FOGS: A SNPSTR Marker Database to Combat Wildlife Trafficking and a Cell Culture Bank for Ex-Situ Conservation.

Illegal wildlife trade is a growing problem internationally. Poaching of animals not only leads to the extinction of populations and species but also has serious consequences for ecosystems and economies. This study introduces a molecular marker system that authorities can use to detect and substantiate wildlife trafficking.

SOCCOMAS: a FAIR web content management system that uses knowledge graphs and that is based on semantic programming.

We introduce Semantic Ontology-Controlled application for web Content Management Systems (SOCCOMAS), a development framework for FAIR ('findable', 'accessible', 'interoperable', 'reusable') Semantic Web Content Management Systems (S-WCMSs). Each S-WCMS run by SOCCOMAS has its contents managed through a corresponding knowledge base that stores all data and metadata in the form of semantic knowledge graphs in a Jena tuple store. Automated procedures track provenance, user contributions and detailed change history.

Phylogenomics resolves the timing and pattern of insect evolution.

Insects are the most speciose group of animals, but the phylogenetic relationships of many major lineages remain unresolved. We inferred the phylogeny of insects from 1478 protein-coding genes. Phylogenomic analyses of nucleotide and amino acid sequences, with site-specific nucleotide or domain-specific amino acid substitution models, produced statistically robust and congruent results resolving previously controversial phylogenetic relations hips.

Fiat or bona fide boundary--a matter of granular perspective.

Background: Distinguishing bona fide (i.e. natural) and fiat (i.

Accommodating ontologies to biological reality--top-level categories of cumulative-constitutively organized material entities.

Background: The Basic Formal Ontology (BFO) is a top-level formal foundational ontology for the biomedical domain. It has been developed with the purpose to serve as an ontologically consistent template for top-level categories of application oriented and domain reference ontologies within the Open Biological and Biomedical Ontologies Foundry (OBO). BFO is important for enabling OBO ontologies to facilitate in reliably communicating and managing data and metadata within and across biomedical databases.

Top-level categories of constitutively organized material entities--suggestions for a formal top-level ontology.

Background: Application oriented ontologies are important for reliably communicating and managing data in databases. Unfortunately, they often differ in the definitions they use and thus do not live up to their potential. This problem can be reduced when using a standardized and ontologically consistent template for the top-level categories from a top-level formal foundational ontology.

Invertebrate neurophylogeny: suggested terms and definitions for a neuroanatomical glossary.

Background: Invertebrate nervous systems are highly disparate between different taxa. This is reflected in the terminology used to describe them, which is very rich and often confusing. Even very general terms such as 'brain', 'nerve', and 'eye' have been used in various ways in the different animal groups, but no consensus on the exact meaning exists.