20110222 behesty monitoring and measuring biodiversity

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lecture presented at Shahid Beheshti University, Tehran, Iran. Feb 22, 2011

lecture presented at Shahid Beheshti University, Tehran, Iran. Feb 22, 2011

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  • 1. Monitoring and MeasuringBiodiversity: Some Thoughts Donat Agosti Beheshty University, Tehran February 21, 2011
  • 2. Do you know ...
  • 3. Earth Summit
  • 4. IPBES
  • 5. NCBI
  • 6. GBIF
  • 7. TDWG
  • 8. Darwin Core
  • 9. They all have to do withglobal biodiversity issues
  • 10. Earth SummitRio Earth Summit 1992:Global Biodiversity CrisisConvention on Biological Diversity
  • 11. IPBESIntergovernmental Platform on Biodiversity and Ecoystem ServicesTool to assess global biodiversity patterns and change
  • 12. NCBINational Center for Biotechnology InformationGlobal resource for molecular biology information (eg GenBank)
  • 13. GBIFGlobal Biodiversity Information FacilityAccess point to specimen data
  • 14. http://data.gbif.org/countries/IR
  • 15. TDWGTaxonomic Data Working GroupBody to create standards to exchange data to build highly distributed global information systems
  • 16. Darwin CoreGlobal standard to describe specimen data needed for exchange
  • 17. An example from the Neurocommons text miningpilot:• PubMed abstracts: > 16,000,000• CNS classified abstracts: 874,727• text mining recognized: 368,688• text mining processed: 94,381• extracted graph of 30,000+ relationships and 5,500genes and proteins “protein-protein interaction networks” John Wilbanks, Neurocommons
  • 18. “protein-proteininteraction networks” John Wilbanks, Neurocommons
  • 19. This is the world we live in:A truly global community where machines can do an unimaginable amount of work.
  • 20. It has its dangers:We are not all the same
  • 21. It has its dangers:We are not all the sameIt has its advantages:All events can be put in context.
  • 22. Is something a local, regional or global event?
  • 23. Is something a local, regional or global event?Connecting time series (local) with spatial data
  • 24. Is something a local, regional or global event?Or is it just a fluctuation or artifact?
  • 25. Monitoring as a comparative science
  • 26. Monitoring as a comparative scienceChange over timeChange over land use
  • 27. What kind of and how many ants? Δt ? Δt ? What is the impact ofΔt ? land use change? Δ? Δt ? What happens over time? Δt ? What happens overForest Urban areas space and time?Pasture CampusCacao / Cabruca
  • 28. What does it mean?ScienceStandard sampling
  • 29. Standard repetitive samples
  • 30. What does it mean?ScienceStandard samplingQuality control
  • 31. What does it mean?ScienceStandard samplingQuality controlStandards for data descriptionExchange protocols
  • 32. What does it mean?ScienceStandard samplingQuality controlStandards for data description
  • 33. http://www.sciencemag.org/content/331/6018/703.full.html
  • 34. selamatbonjour ciao salam helo
  • 35. What does it mean?ScienceStandard samplingQuality controlStandards for data descriptionExchange protocols
  • 36. Plazi Search and Retrieval Server: Access to data TAPIR, SPM You You human machine You
  • 37. What do we need?Access
  • 38. Before antbase.org, Harvard„s Museum ofComparative Zoology could claim to be the onlylocation with a complete set of ant systematicspublications from 1758 - present.Through antbase.org„sdigital library, accessto this body ofliterature is worldwide,and it is actively used(>10,000 visits in onemonth only).
  • 39. What do we need for monitoring?Access Identification aids
  • 40. Who are you? What do you do? Who is this? Where are you from? What do I know about her? Where does she live?
  • 41. What do we need for monitoring?Access Identification aids What species is it?
  • 42. Semantic, enhanced treatments do the job ...
  • 43. What do we need monitoring?Access Identification aids What species is it? What do I know about the species?
  • 44. What do we need for monitoring?Access Identification aids What species is it? What do I know about the species? Where does it live?
  • 45. What do we need for monitoring?AccessMetadata
  • 46. What do we need for monitoring?AccessMetadata Describing the data; also to discover it
  • 47. Linnaeus, C., 1758, Systema naturae. Regnum Animale. 10 th ed., W. Engelmann, Lipsiae,<tax:taxonx xsi:schemaLocation="http://www.taxonx.org/schema/v1 http://www.taxonx.org/schema/v1/taxonx1.xsd http://www.loc.gov/mods/v3 http://www.loc.gov/mods/v3/mods-3-1.xsd http://digir.net/schema/conceptual/darwin/2003/1.0 http://digir.net/schema/conceptual/darwin/2003/1.0/darwin2.xsd"><tax:taxonxHeader> <mods:mods> <mods:titleInfo> <mods:title>Systema naturae. Regnum Animale. 10 th ed.</mods:title> </mods:titleInfo> <mods:name type="personal"> <mods:role> <mods:roleTerm>Author</mods:roleTerm> </mods:role> <mods:namePart>Linnaeus, C.</mods:namePart> </mods:name> <mods:originInfo> <mods:dateIssued>1758</mods:dateIssued> <mods:publisher>W. Engelmann</mods:publisher> <mods:place> <mods:placeTerm type="text">Lipsiae</mods:placeTerm> </mods:place>
  • 48. What do we need monitoring?AccessMetadataNetworks get info – provide info
  • 49. What do we need for monitoring?AccessMetadataNetworks get info – provide info use standards
  • 50. What kind of ants live in Iran?
  • 51. Standards „Iran ants“:Use iran ants in google 495,000 recordsShow iran ants in plazi.org
  • 52. Semantic, XML enhancedtreatments do the job ...
  • 53. This can also be applied to entire sections of text, such as the treatment of a species and its parts. <tax:treatment> <tax:nomenclature> <tax:name> <tax:xid source="HNS" identifier="19 <tax:xmldata> <dc:Genus>Mystrium</dc:Genus> <dc:Species>leonie</dc:Species> </tax:xmldata> Mystrium leonie </tax:name> <tax:status>n. sp.</tax:status> Fig 1 D - F </tax:nomenclature> <tax:div type="description"> <tax:p>HOLOTYPE WORKER: TL 3.95, H 1.30, SI 137, PW 0.73, ML 0.38. Mand
  • 54. What do we need for monitoring?Networks get info – provide info use standards use open access / open source
  • 55. What do we need monitoring?Social networks Information is not free in the sense of „it doesn‘t cost anything“
  • 56. What do we need?Social networks Information is not free in the sense of „it doesn‘t cost anything“ Information depends on you!
  • 57. Monitoring biodiversity depends foremost on science...
  • 58. Monitoring biodiversity depends foremost on science (and good scientists)...... technology makes it just more relevant and powerful.
  • 59. Biodiversity data at work:The use of our monitoring data by IPBES is an indication that we deliver data and information that can be used beyond our own work to save planet earth.
  • 60. With my best thanks! Donat Agosti agosti@amnh.org http://plazi.org http://antbase.org