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Integrating herbarium specimen observations into global phenology data systems

PREMISE OF THE STUDY: The Plant Phenology Ontology (PPO) was originally developed to integrate phenology observations of whole plants across different global observation networks. Here we describe a new release of the PPO and associated data pipelines that supports integration of phenology observati...

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Autores principales: Brenskelle, Laura, Stucky, Brian J., Deck, John, Walls, Ramona, Guralnick, Rob P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426164/
https://www.ncbi.nlm.nih.gov/pubmed/30937223
http://dx.doi.org/10.1002/aps3.1231
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author Brenskelle, Laura
Stucky, Brian J.
Deck, John
Walls, Ramona
Guralnick, Rob P.
author_facet Brenskelle, Laura
Stucky, Brian J.
Deck, John
Walls, Ramona
Guralnick, Rob P.
author_sort Brenskelle, Laura
collection PubMed
description PREMISE OF THE STUDY: The Plant Phenology Ontology (PPO) was originally developed to integrate phenology observations of whole plants across different global observation networks. Here we describe a new release of the PPO and associated data pipelines that supports integration of phenology observations from herbarium specimens, which provide historical and modern phenology data. METHODS AND RESULTS: Critical changes to the PPO include key terms that describe how measurements from parts of plants, which are captured in most imaged herbarium specimens, relate to whole plants. We provide proof of concept for ingesting annotations from imaged herbarium sheets of Prunus serotina, the common black cherry. We then provide an example analysis of changes in flowering timing over the past 125 years, demonstrating the value of integrating herbarium and observational phenology data sets. CONCLUSIONS: These conceptual and technical advances will support the addition of phenology data from herbaria, but also could be expanded upon to facilitate the inclusion of data from photograph‐based citizen science platforms. With the incorporation of herbarium phenology data, new historical baseline data will strengthen the capability to monitor, model, and forecast plant phenology changes.
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spelling pubmed-64261642019-04-01 Integrating herbarium specimen observations into global phenology data systems Brenskelle, Laura Stucky, Brian J. Deck, John Walls, Ramona Guralnick, Rob P. Appl Plant Sci Protocol Notes PREMISE OF THE STUDY: The Plant Phenology Ontology (PPO) was originally developed to integrate phenology observations of whole plants across different global observation networks. Here we describe a new release of the PPO and associated data pipelines that supports integration of phenology observations from herbarium specimens, which provide historical and modern phenology data. METHODS AND RESULTS: Critical changes to the PPO include key terms that describe how measurements from parts of plants, which are captured in most imaged herbarium specimens, relate to whole plants. We provide proof of concept for ingesting annotations from imaged herbarium sheets of Prunus serotina, the common black cherry. We then provide an example analysis of changes in flowering timing over the past 125 years, demonstrating the value of integrating herbarium and observational phenology data sets. CONCLUSIONS: These conceptual and technical advances will support the addition of phenology data from herbaria, but also could be expanded upon to facilitate the inclusion of data from photograph‐based citizen science platforms. With the incorporation of herbarium phenology data, new historical baseline data will strengthen the capability to monitor, model, and forecast plant phenology changes. John Wiley and Sons Inc. 2019-03-07 /pmc/articles/PMC6426164/ /pubmed/30937223 http://dx.doi.org/10.1002/aps3.1231 Text en © 2019 Brenskelle et al. Applications in Plant Sciences is published by Wiley Periodicals, Inc. on behalf of the Botanical Society of America This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Protocol Notes
Brenskelle, Laura
Stucky, Brian J.
Deck, John
Walls, Ramona
Guralnick, Rob P.
Integrating herbarium specimen observations into global phenology data systems
title Integrating herbarium specimen observations into global phenology data systems
title_full Integrating herbarium specimen observations into global phenology data systems
title_fullStr Integrating herbarium specimen observations into global phenology data systems
title_full_unstemmed Integrating herbarium specimen observations into global phenology data systems
title_short Integrating herbarium specimen observations into global phenology data systems
title_sort integrating herbarium specimen observations into global phenology data systems
topic Protocol Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426164/
https://www.ncbi.nlm.nih.gov/pubmed/30937223
http://dx.doi.org/10.1002/aps3.1231
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