limits (T) and relative minimum yield (m) were estimated for all 243 measurements. 244 245 Plant growth analysis using the high-throughput phenotyping platform 246 To analyse the growth data of the plants obtained from the high-throughput platform, custom scripts and 247 functions were written in “R” (available via gitlab: 248 https://git.wur.nl/published_papers/willig_2023_camera-setup). For analysis we used the median daily 249 leaf area (cm2), which was calculated by taking the median leaf area of the daily measurements (15 per 250 day). The data was log2-transformed before analysis for normalization. The rate of growth was 251 determined per day per plant by 252 𝑅𝑥,𝑡 = log2(𝐴𝑥,𝑡−1 − 𝐴𝑥,𝑡
Open resource ↗git.wur.nl/published_papers/willig_2023_camera-setup · pdf-raw-page:11 lines:1-60Unverified paper record
From root to shoot; Quantifying nematode tolerance in Arabidopsis thaliana by high-throughput phenotyping of plant development
bioRxiv (Cold Spring Harbor Laboratory) · 15 Mar 2023 · 10.1101/2023.03.15.532731
Abstract
Abstract Nematode migration, feeding site formation, withdrawal of plant assimilates, and activation of plant defence responses have a significant impact on plant growth and development. Plants display intraspecific variation in tolerance limits for root-feeding nematodes. Although disease tolerance has been recognised as a distinct trait in biotic interactions of mainly crops, we lack mechanistic insights. Progress is hampered by difficulties in quantification and laborious screening methods. We turned to the model plant Arabidopsis thaliana , since it offers extensive resources to study the molecular and cellular mechanisms underlying nematode-plant interactions. Through imaging of tolerance-related parameters the green canopy area was identified as an accessible and robust measure for assessing damage due to cyst nematode infection. Subsequently, a high-throughput phenotyping platform simultaneously measuring the green canopy area growth of 960 A. thaliana plants was developed. This platform can accurately measure cyst- and root-knot nematode tolerance limits in A. thaliana through classical modelling of tolerance limits. Furthermore, real-time monitoring provided data for a novel view of tolerance, identifying a compensatory growth response. These findings show that our phenotyping platform will enable further studies into a mechanistic understanding of tolerance to below-ground biotic stress. Highlight The mechanisms of tolerance to root-parasitic nematodes remain unknown. We developed a high-throughput phenotyping system that enables unravelling the underlying mechanisms of tolerance to nematodes.
Plant phenotyping relevance
線虫耐性を評価するためのキャノピー画像計測と高スループット表現型解析プラットフォームの開発が研究の中心である。
abstractThrough imaging of tolerance-related parameters the green canopy area was identified as an accessible and robust measure for assessing damage due to cyst nematode infection.
abstractSubsequently, a high-throughput phenotyping platform simultaneously measuring the green canopy area growth of 960 A. thaliana plants was developed.
abstractThis platform can accurately measure cyst- and root-knot nematode tolerance limits in A. thaliana through classical modelling of tolerance limits.
Code and data availability
The authors state that custom R scripts and functions used to analyse the high-throughput green canopy area growth data are publicly available via their GitLab repository at git.wur.nl/published_papers/willig_2023_camera-setup, and the data availability statement points to the same repository. The protocols.io link is
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