A novel mesh processing based technique for 3D plant analysis.

BMC Plant Biology
Anthony PaprokiJurgen Fripp

Abstract

In recent years, imaging based, automated, non-invasive, and non-destructive high-throughput plant phenotyping platforms have become popular tools for plant biology, underpinning the field of plant phenomics. Such platforms acquire and record large amounts of raw data that must be accurately and robustly calibrated, reconstructed, and analysed, requiring the development of sophisticated image understanding and quantification algorithms. The raw data can be processed in different ways, and the past few years have seen the emergence of two main approaches: 2D image processing and 3D mesh processing algorithms. Direct image quantification methods (usually 2D) dominate the current literature due to comparative simplicity. However, 3D mesh analysis provides the tremendous potential to accurately estimate specific morphological features cross-sectionally and monitor them over-time. In this paper, we present a novel 3D mesh based technique developed for temporal high-throughput plant phenomics and perform initial tests for the analysis of Gossypium hirsutum vegetative growth. Based on plant meshes previously reconstructed from multi-view images, the methodology involves several stages, including morphological mesh segmentation, phenot...Continue Reading

References

Aug 1, 1966·Psychological Reports·J J Bartko
Jul 24, 2008·BMC Plant Biology·Max BylesjöNathaniel R Street
Mar 1, 1979·Psychological Bulletin·P E Shrout, J L Fleiss
Dec 10, 2009·Journal of Experimental Botany·J VosP H B de Visser
Jan 29, 2010·Plant Physiology·Anjali S Iyer-PascuzziPhilip N Benfey
Mar 3, 2011·The Review of Scientific Instruments·Wanneng YangQian Liu
Mar 15, 2011·Bioinformatics·Asad NaeemTony P Pridmore
Apr 2, 2011·Plant Physiology·Randy T ClarkLeon V Kochian
May 17, 2011·BMC Bioinformatics·Anja HartmannFalk Schreiber
Nov 15, 2011·Trends in Plant Science·Robert T Furbank, Mark Tester

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Citations

May 28, 2013·Trends in Plant Science·Stijn DhondtDirk Inzé
Nov 15, 2013·Journal of Experimental Botany·Fanying KongQingwei Meng
Jun 19, 2013·Journal of the American Medical Informatics Association : JAMIA·P BourgeatJ Fripp
Feb 19, 2014·Sensors·Stefan PaulusHeiner Kuhlmann
Mar 5, 2013·Annual Review of Plant Biology·Fabio Fiorani, Ulrich Schurr
Aug 1, 2015·Sensors·Thuy Tuong NguyenNeelima Sinha
Oct 28, 2014·Sensors·Lei LiDanfeng Huang
Sep 1, 2015·Frontiers in Plant Science·Md Matiur RahamanMing Chen
Aug 9, 2015·BMC Bioinformatics·Mirwaes WahabzadaAnne-Katrin Mahlein
May 24, 2015·Current Opinion in Plant Biology·Nathalie WuytsDirk Inzé
May 7, 2015·BMC Bioinformatics·Maria KlodtDaniel Cremers
Mar 22, 2014·Current Opinion in Plant Biology·Tim B BrownJustin O Borevitz
Jul 5, 2016·Frontiers in Plant Science·Johanna RousselHanno Scharr
Jun 24, 2016·Cell Systems·Jeffrey A CruzDavid M Kramer
Jun 16, 2017·Science China. Life Sciences·Qinghua GuoChengcai Chu
Jun 14, 2013·International Journal of Molecular Sciences·Man-Wah LiHon-Ming Lam
Apr 4, 2018·Sensors·Dionisio AndújarJosé Dorado
Feb 7, 2018·Frontiers in Plant Science·Shangpeng SunPeng W Chee
Oct 20, 2017·GigaScience·Fernando Perez-SanzMarcos Egea-Cortines
Jan 4, 2019·The Plant Journal : for Cell and Molecular Biology·Ben WardAnton van den Hengel
Sep 10, 2019·Plant Methods·Stefan Paulus
Oct 17, 2017·Frontiers in Plant Science·Hanno ScharrMark Müller-Linow
Aug 22, 2020·Horticulture Research·Bo LiRichard J Harrison
Feb 1, 2016·Functional Plant Biology : FPB·Jonathon A GibbsTony Pridmore
Apr 29, 2020·Scientific Reports·Rongsheng ZhuQingshan Chen
Mar 12, 2020·Plant Methods·Helin DutagaciDavid Rousseau
Jun 19, 2019·Microscopy Research and Technique·Arooj SafdarJunaid A Khan

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Methods Mentioned

BETA
imaging techniques

Software Mentioned

LAMINA
HTPheno
RootReader3D
PlantScan
3DSOM
TraitMill
GROWSCREEN 3D
PlantScan Windows
PHENOPSIS
GROWSCREEN

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