From drkjroberts from gmail.com Sun Mar 1 13:41:53 2009 From: drkjroberts from gmail.com (Karl Roberts) Date: Sun Mar 1 14:16:37 2009 Subject: [Arabidopsis] International Science and Engineering Fair - Call for Judges Message-ID: Hi, I am the Plant Sciences Grand Awards Co-Chair for the Intel International Science and Engineering Fair to be held May 10-15, 2009 in Reno, Nevada. I am actively seeking individuals to serve as Grand Awards Judges for the upcoming event. The ISEF is the premier world-wide showcase for student researchers from grades 9-12. This year students from 45 different countries compete for over $4 million dollars in cash awards, scholarships and special awards. In order to assure the quality of our winners, we need your help. As professionals in the biological sciences, you provide the knowledge and expertise necessary to choose the absolute best student finalists from among the many excellent research projects at this year's Fair. If you or your collegues are interested in becoming a Grand Awards judge this year, please visit the official ISEF website: http://www.sciserv.org/isef/judges/index.asp or feel to contact me via e-mail at kroberts@pgcc.edu or by phone at (301) 386-7544. Thanks for your consideration, and I hope to hear from you. Karl J. Roberts, Ph.D. Plant Sciences Grand Awards Co-Chair Intel ISEF From julianthomasp from gmail.com Mon Mar 2 09:52:43 2009 From: julianthomasp from gmail.com (j_thomas) Date: Mon Mar 2 13:29:33 2009 Subject: [Arabidopsis] Return to the RNAi World: Rethinking Gene Expression, Evolution and Medicine Message-ID: <050e2cf1-0817-4a44-a645-b1aa8bc7fa7a@r15g2000prh.googlegroups.com> Dr.Cameron Mello was awarded the 2006 Nobel prize for Medicine , along with colleague Dr. Andrew Z. Fire, for the discovery of RNA interference. In this video, he discusses his research and his experiences as a scientist and recent Nobel Prize. http://bioisolutions.blogspot.com/2009/02/return-to-rnai-world-rethinking-gene.html From R.C.Schuurink from uva.nl Mon Mar 2 11:25:18 2009 From: R.C.Schuurink from uva.nl (Robert Schuurink) Date: Mon Mar 2 13:29:53 2009 Subject: [Arabidopsis] 2 PhD positions at the University of Amsterdam Message-ID: 2 PhD students in Molecular Plant Biology 1.0 FTE each The projects emerged from a collaboration between the Plant Physiology and Population Biology research groups of resp. the Swammerdam Institute for Life Sciences and the Institute for Biodiversity and Ecosystem Dynamics. PhD student 1 is funded by TTI GREEN GENETICS and ALW/NWO and is entitled: "Novel tomatoes that counteract herbivore-mediated suppression of plant defences" (vacancy number 09-1013). When plants are challenged with herbivores they establish defenses but many herbivores are adapted to resist these defenses. Recently we showed that some herbivores, such as mites, can suppress plant defenses, i.e. they are 'stealthy', although this ability varies between individuals within populations. To help tomato plants in coping with defense-repressing pests we will genetically modify tomatoes such that inducible defenses are restored. We will use high-throughput sequencing and qRT-PCR to identify tomato genes targeted by stealthy mites, focusing on regulatory genes involved in production of volatile metabolites and trichome toxins. New tomato lines invulnerable for stealthy-mite manipulations will be tested for resistance under greenhouse conditions. A post-doc researcher will start simultaneously on a parallel research line funded within the same project. PhD student 2 is funded by ALW/NWO and is entitled: "The role of E-2-hexenal and GABA in plant stress responses" (vacancy number 09-1014). Plants are continuously exposed to various forms of (a)biotic stress and have developed an extensive repertoire of responses to cope with it. One of the first reactions is the oxidation of fatty acids in the plasma membrane from which several products can arise such as reactive electrophile species (RES). Evidence is accumulating that plants actively generate RES as signaling molecules. We will focus on the volatile RES E-2-hexenal which is, for example, generated by herbivory, wounding and heat. Earlier research has shown that E-2-hexenal increases g-aminobutyric acid (GABA) levels and this prompted us to ask the question how these two molecules help the plant in dealing with stress. We will use genetic tools to manipulate E-2-hexenal and GABA levels in the model plant Arabidopsis and use various read-outs to determine this. For this research a variety of techniques will be used, including (transient) transgenesis, LC/MS analyses and disease bioassays. Requirements Candidates must hold a Master's degree (or equivalent) in Molecular Biology or Biochemistry, have good communication skills, be able to work in a team and be highly motivated to conduct fundamental scientific research. Further information Information about the vacancies can be obtained from: Dr. Robert C. Schuurink, Tel: +31 (0)20 525 7933 or E-mail: r.c.schuurink@uva.nl Dr. Merijn R. Kant, Tel: +31 (0)20 525 7793 or E-mail: m.kant@uva.nl Appointment The appointment is full-time (38 hours a week) for a total of four years: an initial period of eighteen months, followed by a further two and a half years subject to a positive appraisal. It is expected to result in a PhD thesis. The gross monthly salary is fixed in accordance with the Dutch University regulations for academic personnel and ranges from ? 2.042 in the first year to a maximum of ? 2.612 in the fourth year. Job application Applications should include a letter of motivation, a curriculum vitae, and the names and contact information of three referees. Please indicate the position to which you are applying and quote the corresponding vacancy number in the subject line. Applications may be emailed to application-science@uva.nl, attn.: K. Tensen, Personnel Department, Faculty of Science, University of Amsterdam. Closing date: 14 March 2009 University of Amsterdam The Universiteit van Amsterdam (UvA) is a university with an internationally acclaimed profile, located at the heart of the Dutch capital. As well as a world centre for business and research, Amsterdam is a hub of cultural and media activities. The Universiteit van Amsterdam is a member of the League of European Research Universities. The Faculty of Science at the UvA is one of Europe's foremost institutions of higher education and research in its chosen fields of specialization. It plays an active role in international science networks and collaborates with universities and industry. The Faculty has approximately 2,000 students and 1,500 staff members spread over four departments and ten research institutes. Each institute has its own research programme, a substantial part of which is externally funded by the Netherlands Organization for Scientific Research (NWO), the Dutch government, the EU and various private enterprises. In 2010, the Faculty will relocate to the Science Park Amsterdam. Ambitious building projects are paving the way for this relocation. The move will make the Park one of the largest centres of academic research in the Netherlands. -- ----------------------- Robert Schuurink Associate Professor Swammerdam Institute for Life Sciences University of Amsterdam Plant Physiology Kruislaan 318 1098 SM Amsterdam The Netherlands tel. 020-5257933 fax. 020-5257934 http://home.medewerker.uva.nl/r.c.schuurink/index.html From gerald.schoenknecht from okstate.edu Mon Mar 2 20:55:48 2009 From: gerald.schoenknecht from okstate.edu (Schoenknecht, Gerald) Date: Tue Mar 3 01:48:34 2009 Subject: [Arabidopsis] Postdoc on cytosolic pH regulation Message-ID: A two-year postdoc position on cytosolic pH regulation is available in the Department of Botany at Oklahoma State University, Stillwater, OK, USA. The long term goal of the project is to develop a quantitative understanding of the molecular components that contribute to cytosolic pH regulation in higher plants. Intracellular pH recordings will be performed on intact roots of Arabidopsis and Zea mays by measuring fluorescence from ratiometric pH indicators with a wide field ratio fluorescence imaging system and a confocal laser scanning microscope. As pH indicators fluorescein derivatives (like BCECF) and recombinantly expressed (in Arabidopsis) pH sensitive GFPs will be used. Candidates should have experience in fluorescence spectroscopy on living cells using a wide field imaging system and / or a CLSM. Documented ability to communicate effectively in English both in writing and spoken language is required. The position is available starting April 1, 2009. Please send your curriculum vitae, a letter of research interests, list of publications, and contact information for three references to gerald.schoenknecht@okstate.edu. For additional information, please contact: Dr. Gerald Schoenknecht |Tel.: +1(405) 744 5549 Oklahoma State University, Dept. of Botany 104 Life Sciences East, Stillwater, OK 74078-3013, USA gerald.schoenknecht@okstate.edu |Fax:+1 (405) 744 7074 http://botany.okstate.edu/schoenk/ From w.orczyk from ihar.edu.pl Tue Mar 3 12:40:09 2009 From: w.orczyk from ihar.edu.pl (=?iso-8859-2?Q?Wac=B3aw_Orczyk?=) Date: Tue Mar 3 18:09:59 2009 Subject: [Arabidopsis] Good replacement for Vector NTI In-Reply-To: <050e2cf1-0817-4a44-a645-b1aa8bc7fa7a@r15g2000prh.googlegroups.com> Message-ID: <200903031740.n23He9sv018173@allel.ihar.edu.pl> Hi, I am looking for a good alternative of Vector NTI (and compatible with VNTI files). The recent change of Invitrogen's licensing policy (current price vs. number of computers you can run the program) is quite difficult to accept. There are already some programs available but it is quite difficult to evaluate/compare without actually learning how to use them. Anybody could compare Vector NTI with let say: - Lasergene (http://www.dnastar.com/products/lasergene.php), - CLC Bio (http://www.clcbio.com/upgrade) or anything else? Cheers, Vaclav From jdfriesner from ucdavis.edu Thu Mar 5 14:14:01 2009 From: jdfriesner from ucdavis.edu (Joanna Friesner) Date: Thu Mar 5 16:24:27 2009 Subject: [Arabidopsis] Reduced registration deadline: March 27th Message-ID: <200903051914.n25JE1c9021671@citheronia.ucdavis.edu> Dear All The 20th Arabidopsis Research will take place June 30th- July 4th 2009 in the historic and vibrant city of Edinburgh, Scotland. Please note that you have less than one month left to take advantage of the early bird discount which will end on the 27th March. http://arabidopsis2009.com/registernow.html To see the new ad with sessions and speakers listed go to: http://www.arabidopsis.org/portals/masc/journal.jsp#icar09ad For a full programme visit http://arabidopsis2009.com/programme.html and http://arabidopsis2009.com/speakers.html The conference will consist of two plenary sessions each morning and four concurrent sessions each afternoon, which will include presentations chosen from submitted abstracts. As in the past, the conference will feature a number of community-led workshops that will provide opportunities for focused discussion, whilst three poster sessions will provide ample time for research discussion. Delegates will also have a free afternoon between the Friday morning sessions and evening poster session to engage in networking, scientific discussion and to explore Edinburgh and it’s surroundings. If you would like to hold a community workshop please see the instructions at http://arabidopsis2009.com/workshops.html Important Deadlines Discounted Early Registration Fee Closes 27th March 2009 Oral Abstract Submission Closes 1st April 2009 Poster Abstract Submission Closes 1st May 2009 Regular Registration Closes 15th June 2009 From jiangyqcn from hotmail.com Thu Mar 5 11:54:25 2009 From: jiangyqcn from hotmail.com (Y Jiang) Date: Thu Mar 5 16:24:53 2009 Subject: [Arabidopsis] replies to "How to check ROS levels in plants" Message-ID: Hi there, a few days ago, I posted here to ask "how to check ROS levels in plants" and received a few replies. Thanks them. For those who also want to see the answers, posted as follows: Hi, maybe you did alredy got your answer otherwise you could use DAB stainig. is a Diaminobenidine sensitive to H2O2. Di Diana Molino Laboratoire de Biologie Cellulaire INRA Versailles Route de St-Cyr (RD10) F-78026 VERSAILLES Cedex Tel: +33 1 30 83 31 13 Fax: +33 1 30 83 30 99 you can try with d399 of molecular probs Yuval Kaye Department of Plant & environmental Sciences Institute of Life Sciences The Hebrew University of Jerusalem Givat Ram, Jerusalem, 91904, Israel E-Mail:yuval.kaye@mail.huji.ac.il I can suggest you few ways: -Fluorescence using a ROS-specific dye. I use H2DCFDA from invitrogen, in conjuction with fluorescence microscope or microplate fluorescence reader. Krause, M., and Durner, J. (2004). Harpin inactivates mitochondria in Arabidopsis suspension cells. Mol Plant Microbe Interact 17, 131-139.-- Cristina -Cerium deposits + electron microscopy Yao, N., Tada, Y., Sakamoto, M., Nakayashiki, H., Park, P., Tosa, Y., and Mayama, S. (2002). Mitochondrial oxidative burst involved in apoptotic response in oats. Plant J 30, 567-579. Have fun, Cristina Palmieri M. Cristina, phD student Helmholtz Zentrum M?nchen Institute of Biochemical Plant Pathology (BIOP) Ingolst?dter Landstra?e 1, D-85764 Munich Tel. +49 (0)8931873293 e-mail cristina.palmieri@helmholtz-muenchen.de Hi Y Jiang, There are few common staining methods that are use for several type ROS. H2O2 is normally the usual suspect in all stress conditions since it has the longest half life of all ROS types. Another ROS type is superoxide ions which are quickly dismutase to H2O2. I attach here for you methods for both types - for H2O2: DCF-DA and DAB staining, for superoxid: NBT staining. I suggest you try to stain H2O2 because it is the easiest and usually it is sufficient. Good luck, Gadi Gad Miller, Ph.D Biochemistry Department Mail Stop 200 University of Nevada Reno NV 89557 775-784-4071 _________________________________________________________________ Reunite with the people closest to you, chat face to face with Messenger. http://go.microsoft.com/?linkid=9650736 From zepedrof from gmail.com Thu Mar 5 08:05:10 2009 From: zepedrof from gmail.com (Jose Pedro Fonseca) Date: Thu Mar 5 16:26:02 2009 Subject: [Arabidopsis] arabidopsis systematics Message-ID: <774498f60903050505w60a85a93medf3d8483f138cf0@mail.gmail.com> Hi there, Could anyone recommend a good website for Arabidopsis systematics with pictures and diagrams of plant tissue/organs please? I have GUS expression in leaves transformed with my constructs and would like to describe the pattern of reporter expression properly. many thanks, Jose From pushpakoirala from gmail.com Thu Mar 5 19:27:25 2009 From: pushpakoirala from gmail.com (Pushpa Koirala) Date: Thu Mar 5 19:50:04 2009 Subject: [Arabidopsis] Basta Message-ID: Hi everyone, We need to do screening of some transformation events in Arabadopsis with Basta as a selection marker. So,could any body give me any idea ,where can I get it in affordable price?Please give me some choices ,so I could compare price and quantity ,because we need to use a lot. From ijgmb from acadjourn.org Sat Mar 7 08:15:30 2009 From: ijgmb from acadjourn.org (International Journal of Genetics and Molecular Biology) Date: Sat Mar 7 18:46:02 2009 Subject: [Arabidopsis] call for papers Message-ID: *International Journal of Genetics and Molecular Biology* *www.academicjournals.org/IJGMB * Dear Colleague, *Introducing =91**International Journal of Genetics and Molecular Biology* = * (IJGMB)=92* The *International Journal of Genetics and Molecular Biology* (IJGMB) publishes high-quality solicited and unsolicited articles, in all areas of the subject. All articles published in IJGMB will be peer-reviewed. The following types of papers are considered for publication: =B7 Original articles in basic and applied research. =B7 Critical reviews, surveys, opinions, commentaries and essays. Our objective is to inform authors of the decision on their manuscript(s) within four weeks of submission. Following acceptance, a paper will normall= y be published in the next issue. Instruction for authors and other details are available on our website www.academicjournals.org/IJGMB. Prospective authors should send their manuscript(s) to IJGMB@acadjourn.org *Open Access* One key request of researchers across the world is unrestricted access to research publications. IJGMB is fully committed Open Access Initiative by providing free access to all articles (both abstract and full PDF text) as soon as they are published. We ask you to support this initiative by publishing your papers in this journal. *Invitation to Review* IJGMB is seeking for qualified reviewers as members of the review board team. IJGMB serves as a great resource for researchers and students across the globe. We ask you to support this initiative by joining our reviewer=92= s team. If you are interested in serving as a reviewer, kindly send us your resume to IJGMB@acadjourn.org *Publication Alert* We will be glad to send you a publication alert showing the table of conten= t with link to the various abstracts and full PDF text of articles published in each issue. Kindly send us an email if you will like to receive publication alert. Best regards, *Bazim Adigwerex* Editorial Assistant International Journal of Genetics and Molecular Biology E-mail: ijgmb@acadjourn.org www.academicjournals.org/IJGMB From milyron from berkeley.edu Thu Mar 5 20:31:48 2009 From: milyron from berkeley.edu (Mily Ron) Date: Sat Mar 7 18:46:45 2009 Subject: [Arabidopsis] Basta In-Reply-To: References: Message-ID: <59D129DC-563E-4842-A589-2EEE2FEB1FB5@berkeley.edu> a place to buy BASTA http://web1.chemservice.com/CSIProductSearch.nsf/Description?SearchView&SearchFuzzy=1&Query=glufosinate On Mar 5, 2009, at 4:27 PM, Pushpa Koirala wrote: > Hi everyone, > We need to do screening of some transformation events in > Arabadopsis with Basta as a selection marker. > So,could any body give me any idea ,where can I get it in > affordable price?Please give me some choices ,so I could compare > price and quantity ,because we need to use a lot. > > _______________________________________________ > Arab-gen mailing list > Arab-gen@net.bio.net > http://www.bio.net/biomail/listinfo/arab-gen *************************************** Dr.Mily Ron Plant Gene Expression Center 800 Buchanan St. Albany, CA 94710, USA 510-559-5918 510-559-5678 (FAX) milyron@berkeley.edu *************************************** From mkrallinger from cnio.es Sat Mar 7 09:34:03 2009 From: mkrallinger from cnio.es (Krallinger.Martin) Date: Sat Mar 7 18:47:14 2009 Subject: [Arabidopsis] Text mining system for Arabidopsis Message-ID: <32B8EA3A56120442AEB3798CEDAB5E480DE54B@HELLBOY.cnio.es> Dear all, We have implemented a text mining system for Arabidopsis thaliana. The aim behind this system is to enable a more efficient retrieval and extraction of relevant information for genes and proteins in terms of their association to certain biological processes (cell cycle, flowering, seed development, root development and leaf development) as well some additional information such as regulatory associations, protein interaction and sub-cellular location. We would be pleased if you try out the system and provide us with some feedback to improve the current version based on your input. Best regards, Martin Krallinger **NOTA DE CONFIDENCIALIDAD** Este correo electr?nico, y en su caso los ficheros adjuntos, pueden contener informaci?n protegida para el uso exclusivo de su destinatario. Se proh?be la distribuci?n, reproducci?n o cualquier otro tipo de transmisi?n por parte de otra persona que no sea el destinatario. Si usted recibe por error este correo, se ruega comunicarlo al remitente y borrar el mensaje recibido. **CONFIDENTIALITY NOTICE** This email communication and any attachments may contain confidential and privileged information for the sole use of the designated recipient named above. Distribution, reproduction or any other use of this transmission by any party other than the intended recipient is prohibited. If you are not the intended recipient please contact the sender and delete all copies. From pushpakoirala from gmail.com Fri Mar 6 12:57:17 2009 From: pushpakoirala from gmail.com (Pushpa koirala) Date: Sat Mar 7 18:47:37 2009 Subject: [Arabidopsis] Re: Basta In-Reply-To: References: Message-ID: Thank you every body. It helps me. From schen from ufl.edu Fri Mar 6 17:38:35 2009 From: schen from ufl.edu (Sixue Chen) Date: Sat Mar 7 18:50:55 2009 Subject: [Arabidopsis] Proteomics Workshop and Symposium on Aug 5-7, 2009 at University of Florida Message-ID: <49B1A5EB.1030007@ufl.edu> http://proteomics.centers.ufl.edu Proteomics and metabolomics are fast-growing areas in modern biological sciences. To keep up with the technological development and the frontier research, we are organizing a Proteomics Workshop and Symposium at University of Florida in August, 2009. One day and a half will be a hands-on workshop to teach students and postdocs the art and science of proteomics and mass spectrometry. Immediately following the workshop, we will hold a symposium with talks from world leaders and from students. Confirmed speakers include John Yates (keynote lecture), Sally Assmann, Julie Maupin-Furlow, Kathryn Lilley, Daniel Schachtman, Waltraud Schutze, Wolfram Weckwerth, Klaas van Wijk, Nancy Denslow, and Brigitte Simons. Financial aids are available to graduate students and postdocs. Please visit the event website for details. http://proteomics.centers.ufl.edu -- Sixue Chen, Ph.D. Assistant Professor of Biology Cancer & Genetics Research Complex, Room 438 University of Florida 1376 Mowry Road Gainesville, FL 32610, USA Tel: +1 (352) 273-8330 Fax: +1 (352) 273-8284 Email: schen@ufl.edu Web page: http://www.botany.ufl.edu/people/index.html http://pmcb.ifas.ufl.edu/faculty.htm http://www.ufgi.ufl.edu/ Director of Proteomics Facility Interdisciplinary Center for Biotechnology Research (ICBR) Cancer & Genetics Research Complex, Room 169 University of Florida, PO Box 103622 Gainesville, FL 32610, USA Tel: +1 (352) 273-8057 (ICBR office) Fax: +1 (352) 273-8284 Email: schen@ufl.edu Web page: http://www.biotech.ufl.edu/proteomics/ Service Contacts: Peptide Synthesis: Alfred Chung, Tel: (352) 273-8058 2D gel and Biacore: Marjorie Chow, Tel: (352) 273-8059 Mass Spectrometry: Scott McClung, Tel: (352) 273-8061 From mkrallinger from cnio.es Sun Mar 8 10:26:03 2009 From: mkrallinger from cnio.es (Krallinger.Martin) Date: Sun Mar 8 21:50:02 2009 Subject: [Arabidopsis] Text Mining for Arabidopsis Message-ID: <32B8EA3A56120442AEB3798CEDAB5E480DE552@HELLBOY.cnio.es> Dear all, As I got some interesting feedback related to the text mining system we implemented for Arabidopsis I guess it makes sense to directly point to the online system rather than sending the URL to each request, its: http://zope.bioinfo.cnio.es/plan2l/plan2l.html The system is free, open to all users with no need to register and it is not commercial. There are some modules for instance related to full text processing, query types or functional annotation extraction (using GO) that we would like to add depending on users interest. As we are actually working at a cancer research center where I have limited access to experts working on several biological processes using Arabidopsis as a model organism, I really would appreciate all feedback to make or system practically useful to a broader community. Thanks again for your interest, Martin Krallinger ------------------------------------------------------------- Martin Krallinger Structural Biology and Biocomputing Group, Spanish National Cancer Research Center (CNIO) E-28029 Madrid, Spain Tel.: +(34)917 328 000 Fax: +(34)912 246 980 e-mail: mkrallinger@cnio.es -------------------------------------------------- **NOTA DE CONFIDENCIALIDAD** Este correo electr?nico, y en su caso los ficheros adjuntos, pueden contener informaci?n protegida para el uso exclusivo de su destinatario. Se proh?be la distribuci?n, reproducci?n o cualquier otro tipo de transmisi?n por parte de otra persona que no sea el destinatario. Si usted recibe por error este correo, se ruega comunicarlo al remitente y borrar el mensaje recibido. **CONFIDENTIALITY NOTICE** This email communication and any attachments may contain confidential and privileged information for the sole use of the designated recipient named above. Distribution, reproduction or any other use of this transmission by any party other than the intended recipient is prohibited. If you are not the intended recipient please contact the sender and delete all copies. From cmliu from ibcas.ac.cn Mon Mar 9 19:49:24 2009 From: cmliu from ibcas.ac.cn (=?gb2312?B?wfW0usP3?=) Date: Tue Mar 10 00:35:34 2009 Subject: [Arabidopsis] Journal of Integrative Plant Biology Message-ID: <00d401c9a11a$0eed63b0$2a150b0a@Liulab> Dear all, I would like to bring your attention to the Journal of Integrative Plant Biology (JIPB: www.jipb.net, formally called Botanica Sinica), a monthly journal published by Wiley-Blackwell. JIPB publishes articles under 6 core topics: 1. Cell & Developmental Biology (managed by Prof. Clive Lloyd, John Innes Centre, Norfolk, UK) 2. Metabolic Biology & Biochemistry (managed by Prof. Roberto Bassi University of Verona, Italy) 3. Signal Transduction & Stress Response (managed by Prof. William J. Lucas, University of California, Davis, USA) 4. Systems Biology & Molecular Physiology (managed by Prof. Klaus Palme University of Freiburg, Germany) 5. Sexual Reproduction (managed by Prof. Wei-Cai Yang Institute of Genetics and Developmental Biology, CAS, China) 6. Molecular Ecology & Evolution (managed by Prof. Rowan Sage University of Toronto, Canada) Paper published in JIPB are accessible through SCI, PubMed, BIOSIS, SCI and Google Scholar. Using Bench>Press as the manuscript handling platform, JIPB has fast publication cycle. The average time from submission to first decision is 29 days. Best wishes, Chun-Ming _____________________________ Chun-Ming Liu, Professor Editor in Chief for JIPB Journal of Integrative Plant Biology http://www.jipb.net Director of Center for Signal Transduction & Metabolomics (C-STM) Institute of Botany, Chinese Academy of Sciences Nanxincun 20, Fragrant Hill Beijing 100093, China Tel: 010-6283-6663 Fax: 010-8259-9701 Email: cmliu@ibcas.ac.cn http://cstm.ibcas.ac.cn From fahadumer from yahoo.com Wed Mar 11 23:49:43 2009 From: fahadumer from yahoo.com (FAADI) Date: Thu Mar 12 01:35:12 2009 Subject: [Arabidopsis] PhD Studentships in Sensor Networks for Surveillance and Monitoring Applications, UK Message-ID: As part of our collaborative research work with SELEX Sensors and Airborne Systems Limited, we wish to recruit a research student for a PhD study on sensor networks for surveillance and monitoring applications. The main objective of the proposed research project is to explore the usage of sensor networks in improving monitoring and surveillance performances, with an emphasis on the provision of actionable user information (e.g. decision support etc.) gathered from integrated multi-modal systems. This requires, first, improving deployment strategies and associated supporting tools for the deployment of static sensor nodes in order to provide optimal coverage/ context awareness from the deployed system within the monitored area. Based on decentralized sensing architecture, robust threat identification and sensor node localization algorithms will also be investigated. In addition, efficient data/information fusion from heterogeneous sensors (such as EO/IR visual, acoustic and seismic sensors) will be carried on to improve threat detection, behaviour within it’s operating context. The potential to exploit the distributed tracking capabilities of multi-modal sensor networks will also be assessed during this work. The project will be carried out in close collaboration with our industrial partner and the resulting interactions will provide an exceptionally rich research environment. In addition to simulation validation, this project entails 30% real time experiments to embed proposed algorithms on representative sensor network hardware capabilities. Entry Requirements: For this research studentship, we are seeking a talented graduate, having (or be expected to obtain) at least an upper second class honours degree (first class honours preferred), MSc or equivalent in electrical engineering or computer science. Good mathematical background and experience of sensor signal processing, distributed/networked systems, Bayesian based inference techniques, data/information fusion and real time systems would be most desirable. Visit this website for more information http://www.scholarships-links.com/viewdetail/id/225/PhD_Studentships_in_Sensor_Networks_for_Surveillance_and_Monitoring_Applications,_Cranfield_Universi/ --~--~---------~--~----~------------~-------~--~----~ You received this message because the information associated with your email indicates that you might be interested in it. Please do not report this email as SPAM. To post to this group, send email to News-of-Science@googlegroups.com that will be forwarded to the members after moderation. To unsubscribe from this group, send a blank email to Editorial.Alert@gmail.com with the subject "Remove" and you will no more receive emails from this group. Please note that this will abolish your right to post your message to this group. Alternatively you can opt for "No-email delivery" but can read the contents of the group on web as a member of this group. Please send a blank email to Editorial.Alert@gmail.com with the subject "No email" and you will no more receive regular emails from this group however you can read the contents on the web. For more options, visit this group at http://groups.google.com.pk/group/News-of-Science?hl=en?hl=en -~----------~----~----~----~------~----~------~--~--- From anirbanb from ncbs.res.in Thu Mar 12 11:38:25 2009 From: anirbanb from ncbs.res.in (Anirban Baral) Date: Thu Mar 12 15:05:18 2009 Subject: [Arabidopsis] Plant specific Phospholipase C Message-ID: <59889.192.168.1.1.1236875905.squirrel@mail.ncbs.res.in> Dear Arabineters, Can anyone please suggest a commercial phospholipase c that works in plant protoplasts.The one I use works very nicely on animal cells but not at all on plant (BY2) protoplasts. It will be a great help for me if you give suggestions. Regards Anirban -- Anirban Baral JUNIOR SCHOLAR NATIONAL CENTRE FOR BIOLOGICAL SCIENCES TATA INSTITUTE OF FUNDAMENTAL RESEARCH UAS-GKVK CAMPUS,BELLARY ROAD BANGALORE-560065,INDIA From ramu.tiger123 from gmail.com Thu Mar 12 04:43:53 2009 From: ramu.tiger123 from gmail.com (Ramu gowda) Date: Thu Mar 12 15:06:12 2009 Subject: [Arabidopsis] promoter analysis softwares. Message-ID: hi i would like to analyse the some of the promoters so could any one tell me which is the software is more easy and can be downloadble through net. i'm perticularly wonted to anlyse the differences between the tissue specific promoters, and the constituive promoters. more over i'm perticularly intersted to identify the organism specific promoter instead of the constitutive 35sCaMv promoter. so in this connection i would like to analyse some unknown sequences where we have tryed to make full length genes. so whether the same sequence may act as promoter for it if so by adding some extra specific trascription activating motiffs to the same sequence can be retianed to over express any genes of target. if any one is working on this kind of activity please let me know so that we can share our research and understanding of the science. truly ramu -- Ramu.S.V Senior research fellow dept of crop physiology, Molecular plant physiology lab, UAS, GKVK, Bangalore From nawroz80 from hotmail.com Sat Mar 14 13:09:15 2009 From: nawroz80 from hotmail.com (nawroz tahir) Date: Sat Mar 14 14:24:33 2009 Subject: [Arabidopsis] sequence of RAPD primers of Hedera ivy Message-ID: Good morning very body could any body send me the sequence of RAPD primer for classification of Hedera ivy. with best regard nawroz _________________________________________________________________ D?couvrez tout ce que Windows Live a ? vous apporter ! http://www.microsoft.com/windows/windowslive/ From senag from mail.rockefeller.edu Sun Mar 15 16:28:20 2009 From: senag from mail.rockefeller.edu (Giovanni Sena) Date: Sun Mar 15 17:35:48 2009 Subject: [Arabidopsis] whole mount starch staining Message-ID: <9EB2865EA789451DA7346D73AAFB63D0@HomePC> Hello, does anybody have experience in using Primulin to stain in fluoresence starch granules in whole mount (roots)? Thank you Giovanni From drhahmad from gmail.com Mon Mar 16 03:49:55 2009 From: drhahmad from gmail.com (Habib Ahmad) Date: Mon Mar 16 16:34:59 2009 Subject: [Arabidopsis] sequence of RAPD primers of Hedera ivy In-Reply-To: References: Message-ID: <80c66da00903160149j12f1a399t2f2887d300d7d377@mail.gmail.com> I think Prof. Imtiaz may respond to the question, Habib On Sat, Mar 14, 2009 at 11:09 PM, nawroz tahir wrote: > > > Good morning very body > > > > could any body send me the sequence of RAPD primer for classification of Hedera ivy. > > > with best regard > > nawroz > > > > > _________________________________________________________________ > D?couvrez tout ce que Windows Live a ? vous apporter ! > http://www.microsoft.com/windows/windowslive/_______________________________________________ > Arab-gen mailing list > Arab-gen@net.bio.net > http://www.bio.net/biomail/listinfo/arab-gen > -- Prof. Habib Ahmad PhD Dean Faculty of Science Hazara University Garden Campus, Mansehra Office phone 092 997 414131 Mobile 092 334 9028311 Fax 092 997 530046 URL www.hu.edu.pk From revers from bordeaux.inra.fr Mon Mar 16 04:17:46 2009 From: revers from bordeaux.inra.fr (Frederic Revers) Date: Mon Mar 16 17:09:03 2009 Subject: [Arabidopsis] postdoc position at INRA, Colmar, France Message-ID: <49BE193A.2090700@bordeaux.inra.fr> Please, diffuse broadly! Thank you Fred Revers A *2 year postdoctoral position* is available to conduct identification of *plant proteins involved in long distance movement of plant viruses*. Two viruses displaying different plant tissue tropism (potyvirus and polerovirus genera) will be the focus of this study. By constructing a cDNA library after collection of companion cells by *laser dissection *and screening the library using the yeast two-hybrid system with appropriate viral proteins, candidates potentially involved in virus systemic movement will be identified. Functional analysis of the proteins will be undertaken. This project should shed light on a non-completely elucidated process which is a major step in viral plant dissemination. A *data base* of genes expressed in companion cells will also be engineered and will represent an important tool for the scientific community studying phloem functions. This project is part of a main ANR project conducted in collaboration with *three laboratories*: *IBMP-CNRS in Strasbourg* (V?ronique Ziegler-Graff), *INRA in Bordeaux* (Fr?d?ric Revers) and *INRA in Colmar* (V?ronique Brault). Applicants should have a PhD and good knowledge in molecular biology. Skills in virology (plant or animal) is desirable but not obligatory. Preference will be given to candidates with experience in engineering cDNA libraries and bioinformatics. Applications will be accepted until the position is filled Start date: September 2009 Duration: 2 years Monthly gross wage: 2200 euros Submit: a complete cv (including names of three references) Person to contact : V?ronique Brault _Location : INRA Equipe Virologie-Vection 28 rue de Herrlisheim 68021 Colmar, France_ Email : brault@colmar.inra.fr Tel : (+33) 3 89 22 49 34 From Cyril.Zipfel from sainsbury-laboratory.ac.uk Mon Mar 16 16:45:06 2009 From: Cyril.Zipfel from sainsbury-laboratory.ac.uk (Cyril Zipfel (TSL)) Date: Mon Mar 16 17:09:39 2009 Subject: [Arabidopsis] Post-doctoral positions on PAMP-triggered immunity Message-ID: Three postdoctoral positions are available to study PAMP perception and signalling in the plant model Arabidopsis thaliana. The Sainsbury Laboratory is a charitable company of ~70 research scientists and support staff and a world leader in plant science. We are based on the Norwich Research Park, funded by the Gatsby Charitable Foundation, and closely linked to University of East Anglia and the John Innes Centre. For more information visit www.tsl.ac.uk The leucine-rich repeat receptor kinases EFR and FLS2 mediate recognition of the bacterial PAMPs EF-Tu and flagellin, or their peptide surrogates flg22 and elf18 respectively. Despite the critical role of PRRs in anti-microbial immunity, only limited knowledge exists on how they function at the molecular level and on their downstream signalling events. Our lab aims at filling this gap. Positions for the following projects are available from April 1, 2009: Project 1 ? Characterization of EFR-interacting proteins (EIPs) and their role in innate immunity. This project is funded for 36 months and is part of the ERA-NET Plant Genomics project ?Pathonet?. Project 2 ? Identification and characterization of new PAMP receptors. This project is funded for 36 months and is part of the ERA-NET Plant Genomics project ?PRRCROP?. Project 3 ? Map-based cloning and characterization of ELFIN (elf18-insensitive) genes. This project, which is a collaboration with the Jones Laboratory, is funded for 14 months and is part of the ERA-NET Plant Genomics project ?RLPRLKs?. For information on the ERA-NET Plant Genomics projects visit www.erapg.org Candidates should be highly motivated individuals with a PhD degree together with a strong background in molecular biology, biochemistry or genetics. Previous work on plant/pathogen interactions or Arabidopsis is not required, but can be an advantage. Salary will be within the UEA Research and Analogous staff Grade 1A scale at between ?28,290 and ?33,780 pa; the appointment level will reflect qualifications, skills, knowledge and achievements. Applicants should provide a CV, including the names and contact details of two referees, and a covering letter addressing the selection criteria. Please send formal applications, quoting the reference number below, either by e-mail to HR@tsl.ac.uk or by post to Kim Blanchflower, HR Manager, The Sainsbury Laboratory, The John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, UK. Although the advert states March 20th as the original application deadline, the positions will be available until filled. -- Dr. Cyril Zipfel Group Leader The Sainsbury Laboratory Colney Lane, Norwich, NR4 7UH, UK Tel +44 (0) 1603 450056 Fax +44 (0) 1603 450011 cyril.zipfel@tsl.ac.uk www.tsl.ac.uk/ ? From jdfriesner from ucdavis.edu Mon Mar 16 13:42:40 2009 From: jdfriesner from ucdavis.edu (Joanna Friesner) Date: Mon Mar 16 17:10:06 2009 Subject: [Arabidopsis] Registration deadline rapidly approaching! Message-ID: <200903161842.n2GIgeR2024943@syrphus.ucdavis.edu> Dear All The 20th International Conference on Arabidopsis Research will take place 30th June - 4th July 2009 in the historic and vibrant city of Edinburgh, Scotland, UK. http://arabidopsis2009.com/ Please note that you have only less than 2 weeks left to take advantage of the early bird discount which will end on the 27th March so register now to guarantee your place and avoid disappointment. http://arabidopsis2009.com/registernow.html Oral Abstract Submission will close on the 1st April. If you would like to take this opportunity to inform the International Arabidopsis community about your latest research make sure you submit your abstract soon. *********************************************************************************************************** The keynote speaker at ICAR 2009 will be the Lasker Prize winning scientist Prof. David Baulcombe. We have a great programme of world-renowned speaker confirmed including Enrico Coen, Caroline Dean, Joe Ecker, Jiri Firml, Nicholas Harberd, Alistair Hetherington, Andrew Millar, Ben Scheres, Mark Stitt and Jian-Kang Zhu. For a full programme visit http://arabidopsis2009.com/programme.html and http://arabidopsis2009.com/speakers.html The conference will consist of two plenary sessions each morning and four concurrent sessions each afternoon, which will include presentations chosen from submitted abstracts. As in the past, the conference will feature a number of community-led workshops that will provide opportunities for focused discussion, whilst three poster sessions will provide ample time for research discussion. Delegates will also have a free afternoon between the Friday morning sessions and evening poster session to engage in networking, scientific discussion and to explore Edinburgh and it’s surroundings. If you would like to hold a community workshop please see the instructions at http://arabidopsis2009.com/workshops.html Important Deadlines Discounted Early Registration Fee Closes 27th March 2009 Oral Abstract Submission Closes 1st April 2009 Poster Abstract Submission Closes 1st May 2009 Regular Registration Closes 15th June 2009 We look forward to seeing you in Edinburgh. Ruth Bastow UK organizer From nkult from commongroundpr.com Tue Mar 17 15:52:39 2009 From: nkult from commongroundpr.com (Nina Kult) Date: Tue Mar 17 17:40:06 2009 Subject: [Arabidopsis] 9th International Congress on Plant Molecular Biology Message-ID: Dear Colleagues: Please find information below regarding registration and abstract deadline information for the 9th International Congress on Plant Molecular Biology. More information can be found by visiting www.ipmb2009.org. Please forward or post as appropriate. Thank you, Nina Kult On behalf of IPMB 2009 (www.ipmb2009.org) Pending Deadlines for IPMB Congress: Early Bird Registration and Poster Abstracts by May 1 St. Louis, Mo. (March 18, 2009) - Those planning to attend the 9th International Congress on Plant Molecular Biology this fall can take advantage of reduced rates by registering by May 1.Registration can be completed online at http://www.ipmb2009.org/Registration.html. The Congress, scheduled from Oct. 25-30, 2009 in St. Louis, will share crucial information from the latest plant molecular biology research and give participants the means for discussing innovative methods to solve food, fuel and environmental problems facing the world. Speakers will address a broad range of topics from agricultural productivity and phytotherapy for human health to generating biofuels - further reinforcing the important role plants have in global sustainable economic development. The Congress will feature more than 50 forums; abstract poster displays and presentations; evening workshops; and other events to chronicle the advances in plant molecular biology. Wiley-Blackwell Publishing has announced their support of the Congress by sponsoring several symposiums. Other symposia sponsors include the University of Missouri-Columbia, Monsanto Company, Divergence, United Soybean Board, Arcadia Biosciences, the Australian Centre for Plant Functional Genomics and the Missouri Botanical Garden. Scientists, representatives from industry and government, professors, post-docs and students who are seeking publishing opportunities for their research are encouraged to present a poster. Online abstract submission is available at https://cvmsecure.missouri.edu/ipmb/2009/. Abstracts must be submitted no later than May 1, 2009. The IPMB Congress has already secured commitments from more than 300 scientists who will present during the course of the event. Please visit www.ipmb2009.org for more information. From verdeja from inia.es Fri Mar 20 11:02:18 2009 From: verdeja from inia.es (Hernandez Verdeja, Tamara) Date: Fri Mar 20 11:25:50 2009 Subject: [Arabidopsis] Transform with JAtY References: Message-ID: <27F3CF3BF9F9E54FA69DC9C95075422002B8313E@mailinia.intranet.inia.es> Hi everybody, I am trying to transform Arabidopsis with a JAtY clone, from the John Innes Center Genome Lab and I am not getting any transformant. I am using the standard floral-dip protocol with 5% sucrose and the Agrobacterium strain C58C1. Could anyone give me some advice? Some specific transformation media, Agro strain... Thank you very much in advance, Rafael Catala Rafael Catala catala@cib.csic.es Centro de Investigaciones Biol?gicas (CIB-CSIC) Centre for Biological Research---Spanish Research Council Ramiro de Maeztu, 9 Campus Universidad Complutense 28040 Madrid SPAIN From Claire.Grierson from bristol.ac.uk Tue Mar 17 10:52:42 2009 From: Claire.Grierson from bristol.ac.uk (Claire Grierson, School Biological Sciences) Date: Fri Mar 20 18:02:44 2009 Subject: [Arabidopsis] 100 Questions Deadline JUST TWO WEEKS AWAY Message-ID: <7366BC6575AD522241683615@bio-clairetab.bio.bris.ac.uk> Apologies for any cross-posting. ___________________________________ Dear Colleagues, JUST TWO WEEKS LEFT TO SUBMIT QUESTIONS AND COMMENTS to How can plant research change the world? Plant science is addressing many of the big issues facing society today, such as food security, biofuels, and the effects of climate change. Which questions do you think the current generation of plant researchers should be addressing? What's Possible, What's Needed and How Big is the Gap between the two? Do we need changes in communication or methodology to boost progress? Many thanks if you have already submitted and commented on questions at: Many important issues have yet to be raised. Please aid the panel in making their decisions by commenting on questions that you would like to see in the final list. To do this please go to and click on the "Add Comment" link for the question that you want to support. Questions and Comments can be submitted online until the _end of March 2009_. A final list of 100 questions will be selected from those submitted by a panel representing the academic, commercial, and public service communities that produce or benefit from plant research in April 2009. The final list will be published in an academic journal, and will inform scientific, political and social agendas in the coming years. Please forward this message to any people or mailing lists that you think might be interested. We look forward to hearing from you. Ruth Bastow, Keith Edwards, and Claire Grierson From effendiy from yahoo.de Fri Mar 20 08:50:10 2009 From: effendiy from yahoo.de (Yunus Effendi) Date: Fri Mar 20 18:03:15 2009 Subject: [Arabidopsis] Where can I get DR5:GUS and/or DR5:GFP vectors Message-ID: <4459.90365.qm@web28615.mail.ukl.yahoo.com> Dear all, for my experiment i need to measure auxin transport (localization) and the cycling of PIN protein in the plant. The problem is in our lab we don't have DR5:GUS and/or DR5:GFP vectors for the experiment. Does anyone can send me those vector?? Any help and suggestion will be appreciated. Thank you very much yunus effendi Abt. Molekulare Ertragsphysiologie Institute fuer Zierpflanzen-und Gehoelzwissenschaften Leibniz Universitaet Hannover Herrenhauser strasse 2 D-30419 Hannover Germany From jmalonso from ncsu.edu Fri Mar 20 12:07:20 2009 From: jmalonso from ncsu.edu (Jose Alonso) Date: Fri Mar 20 18:03:37 2009 Subject: [Arabidopsis] Transform with JAtY In-Reply-To: <27F3CF3BF9F9E54FA69DC9C95075422002B8313E@mailinia.intranet.inia.es> References: <27F3CF3BF9F9E54FA69DC9C95075422002B8313E@mailinia.intranet.inia.es> Message-ID: <32F7992B-1B56-440C-927B-F9F54E8339D1@ncsu.edu> The solution is to use glucose instead of sucrose in the transformation media. You can see a more detailed protocol in our webpage http://www4.ncsu.edu/~jmalonso/Alonso_Lab/Protocols.html I hope this helps. Jose Jose Alonso Phone: (919)515 5729 Fax: (919) 515 3355 Email: jmalonso@unity.ncsu.edu Web: http://www4.ncsu.edu/~jmalonso On Mar 20, 2009, at 12:02 PM, Hernandez Verdeja, Tamara wrote: > Hi everybody, > > > > I am trying to transform Arabidopsis with a JAtY clone, from the > John Innes Center Genome Lab and I am not getting any transformant. > I am using the standard floral-dip protocol with 5% sucrose and the > Agrobacterium strain C58C1. Could anyone give me some advice? Some > specific transformation media, Agro strain... > > > > Thank you very much in advance, > > > > Rafael Catala > > > > > > Rafael Catala > > catala@cib.csic.es > > Centro de Investigaciones Biol?gicas (CIB-CSIC) > Centre for Biological Research---Spanish Research Council > Ramiro de Maeztu, 9 > Campus Universidad Complutense > 28040 Madrid > SPAIN > > > _______________________________________________ > Arab-gen mailing list > Arab-gen@net.bio.net > http://www.bio.net/biomail/listinfo/arab-gen From zepedrof from gmail.com Fri Mar 20 13:11:24 2009 From: zepedrof from gmail.com (Jose Pedro Fonseca) Date: Fri Mar 20 18:04:20 2009 Subject: [Arabidopsis] cloning strategy for protein interaction using pETDuet-1 and Pull Down Message-ID: <774498f60903201111q7a71afd9gde870a2232b187d5@mail.gmail.com> Dear all, I?m testing interaction of three proteins with a bait. Our plan is to coexpress each one of the three target proteins separately with the bait using pETDuet-1 (contains 2 multiple cloning sites (MCS), each cloning site contains a tag (His tag and S tag) for protein isolation and purification). I?m trying to devise a best strategy for coexpression followed by pull down assays and would appreciate if someone could suggest a good strategy for this kind of experiment. My question is: What is the best strategy to use? example: 1) Clone target protein A fused to a His tag into MCS1 and bait protein fused to S tag into MCS2? Induce expression of both proteins and separately purify protein A-his tag with a nickel resin and bait with a S-affinity resin for pull down? 2) Clone target protein A fused to a His tag into MCS1 and bait protein alone (no tag here) into MCS2 ? Induce expression of both proteins and bind protein A into nickel resin. But then how do I test interaction of protein A with bait if the bait was not purified previously with a different tag? Can I use lysate of co-expressed proteins to bind bait to the protein A previously bound to nickel resin? Any help appreciated, Jose Graduate student University of CAMPINAS, UNICAMP Bazil From ramu.tiger123 from gmail.com Fri Mar 20 22:23:16 2009 From: ramu.tiger123 from gmail.com (Ramu gowda) Date: Sun Mar 22 00:08:05 2009 Subject: [Arabidopsis] Arabidopsis floral dip Message-ID: Dear Rafael Catala good to know you are working on arabidopsis. i can suggest you to try with winnans AB medium protocol transformation, other than that you can also try different agro strains EHA 105, or LBA 4404, we follow majorly these two strains in inplanta transformation methods. i hope this could be helpfull. Ramu On Fri, Mar 20, 2009 at 10:33 PM, wrote: > Send Arab-gen mailing list submissions to > arab-gen@net.bio.net > > To subscribe or unsubscribe via the World Wide Web, visit > http://www.bio.net/biomail/listinfo/arab-gen > or, via email, send a message with subject or body 'help' to > arab-gen-request@net.bio.net > > You can reach the person managing the list at > arab-gen-owner@net.bio.net > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of Arab-gen digest..." > > > Today's Topics: > > 1. Transform with JAtY (Hernandez Verdeja, Tamara) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Fri, 20 Mar 2009 17:02:18 +0100 > From: "Hernandez Verdeja, Tamara" > Subject: [Arabidopsis] Transform with JAtY > To: > Message-ID: > <27F3CF3BF9F9E54FA69DC9C95075422002B8313E@mailinia.intranet.inia.es > > > Content-Type: text/plain; charset="iso-8859-1" > > Hi everybody, > > > > I am trying to transform Arabidopsis with a JAtY clone, from the John Innes > Center Genome Lab and I am not getting any transformant. I am using the > standard floral-dip protocol with 5% sucrose and the Agrobacterium strain > C58C1. Could anyone give me some advice? Some specific transformation media, > Agro strain... > > > > Thank you very much in advance, > > > > Rafael Catala > > > > > > Rafael Catala > > catala@cib.csic.es > > Centro de Investigaciones Biol?gicas (CIB-CSIC) > Centre for Biological Research---Spanish Research Council > Ramiro de Maeztu, 9 > Campus Universidad Complutense > 28040 Madrid > SPAIN > > > > > ------------------------------ > > _______________________________________________ > Arab-gen mailing list > Arab-gen@net.bio.net > http://www.bio.net/biomail/listinfo/arab-gen > > End of Arab-gen Digest, Vol 47, Issue 14 > **************************************** > -- Ramu.S.V Senior research fellow dept of crop physiology, Molecular plant physiology lab, UAS, GKVK, Bangalore From khan from bgu.ac.il Sun Mar 22 10:29:21 2009 From: khan from bgu.ac.il (Asif Khan) Date: Sun Mar 22 23:45:09 2009 Subject: [Arabidopsis] How to clone two copies of our Gene in a Plasmid Vector Message-ID: Hi all!! We want to determine the the invivo helicase activity of our genes and one of our collaborators in USA wants us to put two copies of our genes with different epitope tags (here FLAG and HA). My question is how we can put two copies of our gene in different vectors say the Overexpressors with 35S Promoter along with the epitope tags.. Please help us we will be very grateful.. asif Asif Ashfaq Khan, PhD Student Plant Molecular Genetics Laboratory Albert Katz Dept. of Dryland Biotechnology, Ben Gurion University of the Negev Midreshet Ben-Gurion, 84990, Israel Mob:-+972-547967045 E-mail:-khan@bgu.ac.il ? From kp35 from duke.edu Sun Mar 22 12:25:13 2009 From: kp35 from duke.edu (kp35@duke.edu) Date: Sun Mar 22 23:45:52 2009 Subject: [Arabidopsis] Concentration of gentamycin required for the selection Message-ID: <20090322132513.zx8a800yyokso44k@webmail.duke.edu> Hi Everybody: I have been trying to transform Arabidopsis Col-0 using floral dip method. As I need to transform, with multiple genes constructs I have choosen different binary vectors with different selection markers. One of them imparts resistance to Gentamycin. Can some body suggest me the suitable concentration of gentamycin that is required for clean selection of the arabidopsis transformants (Col-0). Thanking you with regards Prasad From GCopenhaver from bio.unc.edu Tue Mar 24 09:06:00 2009 From: GCopenhaver from bio.unc.edu (Copenhaver, Gregory P (Biology)) Date: Tue Mar 24 15:42:17 2009 Subject: [Arabidopsis] Postdoctoral Position - immediate opening Message-ID: <5805338EEBC6DB4AB6F96B9693F2ABDB05965ACA@email.bio.unc.edu> Postdoctoral Position: Regulation of Meiotic Recombination University of North Carolina at Chapel Hill A postdoctoral position is open immediately in the lab of Dr. Gregory Copenhaver (http://www.bio.unc.edu/faculty/copenhaver/lab/) in the Department of Biology (http://www.bio.unc.edu/) at The University of North Carolina (http://www.unc.edu/) in beautiful Chapel Hill. The position is fully funded for a three year period including health benefits. The long-term goal of the project is to understand how meiotic recombination is regulated in plants. Specific goals include characterizing novel recombination mutants recently discovered in the lab and using reverse genetics to evaluate the influence of specific target genes on crossover control. Meiotic recombination results in the heritable rearrangement of DNA, primarily through reciprocal exchange between homologous chromosome or gene conversion. In plants these events are critical for ensuring proper chromosome segregation, facilitating DNA repair and providing a basis for genetic diversity. We have developed as a facile system for visually assaying recombination using tetrad analysis in Arabidopsis. This work builds on the previous accomplishments of our lab previous accomplishments including: 1. Berchowitz LE, Copenhaver GP (2008) Fluorescent Arabidopsis tetrads: A visual assay for quickly developing large crossover and crossover interference datasets. Nature Protocols 3(1): 41-50. 2. Berchowitz LE, Francis KE, Bey AL, Copenhaver GP (2007) The Role of AtMUS81 in Interference-Insensitive Crossovers in A. thaliana. PLoS Genetics 3(8): e132 doi:10.1371/journal.pgen.0030132. 3. Francis KE, Lam SY, Harrison BD, Bey AL, Berchowitz LE, Copenhaver GP (2007) Pollen-tetrad based visual assay for meiotic recombination in Arabidopsis. Proc. Natl. Acad. Sci. USA 104: 3913-3918. The successful applicant will have a strong background in molecular biology (plant-specific background a plus but not required) and will have the opportunity to gain experience in forward and reverse genetics, microscopy and statistical analysis. Preference will be given to candidates who are able to begin the position soon. Applicants should submit a CV, a short description of research experience and three references (including phone and email addresses) by email to Dr. Gregory Copenhaver (gcopenhaver@bio.unc.edu). Dr. Gregory P. Copenhaver, Ph.D. Associate Professor Department of Biology Carolina Center for Genome Sciences UNC at Chapel Hill CB#3280, Coker Hall 305 Chapel Hill, NC 27599 Phone: 919-843-4026 Fax: 919-962-1625 From jdfriesner from ucdavis.edu Tue Mar 24 11:32:41 2009 From: jdfriesner from ucdavis.edu (Joanna Friesner) Date: Tue Mar 24 15:42:35 2009 Subject: [Arabidopsis] Last chance for reduced registration- Arabidopsis 2009 Message-ID: <200903241632.n2OGWfep028099@musca.ucdavis.edu> This Friday (March 27th) is your last chance to register for the Arabidopsis conference in Scotland this summer before rates increase! Be sure all members of your lab register early to save money. Also, the deadline to submit an abstract for oral consideration is April 1st (register first, then submit the abstract.) The 20th International Conference on Arabidopsis Research will take place 30th June - 4th July 2009 in the historic and vibrant city of Edinburgh, Scotland, UK. http://arabidopsis2009.com/ The early bird discount ends on March 27th so register now to guarantee your place and avoid disappointment. http://arabidopsis2009.com/registernow.html Oral Abstract Submission will close on the 1st April. If you would like to take this opportunity to inform the International Arabidopsis community about your latest research make sure you submit your abstract soon. *********************************************************************************************************** The keynote speaker at ICAR 2009 will be the Lasker Prize winning scientist Prof. David Baulcombe. We have a great programme of world-renowned speaker confirmed including Enrico Coen, Caroline Dean, Joe Ecker, Jiri Firml, Nicholas Harberd, Alistair Hetherington, Andrew Millar, Ben Scheres, Mark Stitt and Jian-Kang Zhu. For a full programme visit http://arabidopsis2009.com/programme.html and http://arabidopsis2009.com/speakers.html The conference will consist of two plenary sessions each morning and four concurrent sessions each afternoon, which will include presentations chosen from submitted abstracts. As in the past, the conference will feature a number of community-led workshops that will provide opportunities for focused discussion, whilst three poster sessions will provide ample time for research discussion. Delegates will also have a free afternoon between the Friday morning sessions and evening poster session to engage in networking, scientific discussion and to explore Edinburgh and it’s surroundings. If you would like to hold a community workshop please see the instructions at http://arabidopsis2009.com/workshops.html Important Deadlines Discounted Early Registration Fee Closes 27th March 2009 Oral Abstract Submission Closes 1st April 2009 Poster Abstract Submission Closes 1st May 2009 Regular Registration Closes 15th June 2009 We look forward to seeing you in Edinburgh. Ruth Bastow UK organizer From benholt from ou.edu Fri Mar 27 14:25:34 2009 From: benholt from ou.edu (Holt, Ben F. III) Date: Fri Mar 27 17:02:35 2009 Subject: [Arabidopsis] Library Amplification Protocol Message-ID: Hi all, My group has several libraries that we would like to amplify in the least biased manner possible. To do this, we would like to use the semi-solid agar method, but we have had some trouble finding a suitable protocol. If anyone has written up a nice lab protocol that you know works well, we would greatly appreciate receiving a copy - any advice you would like to pass on to us is also appreciated. Thanks in advance! Ben ======== Ben Holt Assistant Professor University of Oklahoma Department of Botany and Microbiology GLCH Rm 219 770 Van Vleet Oval Norman, OK 73019 Phone (405)325-9018 FAX (405)325-7619 http://www.ou.edu/cas/botany-micro/faculty/holt.html From dbergmann from stanford.edu Fri Mar 27 10:07:01 2009 From: dbergmann from stanford.edu (Dominique Bergmann) Date: Fri Mar 27 17:02:56 2009 Subject: [Arabidopsis] One-day plant development symposium, July 23, San Francisco Message-ID: <756BF262409345839763C44FB567FFA2@stanford.edu> Symposium announcement: Free, one day, SDB Satellite symposium: "Plant development in a changing world" We are pleased to announce that a one day satellite symposium on plant development will be held in conjunction with the upcoming Society for Developmental Biology meeting in San Francisco, CA. The symposium will be held on July 23rd at the Hyatt Regency. Through the generous support of the SDB, there will be NO REGISTRATION FEE for attending this one day meeting, but please register by April 24th to guarantee a space http://www.sdbonline.org/2009Mtg/Plant_satellite_Reg.pdf 12 speakers have been confirmed and 5 more speakers will be selected from submitted abstracts; details at: http://www.sdbonline.org/2009Mtg/Plant_SatSymp.htm Graduate students selected to give talks who are SDB members are eligible to receive funds to attend the full SDB meeting! The main SDB meeting runs from July 23-27th and will feature additional talks by plant biologists (E. Meyerowitz, P. Benfey, J. Long, N. Sinha, V. Irish, D. Bergmann, N. Friedman). We encourage you to register for the entire meeting (http://www.sdbonline.org/2009Mtg/MtgRegistration.pdf) Sincerely, your co-Organizers Andrew Groover (USDA and UC Davis, agroover@ucdavis.edu) Chelsea Specht (UC Berkeley, cdspecht@nature.berkeley.edu) Dominique Bergmann (Stanford, dbergmann@stanford.edu) From mlsulliv from wisc.edu Sun Mar 29 11:18:01 2009 From: mlsulliv from wisc.edu (Michael Sullivan) Date: Sun Mar 29 12:54:32 2009 Subject: [Arabidopsis] Postdoc opportunity-Madison, WI Message-ID: <54E43D56-39C1-4DB8-902D-92AB48EA2D3B@wisc.edu> My lab at the US Dairy Forage Research Center in Madison, WI has =20 recently been awarded a USDA-CSREES-NRI grant to support our research =20= on the biochemical pathways responsible for o-diphenol biosynthesis =20 in red clover. This grant includes support for a postdoc position to =20 start IMMEDIATELY. Qualified candidates will have a PhD in a relevant =20= field of study; hands-on experience in general molecular biology, =20 including PCR, cloning, sequencing, making gene constructs; =20 biochemistry, including characterization of proteins and analyses of =20 enzymatic activities; and/or plant transformation including plant =20 tissue culture and maintenance of transgenic plants. Candidates =20 should also be able to work independently and have good oral and =20 written communication skills. Applicants must be citizens of the =20 United States, a NATO member nation, or a country with which the =20 United States has a FORMAL alliance. Non-US citizens must also have =20 documentation allowing them to work in the United States. Interested individuals may contact me by e-mail =20 (michael.sullivan@ars.usda.gov). The US Dairy Forage Research Center is part of the Agricultural =20 Research Service of the US Department of Agriculture and is located =20 on the University of Wisconsin campus in Madison, WI. For more =20 information on the US Dairy Forage Research Center visit our web =20 site: http://ars.usda.gov/mwa/madison/dfrc Title: Elucidating the Roles of Hydroxycinnamoyl Transferases and p-=20 Coumaroyl 3-Hydroxylases in o-Diphenol Biosynthesis in Red Clover PD: Sullivan, Michael L. Institution: US Dairy Forage =20 Research Center, ARS-USDA Phenylpropanoid o-diphenols accumulate in tissues of many plants =20 functioning as defensive molecules and antioxidants. Red clover =20 accumulates high levels of two o-diphenols, phasalic acid and =20 clovamide. In red clover, post-harvest oxidation of these o-diphenols =20= to o-quinones by an endogenous polyphenol oxidase (PPO) prevents =20 breakdown of forage protein during storage. Agronomically important =20 forages like alfalfa lack both PPO and o-diphenols. Consequently, =20 breakdown of their protein upon harvest and storage results in =20 economic losses ($100 million/yr) and release of excess nitrogen into =20= the environment. Understanding how red clover is able to synthesize =20 and accumulate o-diphenols will help in development of forages that =20 take advantage of this natural system of protein protection. Also, =20 because o-diphenols are powerful antioxidants, this research has =20 implications for human and animal nutrition. Preliminary evidence =20 suggests that specific hydroxycinnamoyl transferases (HCTs) and p-=20 coumaroyl 3=92 hydroxylases (C3Hs) play key roles in red clover o-=20 diphenol biosynthesis and accumulation. Specific objectives of this =20 proposal are 1) Identify and isolate red clover gene sequences =20 encoding HCTs; 2) Characterize the HCTs and a C3H with respect to =20 substrate specificity and reaction characteristics; and 3) Establish =20 the relevance of specific HCTs to biosynthesis and accumulation of =20 specific o-diphenols. These objectives will be accomplished using =20 several complementary approaches including biochemistry, genomics, =20 and reverse genetics. --- Michael L. Sullivan Plant Research Molecular Geneticist US Dairy Forage Research Center ARS-USDA 1925 Linden Drive West Madison, WI 53706 (608) 890-0046 (Phone) (608) 890-0076 (FAX) From simonmi1 from post.tau.ac.il Tue Mar 31 09:38:39 2009 From: simonmi1 from post.tau.ac.il (simonmi1@post.tau.ac.il) Date: Tue Mar 31 12:49:15 2009 Subject: [Arabidopsis] floral dip transfomation with Ler ecotype Message-ID: <20090331173839.37395evypd15xwbz@webmail.tau.ac.il> Hello all. In the famous article of Clough and Bent they show that the floral dip method is less effective when preformed on Ler ecotype Arabidopsis plants. If you found a way to improve transformation rate I will appreciate your comments. Any other methods or suggestions would also be highly appreciated. Thank you all in advance, Simon From vnunes from igc.gulbenkian.pt Tue Mar 31 06:34:57 2009 From: vnunes from igc.gulbenkian.pt (Vera Nunes) Date: Tue Mar 31 12:49:53 2009 Subject: [Arabidopsis] Fungus in growth chambers Message-ID: <1238499297.49d1ffe1a3066@webmail.igc.gulbenkian.pt> Hello, I have three Arabidopsis growth rooms with a fungus related problem. The symptoms appear on leafs and translate in a chlorotic area surrounding a translucent zone. Almost all plants are affected. The soil also gets moldy and with algae even if not watered in excess and with good aeration. Did anyone had a similiar problem and can give some hints how to prevent and solve this two situations? And can you advise me a good website or book with pictures of symptoms and signs of the several diseases and pests that might affect Arabidopsis? Thanks a lot! Vera Nunes From submit.jpbcs from gmail.com Mon Mar 2 02:56:43 2009 From: submit.jpbcs from gmail.com (academicjournalslimited jpbcs) Date: Wed Sep 30 17:17:02 2009 Subject: [Arabidopsis] (no subject) Message-ID: *Journal of Plant Breeding and Crop Science* www.academicjournals.org/JPBCS * * Dear Colleague, The *Journal of Plant Breeding and Crop ** **Science** * *(JPBCS) *is a* *multidisciplinary peer-reviewed journal published monthly by Academic Journals ( www.academicjournals.org/JPBCS dedicated to increasing the depth of Crop Science across disciplines with the ultimate aim of improving plant research. *Call for Papers* *JPBCS* will cover all areas of plant breeding and crop science. The journal welcomes he submission of manuscripts that meet the general criteria of significance and scientific excellence, and will publish: ? Original articles in basic and applied research ? Case studies ? Critical reviews, surveys, opinions, commentaries and essays We invite you to submit your manuscript(s) to jpbcs@acadjourn.orgfor publication in the Maiden Issue (January 2009). Our objective is to inform authors of the decision on their manuscript(s) within four weeks of submission. Following acceptance, a paper will normally be published in the next issue. Instruction for authors and other details are available on our website; http://www.academicjournals.org/JPBCS/Instruction.htm JPBCS is an Open Access Journal One key request of researchers across the world is unrestricted access to research publications. Open access gives a worldwide audience larger than that of any subscription-based journal ad thus increases the visibility and impact of published work. It also enhances indexing, retrieval power and eliminates the need for permissions to reproduce and distribute content.JPBCS is fully committed to the Open Access Initiative and will provide free access to all articles as soon as they are published. Best regards, *Anighoro Clementina* Editorial Assistant Journal of Plant Breeding and Crop Science (JPBCS) E-mail: jpbcs@acadjourn.org, www.academicjournals.org/JPBCS From jpbcs from acadjourn.org Thu Mar 5 02:49:41 2009 From: jpbcs from acadjourn.org (Journal of Plant Breeding and Crop Science) Date: Wed Sep 30 17:17:15 2009 Subject: [Arabidopsis] (no subject) Message-ID: *Journal of Plant Breeding and Crop Science* www.academicjournals.org/JPBCS * * Dear Colleague, The *Journal of Plant Breeding and Crop ** **Science** * *(JPBCS) *is a* *multidisciplinary peer-reviewed journal published monthly by Academic Journals ( www.academicjournals.org/JPBCS dedicated to increasing the depth of Crop Science across disciplines with the ultimate aim of improving plant research. *Call for Papers* *JPBCS* will cover all areas of plant breeding and crop science. The journal welcomes he submission of manuscripts that meet the general criteria of significance and scientific excellence, and will publish: ? Original articles in basic and applied research ? Case studies ? Critical reviews, surveys, opinions, commentaries and essays We invite you to submit your manuscript(s) to jpbcs@acadjourn.orgfor publication in the Maiden Issue (January 2009). Our objective is to inform authors of the decision on their manuscript(s) within four weeks of submission. Following acceptance, a paper will normally be published in the next issue. Instruction for authors and other details are available on our website; http://www.academicjournals.org/JPBCS/Instruction.htm JPBCS is an Open Access Journal One key request of researchers across the world is unrestricted access to research publications. Open access gives a worldwide audience larger than that of any subscription-based journal ad thus increases the visibility and impact of published work. It also enhances indexing, retrieval power and eliminates the need for permissions to reproduce and distribute content.JPBCS is fully committed to the Open Access Initiative and will provide free access to all articles as soon as they are published. Best regards, *Anighoro Clementina* Editorial Assistant Journal of Plant Breeding and Crop Science (JPBCS) E-mail: jpbcs@acadjourn.org, www.academicjournals.org/JPBCS From manuscript.jpbcs from acadjourn.org Wed Mar 25 05:05:26 2009 From: manuscript.jpbcs from acadjourn.org (Journal of Plant Breeding and Crop Science) Date: Wed Sep 30 17:17:31 2009 Subject: [Arabidopsis] (no subject) Message-ID: <1546cee10903250305s92caa39le12e02f9e5a1de8a@mail.gmail.com> *Journal of Plant Breeding and Crop Science* www.academicjournals.org/JPBCS * * Dear Colleague, The *Journal of Plant Breeding and Crop ** **Science** * *(JPBCS) *is a* *multidisciplinary peer-reviewed journal published monthly by Academic Journals ( www.academicjournals.org/JPBCS dedicated to increasing the depth of Crop Science across disciplines with the ultimate aim of improving plant research. *Call for Papers* *JPBCS* will cover all areas of plant breeding and crop science. The journal welcomes he submission of manuscripts that meet the general criteria of significance and scientific excellence, and will publish: ? Original articles in basic and applied research ? Case studies ? Critical reviews, surveys, opinions, commentaries and essays We invite you to submit your manuscript(s) to jpbcs@acadjourn.orgfor publication in the Maiden Issue (January 2009). Our objective is to inform authors of the decision on their manuscript(s) within four weeks of submission. Following acceptance, a paper will normally be published in the next issue. Instruction for authors and other details are available on our website; http://www.academicjournals.org/JPBCS/Instruction.htm JPBCS is an Open Access Journal One key request of researchers across the world is unrestricted access to research publications. Open access gives a worldwide audience larger than that of any subscription-based journal ad thus increases the visibility and impact of published work. It also enhances indexing, retrieval power and eliminates the need for permissions to reproduce and distribute content.JPBCS is fully committed to the Open Access Initiative and will provide free access to all articles as soon as they are published. Best regards, *Anighoro Clementina* Editorial Assistant Journal of Plant Breeding and Crop Science (JPBCS) E-mail: jpbcs@acadjourn.org, www.academicjournals.org/JPBCS