MyROOT 2.0 : An automatic tool for high throughput and accurate primary root length measurement
González, Alejandro (Universitat Ramon Llull. Grup de Recerca en Tecnologies Mèdia)
Sevillano, Xavier (Universitat Ramon Llull. Grup de Recerca en Tecnologies Mèdia)
Betegón Putze, Isabel (Centre de Recerca en Agrigenòmica)
Blasco Escámez, David (Centre de Recerca en Agrigenòmica)
Ferrer, Marc (Universitat Ramon Llull. Grup de Recerca en Tecnologies Mèdia)
Caño Delgado, Ana I. (Centre de Recerca en Agrigenòmica)

Data:	2020
Resum:	The automatic measurement of external physical traits (i. e. phenotyping) of plant organs, such as root length -which is highly correlated with plant viability- is one of the current bottlenecks in academic and agricultural research. Although many root length measurement software tools are available to the community, plant scientists often find their usability is limited, the measurements they provide are not accurate enough or they are too limited to specific image characteristics. In response to that, this work describes MyROOT 2. 0, an automatic software tool jointly developed by plant scientists and computer vision engineers to create a high throughput root length measurement tool that reduces user intervention to a minimum. Using Arabidopsis thaliana seedlings grown on agar plates as a case study, MyROOT 2. 0 is capable of detecting the root regions of interest in a fully automatic manner with an accuracy of 98%. Furthermore, this work also presents previously unreported experiments to evaluate several constituting modules of MyROOT 2. 0, such as the ability to determine image scale automatically with subpixel accuracy, or the influence of training the hypocotyl detector using wildtype or mutant samples. Finally, when compared to state-of-the-art root length measurement software tools, MyROOT 2. 0 achieves the highest root detection rate, obtaining measurements which are four times more accurate than its competitors. This makes MyROOT 2. 0 an attractive tool for high throughput root phenotyping.
Ajuts:	Ministerio de Economía y Competitividad BIO2016-78955 European Commission 683163 Ministerio de Educación, Cultura y Deporte FPU15/0282 Ministerio de Economía y Competitividad SEV-2015-485 0533
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, i la comunicació pública de l'obra, sempre que no sigui amb finalitats comercials, i sempre que es reconegui l'autoria de l'obra original. No es permet la creació d'obres derivades.
Llengua:	Anglès
Document:	Article ; recerca ; Versió acceptada per publicar
Matèria:	Plant phenotyping ; Root length measurement ; Imaging tools ; Plant science ; High throughput Root phenotyping
Publicat a:	Computers and Electronics in Agriculture, Vol. 168 (January 2020) , art. 105125, ISSN 0168-1699

DOI: 10.1016/j.compag.2019.105125

Postprint 38 p, 7.4 MB

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