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Published (Version of record)CC BY V4.0, Open Access
Published (Version of record)CC BY V4.0, Open
Journal article
Enabling reusability of plant phenomic datasets with MIAPPE 1.1
New Phytologist, Vol.227(1), pp.260-273
07/2020
PMCID: PMC7317793
PMID: 32171029
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Abstract
Summary
Enabling data reuse and knowledge discovery is increasingly critical in modern science, and requires an effort towards standardising data publication practices. This is particularly challenging in the plant phenotyping domain, due to its complexity and heterogeneity.
We have produced the MIAPPE 1.1 release, which enhances the existing MIAPPE standard in coverage, to support perennial plants, in structure, through an explicit data model, and in clarity, through definitions and examples.
We evaluated MIAPPE 1.1 by using it to express several heterogeneous phenotyping experiments in a range of different formats, to demonstrate its applicability and the interoperability between the various implementations. Furthermore, the extended coverage is demonstrated by the fact that one of the datasets could not have been described under MIAPPE 1.0.
MIAPPE 1.1 marks a major step towards enabling plant phenotyping data reusability, thanks to its extended coverage, and especially the formalisation of its data model, which facilitates its implementation in different formats. Community feedback has been critical to this development, and will be a key part of ensuring adoption of the standard.
Details
- Title
- Enabling reusability of plant phenomic datasets with MIAPPE 1.1
- Creators
- Evangelia A Papoutsoglou - Wageningen University & ResearchDaniel Faria - INESC‐IDDaniel Arend - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenElizabeth Arnaud - Parc Scientifique Agropolis IIIoannis N Athanasiadis - Wageningen UniversityInês Chaves - Instituto de Biologia Experimental e Tecnológica (iBET)Frederik Coppens - VIB Center for Plant Systems BiologyGuillaume Cornut - INRAE, URGIBruno V Costa - Universidade de LisboaHanna Ćwiek‐Kupczyńska - Polish Academy of SciencesBert Droesbeke - VIB Center for Plant Systems BiologyRichard Finkers - Wageningen University & ResearchKristina Gruden - National Institute of BiologyAstrid Junker - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenGraham J King - Southern Cross UniversityPaweł Krajewski - Polish Academy of SciencesMatthias Lange - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenMarie‐Angélique Laporte - Parc Scientifique Agropolis IICélia Michotey - INRAE, URGIRichard Ostler - Rothamsted ResearchMarkus Oppermann - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenHendrik Poorter - Macquarie UniversityRicardo Ramı́rez‐Gonzalez - John Innes CentreŽiva Ramšak - National Institute of BiologyJochen C Reif - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenPhilippe Rocca‐Serra - University of OxfordSusanna‐Assunta Sansone - University of OxfordUwe Scholz - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenFrançois TardieuCristobal Uauy - John Innes CentreBjörn Usadel - RWTH Aachen UniversityRichard G. F Visser - Wageningen University & ResearchStephan Weise - Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) GaterslebenPaul J Kersey - Royal Botanic Gardens, KewCélia M Miguel - Universidade de LisboaAnne‐Françoise Adam‐Blondon - INRAE, URGICyril Pommier - INRAE, URGI
- Publication Details
- New Phytologist, Vol.227(1), pp.260-273
- Publisher
- Wiley-Blackwell Publishing Ltd.
- Number of pages
- 14
- Grant note
- research infrastructure for life science data ELIXIR NIH Data Common Fund European Union's Horizon 2020 programme through the ELIXIR‐EXCELERATE project (676559) EPPN2020 (731013) DL 57/2016/CP1351/CT0003 Wellcome Trust (212930/Z/18/Z; 208381/A/17/Z) IMI (116060) German Federal Ministry of Education and Research (BMBF) (031A053; 031A536A,C) European Commission UK Research Councils (BB/L024101/1; BB/L005069/1) National Science Centre (2016/21/N/ST6/02358) Planteome WUR Plant Breeding National Research Institute for Agriculture, Food and Environment (INRAE) European Union (H2020‐EU.3.1; 634107; H2020‐EU.1.4.1.3; 654241; H2020‐EU.1.4.1.1; 676559) CGIAR Platform on Big Data for Agriculture EMPHASIS‐Prep project (739514) French National Research Agency (ANR‐11‐INBS‐0012) Portuguese Fundação para a Ciência e Tecnologia through project BioData.pt (22231)
- Identifiers
- 991012925541602368
- Copyright
- © 2020 The Authors New Phytologist © 2020 New Phytologist Trust This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
- Academic Unit
- Faculty of Science and Engineering; School of Environment, Science and Engineering; Science; Southern Cross Plant Science
- Language
- English
- Resource Type
- Journal article