A "Do-It-Yourself" phenotyping system: measuring growth and morphology throughout the diel cycle in rosette shaped plants.
A "Do-It-Yourself" phenotyping system: measuring growth and morphology throughout the diel cycle in rosette shaped plants.
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DOI：
10.1186/s13007-017-0247-6
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发表时间：
2017
期刊：
影响因子：
5.1
通讯作者：
McCormick AJ
中科院分区：
文献类型：
--
作者：
Dobrescu A;Scorza LCT;Tsaftaris SA;McCormick AJ
高通量表型技术的进步正在迅速扩大植物生物学研究的范围和能力，以测量生长性状。然而，商业表型鉴定设备和基础设施的成本对于大规模应用来说仍然昂贵得令人望而却步，而学术解决方案可能需要大量的当地专业知识。在这里，我们提出了一种低成本的方法，供植物生物学家建立自己的表型系统，以量化拟南芥莲座体在整个Diel周期中的生长速度和表型特征。我们构建了一个由近红外(NIR，940 nm)LED面板和安装的Raspberry PI noir摄像头组成的图像捕获系统，并开发了一个基于MATLAB的软件模块(IDEL PLANT)来表征玫瑰花结的膨胀。我们的软件能够准确地分割和描述图像中的多个玫瑰花朵，而不考虑植物排列或基因，并批量处理图像集。为了进一步验证我们的系统，将野生型拟南芥植株(Col-0)和两个Rubisco含量降低、叶片苍白、生长缓慢的突变株系(1a3b和1a2b)种植在一个植物托盘上。在整个24小时的光暗生长周期(即Diel周期)中，每隔20分钟对植物萌发后9至24天进行成像。所得到的数据集提供了所测试的三个品系在一段时间内玫瑰花丛生长和扩张率差异的动态且不间断的特征。我们的方法为在广泛的实验室环境中建立自动化、可扩展和低成本的表型设施提供了直接的解决方案，可以极大地提高拟南芥土壤生长实验的处理能力和可扩展性。本文的在线版本(10.1186/s13007-0170247-6)包含向授权用户提供的补充材料。
Improvements in high-throughput phenotyping technologies are rapidly expanding the scope and capacity of plant biology studies to measure growth traits. Nevertheless, the costs of commercial phenotyping equipment and infrastructure remain prohibitively expensive for wide-scale uptake, while academic solutions can require significant local expertise. Here we present a low-cost methodology for plant biologists to build their own phenotyping system for quantifying growth rates and phenotypic characteristics of Arabidopsis thaliana rosettes throughout the diel cycle. We constructed an image capture system consisting of a near infra-red (NIR, 940 nm) LED panel with a mounted Raspberry Pi NoIR camera and developed a MatLab-based software module (iDIEL Plant) to characterise rosette expansion. Our software was able to accurately segment and characterise multiple rosettes within an image, regardless of plant arrangement or genotype, and batch process image sets. To further validate our system, wild-type Arabidopsis plants (Col-0) and two mutant lines with reduced Rubisco contents, pale leaves and slow growth phenotypes (1a3b and 1a2b) were grown on a single plant tray. Plants were imaged from 9 to 24 days after germination every 20 min throughout the 24 h light–dark growth cycle (i.e. the diel cycle). The resulting dataset provided a dynamic and uninterrupted characterisation of differences in rosette growth and expansion rates over time for the three lines tested. Our methodology offers a straightforward solution for setting up automated, scalable and low-cost phenotyping facilities in a wide range of lab environments that could greatly increase the processing power and scalability of Arabidopsis soil growth experiments. The online version of this article (10.1186/s13007-017-0247-6) contains supplementary material, which is available to authorized users.
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影响因子：
5.1
作者：
Humplík JF;Lazár D;Husičková A;Spíchal L
通讯作者：
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