7th Annual Digital Data Conference, Arizona State University

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Digital Data in Biodiversity Research Conference

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Social Media

Twitter: #digidata, @idigbio
Shortened URL for sharing on social media, https://bit.ly/3GGj6Xw

Conference Resources

Advertising Materials

Traveling to Tempe, AZ: Lodging, Logistics, and area information

Information about getting around Tempe, where to stay, and things to do in Phoenix can all be found on the Conference Logistics Page.

Conference Location

ASU Walton Center For Planetary Health (777 E University Dr, Tempe, AZ 85287)

Conference Registration

Registration is open.
Visit Eventbrite to register.

Registration fees
Registration fees include the conference, workshops, and refreshments and hors d'oeuvres at poster session and reception:
In-person, Non-student Registration (including virtual participation): $100 In-person, Student Registration (including virtual participation): $50 Virtual Participation Only: *Optional

  • Optional virtual registration fees will support the digital format technology, the editing and publication of abstracts, and keeping the conference sustainable. Registration fees are optional for virtual participants but encouraged. When registering, those who wish not to make a financial contribution to the conference will have that option. Although registration is optional, your registration information, even if you opt out of the fee, will allow us to keep you updated about conference activities.

Conference Abstracts


Format
The conference will be structured to allow live presentations among different time zones. Live presentations will be organized by theme and format. Concurrent session blocks will include virtual and in-person presentations. All presenters will additionally be asked to submit a recording of their presentations to be posted on this wiki to ensure their availability to any time zone.

Poster Specifications

Poster Specifications: Posters should not exceed 3’ tall and 4’ feet wide and should be displayed in landscape orientation. Virtual viewing options will additionally be provided.

Agenda

Monday, 5 June 2023

Day One - Block One
9:00AM - 12:00PM MST (UTC-7)
Plenary Session
Time Room 1: Auditorium
9:00 - 9:30 Welcome - Nico Franz, Director, Arizona State University Biocollections, Biodiversity Knowledge Integration Center Zoom Recording
Conference framing - Gil Nelson, Director, iDigBio
Conference logistics - Jill Goodwin, Conference Manager, iDigBio
Zoom Recording of Plenary Session
9:30 - 10:00 A computer vision for organismal biology
Arthur Porto, Assistant Professor at the Department of Biological Sciences and the Center for Computation and Technology at Louisiana State University, Baton Rouge, LA.
Click for Bio
10:00 - 10:30 Before the Pharaohs: Breaking New Ground in the Study of Egypt's Ancient Prehistory
Sanaa El-Sayed, Co-founder of the Mansoura University Vertebrate Paleontology center (MUVP), Mansoura University, Egypt & Department of Earth and Environmental Sciences, University of Michigan, USA
Click for Bio
10:30 - 11:00 Break
Hybrid Concurrent Sessions
All oral presentations will be available to virtual and in-person participants. The virtual or in-person designation refers to the speakers in the session.
Time Room 1: Auditorium (In-person)
Concurrent 1:Implementing the use of digital data in basic biodiversity research
Zoom Recording: Concurrent Sessions Day 1 , Room 1
Room 2: 190 (In-person)
Concurrent 2: Digital extended specimens as paradigms for data integration
Zoom Recording: Concurrent Sessions Day 1, Room 2
Room 3: 192 (Virtual)
Concurrent 3:Innovative imaging techniques for enhancing specimen-based discoveries
Zoom Recording: Concurrent Sessions Day 1, Room 3
11:00 - 11:15 Merging digitized collections information with open-access spatial data to identify priorities for future collection efforts (Lombardi) What’s our DEStination? Collaborating to develop a globally network of people and data - the “Digital Extended Specimen” (Buschbom)
Pre-recorded Presentation
Standardizing and Adding Micrographs into Herbarium Workflow to Extend the Digital Specimen (Harmon)
Pre-recorded Presentation
11:15 - 11:30 The Pilosity Problem: Using Computer Vision Methods to Define a Complex Phenotype in Bees (Seltmann)
Pre-recorded Presentation
Expanding biodiversity occurrence data for ecological collections (Yule)
Pre-recorded Presentation
Standardizing Stacked Focus Imaging of Herbarium Specimens (Czako)
Pre-recorded Presentation
11:30 - 11:45 Signed Biodiversity Data Packages: A Method to Cite, Verify, Mobilize, and Future Proof, Large Image Corpora. (Poelen)
Pre-recorded Presentation
Mobilizing Imagery of Fossil and Extant Specimens from the Treatise on Invertebrate Paleontology on the Digital Media Repository MorphoSource (López Carranza)
Pre-recorded Presentation
USCH Bryophyte Digitization and Revitalization Project (Harmon)
Pre-recorded Presentation
11:45 - 12:00 Taxonomic translation of bat-virus interaction data via automated alignment tools (Upham) Data cleaning process in historical collections - Georeference combines old labels and artificial intelligence (Chang)
Pre-recorded Presentation
A Course and Tutorial on Creating 3D Models Using methods in Focus-Stacking and Photogrammetry for Extending Research through Image and Trait Digitization (Big-Bee) (Smith)
Pre-recorded Presentation
Day One - Lunch Break
12:00PM - 1:00PM MST (UTC-7)
SEINet Networking Lunch: Room 477
The Symbiota Support Hub invites all personnel involved with the SEINet Network to a community-building lunch. Get to know your fellow local curators, collections managers, regional botanists, and other plant folks. Lunch will be provided for attendees who pre-register here by Thursday, June 1st.
Day One - Block Two
1:00PM - 4:00PM MST (UTC-7)
Discussion Sessions
Time Room 2: 190
1:00 - 2:15 Discussion Session 1 **IN PERSON ONLY**

Symbiota Skillshare and Capacity Building Workshop
Symbiota portals–including the SEINet Network, the Consortium of Lichen Herbaria, the Consortium of Bryophyte Herbaria, and many more–include a variety of features that enable efficient data management, access, and curation. In this workshop, we will provide hands-on training in using Symbiota tools that allow users to, for example, upload data, manage annotations, manage loans, print label data, crowdsource data transcription, and create checklists. Desired topics and questions will be solicited before the workshop for focus during the session. We will invite all current or potential users of Symbiota portals to participate in the workshop, especially local (SW US) data managers from the SEINet Network, so they can build data management skills. Kaitlin Pearson, Arizona State University; Lindsay Walker, Arizona State University; Ed Gilbert, Arizona State University; Greg Post, Arizona State University; Samanta Orellana, Arizona State University. Presentation Here.

2:15 - 2:45 Break
Time Room 1: Auditorium
2:45 - 3:45 Discussion Session 2

Focus group: How a Biological Collections Action Center can Engage Researchers
Moderators: Libby Ellwood, Gil Nelson, John Bates
The collections community is in the midst of a series of webinars, workshops, and focus groups focusing on Envisioning a Biological Collections Action Center as proposed in the recent NASEM report and authorized by the U.S. Congress in summer 2022 as part of the CHIPs and Science Act. We have conducted three webinars and one workshop to date and are very interested in including a range of voices from the biodiversity sciences community, including researchers and other users of digital biodiversity data. We aim to bring together U.S. collections and research professionals to consider how such a center could engage with and provide services to researchers to enhance the quality of collections-based researcher and to sustain U.S. biodiversity collections. We are scheduling this in-person focus/discussion group during this year's Digital Data Conference to broaden the input into the Action Center concept. We hope you can attend.
Click here for Zoom recording

Day One - Block Three
6:00PM MST (UTC-7)
Reception & Tours of ASU Collections
Video of Collections

The ASU Natural History Collections consist of nine different collections that support the university's teaching, research and public outreach functions. Our collections emphasize flora and fauna from the arid southwest of North America. Since 2018, we operate the National Ecological Observatory Network (NEON) Biorepository, which contains a diversity of nearly 70 collections with close to 400,000 organismal and environmental samples. Since 2021, we manage the iDigBio Symbiota Support Hub, which supports more than 1,000 live-managed collections.

Join us on Monday evening for a private tour of the different collections; including the mammalian, insect, mollusk, herbarium, fossil plants, Symbiota, beetles, wet collection, as well as the state of the art NEON Biorepository cryo collections. A reception with light appetizers will take place on the patio after the tours. Complimentary buses will be provided to and from the collections site.

The ASU Natural History Collections house preserved and dried biospecimens including plants, mollusks (shells), insects, fishes, amphibians, reptiles, birds, and mammals. Sensitivities and allergies may occur in certain individuals. Please consult with a healthcare provider to discuss any concerns before attending tours.

Reception Bus Sign-up
Reception Flyer

Tuesday, 6 June 2023

Day Two - Block One
9:00AM - 12:00PM MST (UTC-7)
Discussion Sessions
Time Room 1: Auditorium Room 2: 190
Recording from Day 2, Block 1, Room 2
Room 3: 192
9:00 - 10:00 (Hybrid) Symposium:
Addressing Roadblocks and Envisioning Solutions of the Digital Extended Specimen Concept

This session will bring together biodiversity informatics and data experts from throughout our community to address some of the possibilities and challenges implementing the Digital Extended Specimen concept. This session will address solutions to date and additionally look to the community for input and discussion.

  • Larry Lannom (CNRI): Overview of the work of the Corporation for National Research Initiatives (CNRI) toward realizing the Digital Extended Specimen Network; what challenges are they facing and what needs input from the broader community?
  • Tim Robertson and Laura Russell (GBIF): Overview of GBIF and work towards mobilizing extended specimen data through their new data model
  • Jorrit Poelen (Open Traits/Global Biotic Interactions): Open Traits/Global Biotic Interactions as a Digital Extended Specimen use case; What does a decentralized extended specimen look like? what roadblocks did he encounter when building this resource, and what is still needed to better combine the data?
  • Sharif Islam (DiSSCo): How is DiSSCo harmonizing extended specimen data across their network; what challenges are they facing and what needs input from the broader community?
10:00 – 10:15 (Virtual) Oral Presentation:
Engaging the community in FAIR taxonomic data liberation: an overview of training resources at Plazi (Giora)
Pre-recorded Presentation
(In-person only) Group Activity:
Addressing Roadblocks and Envisioning Solutions of the Digital Extended Specimen Concept
10:15 – 11:00 (Virtual) Discussion Session:
Reimagining the future of natural history museums with compassionate collection (Byrne)
(In-person only) Group Activity (continued):
Addressing Roadblocks and Envisioning Solutions of the Digital Extended Specimen Concept
11:00 – 12:00 (In-person only) Panel Discussion:
Addressing Roadblocks and Envisioning Solutions of the Digital Extended Specimen Concept
Day Two - Block Two
1:00PM - 4:00PM MST (UTC-7)
Plenary Session
Time Room 1: Auditorium
Recording from Plenary Session, Day 2
1:00 - 1:30 Crop Wild Relatives and the Role of Herbaria in Future Food Crop Security
Makenzie Mabry, iDigBio, Florida Museum of Natural History, University of Florida
Click for Bio & Abstract
1:30 - 2:00 Data for Whom? Intellectual Property, Biodiversity, and Indigenous Genomic Data Sovereignty
Krystal Tsosie, Assistant Professor, School of Life Sciences, Arizona State University
Beckett Sterner, Assistant Professor, School of Life Sciences, Arizona State University
Click for Bios
2:00 - 2:15 Break
Hybrid Concurrent Sessions
All oral presentations will be available to virtual and in-person participants. The virtual or in-person designation refers to the speakers in the session.
Time Room 1: Auditorium (Virtual)
Concurrent 1 cont.: Implementing the use of digital data in basic biodiversity research
Recording from Day 2, Block 2, Room 1
Room 2: Room 190 (In-person)
Concurrent 4: Facilitating ecological discovery and understanding
Recording from Day 2, Block 2, Room 2
Room 3: Room 192 (In-person)
Concurrent 3 cont: Innovative imaging techniques for enhancing specimen-based discoveries
Recording from Day 2, Room 3
2:15 - 2:30 Using collection data to determine harvesting hotspots for the most traded and threatened medicinal plants of the Eastern Cape province in South Africa (Welcome)
Pre-recorded Presentation
(Virtual) A workflow for capturing ichthyology collections’ information (Cruz)
Pre-recorded Presentation
Automated Multi-View Imaging of Pinned Insects (Tran)
Pre-recorded Presentation
2:30 - 2:45 Monarch Migration Models: Visualizing Global and Local Priorities for Western Land Managers (Young)
Pre-recorded Presentation
(Virtual) Fish-AIR - A Fish Image Dataset with Built-In Image Quality Management System (Wang) Building a Pipeline for Label Reconstruction on the Pin (Hereld)
2:45 - 3:00 Comparing perspectives of academics and government professionals on their use of online information systems and their reuse of species occurrence data (Martin)
Pre-recorded Presentation
Leveraging deep computer vision to inform conservation assessments and the response of North American butterfly communities to global change (Shirey)
Pre-recorded Presentation
Using robotics to 3D-scan pinned insects and storing models in PlutoF platform: A six-axis tool to acquire focus-stacked macroscopical images for photogrammetrical digitization (Ylinampa)
Pre-recorded Presentation
3:00 - 3:15 Break
Recording from Day 2, Block 2, Room 1 cont.
3:15 - 3:30 Completeness analysis for over 3000 United States bee species identifies persistent data gaps (Chesshire)
Pre-recorded Presentation
(Virtual) A New, Global Estimate for Biocrust Carbon and Nitrogen Flux from Terrestrial Ecosystems (Janapaty) Availability of image preprocessing metadata terms and their effects on calculation of suitability of datasets for machine learning pipelines (Altintas)
3:30 - 3:45 R Program to Remap & Clean Downloaded SERNEC Data (Czasko)
Pre-recorded Presentation
The California Biodiversity Sentinel Site Network (Bucciarelli) Digitization efforts at a small Ecuadorian herbarium focused on Applied Botany (Freire-Fierro)
3:45 – 4:00 Describing the bee biodiversity in Baja California: An analysis of current and historical data (de Pedro)
Pre-recorded Presentation
echinopscis: an extensible notebook for open science on specimens (Nicolson) Mapping Asia Plants: Initiative and Progress (Ma)
Day Two - Block Three
Dinner on your own

Wednesday, 7 June 2023

Day Three - Block One
9:00AM - 12:00PM MST (UTC-7)
Discussion Sessions
Time Recording from Day 3, Block 1, Room 1
9:00 - 10:00 Open discussion: the NEON Biorepository infrastructure model

This discussion session is offered to complement the opportunity to visit the National Ecological Observatory Network, NEON Biorepository, in person during Digital Data 2023 at Arizona State University. Click here for a video introduction. The NEON project involves a structured, long-term plan to sample new, diverse, prioritized specimens across distributed sites of the North American subcontinent, process and store them a both intermediary peripheral facilities and a permanent centralized location, transform them into Darwin Core occurrences and published extended specimens, and actively make both samples and data available for loan to enable question-driven ecological and evolutionary research. To begin this session, we will offer an introductory presentation of the operational concept and implementation of the NEON Biorepository and of the associated data portal (https://biorepo.neonscience.org/portal/), which dynamically integrates standards from ecological and biodiversity data domains. We will then open the floor for discussion, based on an initial set of framing themes and questions, to jointly explore the prospects of this model in relation to current and future developments in the national and global biocollections infrastructure and data communities.
Kelsey Yule, Edward Gilbert, Azhar Husain, Andrew Johnston, Rosie Liao, Laura Rocha Prado, Laura Steger; all Arizona State University.

10:00 - 10:15 Break
10:15 - 11:15 Poster Session
In-Person Only
Title (Author) Links
A method to systematically improve collecting event data utility and detect duplicate locality records in natural history collection databases using Python (Charles Farnum) Link to the poster image. Link to the poster audio presentation.
We recommend opening these in new tabs, then starting the audio, and then switching to the poster tab.
Novel Uses of the Symbiota Platform on oregonflora.org (Thea Jaster) Link to the poster image. Link to the poster video presentation.
Compromising the quality of biodiversity information: A case study of Korea's biodiversity information organization and its impact on GBIF (Hui Kim) Link to the poster image. Link to the poster audio presentation.
We recommend opening these in new tabs, then starting the audio, and then switching to the poster tab.
Understanding Natural History Organizational Structures, Data Sharing, and Coordination in Biodiversity Informatics (Kristen Lewers) Link to the poster image. Link to the poster video presentation.
Adapting the Digital Extended Specimen concept in the study of the sea cucumber Athyonidium chilensis (Semper, 1868) (Catalina Merino) Link to the poster image. Link to the poster audio presentation.
We recommend opening these in new tabs, then starting the audio, and then switching to the poster tab.
Exploring shared life-history strategies as a driver for biodiversity in desert bees & plants (JT Miller) Link to the poster image. Link to the poster video presentation.
PhylogatR: phylogeographic data aggregation and repurposing (Danielle Parsons) No links available at this time.
Leveraging digitization products to design flexible, location based, and inquiry based education for remote and in-person learning in response to the pandemic (Julie Schlichte) Link to the poster video presentation.
AI models are getting better and better at reading handwriting, but how can we find handwritten text to begin with? (Mike Trizna) Link to the poster image.
Teeth Beaks, and Bones: New Size Access in Interdisciplinary Collaborations for 3D Models (Elizabeth Wommack) Link to the poster image. Link to the poster video presentation.
Symbiota (Lindsay Walker, Mark Fisher, Nico Franz, Ed Gilbert, Katie Pearson, Greg Post, Samanta Orellana, Jenn Yost) Link to the poster image.
Portal Advancement Campaigns (Lindsay Walker, Katie Pearson, Jenn Yost) Link to the poster image.
Day Three - Block Two
1:00PM – 2:00PM MST (UTC-7)
Hybrid Concurrent Sessions
All oral presentations will be available to virtual and in-person participants. The virtual or in-person designation refers to the speakers in the session.
Time Room 1: Auditorium (Hybrid)
Concurrent 1 cont. Implementing the use of digital data in basic biodiversity research
Recording from Day 3, Block 2, Room 1
Room 2: 190 (Virtual)
Concurrent 4 cont. Facilitating ecological discovery and understanding
Recording from Day 3, Block 2, Room 2
Room 3: 192 (Virtual)
Concurrent 5: The impact of digital data on systematic, phylogenetic, and genomic research
Click Here to Join Zoom for Day 3, Room 3
1:00 – 1:15 In-person
Harmonizing taxonomic resources is necessary for novel insights into bat roosting dataset (Sherman)
Pre-recorded Presentation
Symbtk: A toolkit for Symbiota (Anders)
Pre-recorded Presentation
MorphoBank: A digital repository of morphological data matrices with integrated phylogenetic analysis capabilities (Long-Fox)
Pre-recorded Presentation
1:15 – 1:30 Virtual
Digital Herbarium for the Flora of United Arab Emirates: Novel database towards future plant conservation, biodiversity and sustainability (Mousa)
Pre-recorded Presentation
Toward a global bee functional trait database (Ostwald)
Pre-recorded Presentation
Matching material citations to occurrences: extending the biodiversity knowledge graph (Agosti)
1:30 – 1:45 Virtual
Coordinating Digitization Efforts of Biological Collections in US & Beyond (Wilkins)
Workshop Report
Presentation Recording
Digital Monographs as Products Exemplary of the Unification and Use of Digital Data (Yoder)
Pre-recorded Presentation
DNA Barcoding of South Carolina Oaks (Czako)
Pre-recorded Presentation
Plenary Sessions
Time Recording for Plenary Session, Day 3
2:15 – 2:45 Supporting Digitized Data through the National Science Foundation

Katharina Dittmar, National Science Foundation, Division of Environmental Biology

2:45 – 3:15 Communities of practice across the Americas

Samanta Orellana, International Community Coordinator, Symbiota Support Hub & Evolutionary Biology Ph.D. Student at Arizona State University
Jenn Yost, Community Lead, Symbiota Support Hub & Associate Professor, Cal Poly
Click for Bios

3:15 - 3:45 Penguin fieldwork and data collection in the age of extended specimens

Rachael Herman, NASA FINESST PhD student at Stony Brook University
John Bates, Curator of Birds at The Field Museum