17790 Vertebrae classification models (Validating classification models that use morphometrics to identify ancient salmonid (Oncorhynchus spp.) vertebrae to species) Data Set Published / External 17775 CB (Conservation Biology) Division Project Completed 2010-06-01 2018-02-21 Using morphometric characteristics of modern salmonid (Oncorhynchus spp.) vertebrae, we have developed classification models to identify salmonid vertebrae to the species level with relatively low error rates. This is a study to validate the performance of our classification models on ancient salmonid specimens using analysis of ancient DNA. We have putatively identified a sample of ancient (ca. 1000 to 2900 ybp) vertebrae (from the Wenatchee River basin) to species with our models. Using molecular markers to identify the ancient vertebrae to species, we will be able to evaluate the performance of our models that use vertebral morphology for species identification. If identification methods that are based on vertebral morphology perform successfully, we will have a rapid, low cost, nondestructive method to identify ancient salmonid vertebrae. If applied to midden sites throughout the Columbia River basin, and potentially to other river systems draining into the Pacific Ocean, we will improve our understanding of historical anadromous salmonid occupancy and have a more complete picture of historical population and ESU structure. Additionally, the results of this work have the potential to make a significant contribution to inland and coastal anthropological/archaeological investigations. Collaborators include: Virginia Butler (Portland State University, Dept. of Anthropology), Harriet Huber (AFSC), and Dongya Yang (Simon Fraser University, Ancient DNA Laboratory). Ancient vertebrae measurements. Laboratory data Loaded by batch 4076, 01-22-2013 18:55 Subject to Public Access to Research Results (PARR): Yes Theme Wenatchee River Basin Theme ancient DNA Theme classification Theme morphometrics Theme vertebrae Identification Spatial NWFSC Montlake Instrument Quantitative PCR Machine Northwest Fisheries Science Center Seattle WA USA Data Set Spreadsheet Table (digital) Quantitative PCR Machine Unknown Platform Not Applicable 51579 Salmonid vertebrae height and length measurements Published / External Planned Measurements of salmonid vertebrae. Spreadsheet Yes PARR Measurements of salmonid vertebrae. 1 ID text 6 No No Active Fish specimen identification code. text 2 species text 9 No No Active Fish specimen species. text Chinook, cutthroat, chum, coho, pink, sockeye, steelhead 3 bonenumber integer 2 No No Active Vertebral number of a bone from a fish specimen, where numbering begins post-cranial toward the tail. integer >0 4 Height number 4 No No Active Vertebral height from the dorsal to the ventral axis of the centrum. Units for values are millimeters. number millimeters >0 5 Length number 4 No No Active Vertebral length from centrum face to centrum face. Units for values are millimeters. number millimeters >0 6 vert.type integer 1 No No Active Vertebral type as determined from unfused (2) or fused (3) neural and haemal processes. integer 2, 3 Data Steward 2015-10-01 Person Jorgensen, Jeff Jeff.Jorgensen@noaa.gov https://orcid.org/0000-0001-5112-4757 2725 Montlake Boulevard East Seattle WA 98112 206-860-3286 Distributor 2015-10-01 Organization Northwest Fisheries Science Center NWFSC nmfs.nwfsc.metadata@noaa.gov https://ror.org/05r7z1k40 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov NWFSC Home Online Resource Metadata Contact 2015-10-01 Organization Northwest Fisheries Science Center NWFSC nmfs.nwfsc.metadata@noaa.gov https://ror.org/05r7z1k40 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov NWFSC Home Online Resource Originator 2015-10-01 Person Jorgensen, Jeff Jeff.Jorgensen@noaa.gov https://orcid.org/0000-0001-5112-4757 2725 Montlake Boulevard East Seattle WA 98112 206-860-3286 Point of Contact 2015-10-01 Person Jorgensen, Jeff Jeff.Jorgensen@noaa.gov https://orcid.org/0000-0001-5112-4757 2725 Montlake Boulevard East Seattle WA 98112 206-860-3286 -122.3062 -122.3062 47.6449 47.6449 NWFSC Montlake: Montlake Continuing 2010-06-01 -121.181 -120.3246 48.1812 47.2827 Wenatchee River basin: Swiftwater Rockshelters midden Continuing 2010-06-01 Unclassified At this time, contact the Data Manager for information on obtaining access to this data set. In the near future, the NWFSC will strive to provide all data resources as a web service in order to meet the NOAA Data Access Policy Directive (https://nosc.noaa.gov/EDMC/PD.DA.php). NA https://www.webapps.nwfsc.noaa.gov/apex/parr/salmonid_vertebrae_height_and_length_measurements/data/page/ 2015-10-01 Organization Northwest Fisheries Science Center https://ror.org/05r7z1k40 Salmonid vertebrae height and length measurements Measurements of salmonid vertebrae. https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/tables/table/salmonid_vertebrae_height_and_length_measurements 2015-10-01 Organization Northwest Fisheries Science Center https://ror.org/05r7z1k40 Salmonid vertebrae height and length measurements Measurements of salmonid vertebrae. https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/datasets/dataset/10923 Vertebrae classification models Online Resource Web site NWFSC Dataset Information page. ancient vertebrae measurements Spreadsheet - electronic files Low Genetics lab qc, These data were collected and processed in accordance with established protocols and best practices under the direction of the project’s Principal Investigator. Contact the dataset Data Manager for full QA/QC methodology. Yes 0 No No No 0 days No Delay NCEI-MD 365 The Northwest Fisheries Science Center facilitates backup and recovery of all data and IT components which are managed by IT Operations through the capture of static (point-in-time) backup data to physical media. Once data is captured to physical media (every 1-3 days), a duplicate is made and routinely (weekly) transported to an offsite archive facility where it is maintained throughout the data's applicable life-cycle. DNA sequencing, modeling. 51579 Entity gov.noaa.nmfs.inport:17790 Jeffrey Cowen 2013-01-22T18:55:18 SysAdmin InPortAdmin 2026-03-04T19:17:24 2019-06-04 Northwest Fisheries Science Center NWFSC 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov 1001 Public No No 2019-06-04 1 Year 2020-06-04