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协调组学生物多样性数据的标准社区:可持续的达尔文核心-微生物组标准互操作性

Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability.

作者信息

Meyer Raïssa, Appeltans Ward, Duncan William D, Dimitrova Mariya, Gan Yi-Ming, Stjernegaard Jeppesen Thomas, Mungall Christopher, Paul Deborah L, Provoost Pieter, Robertson Tim, Schriml Lynn, Suominen Saara, Walls Ramona, Sweetlove Maxime, Ung Visotheary, Van de Putte Anton, Wallis Elycia, Wieczorek John, Buttigieg Pier Luigi

机构信息

Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Reserach, Bremerhaven, Germany Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Reserach Bremerhaven Germany.

Max Planck Institute for Marine Microbiology, Bremen, Germany Max Planck Institute for Marine Microbiology Bremen Germany.

出版信息

Biodivers Data J. 2023 Oct 3;11:e112420. doi: 10.3897/BDJ.11.e112420. eCollection 2023.

Abstract

The standardization of data, encompassing both primary and contextual information (metadata), plays a pivotal role in facilitating data (re-)use, integration, and knowledge generation. However, the biodiversity and omics communities, converging on omics biodiversity data, have historically developed and adopted their own distinct standards, hindering effective (meta)data integration and collaboration. In response to this challenge, the Task Group (TG) for Sustainable DwC-MIxS Interoperability was established. Convening experts from the Biodiversity Information Standards (TDWG) and the Genomic Standards Consortium (GSC) alongside external stakeholders, the TG aimed to promote sustainable interoperability between the Minimum Information about any (x) Sequence (MIxS) and Darwin Core (DwC) specifications. To achieve this goal, the TG utilized the Simple Standard for Sharing Ontology Mappings (SSSOM) to create a comprehensive mapping of DwC keys to MIxS keys. This mapping, combined with the development of the MIxS-DwC extension, enables the incorporation of MIxS core terms into DwC-compliant metadata records, facilitating seamless data exchange between MIxS and DwC user communities. Through the implementation of this translation layer, data produced in either MIxS- or DwC-compliant formats can now be efficiently brokered, breaking down silos and fostering closer collaboration between the biodiversity and omics communities. To ensure its sustainability and lasting impact, TDWG and GSC have both signed a Memorandum of Understanding (MoU) on creating a continuous model to synchronize their standards. These achievements mark a significant step forward in enhancing data sharing and utilization across domains, thereby unlocking new opportunities for scientific discovery and advancement.

摘要

数据标准化,包括原始信息和上下文信息(元数据),在促进数据(重新)使用、整合及知识生成方面发挥着关键作用。然而,专注于组学生物多样性数据的生物多样性和组学领域,历来都制定并采用各自不同的标准,这阻碍了有效的(元)数据整合与协作。为应对这一挑战,成立了可持续达尔文核心-混合序列互操作性任务组(TG)。该任务组召集了生物多样性信息标准(TDWG)和基因组标准联盟(GSC)的专家以及外部利益相关者,旨在促进关于任何(x)序列的最低信息(MIxS)和达尔文核心(DwC)规范之间的可持续互操作性。为实现这一目标,任务组利用共享本体映射简单标准(SSSOM)创建了DwC键到MIxS键的全面映射。此映射与MIxS-DwC扩展的开发相结合,能够将MIxS核心术语纳入符合DwC的元数据记录中,促进MIxS和DwC用户社区之间的无缝数据交换。通过实施这个翻译层,现在以符合MIxS或DwC格式生成的数据能够得到有效中介,打破了数据孤岛,促进了生物多样性和组学领域之间更紧密的协作。为确保其可持续性和持久影响,TDWG和GSC都签署了一份关于创建持续模型以同步其标准的谅解备忘录(MoU)。这些成果标志着在增强跨领域数据共享和利用方面向前迈出了重要一步,从而为科学发现和进步带来了新机遇。

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