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APPN/GMI Seminar - High-throughput, multi-sensor plant phenotyping (VBCF PHENOPlant project)

by Jez,Jakub

Dear APPN member! I hope you came well and healthy through the (still ongoing) corona crisis. As you might have heard, we are very close to the end of the FFG PHENOPlant project, expecting the commissioning of the infrastructure in the upcoming weeks. (For more regular updates and pictures please visit our Twitter and LinkedIn channel.) Right on time with the re-opening steps in Austria, I would like to invite you to a seminar on high-throughput plant phenotyping by Dr. Klára Panzarová (PSI Research Center) which will take place this Friday, 28th May 2021, 11:30am via Zoom. Klara will talk about the PHENOPlant infrastructure with focus on the incorporated high-tech sensors and the resulting potential biological applications for basic and applied plant research. In particular, following sensors will be presented and discussed: PAM Chlorophyll Fluorescence imaging, LWIR thermal imaging, RGB imaging, 3D imaging (scan) and hyperspectral imaging (VNIR & SWIR). This seminar intends to introduce PHENOPlant capabilities and functionality to the APPN community, but also to stimulate new research ideas and projects that are now feasible also in Austria. But also, to further educate young scientist; so, please feel free to share this invitation with your students and your network. Dr. Klára Panzarová, PSI – Photon Systems Instruments, spol. s r.o. "VBCF PHENOPlant project: Multi-sensor, high-throughput plant phenotyping infrastructure - potential applications in basic and applied plant research". Friday, 28th May 2021, 11:30am on Zoom https://us02web.zoom.us/j/89561047758?pwd=VjZhOFlSQzRaekpXV0tybHhJTGQ3UT09 Meeting ID: 895 6104 7758, Passcode: 292115 Hope to see many of you. Stay safe and healthy, best wishes, Jakub. [VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub> [A picture containing text, indoor, wall Description automatically generated] FFG PHENOPlant<https://www.viennabiocenter.org/facilities/plant-sciences/phenoplant/>: Austrias 1st multi-sensor, high-throughput plant phenotyping infrastructure launching 2021! From: "Gsur,Martina" <martina.gsur(a)gmi.oeaw.ac.at> Date: Thursday, 20. May 2021 at 15:26 Cc: Jakub Jez <jakub.jez(a)vbcf.ac.at> Subject: Seminar - VBCF PHENOPlant project Dear all, You are cordially invited to a seminar hosted by Jakub Jez, VBCF, Plant Sciences Facility: Dr. Klára Panzarová, PSI – Photon Systems Instruments, spol. s r.o. "VBCF PHENOPlant project: Multi-sensor, high-throughput plant phenotyping infrastructure - potential applications in basic and applied plant research". Friday, 28th May 2021, 11:30am on Zoom https://us02web.zoom.us/j/89561047758?pwd=VjZhOFlSQzRaekpXV0tybHhJTGQ3UT09 Meeting ID: 895 6104 7758, Passcode: 292115 Best wishes, Martina

May 25, 2021

Re: [APPN] 3rd APPN meeting - From Cell to Field - June 25th, VBC, Vienna AT

by Stefanie Wienkoop

Dear colleagues and friends, I hope you are doing well! Unfortunately, due to the COVID-19, we have to postpone our 3rd APPN meeting indefinitely. Keeping you updated and seeing you hopefully soon. Regards from the organizers team Stefanie Wienkoop, Markus Teige and Jakub Jez

April 7, 2020

Special Issue "Remote and Proximal Assessment of Plant Traits" - Remote Sensing

by Jez,Jakub

FYI on behalf of Ittai Herrmann and Katja Berger. Best wishes, Jakub. --- Hello all, I hope you are all well. In case the topic of the special issue is in your scope and you consider paper submission, please let us know. Link to the special issue ----https://www.mdpi.com/journal/remotesensing/special_issues/Remote_Proximal Just to make it clear, this is an open access journal and therefore there is a publication fee - check the details on line- https://www.mdpi.com/journal/remotesensing/apc The scope of the special issue: ******************************************** Dear Colleagues, Plants are optically sensed by a variety of sensors and at different scales to answer diverse research questions and to meet practical challenges. Research in quantitative remote sensing starts at the organ scale moving to the entire plant, population, field, or biotope, up to data obtained from entire continents to explore global phenomena. The use of digital information has been abundantly exploited for more efficient cultivation of large areas and has become part of agricultural practices worldwide for irrigation and fertilization based on management zones. In addition, breeders are using high-throughput phenotyping in selection experiments for biotic and abiotic stresses as well as yield quantity and quality. Ecologists are using remotely sensed information to assess carbon footprint. Analyzing high-quality remote sensing observations is also challenging in view of upcoming hyperspectral spaceborne missions and their associated large data streams. Therefore, the development and adaptation of fast, effective, accurate, and generic retrieval algorithms for biophysical and biochemical traits is required. Methods should be provided on appropriate platforms and evaluated by plant physiologists, agronomists, and ecologists. This Special Issue strongly encourages contributions aimed at estimating the morpho-physiological and biochemical plant traits (e.g., plant height, LAI, biomass, nutrient contents, water status, pigment concentration, photosynthetic activity, disease resistance, yield prediction, pollutants detection) from Earth Observation data in agricultural and ecological contexts to support food security and sustainability. This Special Issue aims to cover a vast range of spatial resolutions (from continent to sub-leaf or root) and spectral resolutions (RGB, multi- and hyperspectral imagery, as well as point data). Besides diverse empirical and physically based retrieval approaches, “hybrid approaches” combining the generic properties of radiative transfer models with the flexibility and efficiency of nonlinear nonparametric methods (machine learning) are welcome. Moreover, time-series analysis related to plant traits assessment can be exploited. This Special Issue is expected to demonstrate recent progress and to discuss future perspectives in plant traits sensing. Dr. Ittai Herrmann Dr. Katja Berger Guest Editors ************************************************* Stay healthy and happy, Cheers, Ittai -- Ittai Herrmann, PhD The Plant Sensing Laboratory The Robert H. Smith Institute for Plant Sciences and Genetics in Agriculture The Robert H. Smith Faculty of Agriculture, Food and Environment The Hebrew University of Jerusalem P.O. Box 12, Rehovot 7610001, ISRAEL Tel: +972-8-9489757 Mobile: +972-52-3947255 Fax: +972-8-9489918 Lab: +972-8-9489958 Email: ittai.herrmann(a)mail.huji.ac.il<mailto:alon.samach@mail.huji.ac.il> Skype: ittaih ORCID ID: https://orcid.org/0000-0003-1136-1883 https://www.researchgate.net/profile/Ittai_Herrmann http://departments.agri.huji.ac.il/plantscience/people/Ittai_Herrmann

March 19, 2020

3rd APPN meeting - From Cell to Field - June 25th, VBC, Vienna AT

by Stefanie Wienkoop

Dear colleagues and friends, It is our pleasure to invite you to the 4th Austrian Plant Phenotyping Network (APPN) Conference featuring “From Cell to Field” with the major focus on Pattern Recognition, Machine Learning and Modelling in the context of Plant Phenotyping. Joint Organization by the University of Vienna, VBCF and OAGM The meeting will take place on June 25, 2020 at the Vienna BioCenter (Free) registration open: https://appn.at/4thappn/ Confirmed speakers (in alphabetical order): Sven Fahrner, ESFRI-EMPHASIS, DE Kristina Gruden, NIB, SI Verena Ibl, Mosys, University of Vienna, AT Astrid Junker, IPK Gatersleben, DE Thomas Nägele, LMU München, DE Peter M. Roth, Graz University of Technology , AT Wolfram Weckwerth, Mosys, Uni Vienna, AT Please feel free to share & spread the word! Looking very much forward to meeting you, Stefanie WIenkoop, Markus Teige and Jakub Jez

March 13, 2020

Invitation: 2nd D-root meeting, 4th March, University of Vienna

by Jez,Jakub

INVITATION: 2nd D-ROOT MEETING https://droot.info/ Date: 4th March 2020. Venue: University of Vienna, Althanstrasse 14, 1090 Vienna, UZA II, Seminar Room 2D404 Plant performance is strongly affected by environmental conditions. Subsequently, results of controlled conditions of the lab – “Pampered inside, pestered outside” – are often not suitable to translate back to field conditions. Besides phenotypically differences between lab- and field-grown plants, shoot and root environment must be considered. The D-root meeting was set up to bring scientist together to study the root system architecture (RSA) including the morphological as well as the molecular mechanisms of roots grown under more natural light conditions. First mentioned in 2015, the community working with the D-root device is strongly growing comprising researchers with basic and applied plant background working with Arabidopsis thaliana or cereals. This meeting brings scientist together to present, share and discuss new results and applications concerning experiments with dark-grown roots. Best wishes, Jakub. [VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub> [signature_1548388024] FFG PHENOPlant<https://www.ffg.at/sites/default/files/allgemeine_downloads/strukturprogram…>: Austrias 1st multi-sensor, high-throughput plant phenotyping infrastructure launching 2021!

Feb. 26, 2020

Re: [APPN] GMI Seminar - Ethan Stewart, 13.9.2019: “The application of a deep learning approach for quantitative disease phenotyping in drone images”.

by Jez,Jakub

Dear all, this is a kind reminder on Ethan’s GMI Seminar today 11:30 GMI OSR! Best, Jakub From: Jakub Jez <jakub.jez(a)vbcf.ac.at> Date: Thursday, 5. September 2019 at 10:24 To: APPN community <appn(a)lists.vbcf.ac.at> Subject: GMI Seminar - Ethan Stewart, 13.9.2019: “The application of a deep learning approach for quantitative disease phenotyping in drone images”. Dear APPN community, It is a pleasure to welcome Ethan Stewart to our team and to the APPN community! Ethan recently started at the VBCF PlantS Facility as a Staff Scientist. He will take over the hands-on responsibility for the present and future (FFG PHENOPlant Infrastructure) plant phenotyping services. Moreover, Ethan will strengthen our data analysis service and also extend our phenotyping service by the application of deep learning approaches. Attached please find the invitation to his GMI Seminar next week: Ethan Stewart, Plant Sciences, Vienna BioCenter Core Facilities<https://www.viennabiocenter.org/facilities/plant-sciences/> “The application of a deep learning approach for quantitative disease phenotyping in drone images” Friday, 13 September 2019, 11:30am @ GMI Orange Seminar Room. Looking forward to seeing you next Friday at the VBC! Best regards, Jakub [Image removed by sender. VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub> [Image removed by sender. signature_1166874101] FFG PHENOPlant<https://www.ffg.at/sites/default/files/allgemeine_downloads/strukturprogram…>: Austrias 1st multi-sensor, high-throughput plant phenotyping infrastructure launching 2021! From: "Gsur,Martina" <martina.gsur(a)gmi.oeaw.ac.at> Date: Monday, 12. August 2019 at 12:13 Subject: GMI Seminar - Ethan Stewart, 13.9.2019 Dear all, another GMI seminar to announce for September, hosted by Kelly Swarts: Ethan Stewart, Plant Sciences, Vienna BioCenter Core Facilities<https://www.viennabiocenter.org/facilities/plant-sciences/> “The application of a deep learning approach for quantitative disease phenotyping in drone images” Friday, 13 September 2019, 11:30am @ GMI Orange Seminar Room. Best, Martina

Sept. 13, 2019

GMI Seminar - Ethan Stewart, 13.9.2019: “The application of a deep learning approach for quantitative disease phenotyping in drone images”.

by Jez,Jakub

Dear APPN community, It is a pleasure to welcome Ethan Stewart to our team and to the APPN community! Ethan recently started at the VBCF PlantS Facility as a Staff Scientist. He will take over the hands-on responsibility for the present and future (FFG PHENOPlant Infrastructure) plant phenotyping services. Moreover, Ethan will strengthen our data analysis service and also extend our phenotyping service by the application of deep learning approaches. Attached please find the invitation to his GMI Seminar next week: Ethan Stewart, Plant Sciences, Vienna BioCenter Core Facilities<https://www.viennabiocenter.org/facilities/plant-sciences/> “The application of a deep learning approach for quantitative disease phenotyping in drone images” Friday, 13 September 2019, 11:30am @ GMI Orange Seminar Room. Looking forward to seeing you next Friday at the VBC! Best regards, Jakub [VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub> [signature_1166874101] FFG PHENOPlant<https://www.ffg.at/sites/default/files/allgemeine_downloads/strukturprogram…>: Austrias 1st multi-sensor, high-throughput plant phenotyping infrastructure launching 2021! From: "Gsur,Martina" <martina.gsur(a)gmi.oeaw.ac.at> Date: Monday, 12. August 2019 at 12:13 Subject: GMI Seminar - Ethan Stewart, 13.9.2019 Dear all, another GMI seminar to announce for September, hosted by Kelly Swarts: Ethan Stewart, Plant Sciences, Vienna BioCenter Core Facilities<https://www.viennabiocenter.org/facilities/plant-sciences/> “The application of a deep learning approach for quantitative disease phenotyping in drone images” Friday, 13 September 2019, 11:30am @ GMI Orange Seminar Room. Best, Martina

Sept. 5, 2019

WG:IPPS2019 - abstract submission extended!

by Jez,Jakub

Dear All, the deadlines for abstract submission and travel grant application has been extended: - The Abstract Submission for the IPPS2019 closes: August 20, 2019 - The Travel Grant closes for early career scientists: August 20, 2019 On behalf of IPPN Von: FM-ippn Gesendet: Mittwoch, 24. Juli 2019 14:29 An: FM-ippn <ippn(a)fz-juelich.de<mailto:ippn@fz-juelich.de>> Betreff: IPPS2016 - registration / update IPPS2019 update: The Abstract Submission for the IPPS2019 closes: August 1, 2019 The Travel Grant closes for early career scientists: August 1, 2019 Please consider registering at an early stage, you may need to apply for a VISA and require an invitation letter. https://ipps2019.plant-phenotyping.org/ipps_home On behalf of IPPN _______________________________________________________________________________________ The registration for the 6th international Plant Phenotyping Symposium is open: https://www.plant-phenotyping.org/ipps_home Join the symposium - 22-26th of October Apply for participation at the training school - 17-21st of October On behalf of IPPN [https://www.plant-phenotyping.org/lw_resource/datapool/systemfiles/elements…] ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------ Forschungszentrum Juelich GmbH 52425 Juelich Sitz der Gesellschaft: Juelich Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498 Vorsitzender des Aufsichtsrats: MinDir Volker Rieke Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender), Karsten Beneke (stellv. Vorsitzender), Prof. Dr.-Ing. Harald Bolt, Prof. Dr. Sebastian M. Schmidt ------------------------------------------------------------------------------------------------ ------------------------------------------------------------------------------------------------

July 31, 2019

3rd APPN Meeting presentations published!

by Jez,Jakub

Dear all, We have just published all presentations of the 3rd Meeting and an image gallery! Visit our homepage for download and enjoy the read: https://www.appn.at/3rdappn/ Best regards, Jakub [VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub> [signature_1620261999] FFG PHENOPlant<https://www.ffg.at/sites/default/files/allgemeine_downloads/strukturprogram…>: Austrias 1st multi-sensor, high-throughput plant phenotyping infrastructure launching 2021!

July 12, 2019

Program 3rd APPN Meeting published!

by Jez,Jakub

Dear friends, We have just published the program for the 3rd APPN meeting! https://www.appn.at/3rdappn/ Registration still open till the 7th June. Looking forward to meeting you! Best regards from Vienna, Jakub [VBC Logo] Jakub Jez Head, Plant Sciences Facility T +43 1 7962324 7090<tel:+43179623247090> M +43 664 8084 77090<tel:+43%20664%208084%2077090> jakub.jez(a)vbcf.ac.at<mailto:jakub.jez@vbcf.ac.at> Vienna BioCenter Core Facilities GmbH Dr. Bohr-Gasse 3 1030 Vienna Austria www.vbcf.ac.at<https://www.vbcf.ac.at> Chair, Austrian Plant Phenotyping Network (APPN<https://www.appn.at/>) and Support Group Member of ESFRI EMPHASIS<https://emphasis.plant-phenotyping.eu/> project Twitter: @VBCF_PlantS<https://twitter.com/VBCF_PlantS> LinkedIn: www.linkedin.com/in/jezjakub<http://www.linkedin.com/in/jezjakub>

May 29, 2019