- plants-user - lists.vbcf.ac.at

VBCF PlantS new office: PG12
by Jez,Jakub Dec. 10, 2018

Dec. 10, 2018

Dear all, PlantS moved today to a new office: PG12 You can find us right next to the GMI IT service desk/net4biz. Best, Anna, Steffi and Jakub -- Jakub Jeż Head, Plant Sciences Facility [cid:image001.png@01D33C34.13393AC0] VIENNA BIOCENTER CORE FACILITIES GmbH Dr. Bohr-Gasse 3 | 1030 Vienna | Austria VBC 2 | Plaza Floor | room PG-12 phone: +43 1 796 2324 7090 mobile: +43 664 8084 7 7090 e-mail: jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@csf.ac.at> web: www.vbcf.ac.at<http://www.csf.ac.at/> www.vbcf.ac.at/plants<http://www.csf.ac.at/plants> Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> Austrian Plant Phenotyping Network – APPN www.appn.at<http://www.appn.at>

1 0

Paternity leave 2nd and last part: October - December 2018
by Jez,Jakub Oct. 3, 2018

Oct. 3, 2018

Dear all, Due to some important deadlines at work I had to split my paternity leave into two parts. The second (and last) part will start on the 11th October and run till the 11th January 2019. During this time, I will be again remotely available to coordinate the Facility – but please consider that I will be travelling with very limited internet access and a time shift. Stefanie’s working hours will be increased during this time period. I am also very happy to announce that Anna Smolka has very recently started at the PlantS Facility on a part-time basis (0.2FTEs). She will mainly be involved in our HT plant phenotyping and image analysis service. For urgent issues (technical problems, pest infestations, etc.) please write to: plants(a)vbcf.ac.at<mailto:plants@vbcf.ac.at> For daily facility issues like e.g. consumables, standard phytotron programming, booking system, please contact: anneliese.auer(a)gmi.oeaw.ac.at<mailto:anneliese.auer@gmi.oeaw.ac.at> For programming of complex environments, the HT plant phenotyping service and the image analysis service please contact: stefanie.koemeda(a)vbcf.ac.at<mailto:stefanie.koemeda@vbcf.ac.at> For APPN.at related issues: appn(a)vbcf.ac.at<mailto:appn@vbcf.ac.at> In doubt, please write to plants(a)vbcf.ac.at<mailto:plants@vbcf.ac.at> I am looking forward to seeing you again! Kind regards, Jakub -- Jakub Jeż Head, Plant Sciences Facility [cid:image001.png@01D33C34.13393AC0] VIENNA BIOCENTER CORE FACILITIES GmbH Dr. Bohr-Gasse 3 | 1030 Vienna | Austria VBC 2 | Plaza Floor | room PG-3 phone: +43 1 796 2324 7090 mobile: +43 664 8084 7 7090 e-mail: jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@csf.ac.at> web: www.vbcf.ac.at<http://www.csf.ac.at/> www.vbcf.ac.at/plants<http://www.csf.ac.at/plants> Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> Austrian Plant Phenotyping Network – APPN www.appn.at<http://www.appn.at>

1 0

NEW SOIL for testing: Gramoflor Topf Nr. 2006
by Jez,Jakub Sept. 20, 2018

Sept. 20, 2018

Dear all, There is a new soil substrate available for testing at both PlantS locations: Gramoflor Profi-Substrat Topf Nr. 2006 Why? As you might know, we regularly had inconsistent and low product quality of our standard substrate ED63, in the past. Sometimes the soil is too dry and can’t take water, another time too wet and full of fungi; perhaps you also remember the “country smell” in the Facility. . . On the other hand, the rough structure makes it necessary to sieve the soil for sensitive experiments including HT plant phenotyping. Therefore, we have started looking for a similar but more professional and homogenous substrate to (depending on your feedback, fully or partially) replace the ED63 in future. How? We have propagated Arabidopsis and N. benthamiana on seven new soil types and compared them to the two standard substrates under standard conditions in two independent experiments. Parameters that were scored include all Lemnatec features (size, shape, color etc. over time), flowering time, plant height, dry weight and seed weight and a thorough visual examination by Anneliese. Based on these results we have decided to give the Gramoflor Profi-Substart Topf Nr. 2006 a chance. Overall, the performance of Gramoflor 2006 is highly comparable to ED63 while providing a highly homogeneous structure and batch quality. Please drop us a mail for detailed results. What do we know about the winner: Gramoflor Profi-Substart Topf Nr. 2006 All-purpose potting-soil for professional use, moderately fertilized (1.2 kg/m3), mixture of slightly decomposed bog peat with organic and/or mineral and/or synthetic additives; pH=5.8 (5.4-6.2) same as ED63, medium rough structure, includes clay, mineral fertilizers, slow-release fertilizers. https://www.gramoflor.com/files/profiflyer_de_130115_ansicht.pdf (Line: Topf+TonXL GF-Topf) What will happen to ED63: We will, of course, keep providing the ED63 in parallel and order upon actual usage. In case of questions please contact us. We are very happy to receive your valuable feedback on the new substrate! Kind regards, the VBCF PlantS Team supported by the FFG FEMTech grant (Klara Wuketich)

1 1

Plant Phenotyping Forum Invitation - 13 September, 1-5pm, Vienna BioCenter Campus
by Jez,Jakub Sept. 5, 2018

Sept. 5, 2018

The registration for the Plant Phenotyping Forum closes soon, do not miss to register and to join the meeting. - 13 September, 1-5pm, Vienna Biocenter Campus - Registration: https://www.appn.at/plant-phenotyping-forum/ In case you can’t join in person you can follow and participate in the LIVE BROADCAST of the penal discussion: https://join.me/plant-phenotyping Looking very much forward to meeting you, Jakub Jez and Roland Pieruschka [/Users/jakub.jez/Library/Containers/com.microsoft.Outlook/Data/Library/Caches/Signatures/signature_397492860]<http://www.appn.at/> Von: Pieruschka, Roland Gesendet: Freitag, 10. August 2018 16:07 An: FM-emphasis <emphasis(a)fz-juelich.de> Betreff: Plant Phenotyping Forum Invitation - 13 September, 1-5pm, Vienna BioCenter Campus Dear all, It is our pleasure to invite you to the Plant Phenotyping Forum discussing the role of Austria and Eastern Europe in plant phenotyping for sustainable agriculture. The Forum will address the plant phenotyping landscape and role of Austria, Czech Republic and Slovakia within the context of European plant phenotyping initiatives such as EMPHASIS and EPPN2020 with the goal to advance basic plant research, plant breeding and foster sustainable agriculture. The meeting will take place on September 13, 2018 , 1-5pm at the Vienna BioCenter Campus, Research Institute of Molecular Pathology, IMP Lecture Hall. (Free) registration: https://www.appn.at/plant-phenotyping-forum/ Confirmed participants and speakers (in alphabetical order): Marian Brestic, Prof., Slovak Agricultural University in Nitra, Department of Plant Physiology (SUA) Hermann Bürstmayr, Head, Division of Plant Breeding and Head, Institute for Biotechnology in Plant Production (BOKU) Pavel Hauptvogel, Director, Research Institute of Plant Production (NPPC) Ivan Ingelbrecht, Head, Plant Breeding and Genetics Laboratory, (IAEA) Jakub Jez, Head, VBCF Plant Sciences Facility & coordinator Austrian Plant Phenotyping Network (APPN) Gabriela Pastori, Chair, ESFRI Strategy Working Group on Health and Food Uli Schurr, Head, IBG-2: Plant Sciences, FZ Jülich & Coordinator ESFRI EMPHASIS project Lukas Spichal, Palacky University Olomouc, coordinator of the Czech Plant Phenotyping Network (CZPPN) Andreas Walter, Operating Director BioImaging Austria (CMI) A panel discussion, moderated by Uli Schurr, will follow the presentations. For those interested, we will tour the VBCF Plant Sciences Facility incl. the HT phenotyping platform. The full program is attached to this mail. Please feel free to share & spread the word! Looking very much forward to meeting you, Jakub Jez and Roland Pieruschka [Das Bild wurde vom Absender entfernt. https://www.appn.at/wp-content/uploads/2017/03/Logo-full.png] https://www.appn.at/ Welcome [www.appn.at]<https://www.appn.at/> www.appn.at<http://www.appn.at> Welcome to the Austrian Plant Phenotyping Network (APPN) - "Enhancing the Austrian Plant Phenotyping Community!" Summary: Within this Plant Phenotyping Forum, we will discuss the role of Austria and Eastern Europe in agricultural production, as regions with huge potential and long-term traditions in the agricultural sector. Specifically, breeding and the consideration of environmental effects for continental climatic environments may require new breeding efforts in this region, including new strategies to develop new germplasm in pre-breeding programs and the application of modern breeding technologies, specifically to improve stress resistance to close the yield gap in times of a changing climate. In this context, the need to characterize the phenotype is essential to understand fundamental processes, which determine the structure and function of plants in particular. While significant progress has been made in molecular methods in recent years and the genomes of several plants have been sequenced this knowledge is not sufficient to simulate the phenotype of a plant without knowing the history and the dynamic interaction of the plant with its environment. Plant phenotyping - quantitative analysis of structure and function of plants - has become the major bottleneck and, quantitative information on genotype-environment relations is the key to address future challenges. Increasing the plant biomass production quantitatively and qualitatively can provide major contributions to grand challenges like food security on a global level, at the same time reducing a major driver for migration movements. Beyond fostering scientific progress, plant phenotyping requires a community effort. In this context EPPN2020, a EU funded I3 project provides access to key plant phenotyping facilities in Europe while EMPHASIS, a ESFRI listed project aims at the development of a long term sustainable pan European plant phenotyping infrastructure that addresses the needs of the diverse users from academia and industry including the operation and development of a pan-European e-infrastructure to effectively collect, process and provide data for the community. ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ Forschungszentrum Juelich GmbH 52425 Juelich Sitz der Gesellschaft: Juelich Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 Vorsitzender des Aufsichtsrats: MinDir Dr. Karl Eugen Huthmacher Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt, Prof. Dr. Sebastian M. Schmidt ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ -- Tato sprava bola prehladana na vyskyt virusov a nebezpecneho obsahu antivirovym systemom MailScanner<http://www.mailscanner.info/>, a zda sa byt cista.

1 0

SD phytotrons: sensitive experiments ongoing
by Jez,Jakub Aug. 30, 2018

Aug. 30, 2018

Dear all, Please note that there are sensitive experiments ongoing in the SD phytotrons. Please do not enter the SD phytotrons (#10, #13 and #18/19) during the dark period! The light period is indicated by the blue light above every single phytotron (ON = ON), so there is no need to open neither the door nor the small window. Thank you for your cooperation. Best regards, Jakub -- Jakub Jeż Head, Plant Sciences Facility [cid:image001.png@01D33C34.13393AC0] VIENNA BIOCENTER CORE FACILITIES GmbH Dr. Bohr-Gasse 3 | 1030 Vienna | Austria VBC 2 | Plaza Floor | room PG-3 phone: +43 1 796 2324 7090 mobile: +43 664 8084 7 7090 e-mail: jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@csf.ac.at> web: www.vbcf.ac.at<http://www.csf.ac.at/> www.vbcf.ac.at/plants<http://www.csf.ac.at/plants> Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> Austrian Plant Phenotyping Network – APPN www.appn.at<http://www.appn.at>

1 0

Plant Phenotyping Forum Invitation - 13 September, 1-5pm, Vienna BioCenter Campus
by Jez,Jakub Aug. 10, 2018

Aug. 10, 2018

Dear all, It is our pleasure to invite you to the Plant Phenotyping Forum discussing the role of Austria and Eastern Europe in plant phenotyping for sustainable agriculture. The Forum will address the plant phenotyping landscape and role of Austria, Czech Republic and Slovakia within the context of European plant phenotyping initiatives such as EMPHASIS and EPPN2020 with the goal to advance basic plant research, plant breeding and foster sustainable agriculture. The meeting will take place on September 13, 2018 , 1-5pm at the Vienna BioCenter Campus, Research Institute of Molecular Pathology, IMP Lecture Hall. (Free) registration: https://www.appn.at/plant-phenotyping-forum/ Confirmed participants and speakers (in alphabetical order): Marian Brestic, Slovak Agricultural University in Nitra, vice-rector for research and science Hermann Bürstmayr, Head, Division of Plant Breeding and Head, Institute for Biotechnology in Plant Production (BOKU) Pavel Hauptvogel, Director, Research Institute of Plant Production (NPPC) Ivan Ingelbrecht, Head, Plant Breeding and Genetics Laboratory, (IAEA) Jakub Jez, Head, VBCF Plant Sciences Facility & coordinator Austrian Plant Phenotyping Network (APPN) Gabriela Pastori, Chair, ESFRI Strategy Working Group on Health and Food Uli Schurr, Head, IBG-2: Plant Sciences, FZ Jülich & Coordinator ESFRI EMPHASIS project Lukas Spichal, Palacky University Olomouc, coordinator of the Czech Plant Phenotyping Network (CZPPN) Andreas Walter, Operating Director BioImaging Austria (CMI) A panel discussion, moderated by Uli Schurr, will follow the presentations. For those interested, we will tour the VBCF Plant Sciences Facility incl. the HT phenotyping platform. The full program is attached to this mail. Please feel free to share & spread the word! Looking very much forward to meeting you, Jakub Jez and Roland Pieruschka [https://www.appn.at/wp-content/uploads/2017/03/Logo-full.png] https://www.appn.at/ Welcome [www.appn.at]<https://www.appn.at/> www.appn.at Welcome to the Austrian Plant Phenotyping Network (APPN) - "Enhancing the Austrian Plant Phenotyping Community!" Summary: Within this Plant Phenotyping Forum, we will discuss the role of Austria and Eastern Europe in agricultural production, as regions with huge potential and long-term traditions in the agricultural sector. Specifically, breeding and the consideration of environmental effects for continental climatic environments may require new breeding efforts in this region, including new strategies to develop new germplasm in pre-breeding programs and the application of modern breeding technologies, specifically to improve stress resistance to close the yield gap in times of a changing climate. In this context, the need to characterize the phenotype is essential to understand fundamental processes, which determine the structure and function of plants in particular. While significant progress has been made in molecular methods in recent years and the genomes of several plants have been sequenced this knowledge is not sufficient to simulate the phenotype of a plant without knowing the history and the dynamic interaction of the plant with its environment. Plant phenotyping - quantitative analysis of structure and function of plants - has become the major bottleneck and, quantitative information on genotype-environment relations is the key to address future challenges. Increasing the plant biomass production quantitatively and qualitatively can provide major contributions to grand challenges like food security on a global level, at the same time reducing a major driver for migration movements. Beyond fostering scientific progress, plant phenotyping requires a community effort. In this context EPPN2020, a EU funded I3 project provides access to key plant phenotyping facilities in Europe while EMPHASIS, a ESFRI listed project aims at the development of a long term sustainable pan European plant phenotyping infrastructure that addresses the needs of the diverse users from academia and industry including the operation and development of a pan-European e-infrastructure to effectively collect, process and provide data for the community.

1 0

TODAY: VBCF PlantS beer hour and 5years party!
by Jez,Jakub Aug. 2, 2018

Aug. 2, 2018

Dear friends, Don’t miss our beer hour / 5 years party! TODAY, 5pm @IMBA Atrium There will be LIVE Music by Dave McKendry typical “Heurigen” food honored Austrian wine (white, red and the best rosé I have ever had!) Draft beer: Weitra Bräu Hadmar Bio Sacher Cake! Looking forward to meeting you! Your VBCF PlantS Team, Klara, Stefanie, Jola, Anneliese & Jakub [cid:image001.png@01D42A50.797D44B0]

1 0

VBCF PlantS beer hour and 5years party invitation!
by Jez,Jakub July 24, 2018

July 24, 2018

Dear friends of PlantS! It is a pleasure to invite you to celebrate with us the PlantS 5 years anniversary! Sometimes happiness is right in front of you - so let us bring, at least little bit, of the typical Austrian “Heurigen” flair to the VBC! There will be LIVE MUSIC by Dave McKendry, typical Austrian Heurigen-Schmankerl and (honored) local wine and draft beer. We look forward to seeing you Thursday, 2nd August 2018 starting at 5pm @IMBA Atrium Your VBCF PlantS Team, Klara, Stefanie, Jola, Anneliese & Jakub [cid:image001.png@01D42342.E8268800]

1 0

FW: Upcoming LED light upgrade of ALL phytotrons
by Jez,Jakub May 16, 2018

May 16, 2018

Dear all, The LED panels for the GMI phytotrons will be delivered by next week and the installation will start on the 27.12.2018. The order will be mainly given by the phytotron number (5-17). For one phytotron we count with around 3-4 hours of work. In praxis, we will exchange one panel by another during full operation of the respective phytotrons – temperature and humidity will not be significantly affected. Of course, we will also take care of your plants. But, please make sure that all older plants are tied up and/or packed in bags. LEDs for the MFPL phytotrons will be delivered in January 2018. For the specs of the LED please refer to the attachment and the e-mail below. Briefly, the spectrum is fixed (see attachment) but the intensity adjustable – for the beginning we will set the same intensity which was set in the old setup (2, 4 or 6 tubes). “We are fully aware that any changes of environmental conditions might influence your experiments, phenotypes etc. and cause issues with repeatability/reproducibility of results. Still, the desired plan foresees to replace all tubes in one go during the first two weeks of January 2018. In case of ongoing, highly sensitive experiments and experiment repetitions falling into this timeframe or any other concerns please get in touch with me asap!” I am happy to discuss the upgrade with you and your group in person and provide you more details on the product and upgrade process. In case of any questions or concerns please do not hesitate to contact me! Best regards, Jakub and Borries From: Jakub Jez <jakub.jez(a)vbcf.ac.at> Date: Friday, November 10, 2017 at 10:10 AM To: "Becker, Claude" <claude.becker(a)gmi.oeaw.ac.at>, "Belkhadir, Youssef" <youssef.belkhadir(a)gmi.oeaw.ac.at>, "Berger, Frederic" <frederic.berger(a)gmi.oeaw.ac.at>, "Busch, Wolfgang" <wolfgang.busch(a)gmi.oeaw.ac.at>, "Dagdas, Yasin" <yasin.dagdas(a)gmi.oeaw.ac.at>, "Djamei, Armin" <armin.djamei(a)gmi.oeaw.ac.at>, "Mittelsten Scheid, Ortrun" <ortrun.mittelstenscheid(a)gmi.oeaw.ac.at>, "Nodine, Michael" <michael.nodine(a)gmi.oeaw.ac.at>, "Nordborg, Magnus" <magnus.nordborg(a)gmi.oeaw.ac.at>, Andreas Bachmair <andreas.bachmair(a)univie.ac.at>, Peter Schlögelhofer <peter.schloegelhofer(a)univie.ac.at>, Markus Teige <Markus.Teige(a)univie.ac.at> Cc: "Luberacki, Borries" <borries.luberacki(a)gmi.oeaw.ac.at>, "VBCFplants.GRP" <plants(a)vbcf.ac.at>, "Tiran,Andreas" <Andreas.Tiran(a)vbcf.ac.at>, "Kiess, Markus" <markus.kiess(a)gmi.oeaw.ac.at>, Martins Fabien <fabien.martins(a)mfpl.ac.at>, "Schmidt,Herbert" <Herbert.Schmidt(a)imp.ac.at>, "Rojdl,Martin" <Martin.Rojdl(a)imba.oeaw.ac.at> Subject: Upcoming LED light upgrade of ALL phytotrons Dear group leaders, Unfortunately, I was not able to present the planned LED upgrade during the last GMI GL meeting. However, we have finalized the LED product development and are very satisfied with the outcome! It is planned, to replace the present fluorescent tube installations in ALL phytotrons (GMI -1 and MFPL 8) by a novel custom designed LED solution provided by the German company RHENAC GreenTec AG. A high-tech LED light solution by RHENAC (variable spectrum) was already installed in chamber #1 (phenotyping) and #2 (Marchantia) last year and is performing very well. Briefly, the final product design will facilitate i.a. the following: * Plug & play design * a fixed and extensively tested light spectrum which is designed to be as close as possible to full sunlight (spectrum see attachment) * highly homogenous spatial distribution of light intensity and spectrum (minimized edge effects) * up to max. ~320 µmol m-2 s-1 (limit of passive cooling setups) * 8 fixed light intensity steps (á ~40 µmol m-2 s-1 ) plus additional linear adjustments in between The upgrade is planned for the first two weeks of January 2018. We are fully aware that any changes of environmental conditions might influence your experiments, phenotypes etc. and cause issues with repeatability/reproducibility of results. Still, the desired plan foresees to replace all tubes in one go during the first two weeks of January 2018. In case of ongoing, highly sensitive experiments and experiment repetitions falling into this timeframe or any other concerns please get in touch with me asap. I am happy to discuss the upgrade with you and your group in person and provide you more details on the product and upgrade process. Best regards, Jakub & Borries -- Jakub Jeż Head, Plant Sciences Facility [cid:image001.png@01D374E8.856DDA00] VIENNA BIOCENTER CORE FACILITIES GmbH Dr. Bohr-Gasse 3 | 1030 Vienna | Austria VBC 2 | Plaza Floor | room PG-3 phone: +43 1 796 2324 7090 mobile: +43 664 8084 7 7090 e-mail: jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@csf.ac.at> web: www.vbcf.ac.at<http://www.csf.ac.at/> www.vbcf.ac.at/plants<http://www.csf.ac.at/plants> Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> Austrian Plant Phenotyping Network – APPN www.appn.at<http://www.appn.at> COST FA1306 “The quest for tolerant varieties - Phenotyping at plant and cellular level” www.plant-phenotyping.org/home_costfa1306<http://www.plant-phenotyping.org/home_costfa1306>

1 1

Old GMI light panels to give away
by Jez,Jakub April 24, 2018

April 24, 2018

Dear all, Since we have upgraded the GMI phytotrons with state-of-the-art LED lights, there are plenty of old light panels available. In case you are interested in taking some (preferentially all of them :) please drop me a short message asap – by Thursday latest. Alu case, 1580x600x75 mm, 6 fluorescent tubes – you know them the best. Sorry for the spam. Best, Jakub -- Jakub Jeż Head, Plant Sciences Facility [cid:image001.png@01D33C34.13393AC0] VIENNA BIOCENTER CORE FACILITIES GmbH Dr. Bohr-Gasse 3 | 1030 Vienna | Austria VBC 2 | Plaza Floor | room PG-3 phone: +43 1 796 2324 7090 mobile: +43 664 8084 7 7090 e-mail: jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@csf.ac.at> web: www.vbcf.ac.at<http://www.csf.ac.at/> www.vbcf.ac.at/plants<http://www.csf.ac.at/plants> Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> Austrian Plant Phenotyping Network – APPN www.appn.at<http://www.appn.at> COST FA1306 “The quest for tolerant varieties - Phenotyping at plant and cellular level” www.plant-phenotyping.org/home_costfa1306<http://www.plant-phenotyping.org/home_costfa1306>

1 0