Students must apply and be accepted into either the Department of Forest Science, the Molecular and Cellular Biology Program, or the Genetics Program at OSU. Doctoral students are preferred, but outstanding students who lack a Masters are also encouraged to apply. Students should have excellent grades and GRE scores; strong course and/or research experience in molecular genetics; and demonstrated ability to write and speak English well. Three to five years of half-time support, and tuition remission, are available subject to adequate performance in research and coursework. Students may work on a variety of topics related to gene identification, genetic engineering, and genome mapping. Most work in the laboratory deals with poplars and Douglas-fir. Students may develop other areas for research, however, current topics of interest include: - Isolation and manipulation of floral homeotic genes for engineering of reproductive development -Effects of matrix attachment regions on gene silencing in transgenic poplars -Population genetic studies of gene diversity and gene flow using microsatellite markers -Genetic engineering of systems for inducible sterility/fertility -Molecular engineering of genotype independent transformation systems -Ecophysiological consequences of genetic engineering for lignin modification -Development of microsatellite marker-maps and use for QTL analysis For information or an application form (specify department), contact Steve Strauss, Dept. of Forest Science, Oregon State University, Corvallis, OR 97331-7501, fax 541 737 1393, phone -6578, strauss@FSL.orst.edu From owner-evolution@net.bio.net Tue Dec 17 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!online.no!sn.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!news-peer.gsl.net!news.gsl.net!portc01.blue.aol.com!newsstand.cit.cornell.edu!news.acsu.buffalo.edu!dsinc!netnews.upenn.edu!central.cis.upenn.edu!tandy From: tandy@central.cis.upenn.edu (Tandy Warnow) Newsgroups: bionet.molbio.evolution Subject: Programmer sought Date: 17 Dec 1996 22:19:38 GMT Organization: University of Pennsylvania Lines: 76 Message-ID: <59769q$nn7@netnews.upenn.edu> NNTP-Posting-Host: central.cis.upenn.edu Newsgroups: comp.theory Subject: algorithms programmer sought Summary: Expires: Sender: Followup-To: Distribution: Organization: University of Pennsylvania Keywords: Cc: ALGORITHMS PROGRAMMER POSITIION for Evolutionary Tree Construction Methods at the University of Pennsylvania Department of Computer and Information Science Philadelphia PA 19104-6389 I have a position available for a programmer who is highly trained in discrete algorithms. The position will involve algorithm design, implementation, experimental performance analysis, and analysis of hard biological data sets (such as HIV sequences or the mitochondrial DNA data for the African-Eve hypothesis). The project is to design and test new methods for inferring evolutionary history in Biology. I am seeking a programmer who is well-trained theoretically with a solid background in Discrete Algorithms. The undergraduate major should be either Mathematics or Computer Science, with significant coursework in programming languages, algorithms, and data structures. The language we will implement the methods in will be C. Applicants with advanced degrees (Masters and/or PhD) are also sought for positions which may include experimental work in algorithms and implementation. The research team includes Scott Nettles, an experimental computer scientist; Ken Rice, a systematic biologist, and Tandy Warnow, a theoretical computer scientist. The University of Pennsylvania has an active research program in Discrete Mathematics and Theoretical Computer Science, and an NSF-funded training program in Computational Biology. We are also located close to other universities and research laboratories, and are 1.5 hours south of DIMACS. The position is available now and will remain open until filled. Please send: list of courses taken in computer science and mathematics, along with grades names and phone numbers of people willing to write reference letters vita and list of publications, if applicable to: tandy@central.cis.upenn.edu or Tandy Warnow 200 S. 33rd Street Department of Computer and Information Science University of Pennsylvania Philadelphia PA 19104-6389 Students considering applying for the PhD program in Computer Science who are interested in theoretical computer science and/or computational biology are also encouraged to apply. For information on how to apply to Penn's PhD program in Computer and Information Science, contact Mike Felker at mfelker@central.cis.upenn.edu. Tandy Warnow From owner-evolution@net.bio.net Tue Dec 17 22:00:00 1996 Path: biosci!agate!spool.mu.edu!newspump.sol.net!howland.erols.net!dciteleport.com!newsfeed.internetmci.com!compuserve.com!news.production.compuserve.com!news From: Bob Obar <102063.2640@CompuServe.COM> Newsgroups: bionet.cellbiol,bionet.molbio.evolution,bionet.molbio.gdb,bionet.molbio.genbank,bionet.molbio.proteins Subject: Alu sequences within dbEST entries Date: 18 Dec 1996 12:50:36 GMT Organization: Matritech, Inc. Lines: 17 Message-ID: <598pas$1s2$1@mhafc.production.compuserve.com> Xref: biosci bionet.cellbiol:6233 bionet.molbio.evolution:5444 bionet.molbio.gdb:549 bionet.molbio.genbank:2444 bionet.molbio.proteins:9576 Several of the EST sequences I've been analyzing contain Alu sequences (specifically, the warning that shows up in the Definition field is something like "similar to contains Alu repetitive element;contains element L1 repetitive element." Can anyone explain: A) Why these sequences should be present AT AL in ESTs, which are supposed to represent cDNAs; or B) What to do about them when aligning the ESTs and e.g. trying to make contigs from them? I'd like to just ignore them when analyzing the DNA they're fused to, but is this acceptable practice? Is there any meaning in the presence of these sequences in some cDNAs but not others? Any help by email or posting would be greatly appreciated. -- Bob Obar 102063.2640@compuserve.com From owner-evolution@net.bio.net Wed Dec 18 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!online.no!sn.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-hub1.bbnplanet.com!uunet!in2.uu.net!151.112.2.1!mail.llu.edu!usenet From: Jeffrey Sonnentag Newsgroups: bionet.molbio.evolution Subject: Iguana Symposium Date: Thu, 19 Dec 1996 09:24:41 -0800 Organization: Loma Linda University Medical Center Lines: 49 Message-ID: <32B97A59.71A@sc.llu.edu> Reply-To: sonnjef@sc.llu.edu NNTP-Posting-Host: 151.112.2.31 Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (Win16; I) MEETING ANNOUNCEMENT IGUANA SYMPOSIUM To be held at the 77th Annual Meeting of the American Society of Ichthyologists and Herpetologists, 26 June - 2 July 1997, at the University of Washington, Seattle, WA. The Herpetologists League (HL), the Society for the Study of Amphibians and Reptiles (SSAR), the Early Life History (ELH) Section of the American Fisheries Society (AFS), the American Elasmobranch Society (AES), and the Gilbert Ichthyological Society (GIS) will all meet jointly with ASIH (See http://artedi.fish.washington.edu/asih/asih97.html). Symposium Title EVOLUTION, ECOLOGY AND CONSERVATION OF IGUANAS Ronald L. Carter and William K. Hayes, Co-organizers ====================================================================== Interest in the biology of iguanas has greatly increased in the last few years. A list of current iguana researchers is in excess of sixty individuals. Many iguana specialists have expressed the desire to dialogue with the full community of investigators who are working with iguanas in various disciplines such as systematics, evolution, behavior, physiology and ecology. It has been 14 years since publication of the important book "Iguanas of the World", edited by Gordon M. Burghardt and A. Stanley Rand. Once again it appears timely to amass a new corpus of data for publication. New data on the biology of iguanas are being collected and much of these data are yet unpublished. The purpose of this symposium is to facilitate communication of ideas, the networking of iguana researchers and ultimately a better understanding of iguana biology and the conservation of these marvelous organisms. For additional information contact Ronald L. Carter or William K. Hayes, Department of Natural Sciences, Loma Linda University, Loma Linda, CA 92350 USA; telephone (909) 824-4530; or send E-mail to rcarter@ccmail.llu.edu or whayes@ccmail.llu.edu ====================================================================== If you are interested in presenting a paper, you may wish to inform us soon of your desire and provide a tentative title or topic. We would like to create a list of tentative speakers and add it to the ASIH meeting announcement on the internet, as other symposia organizers have already done. From owner-evolution@net.bio.net Wed Dec 18 22:00:00 1996 Path: biosci!daresbury!nntp-trd.UNINETT.no!nntp.uio.no!www.nntp.primenet.com!nntp.primenet.com!howland.erols.net!math.ohio-state.edu!jussieu.fr!fdn.fr!med.univ-tours.fr!univ-angers.fr!ciril.fr!cnusc.fr!univ-lyon1.fr!news From: duret@misa.univ-lyon1.fr (Laurent Duret) Newsgroups: bionet.cellbiol,bionet.molbio.evolution,bionet.molbio.gdb,bionet.molbio.genbank,bionet.molbio.proteins Subject: Re: Alu sequences within dbEST entries Date: 19 Dec 1996 08:59:35 GMT Organization: Universite Claude Bernard - Lyon 1 Lines: 73 Message-ID: <59b05n$j0@tempo.univ-lyon1.fr> References: <598pas$1s2$1@mhafc.production.compuserve.com> Reply-To: duret@misa.univ-lyon1.fr NNTP-Posting-Host: misa.univ-lyon1.fr Xref: biosci bionet.cellbiol:6243 bionet.molbio.evolution:5446 bionet.molbio.gdb:552 bionet.molbio.genbank:2446 bionet.molbio.proteins:9581 In article <598pas$1s2$1@mhafc.production.compuserve.com>, Bob Obar <102063.2640@CompuServe.COM> writes: > Several of the EST sequences I've been analyzing contain Alu >sequences (specifically, the warning that shows up in the Definition >field is something like "similar to contains Alu repetitive >element;contains element L1 repetitive element." > > Can anyone explain: > A) Why these sequences should be present AT AL in ESTs, which are >supposed to represent cDNAs; [...] > Is there any meaning in the >presence of these sequences in some cDNAs but not others? Repeats such as Alu have been found inserted not only in intergenic sequences, but also within genes: within introns, 5'UTRs, 3'UTRs and even - albeit less frequently - in coding regions. A simple (simplistic) model of selection can explain the distribution of repeated elements in a genome: repeated elements may insert themselves anywhere, but insertions that disrupt an essential function are eliminated by selection. In other words, any insertion that does not disrupt an essential function can be tolerated and fixed in the population. This model can explain why repeated elements are more common in intergenic regions or introns than in UTRs and even more than in coding regions. Hence if you find an Alu repeat within a gene, then it probably just means that it does not affect the function of this gene (although there are also a few cases where repeated elements have been shown to be involved in the regulation of a gene... evolution is opportunistic: if an insertion appears be useful then it may be positively selected). Eventually, it is not surprising to find Alu repeats within some mRNAs. Moreover, EST sequences do not all correspond to functional mRNAs. Any polyadenylated transcript can be found among ESTs (e.g. it is likely that some pseudogenes are still transcribed). So it is not surprising to find "junk transcripts" (by analogy to junk DNA) among EST sequences. > B) What to do about them when aligning the ESTs and e.g. trying to >make contigs from them? For similarity searches (BLAST, FASTA, ...), you can use the XBLAST program to mask Alu (or other) repeats within sequences and thus avoid the spurious matches with the thousands of Alu-containing sequences. XBLAST is available by anonymous FTP at ncbi.nlm.nih.gov in /pub/jmc/xblast. For a discussion of this problem see Claverie & States 1993 Comput. Chem. 17:191-201 or Altschul et al. 1994 Nature genet. 6:119-129 This solution could be suitable for contiging if the repeat is not too long. Otherwise I don't know if there is any simple solution. Hope this helps, Laurent Duret __________________________________________________________________________ Laurent Duret Laboratoire BGBP - UMR CNRS 5558 Phone : +33 472 44 80 00 p.34 39 Universite Claude Bernard - Lyon 1 FAX : +33 478 89 27 19 43 Bd du 11 Novembre 1918 e-mail : duret@biomserv.univ-lyon1.fr F-69622 Villeurbanne Cedex ======================== France __________________________________________________________________________ From owner-evolution@net.bio.net Fri Dec 20 22:00:00 1996 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!www.nntp.primenet.com!nntp.primenet.com!howland.erols.net!news.sprintlink.net!news-peer.sprintlink.net!uunet!in3.uu.net!192.89.123.24!nntp.inet.fi!news.funet.fi!news.helsinki.fi!kruuna.Helsinki.FI!mkolkkal From: mkolkkal@cc.Helsinki.FI (Mikko J Kolkkala) Newsgroups: bionet.molbio.evolution Subject: Re: Why aren't rabbits green? Date: 21 Dec 1996 18:00:48 GMT Organization: University of Helsinki Lines: 19 Message-ID: <59h8kg$53i@oravannahka.Helsinki.FI> References: <5417h1$32ag@uvaix3e1.comp.UVic.CA> NNTP-Posting-Host: kruuna-ether.helsinki.fi Mime-Version: 1.0 Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: 8bit X-Newsreader: TIN [version 1.2 PL0] Grace K Hsu (ghsu@ic.sunysb.edu) wrote: : > : > Given the fact that rabbits are rather defenceless prey animals that : > spend almost all of their life outside the warren eating against a : > green background, why haven't they evolved to be green? Partial explanation could be the poor ability of mammalian predators to see colours - grass is not green for them! On the other hand some avian predators have excellent colour vision, so green fur _could_ be useful for rabbits. -- (: Mikko Kolkkala :) (: Department of Biosciences, :) :) email: mkolkkal@helsinki.fi (: :) Division of Genetics (: (: tel +358-9-70859115 :) (: P.O. box 56, FIN-00014 :) :) http://www.helsinki.fi/~mkolkkal (: :) University of Helsinki (: From owner-evolution@net.bio.net Fri Dec 20 22:00:00 1996 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!cam-news-hub1.bbnplanet.com!howland.erols.net!news.nacamar.de!news-kar1.dfn.de!news-fra1.dfn.de!news-koe1.dfn.de!violet.mpiz-koeln.mpg.de!violet.mpiz-koeln.mpg.de!not-for-mail From: Jan Kim Newsgroups: bionet.info-theory,bionet.molbio.evolution Subject: CFP: German Workshop on Artificial Life Date: 20 Dec 1996 23:40:33 GMT Organization: MPI fuer Zuechtungsforschung Lines: 271 Message-ID: <59f85h$eog@violet.mpiz-koeln.mpg.de> NNTP-Posting-Host: violet.mpiz-koeln.mpg.de X-Newsreader: TIN [UNIX 1.3 unoff BETA release 961022] Xref: biosci bionet.info-theory:4445 bionet.molbio.evolution:5448 Call for papers and participation for the SECOND GERMAN WORKSHOP ON ARTIFICIAL LIFE (GWAL'97) Dortmund, April 17-18, 1997. Intention Artificial Life (AL) is an interdisciplinary field of science that is focused on abstracting the essential features and dynamics of living systems in order to create models of these systems in "artificial" media, i.e. media that are man-made and different from the media in which the systems live in Nature. The major goals of such activities are: * To open up new pathways for investigating and understanding living systems. * To make complex features of living systems available for the design of artificial systems, such as computer programs and robots. * To contribute to the building of formal theories describing living systems. Relevant contributions to Artificial Life have originated from mathematics, physics, information and computer sciences, biosciences, medicine, psychology, social sciences, and many other disciplines. While the emergence of Artificial Life as a scientific community took place about a decade ago, opportunities for scientists who use AL approaches in their work to communicate with their interdisciplinary colleagues are still rather scarce. The German Workshop on Artificial is intended to bring together scientists from Germany and other countries who are pursuing Artificial Life projects. Equally importantly, the workshop is intended as a forum for scientists who would like to get into contact with the Artificial Life community. Workshop Format The GWAL is intended to mediate lively discussions and exchange of ideas in addition to providing an impression of AL related activities in Germany and other countries. To allow participants to get a survey of the diversity of AL, and to provide ample opportunity for individual discussions, poster sessions and demonstrations of Artificial Life systems will be the main element of the GWAL. Furthermore, there will be workgroup sessions. In the workgroups, subfields of AL will be introduced by presenting substantial work from the area, thus providing a starting point for a thorough and in-depth discussion of the subject by all participants in the workgroup. Submissions A. Submissions for talks and posters Submissions are invited for oral and poster sessions. They should be sent as extended abstracts no longer than two pages of text and two pages of accompanying figures. Submissions are invited on all issues pertaining to artificially living and life-like systems, including the following topics: * Modelling biological processes and living systems, such as evolution, ecology, morphogenesis, immune systems, neuronal systems, perception and pattern recognition, intelligence, adaptive behaviour, learning, and others. * Emergence of biological complexity. * Dynamics of information in living and life-like systems. * Self-organization in living and life-like systems (e.g. swarms, hypercycles, multicellular systems, artificial multi-agent systems). * Applications of principles and features of living systems, such as intelligence, self-organization, evolution, adaptation, learning, for the design of artificial systems and technical solutions such as robots, computer programs, and hardware. * Philosophical and ethical issues. * Other issues relevant to Artificial Life. In addition to reporting research work, submissions may describe research projects or discuss interesting open questions. Submissions will be accepted either for talks or for posters. Communication about Artificial Life systems can often be strongly improved by demonstrations, therefore, all presentations may be accompanied by demonstrations (e.g. of computer programs or robots). Arrangements regarding technical equipment necessary for demonstrations can be made with the local workshop organizers. B. Proposals for workgroups Workgroups are intended to allow in-depth discussions of specific subfields of Artificial Life. Workgroups will be organized by groups of at least two scientists who are willing to give an introductory survey of the subject. Workgroup organizers should focus on describing the essence of the subfield, i.e. the fundamental motivations, major approaches and achievements, open questions etc. to the other participants. Proposals for workgroups should be submitted as descriptions of up to three pages. Descriptions should include: * An outline of the subject of the proposed workgroup. * An indication what audience would be interested in participating in the proposed workgroup. * Some references to substantial contributions that have been made in the subfield. All submissions should be sent to: German Workshop on Artificial Life Lehrstuhl fuer Systemanalyse (LS 11) Fachbereich Informatik Universitaet Dortmund D-44221 Dortmund email: gwal@ls11.informatik.uni-dortmund.de Organization The GWAL is organized by the Lehrstuhl fuer Systemanalyse, Institut fuer Informatik, Universitaet Dortmund (Chair of Systems Analysis, Dept. of Computer Science, University of Dortmund). The GWAL is co-organized by the Fachgruppe 4.0.2 "Informatik in den Biowissenschaften" of the Gesellschaft fuer Informatik (GI) and by the Arbeitskreis "Artificial Life" of the GI. The program committee for the GWAL is: Wolfgang Banzhaf, Dortmund Wilfried Brauer, Muenchen Thomas Christaller, Sankt Augustin Kerstin Dautenhahn, Bruessel Jochen Heistermann, Muenchen Ralf Hofestaedt, Magdeburg Frieder Lohnert, Berlin Hanspeter A. Mailot, Tuebingen Christian Mueller-Schloer, Hannover The organizing committee for the GWAL is: Wolfgang Banzhaf, Dortmund Peter Dittrich, Dortmund Jan T. Kim, Koeln Hilmar Rauhe, Dortmund Conference language Submissions may be written in English or in German. We encourage submitters to prepare their communications in English (so that participants from other countries can follow their presentations). Important dates: Deadline: February 14., 1997 Notification: March 14., 1997 Workshop: April 17.-18., 1997 Location The GWAL will be held in Haus Bommerholz, a guest house run by the University of Dortmund. The address is: Haus Bommerholz Bommerholzer Str. 60 58456 Witten-Bommerholz Tel. +49-(0)2302 39 60 Fax. +49-(0)2302 39 63 20 The number of participants of the GWAL is limited to 100. Haus Bommerholz can provide accomodation for up to 50 participants. Rooms are available on a first come, first serve basis. Prices for accomodation in Haus Bommerholz for the two workshop days are double room (*) single room (*) no room (**) -------------------------------------------------------------------- regular 178,- 198,- 112,- university staff 152,- 165,- 94,- Uni DO staff 104,- 123,- 76,- student 66,- 72,- 46,- (**) includes: usage of seminar and recreation facilities for 2 days, 2 (warm) lunches, 4 coffee breakes (*) includes: (**) and 1 breakfast, 1 dinner, bed for one night (17. to 18.) The rooms are hotel-like and comfortable (bathroom, shower, TV, phone). If you like to stay additional days (e.g. 16. to 17. Apr.) the prices for a room incl. breakfast are: double room single room -------------------------------------------------------------------- regular 61,- 104,- university staff about 55,- about 90,- student 25,- 31,- Prices in DM (german mark) without guaranty of correctness. Payable on site in bar or via EC card (no credit cards). In addition to the cost for accomodation we may have to collect a small fee covering our expenses for advertising, workshop handouts etc. Registration and further information. If you are interested in participating in the GWAL, please pre-register by sending email to gwal@ls11.informatik.uni-dortmund.de as soon as possible. Please use the form attached to this document. You will then receive further information by email. Information regarding registration for the GWAL will also be announced in the WWW on the GWAL homepage: http://ls11-www.informatik.uni-dortmund.de/GWAL/ For any further information, please feel free to contact the GWAL organizers: German Workshop on Artificial Life Lehrstuhl fuer Systemanalyse (LS 11) Fachbereich Informatik Universitaet Dortmund D-44221 Dortmund email: gwal@ls11.informatik.uni-dortmund.de ----------------8<-------------- BEGIN FORM -------------8<------------- GWAL '97 2. German Workshop on Artificial Life Yes, I am interested in the participation of the GWAL '97. Please send me more information. Surname: ___________________________ First name: ______________ Title: o Prof. o Dr. o Mrs. o Mr. Institution/ Company: _______________________________________________________ _______________________________________________________ Mailing Address: _______________________________________________________ Postal Code: _______________________________________________________ City: _______________________________________________________ Country: _______________________________________________________ Phone: _______________________________________________________ Fax: _______________________________________________________ E-Mail: _______________________________________________________ WWW(URL): _______________________________________________________ Planed arrival: o 16. April o 17. April o 18. April Planed departure: o 17. April o 18. April o 19. April Planed accomodation: o Haus Bommerholz o other Planed contribution: o talk o poster o work group o demo o none ----------------8<--------------- END FORM -----------------8<---------------- From owner-evolution@net.bio.net Sun Dec 22 22:00:00 1996 Path: biosci!unq.edu.ar!gustavo From: gus