Slide Menu
Search Help Show/Hide Menu
Short Citation:
Northwest Fisheries Science Center, 2022: Deep Sea Coral voucher sequence dataset - Identification of deep-sea corals collected during the 2009 - 2014 West Coast Groundfish Bottom Trawl Survey, https://www.fisheries.noaa.gov/inport/item/17970.

Item Identification

Title: Deep Sea Coral voucher sequence dataset - Identification of deep-sea corals collected during the 2009 - 2014 West Coast Groundfish Bottom Trawl Survey
Short Name: Coral genetic (Taxonomic and genetic identification of deep-sea corals in bycatch and field surveys -linked to groundfish survey dataset)
Status: Completed
Publication Date: 2018-02-22
Abstract:

Data for this project resides in the West Coast Groundfish Bottom Trawl Survey Database. Deep-sea corals are often components of trawling bycatch, though their brittle skeleton and slow growth make them particularly vulnerable to such impacts. An understanding of the population structure of deep-sea corals will be critical to ascertaining the effects of habitat loss and genetic connections between distant populations, both of which are important to the 2006 Magnuson-Stevens Act directive and the NMFS federal mandate. An initial species inventory of deep-sea corals off the United States coastline is a necessary first step toward a comprehensive understanding of the ecology and distribution of this diverse species assemblage. Quantifying species distributions from bycatch data and fisheries independent surveys requires accurate species-level identifications of the corals found in tows; however, the taxonomic identification of corals to the species level is often problematic. In some cases morphologically similar specimens may only be distinguished from one another using microscopic skeletal structures. In other cases, the taxonomic delineations of some families are so confused that accurate species-level designations are currently impossible. The use of genetic information combined with morphology is likely the best approach to decipher evolutionary patterns in these species.

A collection of genetic barcodes for all verified voucher specimens of deep sea corals in our collections. Also includes SEM images for some species.

Purpose:

Addresses Legal Mandate

Raw/field data, Laboratory data, Other

Notes:

Loaded by batch 4257, 01-30-2013 17:10

Supplemental Information:

Subject to Public Access to Research Results (PARR): Yes

Keywords

Theme Keywords

Thesaurus Keyword
UNCONTROLLED
None by-catch
None deep sea coral

Spatial Keywords

Thesaurus Keyword
UNCONTROLLED
None Northern CA Current System

Instrument Keywords

Thesaurus Keyword
UNCONTROLLED
None DNA Sequencer

Platform Keywords

Thesaurus Keyword
UNCONTROLLED
None Unknown Physical Collection Device

Physical Location

Organization: Northwest Fisheries Science Center
City: Seattle
State/Province: WA
Country: USA

Data Set Information

Data Set Scope Code: Data Set
Data Set Type: Other
Data Presentation Form: Other

Support Roles

Data Steward

CC ID: 847701
Date Effective From: 2015-10-01
Date Effective To:
Contact (Person): Everett, Meredith
Address: 2725 Montlake Boulevard East
Seattle, WA 98112
USA
Email Address: meredith.everett@noaa.gov

Distributor

CC ID: 847702
Date Effective From: 2015-10-01
Date Effective To:
Contact (Organization): Northwest Fisheries Science Center (NWFSC)
Address: 2725 Montlake Boulevard East
Seattle, WA 98112
USA
Email Address: nmfs.nwfsc.metadata@noaa.gov
Phone: 206-860-3200
URL: NWFSC Home

Metadata Contact

CC ID: 847700
Date Effective From: 2015-10-01
Date Effective To:
Contact (Organization): Northwest Fisheries Science Center (NWFSC)
Address: 2725 Montlake Boulevard East
Seattle, WA 98112
USA
Email Address: nmfs.nwfsc.metadata@noaa.gov
Phone: 206-860-3200
URL: NWFSC Home

Originator

CC ID: 847704
Date Effective From: 2015-10-01
Date Effective To:
Contact (Person): Berntson, Ewann A
Address: 2725 Montlake Boulevard East
Seattle, WA 98112
Email Address: Ewann.Berntson@noaa.gov
Phone: 360-871-8333

Point of Contact

CC ID: 847703
Date Effective From: 2015-10-01
Date Effective To:
Contact (Person): Everett, Meredith
Address: 2725 Montlake Boulevard East
Seattle, WA 98112
USA
Email Address: meredith.everett@noaa.gov

Extents

Extent Group 1

Extent Group 1 / Geographic Area 1

CC ID: 847710
W° Bound: -122.3062
E° Bound: -122.3062
N° Bound: 47.6449
S° Bound: 47.6449
Description

Northern CA Current System: US-Canada to US-Mexico 55 -1280 m

Extent Group 1 / Time Frame 1

CC ID: 847709
Time Frame Type: Continuing
Start: 2009-01-01

Extent Group 2

Extent Group 2 / Geographic Area 1

CC ID: 847713
W° Bound: -122.5547
E° Bound: -122.3062
N° Bound: 47.6449
S° Bound: 47.569
Description

Montlake Genetics

Extent Group 2 / Time Frame 1

CC ID: 847712
Time Frame Type: Continuing
Start: 2009-01-01

Access Information

Security Class: Unclassified
Data Access Procedure:

Contact one of the project leads

Data Access Constraints:

NA

Distribution Information

Distribution 1

CC ID: 847706
Start Date: 2018-02-22
End Date: Present
Download URL: https://www.webapps.nwfsc.noaa.gov/apex/parr/deep_sea_corals_parr_022118/data/page/
Distributor: Northwest Fisheries Science Center (NWFSC) (2015-10-01 - Present)
File Name: Deep Sea Corals PARR 02.21.18 (RESTful)
Description:

This is a table referencing DNA sequences generated from deep sea corals collected by a number of agencies. All sequences are published in one of two databases, and those accession numbers are included here. The Genbank Database can be accessed here: https://www.ncbi.nlm.nih.gov/genbank/. The National Coral Database can be accessed here: https://deepseacoraldata.noaa.gov/.

Distribution 2

CC ID: 847705
Start Date: 2018-02-22
End Date: Present
Download URL: https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/tables/table/deep_sea_corals_parr_022118
Distributor: Northwest Fisheries Science Center (NWFSC) (2015-10-01 - Present)
File Name: Deep Sea Corals PARR 02.21.18
Description:

This is a table referencing DNA sequences generated from deep sea corals collected by a number of agencies. All sequences are published in one of two databases, and those accession numbers are included here. The Genbank Database can be accessed here: https://www.ncbi.nlm.nih.gov/genbank/. The National Coral Database can be accessed here: https://deepseacoraldata.noaa.gov/.

URLs

URL 1

CC ID: 847707
URL: https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/datasets/dataset/105225
Name: Deep Sea Coral voucher sequence dataset
URL Type:
Online Resource
File Resource Format: Web site
Description:

NWFSC Dataset Information page. A collection of genetic barcodes for all verified voucher specimens of deep sea corals in our collections. Also includes SEM images for some species.

Technical Environment

Description:

Spreadsheet

Data Quality

Accuracy:

High

Quality Control Procedures Employed:

Sequencing quality checks

Data Management

Have Resources for Management of these Data Been Identified?: Yes
Approximate Percentage of Budget for these Data Devoted to Data Management: 15
Do these Data Comply with the Data Access Directive?: No
Is Access to the Data Limited Based on an Approved Waiver?: No
If Distributor (Data Hosting Service) is Needed, Please Indicate: No
Approximate Delay Between Data Collection and Dissemination: 0 days
If Delay is Longer than Latency of Automated Processing, Indicate Under What Authority Data Access is Delayed:

No Delay

Actual or Planned Long-Term Data Archive Location: Other
If World Data Center or Other, Specify: NOAA’s Deep Sea Coral Research and Technology Program
Approximate Delay Between Data Collection and Archiving: 365
How Will the Data Be Protected from Accidental or Malicious Modification or Deletion Prior to Receipt by the Archive?:

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.

Lineage

Lineage Statement:

DNA extraction and sequencing, morphological identifications made, SEM images, QA/QC, phylogenetic analysis

Child Items

Rubric scores updated every 15m

Rubric Score Type Title
Entity Deep Sea Corals PARR 02.21.18

Catalog Details

Catalog Item ID: 17970
GUID: gov.noaa.nmfs.inport:17970
Metadata Record Created By: SysAdmin InPortAdmin
Metadata Record Created: 2013-01-30 17:10+0000
Metadata Record Last Modified By: SysAdmin InPortAdmin
Metadata Record Last Modified: 2019-06-04 13:14+0000
Metadata Record Published: 2019-06-04
Owner Org: NWFSC
Metadata Publication Status: Published Externally
Do Not Publish?: N
Metadata Next Review Date: 2020-06-04