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1. Assessment of North American arthropod collections: prospects and challenges for addressing biodiversity research

   https://doi.org/10.7717/peerj.8086  

   Cobb, Neil S. ; Gall, Lawrence F. ; Zaspel, Jennifer M. ; Dowdy, Nicolas J. ; McCabe, Lindsie M. ; Kawahara, Akito Y. ( January 2019 , PeerJ)

   Over 300 million arthropod specimens are housed in North American natural history collections. These collections represent a “vast hidden treasure trove” of biodiversity −95% of the specimen label data have yet to be transcribed for research, and less than 2% of the specimens have been imaged. Specimen labels contain crucial information to determine species distributions over time and are essential for understanding patterns of ecology and evolution, which will help assess the growing biodiversity crisis driven by global change impacts. Specimen images offer indispensable insight and data for analyses of traits, and ecological and phylogenetic patterns of biodiversity. Here, we review North American arthropod collections using two key metrics, specimen holdings and digitization efforts, to assess the potential for collections to provide needed biodiversity data. We include data from 223 arthropod collections in North America, with an emphasis on the United States. Our specific findings are as follows: (1) The majority of North American natural history collections (88%) and specimens (89%) are located in the United States. Canada has comparable holdings to the United States relative to its estimated biodiversity. Mexico has made the furthest progress in terms of digitization, but its specimen holdings should be increased to reflect the estimated higher Mexican arthropod diversity. The proportion of North American collections that has been digitized, and the number of digital records available per species, are both much lower for arthropods when compared to chordates and plants. (2) The National Science Foundation’s decade-long ADBC program (Advancing Digitization of Biological Collections) has been transformational in promoting arthropod digitization. However, even if this program became permanent, at current rates, by the year 2050 only 38% of the existing arthropod specimens would be digitized, and less than 1% would have associated digital images. (3) The number of specimens in collections has increased by approximately 1% per year over the past 30 years. We propose that this rate of increase is insufficient to provide enough data to address biodiversity research needs, and that arthropod collections should aim to triple their rate of new specimen acquisition. (4) The collections we surveyed in the United States vary broadly in a number of indicators. Collectively, there is depth and breadth, with smaller collections providing regional depth and larger collections providing greater global coverage. (5) Increased coordination across museums is needed for digitization efforts to target taxa for research and conservation goals and address long-term data needs. Two key recommendations emerge: collections should significantly increase both their specimen holdings and their digitization efforts to empower continental and global biodiversity data pipelines, and stimulate downstream research. 

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2. FEARLESS STEPS: ADVANCEMENTS IN SPEECH TECHNOLOGY AND CORPUS DEVELOPMENT FOR NATURALISTIC AUDIO

   Joglekar, A. ; Hansen, J.H.L. ; Yousefi, M. ; Chandra Shekar, M. ; Chen, S.-J. ; Belitz, C. ( February 2023 , NASA Human Research Program Investigators Conference)

   INTRODUCTION: CRSS-UTDallas initiated and oversaw the efforts to recover APOLLO mission communications by re-engineering the NASA SoundScriber playback system, and digitizing 30-channel analog audio tapes – with the entire Apollo-11, Apollo-13, and Gemini-8 missions during 2011-17 [1,6]. This vast data resource was made publicly available along with supplemental speech & language technologies meta-data based on CRSS pipeline diarization transcripts and conversational speaker time-stamps for Apollo team at NASA Mission Control Center, [2,4]. In 2021, renewed efforts over the past year have resulted in the digitization of an additional +50,000hrs of audio from Apollo 7,8,9,10,12 missions, and remaining A-13 tapes. Cumulative digitization efforts have enabled the development of the largest publicly available speech data resource with unprompted, real conversations recorded in naturalistic environments. Deployment of this massive corpus has inspired multiple collaborative initiatives such as Web resources ExploreApollo (https://app.exploreapollo.org) LanguageARC (https://languagearc.com/projects/21) [3]. ExploreApollo.org serves as the visualization and play-back tool, and LanguageARC the crowd source subject content tagging resource developed by UG/Grad. Students, intended as an educational resource for k-12 students, and STEM/Apollo enthusiasts. Significant algorithmic advancements have included advanced deep learning models that are now able to improve automatic transcript generation quality, and even extract high level knowledge such as ID labels of topics being spoken across different mission stages. Efficient transcript generation and topic extraction tools for this naturalistic audio have wide applications including content archival and retrieval, speaker indexing, education, group dynamics and team cohesion analysis. Some of these applications have been deployed in our online portals to provide a more immersive experience for students and researchers. Continued worldwide outreach in the form of the Fearless Steps Challenges has proven successful with the most recent Phase-4 of the Challenge series. This challenge has motivated research in low level tasks such as speaker diarization and high level tasks like topic identification. IMPACT: Distribution and visualization of the Apollo audio corpus through the above mentioned online portals and Fearless Steps Challenges have produced significant impact as a STEM education resource for K-12 students as well as a SLT development resource with real-world applications for research organizations globally. The speech technologies developed by CRSS-UTDallas using the Fearless Steps Apollo corpus have improved previous benchmarks on multiple tasks [1, 5]. The continued initiative will extend the current digitization efforts to include over 150,000 hours of audio recorded during all Apollo missions. ILLUSTRATION: We will demonstrate WebExploreApollo and LanguageARC online portals with newly digitized audio playback in addition to improved SLT baseline systems, the results from ASR and Topic Identification systems which will include research performed on the corpus conversational. Performance analysis visualizations will also be illustrated. We will also display results from the past challenges and their state-of-the-art system improvements. 

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3. Terrestrial Parasite Tracker indexed biotic interactions and review summary

   https://doi.org/10.5281/zenodo.6761707  

   Poelen, Jorrit H. ; Seltmann, Katja C. ; Campbell, Mariel ; Orlofske, Sarah A. ; Light, Jessica E. ; Tucker, Erika M. ; Demboski, John R ; McElrath, Tommy ; Grinter, Christopher C ; Diaz-Bastin, Rachel ; et al ( January 2022 , Zenodo)

   PLEASE CONTACT AUTHORS IF YOU CONTRIBUTE AND WOULD LIKE TO BE LISTED AS A CO-AUTHOR. (this message will be removed some time weeks/months after the first publication)

   Terrestrial Parasite Tracker indexed biotic interactions and review summary.

   The Terrestrial Parasite Tracker (TPT) project began in 2019 and is funded by the National Science foundation to mobilize data from vector and ectoparasite collections to data aggregators (e.g., iDigBio, GBIF) to help build a comprehensive picture of arthropod host-association evolution, distributions, and the ecological interactions of disease vectors which will assist scientists, educators, land managers, and policy makers. Arthropod parasites often are important to human and wildlife health and safety as vectors of pathogens, and it is critical to digitize these specimens so that they, and their biotic interaction data, will be available to help understand and predict the spread of human and wildlife disease.

   This data publication contains versioned TPT associated datasets and related data products that were tracked, reviewed and indexed by Global Biotic Interactions (GloBI) and associated tools. GloBI provides open access to finding species interaction data (e.g., predator-prey, pollinator-plant, pathogen-host, parasite-host) by combining existing open datasets using open source software.

   If you have questions or comments about this publication, please open an issue at https://github.com/ParasiteTracker/tpt-reporting or contact the authors by email.

   Funding:
   The creation of this archive was made possible by the National Science Foundation award "Collaborative Research: Digitization TCN: Digitizing collections to trace parasite-host associations and predict the spread of vector-borne disease," Award numbers DBI:1901932 and DBI:1901926

   References:
   Jorrit H. Poelen, James D. Simons and Chris J. Mungall. (2014). Global Biotic Interactions: An open infrastructure to share and analyze species-interaction datasets. Ecological Informatics. https://doi.org/10.1016/j.ecoinf.2014.08.005.

   GloBI Data Review Report

   Datasets under review:
    - University of Michigan Museum of Zoology Insect Division. Full Database Export 2020-11-20 provided by Erika Tucker and Barry Oconner. accessed via https://github.com/EMTuckerLabUMMZ/ummzi/archive/6731357a377e9c2748fc931faa2ff3dc0ce3ea7a.zip on 2022-06-24T14:02:48.801Z
    - Academy of Natural Sciences Entomology Collection for the Parasite Tracker Project accessed via https://github.com/globalbioticinteractions/ansp-para/archive/5e6592ad09ec89ba7958266ad71ec9d5d21d1a44.zip on 2022-06-24T14:04:22.091Z
    - Bernice Pauahi Bishop Museum, J. Linsley Gressitt Center for Research in Entomology accessed via https://github.com/globalbioticinteractions/bpbm-ent/archive/c085398dddd36f8a1169b9cf57de2a572229341b.zip on 2022-06-24T14:04:37.692Z
    - Texas A&M University, Biodiversity Teaching and Research Collections accessed via https://github.com/globalbioticinteractions/brtc-para/archive/f0a718145b05ed484c4d88947ff712d5f6395446.zip on 2022-06-24T14:06:40.154Z
    - Brigham Young University Arthropod Museum accessed via https://github.com/globalbioticinteractions/byu-byuc/archive/4a609ac6a9a03425e2720b6cdebca6438488f029.zip on 2022-06-24T14:06:51.420Z
    - California Academy of Sciences Entomology accessed via https://github.com/globalbioticinteractions/cas-ent/archive/562aea232ec74ab615f771239451e57b057dc7c0.zip on 2022-06-24T14:07:16.371Z
    - Clemson University Arthropod Collection accessed via https://github.com/globalbioticinteractions/cu-cuac/archive/6cdcbbaa4f7cec8e1eac705be3a999bc5259e00f.zip on 2022-06-24T14:07:40.925Z
    - Denver Museum of Nature and Science (DMNS) Parasite specimens (DMNS:Para) accessed via https://github.com/globalbioticinteractions/dmns-para/archive/a037beb816226eb8196533489ee5f98a6dfda452.zip on 2022-06-24T14:08:00.730Z
    - Field Museum of Natural History IPT accessed via https://github.com/globalbioticinteractions/fmnh/archive/6bfc1b7e46140e93f5561c4e837826204adb3c2f.zip on 2022-06-24T14:18:51.995Z
    - Illinois Natural History Survey Insect Collection accessed via https://github.com/globalbioticinteractions/inhs-insects/archive/38692496f590577074c7cecf8ea37f85d0594ae1.zip on 2022-06-24T14:19:37.563Z
    - UMSP / University of Minnesota / University of Minnesota Insect Collection accessed via https://github.com/globalbioticinteractions/min-umsp/archive/3f1b9d32f947dcb80b9aaab50523e097f0e8776e.zip on 2022-06-24T14:20:27.232Z
    - Milwaukee Public Museum Biological Collections Data Portal accessed via https://github.com/globalbioticinteractions/mpm/archive/9f44e99c49ec5aba3f8592cfced07c38d3223dcd.zip on 2022-06-24T14:20:46.185Z
    - Museum for Southern Biology (MSB) Parasite Collection accessed via https://github.com/globalbioticinteractions/msb-para/archive/178a0b7aa0a8e14b3fe953e770703fe331eadacc.zip on 2022-06-24T15:16:07.223Z
    - The Albert J. Cook Arthropod Research Collection accessed via https://github.com/globalbioticinteractions/msu-msuc/archive/38960906380443bd8108c9e44aeff4590d8d0b50.zip on 2022-06-24T16:09:40.702Z
    - Ohio State University Acarology Laboratory accessed via https://github.com/globalbioticinteractions/osal-ar/archive/876269d66a6a94175dbb6b9a604897f8032b93dd.zip on 2022-06-24T16:10:00.281Z
    - Frost Entomological Museum, Pennsylvania State University accessed via https://github.com/globalbioticinteractions/psuc-ento/archive/30b1f96619a6e9f10da18b42fb93ff22cc4f72e2.zip on 2022-06-24T16:10:07.741Z
    - Purdue Entomological Research Collection accessed via https://github.com/globalbioticinteractions/pu-perc/archive/e0909a7ca0a8df5effccb288ba64b28141e388ba.zip on 2022-06-24T16:10:26.654Z
    - Texas A&M University Insect Collection accessed via https://github.com/globalbioticinteractions/tamuic-ent/archive/f261a8c192021408da67c39626a4aac56e3bac41.zip on 2022-06-24T16:10:58.496Z
    - University of California Santa Barbara Invertebrate Zoology Collection accessed via https://github.com/globalbioticinteractions/ucsb-izc/archive/825678ad02df93f6d4469f9d8b7cc30151b9aa45.zip on 2022-06-24T16:12:29.854Z
    - University of Hawaii Insect Museum accessed via https://github.com/globalbioticinteractions/uhim/archive/53fa790309e48f25685e41ded78ce6a51bafde76.zip on 2022-06-24T16:12:41.408Z
    - University of New Hampshire Collection of Insects and other Arthropods UNHC-UNHC accessed via https://github.com/globalbioticinteractions/unhc/archive/f72575a72edda8a4e6126de79b4681b25593d434.zip on 2022-06-24T16:12:59.500Z
    - Scott L. Gardner and Gabor R. Racz (2021). University of Nebraska State Museum - Parasitology. Harold W. Manter Laboratory of Parasitology. University of Nebraska State Museum. accessed via https://github.com/globalbioticinteractions/unl-nsm/archive/6bcd8aec22e4309b7f4e8be1afe8191d391e73c6.zip on 2022-06-24T16:13:06.914Z
    - Data were obtained from specimens belonging to the United States National Museum of Natural History (USNM), Smithsonian Institution, Washington DC and digitized by the Walter Reed Biosystematics Unit (WRBU). accessed via https://github.com/globalbioticinteractions/usnmentflea/archive/ce5cb1ed2bbc13ee10062b6f75a158fd465ce9bb.zip on 2022-06-24T16:13:38.013Z
    - US National Museum of Natural History Ixodes Records accessed via https://github.com/globalbioticinteractions/usnm-ixodes/archive/c5fcd5f34ce412002783544afb628a33db7f47a6.zip on 2022-06-24T16:13:45.666Z
    - Price Institute of Parasite Research, School of Biological Sciences, University of Utah accessed via https://github.com/globalbioticinteractions/utah-piper/archive/43da8db550b5776c1e3d17803831c696fe9b8285.zip on 2022-06-24T16:13:54.724Z
    - University of Wisconsin Stevens Point, Stephen J. Taft Parasitological Collection accessed via https://github.com/globalbioticinteractions/uwsp-para/archive/f9d0d52cd671731c7f002325e84187979bca4a5b.zip on 2022-06-24T16:14:04.745Z
    - Giraldo-Calderón, G. I., Emrich, S. J., MacCallum, R. M., Maslen, G., Dialynas, E., Topalis, P., … Lawson, D. (2015). VectorBase: an updated bioinformatics resource for invertebrate vectors and other organisms related with human diseases. Nucleic acids research, 43(Database issue), D707–D713. doi:10.1093/nar/gku1117. accessed via https://github.com/globalbioticinteractions/vectorbase/archive/00d6285cd4e9f4edd18cb2778624ab31b34b23b8.zip on 2022-06-24T16:14:11.965Z
    - WIRC / University of Wisconsin Madison WIS-IH / Wisconsin Insect Research Collection accessed via https://github.com/globalbioticinteractions/wis-ih-wirc/archive/34162b86c0ade4b493471543231ae017cc84816e.zip on 2022-06-24T16:14:29.743Z
    - Yale University Peabody Museum Collections Data Portal accessed via https://github.com/globalbioticinteractions/yale-peabody/archive/43be869f17749d71d26fc820c8bd931d6149fe8e.zip on 2022-06-24T16:23:29.289Z

   Generated on:
   2022-06-24

   by:
   GloBI's Elton 0.12.4 
   (see https://github.com/globalbioticinteractions/elton).

   Note that all files ending with .tsv are files formatted 
   as UTF8 encoded tab-separated values files.

   https://www.iana.org/assignments/media-types/text/tab-separated-values

   
   Included in this review archive are:

   README:
     This file.

   review_summary.tsv:
     Summary across all reviewed collections of total number of distinct review comments.

   review_summary_by_collection.tsv:
     Summary by reviewed collection of total number of distinct review comments.

   indexed_interactions_by_collection.tsv: 
     Summary of number of indexed interaction records by institutionCode and collectionCode.

   review_comments.tsv.gz:
     All review comments by collection.

   indexed_interactions_full.tsv.gz:
     All indexed interactions for all reviewed collections.

   indexed_interactions_simple.tsv.gz:
     All indexed interactions for all reviewed collections selecting only sourceInstitutionCode, sourceCollectionCode, sourceCatalogNumber, sourceTaxonName, interactionTypeName and targetTaxonName.

   datasets_under_review.tsv:
     Details on the datasets under review.

   elton.jar: 
     Program used to update datasets and generate the review reports and associated indexed interactions.

   datasets.zip:
     Source datasets used by elton.jar in process of executing the generate_report.sh script.

   generate_report.sh:
     Program used to generate the report

   generate_report.log:
     Log file generated as part of running the generate_report.sh script
    

    

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4. Completeness analysis for over 3000 United States bee species identifies persistent data gap

   https://doi.org/10.1111/ecog.06584  

   Chesshire, Paige R. ; Fischer, Erica E. ; Dowdy, Nicolas J. ; Griswold, Terry L. ; Hughes, Alice C. ; Orr, Michael C. ; Ascher, John S. ; Guzman, Laura M. ; Hung, Keng‐Lou James ; Cobb, Neil S. ; et al ( May 2023 , Ecography)

   Native bee species in the United States provide invaluable pollination services. Concerns about native bee declines are growing, and there are calls for a national monitoring program. Documenting species ranges at ecologically meaningful scales through coverage completeness analysis is a fundamental step to track bees from species to communities. It may take decades before all existing bee specimens are digitized, so projections are needed now to focus future research and management efforts. From 1.923 million records, we created range maps for nearly 88% (3158 species) of bee species in the contiguous United States, provided the first analysis of inventory completeness for digitized specimens of a major insect clade, and perhaps most important, estimated spatial completeness accounting for all known bee specimens in USA collections, including undigitized bee specimens. Completeness analyses were very low (3–37%) across four examined spatial resolutions when using the currently available bee specimen records. Adding a subset of observations from community science data sources did not significantly increase completeness, and adding a projected 4.7 million undigitized specimens increased completeness by only an additional 12–13%. Assessments of data, including projected specimen records, indicate persistent taxonomic and geographic deficiencies. In conjunction with expedited digitization, new inventories that integrate community science data with specimen‐based documentation will be required to close these gaps. A combined effort involving both strategic inventories and accelerated digitization campaigns is needed for a more complete understanding of USA bee distributions. 

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5. Rapid sleep education: If you could tell people one thing about sleep, what should it be?

   https://doi.org/10.1111/jsr.13765  

   Barley, Blake K. ; Walter, Charles ; Orselli, Paul ; Scullin, Michael K. ( November 2022 , Journal of Sleep Research)

   Informal learning settings such as museums provide unique opportunities for educating a local community about sleep. However, in such settings, information must be capable of immediately inciting interest. We developed a series of sleep “icebreakers” (brief, informal facts) to determine whether they elicited interest in sleep and encouraged behavioural change. There were 859 participants across three cross‐sectional samples: (a) members of the local museum; (b) Mechanical Turk workers who responded to a “sleep” study advertisement; and (c) Mechanical Turk workers who responded to a “various topics” study advertisement that did not mention sleep. All three samples demonstrated high interest in sleep topics, though delayed recall of the icebreakers was strongest in participants who expected to learn about the sleep topics. Icebreaker interest ratings were independent of age, gender and race/ethnicity, suggesting that sleep is a topic of universal interest. Importantly, regardless of demographics and sample, the more the icebreakers interested the participants, the more likely participants were to indicate willingness to donate to a sleep exhibit, change their sleep behaviours, and post to social media. Thus, sleep icebreakers can rapidly elicit people's interest, and future outreach efforts should couple icebreakers with opportunities for subsequent personalized learning.

    

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