A5083672999- Semantic Web and Ontologies
- Biomedical Text Mining and Ontologies
- Environmental DNA in Biodiversity Studies
- Species Distribution and Climate Change
- Scientific Computing and Data Management
- Research Data Management Practices
- Genomics and Phylogenetic Studies
- Forest Ecology and Biodiversity Studies
- Plant and animal studies
- Marine Ecology and Invasive Species
- Animal and Plant Science Education
- Bioinformatics and Genomic Networks
- Genetic diversity and population structure
- Microbial Community Ecology and Physiology
- Lepidoptera: Biology and Taxonomy
- Slime Mold and Myxomycetes Research
- Ichthyology and Marine Biology
- Data Quality and Management
- Insects and Parasite Interactions
- Cephalopods and Marine Biology
- Image Retrieval and Classification Techniques
- Image Processing and 3D Reconstruction
- Insect and Arachnid Ecology and Behavior
- Molecular Biology Techniques and Applications
- Handwritten Text Recognition Techniques
Zoological Research Museum Alexander Koenig
2012-2025
Leibniz Institute for the Analysis of Biodiversity Change
2022-2025
University of Kassel
2022
Botanische Staatssammlung München
2019
Bavarian Natural History Collections
2019
University of Bonn
2010-2019
Botanic Garden and Botanical Museum Berlin
2019
Staatliches Museum für Naturkunde Stuttgart
2019
Senckenberg Society for Nature Research
2019
Institute for Biodiversity
2016
Insects are the most speciose group of animals, but phylogenetic relationships many major lineages remain unresolved. We inferred phylogeny insects from 1478 protein-coding genes. Phylogenomic analyses nucleotide and amino acid sequences, with site-specific or domain-specific substitution models, produced statistically robust congruent results resolving previously controversial relations hips. dated origin to Early Ordovician [~479 million years ago (Ma)], insect flight Devonian (~406 Ma),...
Invertebrate nervous systems are highly disparate between different taxa. This is reflected in the terminology used to describe them, which very rich and often confusing. Even general terms such as 'brain', 'nerve', 'eye' have been various ways animal groups, but no consensus on exact meaning exists. impedes our understanding of architecture invertebrate system evolutionary transformations characters taxa.We provide a glossary neuroanatomical with precise consistent terminology,...
Biodiversity loss is mainly driven by human activity. While concern grows over the fate of hot spots biodiversity, contemporary species losses still prevail in industrialized nations. Therefore, strategies were formulated to halt or reverse loss, evidence for its value ecosystem services. Maintenance latter through conservation depends on correctly identified species. To this aim, German Federal Ministry Education and Research funding GBOL project, a consortium natural history collections,...
Abstract In recent years, large‐scale DNA barcoding campaigns have generated an enormous amount of COI barcodes, which are usually stored in NCBI 's GenBank and the official Barcode Life database ( BOLD ). data generally associated with more detailed better curated meta‐data, because a great proportion is based on expert‐verified vouchered material, accessible public collections. course initiative German were for reference library 2,846 species Coleoptera from 13,516 individuals. Confronted...
ABSTRACT Illegal wildlife trade is a growing problem internationally. Poaching of animals not only leads to the extinction populations and species but also has serious consequences for ecosystems economies. This study introduces molecular marker system that authorities can use detect substantiate trafficking. SNPSTR markers combine short tandem repeats with single nucleotide polymorphisms within an amplicon increase discriminatory power. Within FOGS (Forensic Genetics Species Protection)...
We provide short tutorials in how to read out specimen label data from type- as well handwritten labels a rapid and easy way with mobile phone. apply them general, but test particular for insect labels, which are generally quite small. alterative procedure instructions Android Apple based environments, protocols single bulk scans. expect that this of capture will be great help simple digitization taxonomy collection management, independent large industrial pipelines. By omitting the step...
Background Distinguishing bona fide (i.e. natural) and fiat artificial) physical boundaries plays a key role for distinguishing natural from artificial material entities is thus relevant to any scientific formal foundational top-level ontology, as instance the Basic Formal Ontology (BFO). In BFO, distinction essential demarcating two categories of entity: object part. The commonly used basis boundary refers criteria: (i) intrinsic qualities bearers spatial/physical discontinuity, qualitative...
Abstract. The hypothesis of a common ancestry the lophophorate taxa Brachiopoda, Bryozoa, Phoronida, and Deuterostomia can be traced back to late 19th century when Masterman recognized tripartite organization body consisting pro‐, meso‐, metasome, along with coelomic cavities in each compartment, as characteristic for Echinodermata, Pterobranchia, Brachiopoda. This idea became quite popular under name “archicoelomate” concept. phoronids, especially their transparent actinotroch larva, has...
The Basic Formal Ontology (BFO) is a top-level formal foundational ontology for the biomedical domain. It has been developed with purpose to serve as an ontologically consistent template categories of application oriented and domain reference ontologies within Open Biological Biomedical Ontologies Foundry (OBO). BFO important enabling OBO facilitate in reliably communicating managing data metadata across databases. Following its intended single inheritance policy, BFO's three material entity...
Background Application oriented ontologies are important for reliably communicating and managing data in databases. Unfortunately, they often differ the definitions use thus do not live up to their potential. This problem can be reduced when using a standardized ontologically consistent template top-level categories from formal foundational ontology. would support ontological consistency within application compatibility between them. The Basic Formal Ontology (BFO) is such ontology...
We introduce Semantic Ontology-Controlled application for web Content Management Systems (SOCCOMAS), a development framework FAIR ('findable', 'accessible', 'interoperable', 'reusable') Web (S-WCMSs). Each S-WCMS run by SOCCOMAS has its contents managed through corresponding knowledge base that stores all data and metadata in the form of semantic graphs Jena tuple store. Automated procedures track provenance, user contributions detailed change history. is accessible via both graphical...
GFBio “German Federation for Biological Data” is a data infrastructure and network set up by several research institutions in Germany. It fosters archiving long-term reusability of provides open free access via joint web portal at www.gfbio.org. As part the working procedures are semantically enriched provided visualization analysis tool. The main aim to make from biological domain reusable accessible on long run following FAIR principles. In order achieve this, workflows best practices have...
Abstract A new and uniquely structured matrix of mammalian phenotypes, MaTrics ( Ma mmalian Tr aits for Comparative Genom ics ) in a digital form is presented. By focussing on species which genome assemblies are available, provides an interface between mammalogy comparative genomics. was developed within project aimed to find genetic causes phenotypic traits mammals using Forward Genomics. This approach requires genomes comprehensive recorded information homologous phenotypes that coded as...
Despite the effectiveness of DNA metabarcoding for gaining insights into biodiversity and environmental species composition, a centralized management storage option including easy accessibility already published data is lacking. Since most as supplementary material or in private repositories, has huge untapped potential to be used analysis across multiple taxa, sample locations research projects. We developed platform register, manage identify amplicon sequence variants (ASVs) zero-radius...
Despite the effectiveness of DNA metabarcoding for gaining insights into biodiversity and environmental species composition, a centralised management storage option including easy accessibility already-published data is lacking. Since most are published as supplementary material or in private repositories, has huge untapped potential to be used analyses across multiple taxa, sample locations research projects. We developed platform register, manage identify amplicon sequence variants (ASVs)...
Here we provide short tutorials to read out specimen label data from type- as well handwritten labels in a rapid and easy way with mobile phone. We apply this general, but test particular for insect labels, which are generally quite small. alterative procedure instructions Android Apple based environments, protocols single bulk scans. expect that of capture will be great help simple digitization taxonomy collection management, off the large industrial pipelines. With omitting step...
Abstract A new and uniquely structured matrix of mammalian phenotypes, MaTrics ( Ma mmalian Tr aits for Comparative Genom ics ) is presented in a digital form. By focussing on species which genome assemblies are available, provides an interface between mammalogy comparative genomics. was developed as part project to link phenotypic differences mammals their genomes using Forward Genomics. Apart from this approach requires information homologous phenotypes that numerically encoded...
We demonstrate the early prototype of a new module for Morph∙D∙Base that allows generation highly formalized semantic morphological descriptions (http://escience.biowikifarm.net/wiki/EScience-Compliant_Standards_for_Morphology). The resulting follow individuals-based Instance Anatomy data scheme (as opposed to class-based Semantic Phenotypes scheme). description specimen's anatomy by generating granular representation parts specimen be described, using ontology-terms from known ontologies....