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SPIRO :
SPIRO : the automated Petri plate imaging platform designed by biologists, for biologists
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- Ohlsson, Jonas A. (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Leong, Jia Xuan (författare)
- Department of Algal Development and Evolution, Max Planck Institute for Biology Tübingen, Tübingen, Germany; Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 230, Heidelberg, Germany; Center for Plant Molecular Biology (ZMBP), University of Tübingen, Auf der Morgenstelle 32, Tübingen, Germany
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- Elander, Pernilla H. (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Ballhaus, Florentine (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Holla, Sanjana (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Dauphinee, Adrian N. (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Johansson, Johan (författare)
- Johan's 3D printing service, Uppsala, Sweden
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- Lommel, Mark (författare)
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 230, Heidelberg, Germany; Department of Microbiology, Saarland University, Campus A1.5, Saarbrücken, Germany
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- Hofmann, Gero (författare)
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 230, Heidelberg, Germany
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- Betnér, Staffan (författare)
- Umeå universitet,Institutionen för folkhälsa och klinisk medicin
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- Sandgren, Mats (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Schumacher, Karin (författare)
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 230, Heidelberg, Germany
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- Bozhkov, Peter (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences
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- Minina, Alyona (författare)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för molekylära vetenskaper,Department of Molecular Sciences,University of Heidelberg
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(creator_code:org_t)
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- John Wiley & Sons, 2024
- 2024
- Engelska.
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Ingår i: The Plant Journal. - : John Wiley & Sons. - 0960-7412 .- 1365-313X. ; 118:2, s. 584-600
- Relaterad länk:
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https://doi.org/10.1...
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https://umu.diva-por... (primary) (Raw object)
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https://pub.epsilon.... (primary) (Raw object) (free)
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https://urn.kb.se/re...
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https://doi.org/10.1...
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https://res.slu.se/i...
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Abstract
Ämnesord
Stäng
- Phenotyping of model organisms grown on Petri plates is often carried out manually, despite the procedures being time-consuming and laborious. The main reason for this is the limited availability of automated phenotyping facilities, whereas constructing a custom automated solution can be a daunting task for biologists. Here, we describe SPIRO, the Smart Plate Imaging Robot, an automated platform that acquires time-lapse photographs of up to four vertically oriented Petri plates in a single experiment, corresponding to 192 seedlings for a typical root growth assay and up to 2500 seeds for a germination assay. SPIRO is catered specifically to biologists' needs, requiring no engineering or programming expertise for assembly and operation. Its small footprint is optimized for standard incubators, the inbuilt green LED enables imaging under dark conditions, and remote control provides access to the data without interfering with sample growth. SPIRO's excellent image quality is suitable for automated image processing, which we demonstrate on the example of seed germination and root growth assays. Furthermore, the robot can be easily customized for specific uses, as all information about SPIRO is released under open-source licenses. Importantly, uninterrupted imaging allows considerably more precise assessment of seed germination parameters and root growth rates compared with manual assays. Moreover, SPIRO enables previously technically challenging assays such as phenotyping in the dark. We illustrate the benefits of SPIRO in proof-of-concept experiments which yielded a novel insight on the interplay between autophagy, nitrogen sensing, and photoblastic response.
Ämnesord
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Botanik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Botany (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Bioinformatics (hsv//eng)
Nyckelord
- 3D printing
- Arabidopsis thaliana
- automated image analysis
- automated imaging
- ImageJ macro
- laboratory automation
- open science hardware
- phenotyping
- plant autophagy
- R
- raspberry pi
- root growth
- seed dormancy
- seed germination
- technical advance
- time-lapse imaging
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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Till lärosätets databas
- Av författaren/redakt...
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Ohlsson, Jonas A ...
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Leong, Jia Xuan
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Elander, Pernill ...
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Ballhaus, Floren ...
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Holla, Sanjana
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Dauphinee, Adria ...
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Johansson, Johan
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Lommel, Mark
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Hofmann, Gero
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Betnér, Staffan
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Sandgren, Mats
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Schumacher, Kari ...
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Bozhkov, Peter
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Minina, Alyona
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visa färre...
- Om ämnet
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- NATURVETENSKAP
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NATURVETENSKAP
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och Biologi
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och Biokemi och mole ...
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- NATURVETENSKAP
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NATURVETENSKAP
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och Biologi
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och Botanik
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- NATURVETENSKAP
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NATURVETENSKAP
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och Data och informa ...
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och Bioinformatik
- Artiklar i publikationen
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The Plant Journa ...
- Av lärosätet
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Umeå universitet
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Sveriges Lantbruksuniversitet