A reporting format for leaf-level gas exchange data and metadata
A reporting format for leaf-level gas exchange data and metadata
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DOI：
10.1016/j.ecoinf.2021.101232
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发表时间：
2021-01-29
影响因子：
5.1
通讯作者：
Yang, Dedi
中科院分区：
文献类型：
--
作者：
Ely, Kim S.;Rogers, Alistair;Yang, Dedi
叶片水平气体交换数据支持对植物碳和水通量的机理理解。这些通量为我们理解生态系统功能提供了信息，是陆地生物圈模型参数化的重要制约因素，对于理解植物对全球环境变化的反应是必要的，并且是提高作物产量的努力不可或缺的。使用气体分析仪收集这些数据可能在技术上具有挑战性且耗时，个别研究通常集中在小范围的物种，有限的时间段或有限的地理区域。这些数据的高价值体现在许多重新使用和综合气体交换数据的出版物上，但由于缺乏元数据和数据报告惯例，难以充分和有效地利用这些数据。在这里，我们提出了一个叶级气体交换数据和元数据的报告格式，为数据贡献者提供指导，如何将数据存储在存储库中，以最大限度地提高其可重复性，促进其有效的重用，并为单个数据集增加价值。对数据用户而言，报告格式将使数据储存库能够更好地优化数据搜索和提取，并更容易将类似数据纳入统一的综合产品。报告格式规定了数据表变量命名和单位约定，以及表征实验条件和方案的元数据。对于作为报告格式第一版重点的常见数据类型，即，除了测量结果、暗呼吸、二氧化碳和光响应曲线以及从这些测量结果得出的参数之外，我们还进一步确定了所需的额外数据和元数据，以最大限度地重复使用这些数据类型。为了帮助数据贡献者和数据存储库开发数据摄取工具，我们提供了一个转换表，比较了常见气体交换仪器的输出。与数据收集者、数据用户、仪器制造商和数据科学家进行了广泛的协商，以确保报告格式满足社区的需要。这里介绍的报告格式旨在为今后的发展奠定基础，随着气体交换系统和测量方法的发展，今后将纳入更多的数据类型和变量。报告格式在美国能源部公布？的ESS-DIVE数据存储库，文档和未来的开发工作都在版本控制系统中维护。
Leaf-level gas exchange data support the mechanistic understanding of plant fluxes of carbon and water. These fluxes inform our understanding of ecosystem function, are an important constraint on parameterization of terrestrial biosphere models, are necessary to understand the response of plants to global environmental change, and are integral to efforts to improve crop production. Collection of these data using gas analyzers can be both technically challenging and time consuming, and individual studies generally focus on a small range of species, restricted time periods, or limited geographic regions. The high value of these data is exemplified by the many publications that reuse and synthesize gas exchange data, however the lack of metadata and data reporting conventions make full and efficient use of these data difficult. Here we propose a reporting format for leaf-level gas exchange data and metadata to provide guidance to data contributors on how to store data in repositories to maximize their discoverability, facilitate their efficient reuse, and add value to individual datasets. For data users, the reporting format will better allow data repositories to optimize data search and extraction, and more readily integrate similar data into harmonized synthesis products. The reporting format specifies data table variable naming and unit conventions, as well as metadata characterizing experimental conditions and protocols. For common data types that were the focus of this initial version of the reporting format, i.e., survey measurements, dark respiration, carbon dioxide and light response curves, and parameters derived from those measurements, we took a further step of defining required additional data and metadata that would maximize the potential reuse of those data types. To aid data contributors and the development of data ingest tools by data repositories we provided a translation table comparing the outputs of common gas exchange instruments. Extensive consultation with data collectors, data users, instrument manufacturers, and data scientists was undertaken in order to ensure that the reporting format met community needs. The reporting format presented here is intended to form a foundation for future development that will incorporate additional data types and variables as gas exchange systems and measurement approaches advance in the future. The reporting format is published in the U.S. Department of Energy?s ESS-DIVE data repository, with documentation and future development efforts being maintained in a version control system.