Using single-plant-omics in the field to link maize genes to functions and phenotypes
| Autor: | Hilde Nelissen, Steven Maere, Daniel Felipe Cruz, Sam De Meyer, Dorota Herman, Joke Ampe, Heike Sprenger, Jolien De Block, Dirk Inzé, Tom Van Hautegem |
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| Rok vydání: | 2020 |
| Předmět: |
Data Analysis
Medicine (General) PREDICTION Plant Biology Single plant Transcriptome 0302 clinical medicine Gene Expression Regulation Plant ABIOTIC STRESS Databases Genetic EXPRESSION NOISE Cluster Analysis TRANSCRIPTION FACTOR Biology (General) lab-field gap 0303 health sciences Applied Mathematics Pan-genome food and beverages lab‐field gap Genomics Articles Phenotype Computational Theory and Mathematics Field trial Metabolome General Agricultural and Biological Sciences predictive modeling Information Systems FLOWERING TIME QH301-705.5 Computational biology Biology Genes Plant Polymorphism Single Nucleotide Zea mays General Biochemistry Genetics and Molecular Biology Article 03 medical and health sciences R5-920 field trial Stress Physiological GENOME-WIDE ASSOCIATION Gene 030304 developmental biology single-plant -omics General Immunology and Microbiology Abiotic stress COMPLEX TRAITS fungi Biology and Life Sciences PAN-GENOME single‐plant ‐omics Gene Ontology ARABIDOPSIS-THALIANA 030217 neurology & neurosurgery RESPONSES |
| Zdroj: | Molecular Systems Biology Molecular Systems Biology, Vol 16, Iss 12, Pp n/a-n/a (2020) MOLECULAR SYSTEMS BIOLOGY |
| ISSN: | 1744-4292 |
| Popis: | Most of our current knowledge on plant molecular biology is based on experiments in controlled laboratory environments. However, translating this knowledge from the laboratory to the field is often not straightforward, in part because field growth conditions are very different from laboratory conditions. Here, we test a new experimental design to unravel the molecular wiring of plants and study gene–phenotype relationships directly in the field. We molecularly profiled a set of individual maize plants of the same inbred background grown in the same field and used the resulting data to predict the phenotypes of individual plants and the function of maize genes. We show that the field transcriptomes of individual plants contain as much information on maize gene function as traditional laboratory‐generated transcriptomes of pooled plant samples subject to controlled perturbations. Moreover, we show that field‐generated transcriptome and metabolome data can be used to quantitatively predict individual plant phenotypes. Our results show that profiling individual plants in the field is a promising experimental design that could help narrow the lab‐field gap. A new experimental design based on profiling individual plants of the same inbred line under uncontrolled field conditions produces gene function and phenotype predictions that complement predictions gathered from traditional lab‐based experiments. |
| Databáze: | OpenAIRE |
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