Development of a novel and rapid phenotype-based screening method to assess rice seedling growth
Abstract Background Rice (Oryza sativa) is one of the most important model crops in plant research. Despite its considerable advantages, (phenotypic) bioassays for rice are not as well developed as for Arabidopsis thaliana. Here, we present a phenotype-based screening method to study shoot-related p...
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doaj-84a7444202fd4508a68256d2c7e53a242020-11-25T03:56:35ZengBMCPlant Methods1746-48112020-10-0116111910.1186/s13007-020-00682-6Development of a novel and rapid phenotype-based screening method to assess rice seedling growthLena Vlaminck0Chananchida Sang-Aram1Deborah Botterman2Christine Jewel C. Uy3Mary Kay Harper4Dirk Inzé5Godelieve Gheysen6Stephen Depuydt7Department of Plant Biotechnology and Bioinformatics, Ghent UniversityDepartment of Plant Biotechnology and Bioinformatics, Ghent UniversityLaboratory of Plant Growth Analysis, Ghent University Global CampusLaboratory of Plant Growth Analysis, Ghent University Global CampusDepartment of Medical Chemistry, University of UtahDepartment of Plant Biotechnology and Bioinformatics, Ghent UniversityDepartment of Biotechnology, Ghent UniversityDepartment of Plant Biotechnology and Bioinformatics, Ghent UniversityAbstract Background Rice (Oryza sativa) is one of the most important model crops in plant research. Despite its considerable advantages, (phenotypic) bioassays for rice are not as well developed as for Arabidopsis thaliana. Here, we present a phenotype-based screening method to study shoot-related parameters of rice seedlings via an automated computer analysis. Results The phenotype-based screening method was validated by testing several compounds in pharmacological experiments that interfered with hormone homeostasis, confirming that the assay was consistent with regard to the anticipated plant growth regulation and revealing the robustness of the set-up in terms of reproducibility. Moreover, abiotic stress tests using NaCl and DCMU, an electron transport blocker during the light dependent reactions of photosynthesis, confirmed the validity of the new method for a wide range of applications. Next, this method was used to screen the impact of semi-purified fractions of marine invertebrates on the initial stages of rice seedling growth. Certain fractions clearly stimulated growth, whereas others inhibited it, especially in the root, illustrating the possible applications of this novel, robust, and fast phenotype-based screening method for rice. Conclusions The validated phenotype-based and cost-efficient screening method allows a quick and proper analysis of shoot growth and requires only small volumes of compounds and media. As a result, this method could potentially be used for a whole range of applications, ranging from discovery of novel biostimulants, plant growth regulators, and plant growth-promoting bacteria to analysis of CRISPR knockouts, molecular plant breeding, genome-wide association, and phytotoxicity studies. The assay system described here can contribute to a better understanding of plant development in general.http://link.springer.com/article/10.1186/s13007-020-00682-6Oryza sativaPhenotype-based screeningSeedling growthAutomated computer analysisMarine natural productsPlength |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Lena Vlaminck Chananchida Sang-Aram Deborah Botterman Christine Jewel C. Uy Mary Kay Harper Dirk Inzé Godelieve Gheysen Stephen Depuydt |
spellingShingle |
Lena Vlaminck Chananchida Sang-Aram Deborah Botterman Christine Jewel C. Uy Mary Kay Harper Dirk Inzé Godelieve Gheysen Stephen Depuydt Development of a novel and rapid phenotype-based screening method to assess rice seedling growth Plant Methods Oryza sativa Phenotype-based screening Seedling growth Automated computer analysis Marine natural products Plength |
author_facet |
Lena Vlaminck Chananchida Sang-Aram Deborah Botterman Christine Jewel C. Uy Mary Kay Harper Dirk Inzé Godelieve Gheysen Stephen Depuydt |
author_sort |
Lena Vlaminck |
title |
Development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
title_short |
Development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
title_full |
Development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
title_fullStr |
Development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
title_full_unstemmed |
Development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
title_sort |
development of a novel and rapid phenotype-based screening method to assess rice seedling growth |
publisher |
BMC |
series |
Plant Methods |
issn |
1746-4811 |
publishDate |
2020-10-01 |
description |
Abstract Background Rice (Oryza sativa) is one of the most important model crops in plant research. Despite its considerable advantages, (phenotypic) bioassays for rice are not as well developed as for Arabidopsis thaliana. Here, we present a phenotype-based screening method to study shoot-related parameters of rice seedlings via an automated computer analysis. Results The phenotype-based screening method was validated by testing several compounds in pharmacological experiments that interfered with hormone homeostasis, confirming that the assay was consistent with regard to the anticipated plant growth regulation and revealing the robustness of the set-up in terms of reproducibility. Moreover, abiotic stress tests using NaCl and DCMU, an electron transport blocker during the light dependent reactions of photosynthesis, confirmed the validity of the new method for a wide range of applications. Next, this method was used to screen the impact of semi-purified fractions of marine invertebrates on the initial stages of rice seedling growth. Certain fractions clearly stimulated growth, whereas others inhibited it, especially in the root, illustrating the possible applications of this novel, robust, and fast phenotype-based screening method for rice. Conclusions The validated phenotype-based and cost-efficient screening method allows a quick and proper analysis of shoot growth and requires only small volumes of compounds and media. As a result, this method could potentially be used for a whole range of applications, ranging from discovery of novel biostimulants, plant growth regulators, and plant growth-promoting bacteria to analysis of CRISPR knockouts, molecular plant breeding, genome-wide association, and phytotoxicity studies. The assay system described here can contribute to a better understanding of plant development in general. |
topic |
Oryza sativa Phenotype-based screening Seedling growth Automated computer analysis Marine natural products Plength |
url |
http://link.springer.com/article/10.1186/s13007-020-00682-6 |
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