scholarly journals ChronoRoot: High-throughput phenotyping by deep segmentation networks reveals novel temporal parameters of plant root system architecture

GigaScience ◽  
2021 ◽  
Keyword(s):  
Root System ◽  
High Throughput ◽  
System Architecture ◽  
Plant Root ◽  
Root System Architecture ◽  
Temporal Parameters ◽  
High Throughput Phenotyping ◽  
Plant Root System

scholarly journals GiA Roots: software for the high throughput analysis of plant root system architecture

2012 ◽  
Vol 12 (1) ◽  
pp. 116 ◽  
Author(s):  
Taras Galkovskyi ◽  
Yuriy Mileyko ◽  
Alexander Bucksch ◽  
Brad Moore ◽  
Olga Symonova ◽  
...  
Keyword(s):  
Root System ◽  
High Throughput ◽  
System Architecture ◽  
Plant Root ◽  
Root System Architecture ◽  
High Throughput Analysis ◽  
Throughput Analysis ◽  
Plant Root System

scholarly journals ChronoRoot: High-throughput phenotyping by deep segmentation networks reveals novel temporal parameters of plant root system architecture

2020 ◽  
Author(s):  
Nicolás Gaggion ◽  
Federico Ariel ◽  
Vladimir Daric ◽  
Éric Lambert ◽  
Simon Legendre ◽  
...  
Keyword(s):  
Deep Learning ◽  
Root System ◽  
High Throughput ◽  
System Architecture ◽  
Root Traits ◽  
Root System Architecture ◽  
Machine Intelligence ◽  
Reconstruction Process ◽  
High Throughput Phenotyping ◽  
3D Printed

ABSTRACTDeep learning methods have outperformed previous techniques in most computer vision tasks, including image-based plant phenotyping. However, massive data collection of root traits and the development of associated artificial intelligence approaches have been hampered by the inaccessibility of the rhizosphere. Here we present ChronoRoot, a system which combines 3D printed open-hardware with deep segmentation networks for high temporal resolution phenotyping of plant roots in agarized medium. We developed a novel deep learning based root extraction method which leverages the latest advances in convolutional neural networks for image segmentation, and incorporates temporal consistency into the root system architecture reconstruction process. Automatic extraction of phenotypic parameters from sequences of images allowed a comprehensive characterization of the root system growth dynamics. Furthermore, novel time-associated parameters emerged from the analysis of spectral features derived from temporal signals. Altogether, our work shows that the combination of machine intelligence methods and a 3D-printed device expands the possibilities of root high-throughput phenotyping for genetics and natural variation studies as well as the screening of clock-related mutants, revealing novel root traits.

scholarly journals Local and Systemic Regulation of Plant Root System Architecture and Symbiotic Nodulation by a Receptor-Like Kinase

PLoS Genetics ◽  
2014 ◽  
Vol 10 (12) ◽  
pp. e1004891 ◽  
Author(s):  
Emeline Huault ◽  
Carole Laffont ◽  
Jiangqi Wen ◽  
Kirankumar S. Mysore ◽  
Pascal Ratet ◽  
...  
Keyword(s):  
Root System ◽  
System Architecture ◽  
Plant Root ◽  
Root System Architecture ◽  
Receptor Like Kinase ◽  
Plant Root System

A Review of the Regulation of Plant Root System Architecture by Rhizosphere Microorganisms

2016 ◽  
Vol 36 (17) ◽  
Author(s):  
陈伟立 CHEN Weili ◽  
李娟 LI Juan ◽  
朱红惠 ZHU Honghui ◽  
陈杰忠 CHEN Jiezhong ◽  
姚青 YAO Qing
Keyword(s):  
Root System ◽  
System Architecture ◽  
Plant Root ◽  
Root System Architecture ◽  
Rhizosphere Microorganisms ◽  
Plant Root System

scholarly journals Role of Auxin and Nitrate Signaling in the Development of Root System Architecture

2021 ◽  
Vol 12 ◽  
Author(s):  
Qi-Qi Hu ◽  
Jian-Qin Shu ◽  
Wen-Min Li ◽  
Guang-Zhi Wang
Keyword(s):  
Root System ◽  
System Architecture ◽  
Plant Root ◽  
Root System Architecture ◽  
External Information ◽  
Nitrate Signaling ◽  
Use Efficiency ◽  
Plant Root System ◽  
Indole 3 Acetic Acid

The plant root is an important storage organ that stores indole-3-acetic acid (IAA) from the apical meristem, as well as nitrogen, which is obtained from the external environment. IAA and nitrogen act as signaling molecules that promote root growth to obtain further resources. Fluctuations in the distribution of nitrogen in the soil environment induce plants to develop a set of strategies that effectively improve nitrogen use efficiency. Auxin integrates the information regarding the nitrate status inside and outside the plant body to reasonably distribute resources and sustainably construct the plant root system. In this review, we focus on the main factors involved in the process of nitrate- and auxin-mediated regulation of root structure to better understand how the root system integrates the internal and external information and how this information is utilized to modify the root system architecture.

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