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TDWG 2003 Annual Meeting - Call for Papers
by Adrian Rissone 04 Sep '03

04 Sep '03

This is a call for papers and posters for the TDWG Annual Meeting to be held in October 2003 at the Instituto Gulbenkian de Ciencia, Oeiras, Lisboa, Portugal. Please see the meeting web site for details: http://www.tdwg.org/2003meet/TDWG2003.htm Titles and abstracts (up to 200 words) should be submitted *as soon as possible* to the Programme Coordinator (Adrian Rissoné <A.Rissone(a)nhm.ac.uk>). Indicate whether you are willing to make your final contribution available on the TDWG website (for example, as a PowerPoint document). Presentations should not exceed 30 minutes. In previous years it has been necessary to reduce this time to 20 minutes so please design presentations to be shortened easily if required. Please try to make your contribution relevant to the primary themes of the meeting, which has special emphasis on Taxonomic Names, interoperability, and the provision of data via the Web. Papers or posters addressing collaboration and interoperability would be welcome, papers on "my cool website" or "the status of informatics at my institution" less so (unless directly addressing "lessons learned" and how to move forward). Looking forward to seeing you in Portugal, regards, Adrian Rissone A.Rissone(a)nhm.ac.uk

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Phyloinformatics: a new journal
by Dennis DeGreve 27 Aug '03

27 Aug '03

Phyloinformatics: new journal - call for papers - editors wanted - http://phyloinformatics.org Dear taxonomist, Phyloinformatics is a new, non-profit, international, peer reviewed, open access journal dedicated to publishing high quality papers on the use of informatics in taxonomy and phylogenetics. Taxonomist often need to manage fairly large amounts of data for which elegant solutions are needed. And the inference of phylogeny itself is impossible without the use of computers and optimized algorithms. To help this emerging field of taxonomy grow, we have started Phyloinformatics. Phyloinformatics is not a regular journal: it's only available online and it's open access. Phyloinformatics offers all published papers as a free PDF download, there are no subscription or login procedures for readers and no page charges for authors. But open access means more than just free: our authors remain the copyright holders of their work. Being an online journal has lots of advantages: papers can be published very fast and are available to anyone with a computer and internet connection. CALL FOR PAPERS Phyloinformatics is just starting now and we are looking for high quality manuscripts in one of the following two categories: - Papers Describing new research developments in computational taxonomy, for example: new evolutionary models, algorithms, software involving new methods, taxonomic databases, proposals for new file formats and network information services, and their impact on taxonomy. - Application Notes Short descriptions about new software or new algorithm implementations, databases and network services. The software or data should be available online as free- or donationware. We are planning to publish our first articles before the end of 2003. Visit our site for more information on manuscript submission EDITORS WANTED We are looking for senior taxonomists with experience in the field of phylogenetic analysis and/or taxonomic databases who would like to join the editorial board. Just send an e-mail to editor(a)phyloinformatics.org The editorial board will be announced on our website soon. Apologies for any cross-postings. Sincerely, Dennis DeGreve Editor Phyloinformatics editor(a)phyloinformatics.org http://phyloinformatics.org

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Further details on TDWG 2003
by Georgina MacKenzie 08 Aug '03

08 Aug '03

TDWG 2003 Annual Meeting, 21-26 October 2003 Instituto Gulbenkian de Ciência, Oeiras, Portugal A special room rate has been negotiated at the Hotel Praia Mar, http://www.maisturismo.pt/aapmar, which is close to the Gulbenkian Institute. During the meeting, a shuttle bus will be arranged, but it is also possible to walk, or get a local train. Room reservation: TDWG special rates single room Euro 53.00 double room Euro 58.00 extra bed Euro 20.00 To reserve rooms at the special rate, please be sure to mention TDWG 2003 meeting when booking. You can reserve rooms via the registration option on the hotels web site (in Portuguese) http://www.almeidahotels.com/praiamar_pt.htm. Attendees canfill in "TDWG 2003" in the last box named Comentários (Comments) - that will be enough for the special rates to apply. Or book by fax to +(351) 214573130. It is acceptable to print the form from the web, fill it in and fax it. The hotel will also accept booking in writings, by post, of course. Details on registration for the meeting will appear soon on the TDWG website (www.tdwg.org) along with details on transport options from Lisbon airport to the hotel or institute. Georgina MacKenzie, Secretary, Newsletter Editor and Webmaster, International Working Group on Taxonomic Databases (TDWG) gmackenzie(a)york.biosis.org Telephone: +44 1904 642816 Fax: +44 1904 612793 54 Micklegate, York, YO1 6WF, UK ****************************************************************** This email is intended for the addressee(s) only. If you are not an intended recipient please inform the sender. BIOSIS UK accepts no responsibility for statements clearly those of the sender and not expressly made on behalf of the Company, or for damage caused by any transmitted viruses. ******************************************************************

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TDWG 2003 Annual Meeting
by Georgina MacKenzie 31 Jul '03

31 Jul '03

Taxonomic Databases Working Group (TDWG) Annual Meeting, 21-26 October 2003 Instituto Gulbenkian de Ciência, Oeiras, Portugal The provisional schedule of events for the 2003 meeting is given below. Please note that this schedule is subject to change - further details will appear on the TDWG website (http://www.tdwg.org) as they become available. Events listed on the same day will run in parallel, except events described as plenary, which will run sequentially. Oct 21, Tue: Structure of Descriptive Data (subgroup working meeting) Oct 22, Wed: Structure of Descriptive Data (subgroup working meeting) ABCD Protocol section (subgroup working meeting) Oct 23, Thu: Taxonomic Names (subgroup working meeting) Oct 24, Fri: ABCD Schema section (subgroup working meeting) DiGIR Training (space limited; pre-registration with GBIF required) Evening Reception Oct 25, Sat: Spatial Data Workshop (by invitation) Structure of Descriptive Data (subgroup working meeting) Contributed Papers (plenary) TDWG Banquet Oct 26, Sun: Contributed Papers (plenary) Review and forecast (plenary) Business meeting (plenary) Georgina MacKenzie, Secretary, Newsletter Editor and Webmaster, International Working Group on Taxonomic Databases (TDWG) gmackenzie(a)york.biosis.org Telephone: +44 1904 642816 Fax: +44 1904 612793 54 Micklegate, York, YO1 6WF, UK ****************************************************************** This email is intended for the addressee(s) only. If you are not an intended recipient please inform the sender. BIOSIS UK accepts no responsibility for statements clearly those of the sender and not expressly made on behalf of the Company, or for damage caused by any transmitted viruses. ******************************************************************

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Re: OSIS platform update
by Guillaume Rousse 25 Feb '03

25 Feb '03

Le Mardi 25 Février 2003 18:07, Guillaume Rousse a écrit : > The web site is located at http://lis.snv.jussieu.fr/~rousse/recherche silly me, this is http://lis.snv.jussieu.fr/~rousse/recherche/osis/en -- If such a program has not crashed yet, it is waiting for a critical moment before it crashes. -- Murphy's Computer Laws n°6

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OSIS platform update
by Guillaume Rousse 25 Feb '03

25 Feb '03

I just updated the web site of OSIS, a software framework developped in my laboratory. This project aims to create a shared code base to build systematics application from a common trunk instead of reinventing the wheel constantly, as molecular biology community already do with biojava, bioperl, and similar projects. The only implementation available currently is in Perl, and the only use case is related to database management, but the project scope is wider. It is of course a free software project, so all comments, critics or contributions are welcomed. The web site is located at http://lis.snv.jussieu.fr/~rousse/recherche -- Any cool program always requires more memory than you have. -- Murphy's Computer Laws n°2

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TDWG Meeting in 2004 Costa Rica
by Jim Beach 03 Feb '03

03 Feb '03

Stan Blum and I have been discussing the possiblity of holding a TDWG meeting, likely in Oct-Nov 2004 in Costa Rica at the OTS LA Selva field station. La Selva is a rain forest site and now has nice meeting rooms Internet connectivity and of course spectacular scenery. Housing is field station quality with some private an some double or quad bunk bed rooms. Food and logistics are excellent at the site. I would be grateful for any feedback on whether you would be able to travel to Costa Rica that time of year in 2004 for the TDWG annual meeting. Many thanks, Jim Beach

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Data Entry Query
by Fran Kern 09 Jan '03

09 Jan '03

Hello. I'm currently working on a project to identify and quantify time/cost bottlenecks in data-basing natural history collections. Would anyone know of similar projects happening elsewhere? Or be able to point me in the direction of relevant articles, journals, or meetings? I am casting my net wide by posting this message on several lists - apologies for repetition if you subscribe to the others. Thank you for your help, Fran ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Francisca Kern Rapid Data Entry Assessment Project, Department of Botany The Natural History Museum, Cromwell Road, London SW7 5BD

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Announcement: Mansfeld Symposium 2001 Proceedings
by Dr. Helmut Knuepffer 05 Dec '02

05 Dec '02

Dear colleagues, members of the TDWG Mailing List, we would like to inform you that we are in the final phase of preparing the proceedings volume of the Symposium "Rudolf Mansfeld and Plant Genetic Resources" (held in October 2001 in Gatersleben, Germany) for publication. Attached please find brief information (including the table of contents) about this publication, which is expected to appear in February/March 2003. The Proceedings will contain, among others, some contributions about the Mansfeld Database and other taxonomic databases. In addition, several papers deal with questions of the taxonomy of cultivated plants. Therefore, we consider that some members of the TDWG mailing list might be interested in this information. If you are interested in buying these proceedings (at a price of 10 Euro, including shipment), please inform us as soon as possible, not later than December 20, 2002. We will calculate the number of copies to be printed, based on the expressions of interest received. Please, also inform your colleagues and scientific libraries about this possibility. P.S. We apologise for the possibility of sending multiple copies of this announcement to the same address, due to membership in different mailing lists. With best regards, yours, Helmut Knüpffer and Jörg Ochsmann Editors of the Proceedings Dr. Helmut Knuepffer, Genebank Department Dr. Jörg Ochsmann, Taxonomy Department Institute of Plant Genetics and Crop Plant Research (IPK) Corrensstr. 3 D-06466 Gatersleben, Germany phone: +49-39482-5283 (HK) fax: +49-39482-5155 knupffer(a)ipk-gatersleben.de, ochsmann(a)ipk-gatersleben.de IPK: http://www.ipk-gatersleben.de Genebank Database: http://fox-serv.ipk-gatersleben.de EU Barley Evaluation Project: http://barley.ipk-gatersleben.de/ Mansfeld Database of Cultivated Plants: http://mansfeld.ipk-gatersleben.de

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GenBank/museum connection
by Gordon Jarrell 19 Nov '02

19 Nov '02

The University of Alaska Museum (UAM) is linking its online specimen data to GenBank, and GenBank has reciprocated by linking sequence accessions to UAM specimen records. With a click, users of either resource can jump from a record in one database to the associated record in the other. This enhances scientific reproducibility and begins to realize the potential of independent, yet coordinated, online databases as analytic tools. NCBI's GenBank, with its collaborators in Japan (DNA DataBank of Japan, DDBJ) and in Europe (European Molecular Biology Laboratory, EMBL), is the world's largest, most important biological database, and sequences come from any lifeform, whether cultivated, cultured, or sampled from nature. Submitting sequences to GenBank is a requirement for publication of most sequence-based research, but the supporting data associated with sequences from wild organisms is variable and often renders them unreproducible . For the best of sequence records, additional DNA or tissue samples are archived and source descriptions include institution names and catalog numbers that would permit another investigator to find more information or more material. For UAM, the GenBank connection is a benefit of operating an online database based on the relational model of UC Berkeley's Museum of Vertebrate Zoology (MVZ). That model can contain most of the information a museum associates with its specimens, including "other identifiers," of which a cataloged item can have any number. GenBank numbers are included as a searchable type of "other identifier." In UAM's individual specimen records, GenBank numbers are hyperlinks to GenBank. Thus, when you find a specimen with a GenBank number, you can click on it and look at the sequence. From GenBank's sequence pages you would click on "LinkOut" then the UAM catalog number to look at the specimen data. We are committed to gather and report the data on which our systems are now linked. GenBank can be more than an appendix to published literature. By complementing sequences with documentation of their sources and with documentation of subsequent taxonomic and analytic treatments, we build a composite resource that will be a powerful tool for increasingly fine-grained analyses of genetic variation in nature. Gordon Jarrell, UAM Scott Federhen, NCBI A demonstration/tutorial: http://arctos.museum.uaf.edu:8080/demo/demo_frameset.html Database development at UAM has been supported by grants from NSF (DEB-9981915, DBI-0108161, DBI-9876837) and the Alaska Coastal Marine Institute (U. S. Minerals Managent Service). -- Gordon H. Jarrell, Ph.D Coordinator Alaska Frozen Tissue Collection Acting Curator of Mammals University of Alaska Museum Fairbanks, Alaska USA 99775-6960 office: (907) 474-6946 fax: (907)474-5469

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