From dmerrill from ksu.edu Mon Feb 1 12:36:32 2010 From: dmerrill from ksu.edu (Arthropod Genomics) Date: Mon Feb 1 14:37:23 2010 Subject: [Drosophila] Registration OPEN - Arthropod Genomics Symposium, Kansas City, June 10-13, 2010 Message-ID: <68472F6BEF724AC598E8CADA6DC238A6@ecogenoffice> Arthropod Genomics: New Approaches and Outcomes 4th ANNUAL ARTHROPOD GENOMICS SYMPOSIUM June 10 ? 13, 2010, in Kansas City, USA www.k-state.edu/agc/symp2010 REGISTRATION is now open to attend the 4th Annual Arthropod Genomics Symposium, ?Arthropod Genomics: New Approaches and Outcomes,? June 10 to 13, 2010, in Kansas City. Early registration deadline: Friday, March 26, 2010 Keynote Speaker: Nora J. Besansky University of Notre Dame Population genomics of adaptation and speciation in malaria?s vector Featured Speakers: Michael Akam University of Cambridge, United Kingdom The genome of the Geophilomorph centipede, Strigamia maritima Scott J. Emrich University of Notre Dame Opportunities and challenges of non-model transcriptome sequencing: From corn to wild butterflies and moths Matthew Hudson University of Illinois at Urbana-Champaign Exploring the evolution of social behavior using genome sequencing and analysis Anthony A. James University of California Message in a battle, using whole genome expression analyses to fight vector-borne diseases Michael R. Kanost Kansas State University Functional genomics of cuticle sclerotization in Tribolium castaneum Fabrice Legeai INRA, Rennes, France Prediction and analyses of non coding RNA sequences in the pea aphid genome Barry R. Pittendrigh University of Illinois at Urbana-Champaign The Body Louse genome project Patrick D. Schloss University of Michigan Bugs within bugs: Understanding the influence of the microbiome on arthropod health Christian Schl?tterer Vetmeduni Vienna, Austria Next generation sequencing in population genetics: From experimental evolution to gene expression Zhijian Jake Tu Virginia Tech Anopheles stephensi genome assembly and transcriptome analysis John (Jack) H. Werren University of Rochester Functional and evolutionary insights from the genomes of three parasitoid Nasonia species Evgeny M. Zdobnov University of Geneva, Switzerland Genomics in the light of evolution FUNDING AGENCY PRESENTATIONS Representatives from national funding agencies will make short presentations about funding philosophies and opportunities within their programs. Following each presentation, the floor will be open for questions and discussion. Speakers include: Alan Christensen, NSF Adriana Costero, NIAID, NIH Mary F. Purcell-Miramontes, USDA, NIFA PRE-SYMPOSIUM WORKSHOP: Thursday afternoon, June 10, 4:00-6:00 pm Navigating NCBI?s resources for insect genomics. Terence Murphy, NCBI/NIH, will provide training on utilizing NCBI?s resources for insect genomics. Topics will include accessing data in the RefSeq and Entrez Gene databases, BLink, BLAST, NCBI?s Map Viewer, and other resources. Issues regarding the submission of data to NCBI and options for linking outside resources to NCBI?s databases will also be discussed. There is no cost to attend this optional workshop, but registration is requested. ORGANISM MEETINGS - Friday afternoon/evening, June 11, 5:15-? p.m. Meet with scientists who are also working with your organism of interest during small group gatherings. Group leaders will be identified to coordinate topics and lead discussions. Additional information will be posted to the conference website as details are finalized. POSTER SESSIONS: There will be two poster sessions. Six platform presentations will be chosen from submitted poster abstracts. Abstract Submission Deadline: Wednesday, May 19, 2010. SYMPOSIUM PROGRAM: The symposium sessions will begin Thursday evening, June 10, and continue on Friday and Saturday, with additional events Saturday evening and Sunday morning. Speakers will present new insights from genomic approaches in arthropods and describe the development of tools for genomic analysis. Workshops will be held Thursday prior to the Symposium and Saturday morning. Activities will conclude by noon on Sunday, June 13. ROUNDTABLE DISCUSSION: Sunday morning will highlight a roundtable discussion led by members of the ArthropodBase Consortium regarding the generation of integrated arthropod genome databases and tools for genome projects. Symposium attendees are invited to join the fun as we share our progress by providing feedback on these projects and proposing new possibilities. REGISTRATION: The early registration fee is $295 ($150 for graduate and undergraduate students) on or before Friday, March 26, and will include a welcome reception Thursday evening, breakfast and lunch on Friday and Saturday, and breakfast on Sunday. VENUE: The symposium will take place at the Kansas City Marriott on the beautiful Country Club Plaza. Participants are invited to dine Saturday night at an optional banquet at the BRIO Tuscan Grille. INFORMATION: Visit our website, www.k-state.edu/agc/symp2010, for complete details and brochure. Add your name to the Symposium mailing list, by sending your contact information to dmerrill@k-state.edu. DEADLINES: Early Discount Registration: Friday, March 26 Hotel Reservations: Wednesday, May 19 Poster Abstracts: Wednesday, May 19 Registration: Wednesday, May 19 QUESTIONS: Contact us at (785) 532-3482 or dmerrill@ksu.edu. Please share this announcement with colleagues and students! SPONSOR: Center for Genomic Studies on Arthropods Affecting Human, Animal and Plant Health, Kansas State University Susan J. Brown, Professor Director, Center for Genomic Studies on Arthropods Affecting Human, Animal and Plant Health and Robin E. Denell, Distinguished Professor Chair, AGC Symposium Organizing Committee by Doris Merrill, Program Coordinator K-State Arthropod Genomics Center Division of Biology, Kansas State University 116 Ackert Hall, Manhattan, KS 66506-4901 (785) 532-3482, dmerrill@k-state.edu www.k-state.edu/agc Join the Arthropod Genomics Consortium, formed to increase collaboration and information exchange among the community of scientists performing genomic studies on arthropods. Visit: http://arthropodgenomes.org , to register and learn more! From slawek from univ.rzeszow.pl Sat Feb 6 08:58:20 2010 From: slawek from univ.rzeszow.pl (Slawek Bartoszewski) Date: Sun Feb 7 11:47:30 2010 Subject: [Drosophila] RS3 & RS5 insertions Message-ID: <000f01caa734$71ce3d80$0300a8c0@komputerek> HI, Does anybody know what happenned to the collection of P element collection used for making deficiencies (Ryder eta al., Genetics 2004)? As far as I remember they were kept in Seged. They are annotated in Flybase together with a statement that the stocks are not available. I can't believe that thes lines would be simply discarded. Thanks for help. Slawek Bartoszewski. From jr32 from cam.ac.uk Sun Feb 7 13:21:44 2010 From: jr32 from cam.ac.uk (John Roote) Date: Sun Feb 7 18:53:23 2010 Subject: [Drosophila] RS3 & RS5 insertions Message-ID: <48D58299-43F5-490D-8E94-DE72FFA7FF27@cam.ac.uk> Dear Slawek, Most of the stocks which were held at Szeged have been accepted by Masatoshi Tomaru at the DRGC in Kyoto . This includes the DrosDel collections of P{RS} insertions and the ED collection of molecularly defined deletions. The first 1500 of the RS elements were made available last week - another ~1000 lines will follow soon. In due course this will be reflected in the FlyBase stock record. We are very relieved that the fruits of our labour have gone to such a good home. http://www.drosdel.org.uk/ Deletions: http://kyotofly.kit.jp/cgi-bin/stocks/data_search.cgi#DrosDel http://kyotofly.kit.jp/cgi-bin/stocks/search_res_list.cgi?DB_NUM=1&PREDEF=DrosDel RS lines: http://kyotofly.kit.jp/cgi-bin/stocks/index.cgi http://kyotofly.kit.jp/cgi-bin/stocks/search_res_list.cgi?DB_NUM=1&PREDEF=Szeged We would also like to advertise the new Cambridge protein trap lines, some of which are already available from Kyoto: http://kyotofly.kit.jp/cgi-bin/stocks/data_search.cgi#ProteinTrap http://kyotofly.kit.jp/cgi-bin/stocks/search_res_list.cgi?DB_NUM=1&PREDEF=ProteinTrapCamb http://www.flyprot.org/ Regards John ________________________________________________________ John Roote Department of Genetics University of Cambridge Downing Street Cambridge CB2 3EH Tel: +44 1223 765124 Fax: +44 1223 333992 http://www.gen.cam.ac.uk/department/flylab/flylabwelcome.html From sr120 from hermes.cam.ac.uk Sun Feb 7 11:51:26 2010 From: sr120 from hermes.cam.ac.uk (Steve Russell) Date: Sun Feb 7 18:53:39 2010 Subject: [Drosophila] RS3 & RS5 insertions In-Reply-To: <000f01caa734$71ce3d80$0300a8c0@komputerek> References: <000f01caa734$71ce3d80$0300a8c0@komputerek> Message-ID: <853C5C0E-DD1D-4062-8800-61E7F7285731@hermes.cam.ac.uk> Dear Slawek, The DrosDel insertions are now all in Kyoto. Steve On 6 Feb 2010, at 13:58, Slawek Bartoszewski wrote: > HI, > > Does anybody know what happenned to the collection of P element collection used for making deficiencies (Ryder eta al., Genetics 2004)? As far as I remember they were kept in Seged. They are annotated in Flybase together with a statement that the stocks are not available. I can't believe that thes lines would be simply discarded. > > Thanks for help. > Slawek Bartoszewski. > _______________________________________________ > Dros mailing list > Dros@net.bio.net > http://www.bio.net/biomail/listinfo/dros ------------------------------------------------------------------------------------- Dr Steven Russell Reader in Genome Biology Department of Genetics & Cambridge Systems Biology Centre University of Cambridge s.russell@gen.cam.ac.uk Downing Street Genetics: +44 (0)1223 766929 Cambridge CSBC: +44(0)1223 760254 CB2 3EH Fax: +44 (0)1223 333992 Visit FlySox at http://www.gen.cam.ac.uk/~sr120 Fly functional genomics at http://www.flychip.org.uk Cambridge Systems Biology at http://www.sysbiol.cam.ac.uk ------------------------------------------------------------------------------------- From isabell.witt from uni-koeln.de Fri Feb 12 11:42:05 2010 From: isabell.witt from uni-koeln.de (Isabell Witt) Date: Fri Feb 12 14:04:38 2010 Subject: [Drosophila] eight PhD fellowships Message-ID: <000901caac02$4f389220$eda9b660$@witt@uni-koeln.de> Cologne International Graduate School >From Embryo to old Age, Development, Health and Disease 8 Fellowships 3-year Ph.D. programme starting fall 2010 The University of Cologne has a long-standing tradition and world-wide reputation for top-level molecular biological research. Beginning in Fall 2010 the Research School in Biology ?From embryo to old age: the cell biology and genetics of health and disease? will be offering a high-level Ph.D. programme for students with excellent qualifications. The participating research groups use microbial, plant and animal model systems to investigate cell biological and genetic mechanisms whose perturbation during the life cycle of an organism results in disease. The three-year programme starts with a six-month rotation and course period, followed by a PhD project in one of the participating groups. Seminars and training courses complement the research work. Comprehensive support is provided throughout the programme. The programme language is English. Accepted students will receive a laptop computer and 500 EUR to get started in Cologne. No tuition fees are charged. Eight competitive three-year fellowships (initially 1100 EUR, then 1400 EUR per month) are available. We invite you to apply to the IGSDHD in Cologne, the exciting city in the heart of Europe. To obtain further information please visit our website at: http://www.uni-koeln.de/bio-graduateschool/ Deadline for application is15 April, 2010 Contact: Dr. Isabell Witt, IGSDHD, Z?lpicher Strasse 47 D-50674 Cologne, Phone: +49 (0) 221 470 1683 Fax: +49 (0) 221 470 1632 bio-gradschool@uni-koeln.de From matthieu.louis from crg.es Mon Feb 15 06:32:22 2010 From: matthieu.louis from crg.es (Matthieu Louis) Date: Mon Feb 15 08:50:43 2010 Subject: [Drosophila] 2010 ESF-EMBO Symposium on "Functional Neurobiology in Minibrains", 17-22 October 2010, Barcelona Message-ID: <3D5D1CD799E5E845A756837E94A81683130B764C1B@KLUG.crg.es> Dear colleague, If you share our interest in the organization of behavior, we would like to draw your attention to an upcoming conference on Drosophila systems neuroscience and robotics: ESF-EMBO Symposium on "Functional Neurobiology in Minibrains", 17-22 October 2010, Barcelona (Spain). You will find more information here as well as in the attached document. The goal of this meeting is to review progress towards an integrated understanding of the genetic, molecular, and neuronal basis of behavior in Drosophila. We will examine how our knowledge about biological neural processes can influence (and can be influenced by) the design of robotic neural systems. This symposium is intended to foster exchanges between researchers from the insect, and in particular the Drosophila, community with experts in computational neurobiology & robotics. We should be grateful if you could circulate this announcement. Hoping to see you in Barcelona this fall, Richard Benton Bertram Gerber Matthieu Louis -- Matthieu Louis EMBL-CRG Systems Biology Unit www.crg.es t: +34-93-3160218 From crichards from mdanderson.org Thu Feb 18 11:38:37 2010 From: crichards from mdanderson.org (Richards,Clare B) Date: Fri Feb 19 08:47:18 2010 Subject: [Drosophila] food trouble? Message-ID: <5E2A85A9673FB74896125C8640DDC97423A130A402@DCPWVMBXC0VS1.mdanderson.edu> Hello, I wonder if anyone can lend some insight into our recent problem. We are having a problem with crosses and stocks, at a rate of 1-10%, characterized by many dead/black third instar larvae stretched out on the top of the food, lots of live second instar larvae just above the food on the vial walls, and only a few pupae on the walls. There also seems to be lots of detritus on the vial walls above the food. The food appears to be worked. Anti-anti (Gibcos' antifungal and antibiotic) does not seem to help. It seems that the problem is prevalent in weaker stocks or those with fewer flies. The bulk of the stocks appear to be vigorous as ever. This problem spans numerous batches of food made, lasting almost a month now. As for changes in the food making, we are using the same cook, equipment, recipe, agar, tegosept, and propionic acid. Due to high volume it is possible the batches of cormneal, sugar, ethanol and yeast have changed. Has anyone encountered viral infections in fly stocks? Please feel free to chime in with help and opinions. Thank you, Clare Richards MD Anderson Cancer Center Houston, TX From flatt.thomas from gmail.com Fri Feb 19 06:40:27 2010 From: flatt.thomas from gmail.com (Thomas Flatt) Date: Fri Feb 19 08:47:43 2010 Subject: [Drosophila] grandchildless mutant in D. subobscura Message-ID: Dear All, I am looking for someone who has a copy of the D. subobscura grandchildless mutant stock (http://flybase.org/reports/FBgn0018095.html), first described by Helen Spurway. Walter Gehring has told me recently that he used to keep this stock, in balanced form, but it has most probably been lost or discarded. If you have this stock or you know somebody who might have, I would be extremely grateful for your help. Thank you very much for your time and effort. All the best, Thomas --------------------- Dr. Thomas Flatt Institut f?r Populationsgenetik Veterin?rmedizinische Universit?t Wien Veterin?rplatz 1 A-1210 Wien Austria/Europe VOX +43-1-25077-4334 FAX +43-1-25077-4390 E-mail: Thomas.Flatt@vetmeduni.ac.at http://i122server.vu-wien.ac.at/pop/Flatt_website/flatt_home.html From yakoby from camden.rutgers.edu Fri Feb 19 09:27:34 2010 From: yakoby from camden.rutgers.edu (Nir Yakoby) Date: Fri Feb 19 09:39:36 2010 Subject: [Drosophila] D. bandeirantorum Message-ID: <4B7E9FD6.80008@camden.rutgers.edu> Dear All, I am looking for D. bandeirantorum. I was in touch with a couple of groups in Brazil, but they do not have this fly anymore. I would greatly appreciate if you or someone you know have this stock. Thank you for your help. Best regards, Nir Yakoby -- Nir Yakoby, Ph.D. Assistant Professor Science Building Department of Biology and Center for Computational and Integrative Biology 315 Penn Street Rutgers University Camden, NJ 08102 http://crab.rutgers.edu/~yakoby/ yakoby@camden.rutgers.edu Phone:(856)-225-6150 Fax: (856)-225-6312 From matthewk from indiana.edu Fri Feb 19 22:02:15 2010 From: matthewk from indiana.edu (Kathy Matthews) Date: Fri Feb 19 22:21:11 2010 Subject: [Drosophila] BDSC - New list of GDP insertions to be culled Message-ID: <4B7F50B7.2010004@indiana.edu> Selected obsolete, redundant, or low-use stocks are periodically removed from the Bloomington Drosophila Stock Center collection to make room for new additions. The "pruning page" at http://flystocks.bio.indiana.edu/Cull/pruning.htm provides links to lists of stocks that have been identified for discard and states the last order date for a given set of stocks. Please review the current list for stocks you might want to order before they are discarded. If you think a listed stock warrants continued maintenance at the BDSC please contact us. -- Kathy Matthews Bloomington Drosophila Stock Center Dept. of Biology, Indiana University 1001 E. 3rd St. Bloomington, IN 47405-7005 email: matthewk@indiana.edu voice: 812-855-5782 fax: 812-855-2577 From kercook from indiana.edu Wed Feb 24 12:55:17 2010 From: kercook from indiana.edu (Kevin Cook) Date: Wed Feb 24 12:57:12 2010 Subject: [Drosophila] New stocks from the Bloomington Duplication Project Message-ID: <4B856805.3020601@indiana.edu> For several years, we have been working on a project to provide comprehensive coverage of the X chromosome with Y-linked duplications. We have now placed the first 115 duplication stocks from the project into the Bloomington Drosophila Stock Center collection. These duplications cover ~40% of the X chromosome and are arranged in nested sets so that you can use duplications to map X-linked mutations to small, molecularly defined chromosomal intervals. A list of the new stocks is provided at http://flystocks.bio.indiana.edu/Browse/dp/BDSC-Dps.php and an overview of the project is presented at http://flystocks.bio.indiana.edu/Browse/dp/Dp_overview.htm. -- Kevin Cook, Ph.D. Bloomington Drosophila Stock Center Department of Biology Indiana University 1001 E. Third St. Bloomington, IN 47405-7005 kercook@indiana.edu 812-856-1213 (office) http://flystocks.bio.indiana.edu From ajay.srivastava from yale.edu Wed Feb 24 17:12:24 2010 From: ajay.srivastava from yale.edu (Ajay Srivastava) Date: Fri Feb 26 08:33:55 2010 Subject: [Drosophila] Looking for a postdoc postion Message-ID: <1267049544.4b85a44851952@webmail.med.yale.edu> Hello, I am a senior postdoc (6.5yrs post Ph.D.) in the lab of Dr. Tian Xu and I am currently looking for another postdoc experience. If you have an opening then please e-mail me at: ajay.srivastava@yale.edu or ajay@ualberta.net and I will get back to you with my CV. Thanks, Ajay Ajay Srivastava, Ph.D. Department of Genetics/HHMI Boyer Center for Molecular Medicine Yale University 295 Congress Avenue, New Haven, CT 06536, USA E-mail: ajay.srivastava@yale.edu From jr32 from cam.ac.uk Fri Feb 26 09:28:22 2010 From: jr32 from cam.ac.uk (John Roote) Date: Fri Feb 26 09:39:59 2010 Subject: [Drosophila] stock cull in Cambridge Message-ID: <8E34F43C-1405-488D-B9CD-E8C3429389DE@cam.ac.uk> We will be culling about 500 stocks in April 2010, many of which are from the Ashburner Adh region collection. Please contact me if you have any questions or would like to receive any of them. The list can be downloaded here: http://www.gen.cam.ac.uk/department/flylab/stocks_to_cull_Apr2010.xls Thanks, John ________________________________________________________ John Roote Department of Genetics University of Cambridge Downing Street Cambridge CB2 3EH Tel: +44 1223 765124 Fax: +44 1223 333992 http://www.gen.cam.ac.uk/department/flylab/flylabwelcome.html