Aligning Standards Communities: Sustainable Darwin Core MIxS Interoperability

Biodiversity Information Science and Standards

article

Raïssa Meyer¹  Pier Luigi Buttigieg²  John Wieczorek³  Thomas Stjernegaard Jeppesen⁴  William D. Duncan⁵  Yi-Ming Gan⁶  Maxime Sweetlove⁶  Saara Suominen⁷  Task Group Sustainable Darwin Core MIxS Interoperability⁸ 

[1] Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research;Helmholtz Metadata Collaboration, GEOMAR Helmholtz Centre for Ocean Research Kiel;Museum of Vertebrate Zoology, University of California;Global Biodiversity Information Facility;Lawrence Berkeley National Laboratory;Royal Belgian Institute of Natural Sciences;Ocean Biodiversity Information System ,(OBIS), Intergovernmental Oceanographic Commission of UNESCO, IOC Project Office for IODE;TDWG Genomic Biodiversity Interest Group

关键词: metadata standards;    omics;    biodiversity;    eDNA;    semantics;    data policy;   

DOI  :  10.3897/biss.5.73775

来源: Pensoft

【 摘 要 】

Biodiversity is increasingly being assessed using omic technologies (e.g. metagenomics or metatranscriptomics); however, the metadata generated by omic investigations is not fully harmonised with that of the broader biodiversity community. There are two major communities developing metadata standards specifications relevant to omic biodiversity data: TDWG, through its Darwin Core (DwC) standard, and the Genomic Standard Consortium (GSC), through its Minimum Information about any (x) Sequence (MIxS) checklists. To prevent these specifications leading to silos between the communities using them (e.g. INSDC: an internationally mandated database collaboration for nucleotide sequencing data [from health, biodiversity, microbiology, etc.] using the MIxS checklists; OBIS and GBIF: global biodiversity data networks using the DwC standard), there is a need to harmonise them at the level of the standards organisations themselves.To this end, we have brought together representatives from these standardisation bodies, along with representatives from established biodiversity data infrastructures, domain experts, data generators, and publishers to develop sustainable interoperability between the two specifications. Together, we have:generated a semantic mapping between the terminology used in each specification, and syntactic mapping of their associated values following the Simple Standard for Sharing Ontology Mappings (SSSOM), andcreated an example MIxS-DwC extension showing the incorporation of unmapped MIxS terms into a DwC-Archive.To sustain these mechanisms of interoperability, we have proposed a Memorandum of Understanding between the GSC and TDWG. During our work, we also noted a number of key challenges that currently preclude interoperation between these two specifications. In this talk, we will outline the major steps we took to get here, as well as the future activities we recommend based on our outputs.

【 授权许可】

Unknown