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Stachewicz et al. 2021: Trait correlation, phylogenetic signal in Carabidae morphology (repackaging of occurrences published by the NEON Biorepository Data Portal)

General Information
Data Package:
Local Identifier:edi.1011.1
Title:Stachewicz et al. 2021: Trait correlation, phylogenetic signal in Carabidae morphology (repackaging of occurrences published by the NEON Biorepository Data Portal)
Alternate Identifier:DOI PLACE HOLDER
Abstract:

Stachewicz JD, Fountain-Jones NM, Koontz A, Woolf H, Pearse WD, Gallinat AS. 2021. Strong trait correlation and phylogenetic signal in North American ground beetle (Carabidae) morphology bioRxiv 02.12.431029; doi: https://doi.org/10.1101/2021.02.12.431029 Many NEON sampes and specimens used in this work resulted from NEON prototype data and will not be archived in the Biorepository. See the appendices in the above linked article for a full list of NEON samples and specimens and their associated collection data. Additionally, see appendices of above linked article for specimen-level morphological trait measurements and genetic sequence data.

Publication Date:2023-02-07
Language:eng
For more information:
Visit: DOI PLACE HOLDER

Time Period
Date:
2014-07-21

Time Period
Date:
2016-06-28

Time Period
Date:
2017-09-26

Time Period
Date:
2013-07-31

Time Period
Date:
2014-08-20

Time Period
Date:
2017-04-06

Time Period
Date:
2013-09-18

Time Period
Date:
2014-05-12

Time Period
Date:
2016-07-12

Time Period
Date:
2017-09-05

Time Period
Date:
2013-07-24

Time Period
Date:
2014-09-02

Time Period
Date:
2017-06-27

Time Period
Date:
2013-09-11

Time Period
Date:
2014-04-28

Time Period
Date:
2016-08-23

Time Period
Date:
2013-07-03

Time Period
Date:
2014-06-27

Time Period
Date:
2014-09-10

Time Period
Date:
2017-07-11

Time Period
Date:
2013-08-28

Time Period
Date:
2014-06-26

Time Period
Date:
2016-08-09

Time Period
Date:
2013-07-10

Time Period
Date:
2014-07-02

Time Period
Date:
2014-09-03

Time Period
Date:
2017-08-22

Time Period
Date:
2013-08-14

Time Period
Date:
2014-08-18

Time Period
Date:
2017-04-20

Time Period
Date:
2013-08-21

Time Period
Date:
2014-06-11

Time Period
Date:
2016-04-05

Time Period
Date:
2017-07-25

Time Period
Date:
2013-08-07

Time Period
Date:
2014-08-06

Time Period
Date:
2017-05-18

Time Period
Date:
2013-09-25

Time Period
Date:
2014-05-14

Time Period
Date:
2016-06-02

Time Period
Date:
2017-08-08

Time Period
Date:
2013-07-17

Time Period
Date:
2014-07-30

Time Period
Date:
2017-05-04

Time Period
Date:
2013-09-04

People and Organizations
Contact:NEON Biorepository at Arizona State University [  email ]
Organization:NEON Biorepository Data Portal
Organization:NEON Biorepository at Arizona State University
Associate:Rocha Prado, Laura (Arizona State University, Bioinformatician, contentProvider)

Data Entities
Data Table Name:
occurrences
Description:
Detailed Metadata

Data Entities

Data Table

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Number of Columns:93

Table Structure
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Text Format:
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Table Column Descriptions
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fieldNumber  
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waterBody  
islandGroup  
island  
country  
stateProvince  
county  
municipality  
locality  
locationRemarks  
decimalLatitude  
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geodeticDatum  
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georeferencedBy  
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Measurement Type:nominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominalnominal
Measurement Values Domain:
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Missing Value Code:                                                                                                                                                                                          
Accuracy Report:                                                                                                                                                                                          
Accuracy Assessment:                                                                                                                                                                                          
Coverage:                                                                                                                                                                                          
Methods:                                                                                                                                                                                          

Data Package Usage Rights

This data package is released to the "public domain" under Creative Commons CC0 1.0 "No Rights Reserved" (see: https://creativecommons.org/publicdomain/zero/1.0/). It is considered professional etiquette to provide attribution of the original work if this data package is shared in whole or by individual components. A generic citation is provided for this data package on the website https://portal.edirepository.org (herein "website") in the summary metadata page. Communication (and collaboration) with the creators of this data package is recommended to prevent duplicate research or publication. This data package (and its components) is made available "as is" and with no warranty of accuracy or fitness for use. The creators of this data package and the website shall not be liable for any damages resulting from misinterpretation or misuse of the data package or its components. Periodic updates of this data package may be available from the website. Thank you.

Keywords

By Thesaurus:
(No thesaurus)collection, soil, microbia

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package
Description:

The NEON Biorepository at Arizona State University archives a number of physical collections of samples and specimens collected as part of the National Ecological Observatory Network. The data associated with these samples and specimens is initially harvested directly from NEON (via NEON API). As part of the curation process, some data may be annotated or updated. All of the data is managed using the Symbiota platform, and is publicly accessible through the NEON Biorepository Data Portal, available at https://biorepo.neonscience.org. This dataset was exported by Symbiota, and fields have been standardized using Darwin Core data standards whenever possible. Additional sample and specimen data may be available within the NEON Biorepository Data Portal. When referencing datasets of occurrences associated with published research, users should also consult and cite the primary publications.

People and Organizations

Publishers:
Organization:Environmental Data Initiative
Email Address:
info@edirepository.org
Web Address:
https://edirepository.org
Id:https://ror.org/0330j0z60
Creators:
Organization:NEON Biorepository Data Portal
Email Address:
biorepo@asu.edu
Web Address:
http://gh.local/NEON-Biorepository/
Contacts:
Organization:NEON Biorepository at Arizona State University
Email Address:
biorepo@asu.edu
Associated Parties:
Organization:NEON Biorepository at Arizona State University
Email Address:
biorepo@asu.edu
Web Address:
http://gh.local/NEON-Biorepository/
Role:publisher
Individual: Laura Rocha Prado
Organization:Arizona State University
Position:Bioinformatician
Address:
Tempe, AZ US
Email Address:
lauraprado@asu.edu
Role:contentProvider

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period
Date:
2014-07-21

Time Period
Date:
2016-06-28

Time Period
Date:
2017-09-26

Time Period
Date:
2013-07-31

Time Period
Date:
2014-08-20

Time Period
Date:
2017-04-06

Time Period
Date:
2013-09-18

Time Period
Date:
2014-05-12

Time Period
Date:
2016-07-12

Time Period
Date:
2017-09-05

Time Period
Date:
2013-07-24

Time Period
Date:
2014-09-02

Time Period
Date:
2017-06-27

Time Period
Date:
2013-09-11

Time Period
Date:
2014-04-28

Time Period
Date:
2016-08-23

Time Period
Date:
2013-07-03

Time Period
Date:
2014-06-27

Time Period
Date:
2014-09-10

Time Period
Date:
2017-07-11

Time Period
Date:
2013-08-28

Time Period
Date:
2014-06-26

Time Period
Date:
2016-08-09

Time Period
Date:
2013-07-10

Time Period
Date:
2014-07-02

Time Period
Date:
2014-09-03

Time Period
Date:
2017-08-22

Time Period
Date:
2013-08-14

Time Period
Date:
2014-08-18

Time Period
Date:
2017-04-20

Time Period
Date:
2013-08-21

Time Period
Date:
2014-06-11

Time Period
Date:
2016-04-05

Time Period
Date:
2017-07-25

Time Period
Date:
2013-08-07

Time Period
Date:
2014-08-06

Time Period
Date:
2017-05-18

Time Period
Date:
2013-09-25

Time Period
Date:
2014-05-14

Time Period
Date:
2016-06-02

Time Period
Date:
2017-08-08

Time Period
Date:
2013-07-17

Time Period
Date:
2014-07-30

Time Period
Date:
2017-05-04

Time Period
Date:
2013-09-04
Sampling Site: 
Description:Southeast (D03), Ordway-Swisher Biological Station NEON (OSBS), Plot OSBS_003, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.947419Latitude (degree): 29.694993
Sampling Site: 
Description:Domain 03, Disney Wilderness Preserve Site, Plot DSNY_010, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.435161Latitude (degree): 28.11859
Sampling Site: 
Description:Southeast (D03), Disney Wilderness Preserve NEON (DSNY), Plot DSNY_010, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.435161Latitude (degree): 28.11859
Sampling Site: 
Description:Southeast (D03), Disney Wilderness Preserve NEON (DSNY), Plot DSNY_004, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.399974Latitude (degree): 28.099732
Sampling Site: 
Description:Southeast (D03), Disney Wilderness Preserve NEON (DSNY), Plot DSNY_006, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.399332Latitude (degree): 28.092969
Sampling Site: 
Description:Southeast (D03), Disney Wilderness Preserve NEON (DSNY), Plot DSNY_005, (plot dimensions: 40m x 40m)
Site Coordinates:
Longitude (degree): -81.393323Latitude (degree): 28.039641

Project

Parent Project Information:

Title:NEON Biorepository at Arizona State University
Personnel:
Organization:Arizona State University
Address:
Tempe, AZ 85287 USA
Email Address:
biorepo@asu.edu
Web Address:
https://biorepo.neonscience.org
Role:publisher
Individual:Dr. Laura Rocha Prado
Role:biodiversityInformatician
Individual: Edward Gilbert
Role:biodiversityInformatician
Individual:Dr. Nico Franz
Role:principalInvestigator
Individual:Dr. Kelsey Yule
Role:projectManager
Abstract:

The NEON Biorepository is managed by the Biodiversity Knowledge Integration Center (BioKIC) and Arizona State University's Natural History Collections in Tempe, Arizona.

Maintenance

Maintenance:
Description:

The data is updated within the NEON Biorepository Data Portal when necessary due to specimen processing, data annotation, or error correction.

Frequency:asNeeded
Other Metadata

Additional Metadata

additionalMetadata
        |___text '\n    '
        |___element 'metadata'
        |     |___text '\n      '
        |     |___element 'symbiota'
        |     |     |  \___attribute 'identifier' = '5b77bf2d-3bb2-4cb3-9f9d-50c20357f4cb'
        |     |     |___text '\n        '
        |     |     |___element 'dateStamp'
        |     |     |     |___text '2023-02-07T12:14:48-07:00'
        |     |     |___text '\n        '
        |     |     |___element 'citation'
        |     |     |     |  \___attribute 'identifier' = '2f52114d-40a4-4708-8dba-054afc4f6940'
        |     |     |     |___text 'NEON Biorepository Data Portal - 2f52114d-40a4-4708-8dba-054afc4f6940'
        |     |     |___text '\n        '
        |     |     |___element 'physical'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'characterEncoding'
        |     |     |     |     |___text 'UTF-8'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'dataFormat'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'externallyDefinedFormat'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'formatName'
        |     |     |     |     |     |     |___text 'Darwin Core Archive'
        |     |     |     |     |     |___text '\n            '
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n        '
        |     |     |___text '\n        '
        |     |     |___element 'collection'
        |     |     |     |  \___attribute 'identifier' = 'd261934e-0923-446b-9627-95be868627ab'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'alternateIdentifier'
        |     |     |     |     |___text 'http://gh.local/NEON-Biorepository/collections/misc/collprofiles.php?collid=63'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'parentCollectionIdentifier'
        |     |     |     |     |___text 'NEON'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'collectionIdentifier'
        |     |     |     |     |___text 'CARC-DNA'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'collectionName'
        |     |     |     |     |___text 'NEON Biorepository Carabid Collection (DNA Extracts)'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'resourceLogoUrl'
        |     |     |     |     |___text 'https://biorepo.neonscience.org/portal/content/collicon/asu-neon-iv.png'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'onlineUrl'
        |     |     |     |     |___text 'https://data.neonscience.org/data-products/DP1.10020.001'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'intellectualRights'
        |     |     |     |     |___text 'http://creativecommons.org/publicdomain/zero/1.0/'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'associatedParty'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'individualName'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'electronicMailAddress'
        |     |     |     |     |     |___text 'biorepo@asu.edu'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'organizationName'
        |     |     |     |     |     |___text 'NEON Biorepository'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n          '
        |     |     |     |___element 'associatedParty'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'individualName'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'givenName'
        |     |     |     |     |     |     |___text 'Azhar'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'surName'
        |     |     |     |     |     |     |___text 'Husain'
        |     |     |     |     |     |___text '\n            '
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'positionName'
        |     |     |     |     |     |___text 'Collection Manager'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n          '
        |     |     |     |___element 'associatedParty'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'individualName'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'givenName'
        |     |     |     |     |     |     |___text 'Laura'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'surName'
        |     |     |     |     |     |     |___text 'Rocha Prado'
        |     |     |     |     |     |___text '\n            '
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'positionName'
        |     |     |     |     |     |___text 'Bioinformatician'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'electronicMailAddress'
        |     |     |     |     |     |___text 'lauraprado@asu.edu'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'userId'
        |     |     |     |     |     |  \___attribute 'directory' = 'https://orcid.org/'
        |     |     |     |     |     |___text '0000-0003-1237-2824'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n          '
        |     |     |     |___element 'abstract'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'para'
        |     |     |     |     |     |___text 'This collection contains genetic extracts derived from select ground beetle vouchers (Coleoptera: Carabidae; NEON sample class: bet_expertTaxonomistID_in.geneticSampleID). Ground beetles are sampled using pitfall traps (16 oz deli containers filled with 150 or 250 mL of diluted propylene glycol preservative). Multiple traps are deployed in each of 10 plots at each terrestrial NEON site (up to 4 traps per plot; maximum 40 traps per site), with traps arrayed approximately 20 meters from the center of the plot in each of the four cardinal directions. Sampling occurs biweekly throughout the growing season (when temperatures are above 4 degrees C). Following trap collection, all beetles from the family Carabidae are sorted by NEON technicians and identified to species or morphospecies. Annually, up to 95 Carabidae per site are pointed or pinned, receive secondary morphology-based identification by an expert taxonomist, and have genetic sequences produced at the cytochrome oxidase I barcode region. Beetles that are rare, particularly difficult to identify, or poorly represented in previous collection events are prioritized for DNA sequencing. Only beetle specimens that have been identified by an expert taxonomist are eligible for DNA barcoding. Barcodes of cytochrome oxidase I are generated per specimen and are cross-posted on the Barcode of Life Data Portal (http://www.boldsystems.org/). Genetic extracts in 96-well plates from the Canadian Centre for DNA Barcoding are archived in the NEON Biorepository at -80 degrees Celsius. See related links below for protocols and NEON related data products. Information about the Canadian Centre for DNA Barcoding can be found at https://ccdb.ca/.'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n        '
        |     |     |___text '\n        '
        |     |     |___element 'collection'
        |     |     |     |  \___attribute 'identifier' = '752a6d0c-9897-4940-bc52-42c4a55b89c8'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'alternateIdentifier'
        |     |     |     |     |___text 'http://gh.local/NEON-Biorepository/collections/misc/collprofiles.php?collid=82'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'parentCollectionIdentifier'
        |     |     |     |     |___text 'CMNH'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'collectionIdentifier'
        |     |     |     |     |___text 'INV'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'collectionName'
        |     |     |     |     |___text 'Carnegie Museum of Natural History, Invertebrate Zoology Collection'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'resourceLogoUrl'
        |     |     |     |     |___text 'https://biorepo.neonscience.org/portal/content/collicon/cmnh-inv.png'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'onlineUrl'
        |     |     |     |     |___text 'https://carnegiemnh.org/research/invertebrate-zoology/'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'intellectualRights'
        |     |     |     |     |___text 'http://creativecommons.org/publicdomain/zero/1.0/'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'associatedParty'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'individualName'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'givenName'
        |     |     |     |     |     |     |___text 'James'
        |     |     |     |     |     |___text '\n              '
        |     |     |     |     |     |___element 'surName'
        |     |     |     |     |     |     |___text 'Fetzner'
        |     |     |     |     |     |___text '\n            '
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'electronicMailAddress'
        |     |     |     |     |     |___text 'https://carnegiemnh.org/research/fetzner-contact/'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n          '
        |     |     |     |___element 'abstract'
        |     |     |     |     |___text '\n            '
        |     |     |     |     |___element 'para'
        |     |     |     |     |     |___text 'Carnegie Museum of Natural History invertebrate holdings are worldwide in coverage, especially Afrotropical and Neotropical regions. Most specimens in the collection are in the Phylum Arthropoda, with greatest emphasis on insects, myriapods, arachnids, and crustacea. The insect collection of the Invertebrate Zoology collection contains an estimated 13 million specimens of which more than 7 million are prepared, labelled, and ready for study. Invertebrate Zoology’s overarching collection’s primary strengths are Lepidoptera and Coleoptera but with strong collections in Diptera, Odonata, Heteroptera, Homoptera, Hymenoptera, and Siphonaptera. These collections augment studies by staff, but they are also used for research by hundreds of specialists worldwide where they constitute the basis for numerous scientific publications. These collections benefit present and future generations, and in their immensity comprise a public trust as a unique record of the natural world. The specimens published in this portal are pinned Carabid vouchers collected at NEON terrestrial sites (NEON sample class: bet_IDandpinning_in.individualID). Vouchers published here are expert identified and retained at CMNH but derive from the same sampling protocols and are related to the same NEON data products as the NEON Carabid Collection (Pinned Vouchers) (NEON-CARC-PV).'
        |     |     |     |     |___text '\n          '
        |     |     |     |___text '\n        '
        |     |     |___text '\n      '
        |     |___text '\n    '
        |___text '\n  '

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