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          Institute: MPI für Entwicklungsbiologie     Collection: Abteilung 6 - Molecular Biology (D. Weigel)     Display Documents

ID: 561627.0, MPI für Entwicklungsbiologie / Abteilung 6 - Molecular Biology (D. Weigel)
Probing the reproducibility of leaf growth and molecular phenotypes: a comparison of three Arabidopsis accessions cultivated in ten laboratories
Authors:Massonnet, C.; Vile, D.; Fabre, J.; Hannah, M. A.; Caldana, C.; Lisec, J.; Beemster, G. T.; Meyer, R. C.; Messerli, G.; Gronlund, J. T.; Perkovic, J.; Wigmore, E.; May, S.; Bevan, M. W.; Meyer, C.; Rubio-Diaz, S.; Weigel, D.; Micol, J. L.; Buchanan-Wollaston, V.; Fiorani, F.; Walsh, S.; Rinn, B.; Gruissem, W.; Hilson, P.; Hennig, L.; Willmitzer, L.; Granier, C.
Date of Publication (YYYY-MM-DD):2010-04
Title of Journal:Plant Physiology
Issue / Number:4
Start Page:2142
End Page:2157
Review Status:not specified
Audience:Not Specified
Abstract / Description:A major goal of the life sciences is to understand how molecular processes control phenotypes. Because understanding biological systems relies on the work of multiple laboratories, biologists implicitly assume that organisms with the same genotype will display similar phenotypes when grown in comparable conditions. We investigated to what extent this holds true for leaf growth variables and metabolite and transcriptome profiles of three Arabidopsis (Arabidopsis thaliana) genotypes grown in 10 laboratories using a standardized and detailed protocol. A core group of four laboratories generated similar leaf growth phenotypes, demonstrating that standardization is possible. But some laboratories presented significant differences in some leaf growth variables, sometimes changing the genotype ranking. Metabolite profiles derived from the same leaf displayed a strong genotype x environment (laboratory) component. Genotypes could be separated on the basis of their metabolic signature, but only when the analysis was limited to samples derived from one laboratory. Transcriptome data revealed considerable plant-to-plant variation, but the standardization ensured that interlaboratory variation was not considerably larger than intralaboratory variation. The different impacts of the standardization on phenotypes and molecular profiles could result from differences of temporal scale between processes involved at these organizational levels. Our findings underscore the challenge of describing, monitoring, and precisely controlling environmental conditions but also demonstrate that dedicated efforts can result in reproducible data across multiple laboratories. Finally, our comparative analysis revealed that small variations in growing conditions (light quality principally) and handling of plants can account for significant differences in phenotypes and molecular profiles obtained in independent laboratories.
Free Keywords:Arabidopsis/*genetics; Gene Expression Profiling; Genotype; Phenotype; Plant Leaves/*growth & development; RNA, Messenger/genetics; Reproducibility of Results; Species Specificity
External Publication Status:published
Document Type:Article
Affiliations:MPI für Entwicklungsbiologie/Abteilung 6 - Molekulare Biologie (Detlef Weigel)
External Affiliations:%G eng
Identifiers:ISSN:1532-2548 (Electronic) 0032-0889 (Linking) %R pp.1... [ID No:1]
URL:http://www.ncbi.nlm.nih.gov/pubmed/20200072 [ID No:2]
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