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Advanced Infrastructure and Management of BGBM Biological Collections

The BGBM (Botanic Garden and Botanical Museum) boasts an impressive collection of 3.5 million herbarium specimens, 22,000 living species, and extensive seed and DNA banks. The IT infrastructure includes 180 workstations, high-performance servers, and a robust archival system. With a digitization rate of around 10%, over 100,000 high-quality images are available, alongside access to 600,000 records across 12 collections. Future enhancements focus on improving interoperability and migrating to advanced collection management systems like Specify 6.

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Advanced Infrastructure and Management of BGBM Biological Collections

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  1. BGBM IT infrastructure and collection management Anton Güntsch

  2. BGBM Collections • Herbarium: 3.5M Specimens • Living Collection: 22000 species • Seed bank • DNA bank • Special collections • Digitization rate: ~10% • High quality images: ~100000 • Hosting: 600000 records from 12 collections

  3. IT architecture 180 workstations 45 Linux and Microsoft Servers (20 virtualized on VMWare) 2 IBM Bladecenters with 170TB Storage 8-node Linux-Cluster used with 454-Sequencer DBMS: SQL-Server, MySQL, PostgreSQL CMS: Drupal, Wiki: MediaWiki Backups: local storage cluster and archiving facilities of the Freie Universität

  4. Collection management solutions (1) Accession System for the living collection including seed bank: BoGART (SQL-Server, Access clients) Central Herbarium Management (SQL-Server, Access clients) DNA-Bank (MySQL, PHP client) Rapid data entry form including label printing (EXCEL) Several smaller database applications not yet integrated into the Central Herbarium Management (e.g. Access, Specify)

  5. Collection management solutions (2) (Almost) all collection databases are equipped with BioCASE/ABCD provider software. Common access to BGBM collections at: http://search.biocase.org/bgbm/

  6. Main issues faced Interoperability between systems (e.g. herbarium and fruit/seed collection) Annotation workflow Common taxonomic backbone

  7. Future plans Migrate herbarium database to an existing collection management system Candidates: Specify 6, DiversityCollection, Virtual Herbarium Vienna Testing is underway

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