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Posts tagged ‘Symbiota’

SPNHC 2015 presentation – Taxonomic concept resolution for voucher-based biodiversity information platforms

Slides are up for our SPNHC 2015 concept taxonomy presentation.

Franz 2015 SPNHC Taxonomic concept resolution for voucher-based biodiversity information platforms from taxonbytes

Biodiversity Data and IUCN – Notes for ASU-CBO Meeting

Yesterday the ASU Natural History Collections, Informatics & Outreach Group was represented at the “IUCN – CBO Partnership Workshop”, held on February 25-26, 2014, Arizona State University, Tempe. The workshop was sponsored by the Center for Biodiversity Outcomes. Below is a collection of broad themes, keywords, and links that are relevant to the workshop.

1. ASU Natural History Collections – http://taxonbytes.org/impressions-alameda-grand-opening/

2. Searching SEINet

  • Go to http://swbiodiversity.org/seinet/index.php
  • Search Collections = ASU.
  • Taxa: Physalis crassifolia, Physalis hederifolia.
  • Region: Arizona.
  • Observe abundantly vouchered, largely disjunct taxon distributions.

3. Via Dr. Les Landrum

  • Here is a demo that shows what one can do with georeferenced specimens. Go to http://pinkava.asu.edu/PlantMap/
  • We have a fairly rare species of plant – Fremontodendron californicum. Map that species and then use the Biotic communities map (one of 3 options) to see where it grows.
  • Infer community identity, occurrence correlations “from the bottom up”.
  • Can create analytical models with different kinds of question- and data-driven themes on top of this evidential biodiversity information layer.

4. Via Ed Gilbert

5. Arthropod collections and “research readiness”Cobb, Seltmann & Franz. 2014.

BIGCB Workshop at UC Berkeley: Tackling the Taxon Concept Problem

November 7-9, 2014. Coolest workshop theme, like, ever. Organized by Brent Mishler and Staci Markos of the UC Berkeley Jepson Herbarium.

Understanding Taxon Ranges in Space and Time: Tackling the Taxon Concept Problem

A Workshop Sponsored by the Berkeley Initiative in Global Change Biology

Friday, November 7, 2014, 1002 VLSB, open to all who are interested.

1:00 pm: Brent Mishler  –  Introduction to the themes and goals of this workshop.

1:10 pm: Edward Gilbert  –  Ideas for incorporating taxonomic concepts into Symbiota.

1:40 pm: Robert Guralnick  –  Map of Life and the challenge of heterogeneous names data for determining species ranges.

2:10 pm: Gaurav Vaidya  –  Tracking taxonomic changes: how, where and why, with examples from the Avibase database of taxon concepts. Link & PDF

2:40 pm: Coffee Break.

3:00 pm: Robert Peet  –  Taxon concepts as essential infrastructure for large-scale data integration: lessons from VegBank, SEEK and BIEN. PDF

3:30 pm: Nico Franz  –  Tracking taxonomic change across classifications and phylogenies. PDF

4:00 pm: Alan Weakley  –  Applying concept maps to 7100 vascular plants of the Southeastern United States, and some thoughts on ‘atomic concepts’ and their utility at the specimen level.  PDF

4:30 pm: Nico Cellinese  –  Thoughts on the right approach to query trees based on phyloreferences (ontologized phylogenetic definitions).


Additional Workshop Notes

  • Communicated by Robert Peet  –  Taxonomic concept infrastructure-related entities requiring identifiers. PDF

Symbiota poster at the 10th International Mycological Congress

This a belated poster upload of an innovative study on assessing the accuracy of voucher identifications for lichenized fungi records stored in the Symbiota software platform, presented by Robert Lücking of The Field Museum of Natural History and co-authors at the the 10th International Mycological Congress, Bangkok,Thailand, held on August 03-08, 2014.

Complete poster title: Lücking, R., E. Gilbert, N. Franz, P. Morris, S. Bates, B Thiers & C. Gries. 2014. The Symbiota Portal for North American Collections of Plants, Fungi, and Lichens: how to address the problem of incorrect taxon identifications. inlarge on-line specimen repositories. Poster, 10th International Mycological Congress, Bangkok,Thailand, held on August 03-08, 2014. PDF available here: LueckingEtAl2014-SymbiotaTaxonIdentifications

LepNet proposal team convenes at ASU

On July 3-4, 2014, a team including Neil Cobb (NAU), Katja Seltmann (AMNH), Nico Franz and Ed Gilbert (ASU) convened at Alameda to discuss plans to create a new Lepidoptera collections network (“LepNet”). Our main focus was to discuss use cases, workflows, and data schema models to represent “associations” of butterflies and moths in Symbiota. This would include the ability to submit searches by herbivore taxon (e.g., “Papilio indra“) and obtaining a list of associated plant taxa, based both on actual occurrence records stored in the network and in an “associations module” that can receive information published in various Symbiota-external sources.

New publication: Symbiota software platform

With lead author Corinna Gries of the University of Wisconsin, two Franz Lab members have a new publication in the Biodiversity Data Journal reviewing the Symbiota software platform. Symbiota has become popular with a broad range of North American collections networks and is gaining support in Central America as well.

Citation:

  • Gries, C., E.E. Gilbert & N.M. Franz. 2014. Symbiota – a virtual platform for creating voucher-based biodiversity information communities. Biodiversity Data Journal 2: e1114 (24 Jun 2014). doi: 10.3897/BDJ.2.e1114. Link to Open Access publication.

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Collecting adventures in Panama

My second semester as a graduate student has been spent conducting research with the Smithsonian Tropical Research Institute in Panama. Since February, I have been dividing my time between working in STRI’s Insect Collection in Panama City and traveling around Panama collecting insects. In the Collection I’ve been making an interactive identification key to the 29 currently described Panamanian genera of weevils in the subfamily Conoderinae, available shortly in SCAN. This has been possible thanks to the collecting of Henry Stockwell in the 1970s and 1980s, whose large collection of conoderines contains numerous undescribed species.

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Core ASUHIC conventions for geo-referencing

An updated summary of conventions used in our insect collection to ensure consistent and accurate geo-referencing. [Prequel: Go to SCAN and log in; then proceed to “My Profile”, then “Specimen Management”, then select ASUHIC.] Blog post in development!

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