AFSC/RACE/EcoFOCI: NPRB project number 926: Assessing the condition of walleye pollock, Theragra chalcogramma, larvae in the eastern Bering Sea with muscle-based flow cytometry...
Data Set (DS) | Alaska Fisheries Science Center (AFSC)GUID: gov.noaa.nmfs.inport:12673 | Updated: October 17, 2023 | Published / External
Summary
Short Citation
Alaska Fisheries Science Center, 2024: AFSC/RACE/EcoFOCI: NPRB project number 926: Assessing the condition of walleye pollock, Theragra chalcogramma, larvae in the eastern Bering Sea with muscle-based flow cytometry cell cycle analysis, https://www.fisheries.noaa.gov/inport/item/12673.
Full Citation Examples
Walleye pollock are an important component of the eastern Bering Sea ecosystem due to their vast numbers and biomass and are of great commercial importance. Their recruitment in the eastern Bering Sea is not well understood but it is largely determined during the first year, so the larval stage may play a significant role. Starvation may contribute to the high and variable mortality that occurs during the larval stage so it is important to monitor and quantify it. This metadata describes data from laboratory and field studies conducted from 2009 to 2012 for NPRB project 926. The project completed the development of an assay using flow cytometric cell cycle analysis to assess the physiological condition of walleye pollock larvae, and applied it to field collected specimens. The use of RNA to improve the accuracy of the assay was also investigated, as well as the relationship between flow cytometric measurements and growth.
Results showed that the overall classification accuracy of the assay (healthy or unhealthy) ranged between 75 and 83% depending on the type of cross-validation testing. A nuclear RNA variable (the ratio of the number of S phase nuclei to the number of high nuclear RNA content G1 phase nuclei) improved overall classification accuracy by 11% compared to a model without it. Unhealthy walleye pollock larvae were present in the southeastern Bering Sea in 2009, and this was most likely the result of cold environmental conditions affecting prey availability and larval feeding. In 2010, no unhealthy larvae were detected. This may be the result of less spatial coverage and smaller collections of larvae than in 2009, given that the environmental conditions were similar between years.
Distribution Information
-
CSV - Comma Separated Values (Text)
Note: Dataset migrated by Dan Woodrich (AFSC data management coordinator) on 12/14/2021. Contact: Daniel.woodrich@noaa.gov
Contact Point Of Contact for data request form.
User must read and fully comprehend the metadata prior to use. Applications or inferences derived from the data should be carefully considered for accuracy. Acknowledgement
of NOAA/NMFS/AFSC, as the source from which these data were obtained in any publications and/or other representations of these, data is suggested.
Controlled Theme Keywords
biota
Child Items
No Child Items for this record.
Contact Information
Point of Contact
Kimberly Bahl
kimberly.bahl@noaa.gov
206 526 4314
Metadata Contact
Kimberly Bahl
kimberly.bahl@noaa.gov
206 526 4314
Extents
-171.1° W,
-163.3° E,
57.4° N,
54.3° S
Bering Sea
2009 - 2012
Item Identification
| Title: | AFSC/RACE/EcoFOCI: NPRB project number 926: Assessing the condition of walleye pollock, Theragra chalcogramma, larvae in the eastern Bering Sea with muscle-based flow cytometry cell cycle analysis |
|---|---|
| Short Name: | AFSC/RACE/EcoFOCI: NPRB project 926: Assessing the condition of walleye pollock, Theragra chalcogramma, larvae in the eastern Bering Sea with muscle-based flo |
| Status: | Completed |
| Abstract: |
Walleye pollock are an important component of the eastern Bering Sea ecosystem due to their vast numbers and biomass and are of great commercial importance. Their recruitment in the eastern Bering Sea is not well understood but it is largely determined during the first year, so the larval stage may play a significant role. Starvation may contribute to the high and variable mortality that occurs during the larval stage so it is important to monitor and quantify it. This metadata describes data from laboratory and field studies conducted from 2009 to 2012 for NPRB project 926. The project completed the development of an assay using flow cytometric cell cycle analysis to assess the physiological condition of walleye pollock larvae, and applied it to field collected specimens. The use of RNA to improve the accuracy of the assay was also investigated, as well as the relationship between flow cytometric measurements and growth. Results showed that the overall classification accuracy of the assay (healthy or unhealthy) ranged between 75 and 83% depending on the type of cross-validation testing. A nuclear RNA variable (the ratio of the number of S phase nuclei to the number of high nuclear RNA content G1 phase nuclei) improved overall classification accuracy by 11% compared to a model without it. Unhealthy walleye pollock larvae were present in the southeastern Bering Sea in 2009, and this was most likely the result of cold environmental conditions affecting prey availability and larval feeding. In 2010, no unhealthy larvae were detected. This may be the result of less spatial coverage and smaller collections of larvae than in 2009, given that the environmental conditions were similar between years. |
| Purpose: |
To complete the development of an assay to assess the physiological condition of walleye pollock larvae using flow cytometric cell cycle analysis, and to apply it to field collected . |
| Notes: |
Loaded by batch 3300, 07-23-2012 13:28 |
Keywords
Theme Keywords
| Thesaurus | Keyword |
|---|---|
| ISO 19115 Topic Category |
biota
|
| UNCONTROLLED | |
| PARR Exclusion | Non-Federal Funding |
| None | flow cytometry |
| None | larvae |
| None | physiological condition |
Spatial Keywords
| Thesaurus | Keyword |
|---|---|
| UNCONTROLLED | |
| None | Alaska |
| None | Bering Sea |
Physical Location
| Organization: | Alaska Fisheries Science Center |
|---|---|
| City: | Seattle |
| State/Province: | WA |
| Country: | USA |
Data Set Information
| Data Set Scope Code: | Data Set |
|---|---|
| Data Set Type: | CSV Files |
| Maintenance Frequency: | None Planned |
| Data Presentation Form: | Table (digital) |
Support Roles
Data Steward
| Date Effective From: | 2015 |
|---|---|
| Date Effective To: | |
| Contact (Person): | Porter, Steve |
| Email Address: | steve.porter@noaa.gov |
| Contact Instructions: |
|
Distributor
| Date Effective From: | 2015 |
|---|---|
| Date Effective To: | |
| Contact (Person): | Porter, Steve |
| Email Address: | steve.porter@noaa.gov |
| Contact Instructions: |
|
Metadata Contact
| Date Effective From: | 2019 |
|---|---|
| Date Effective To: | |
| Contact (Person): | Bahl, Kimberly |
| Email Address: | kimberly.bahl@noaa.gov |
| Phone: | 206 526 4314 |
| Contact Instructions: |
|
Point of Contact
| Date Effective From: | 2019 |
|---|---|
| Date Effective To: | |
| Contact (Person): | Bahl, Kimberly |
| Email Address: | kimberly.bahl@noaa.gov |
| Phone: | 206 526 4314 |
| Contact Instructions: |
|
Extents
| Currentness Reference: | Ground Condition |
|---|
Extent Group 1
Extent Group 1 / Geographic Area 1
| W° Bound: | -171.1 | |
|---|---|---|
| E° Bound: | -163.3 | |
| N° Bound: | 57.4 | |
| S° Bound: | 54.3 | |
| Description |
Bering Sea |
|
Extent Group 1 / Time Frame 1
| Time Frame Type: | Range |
|---|---|
| Start: | 2009 |
| End: | 2012 |
Access Information
| Security Class: | Unclassified |
|---|---|
| Data Access Policy: |
Contact distributor |
| Data Access Procedure: |
Contact Distributor |
| Data Access Constraints: |
Contact Point Of Contact for data request form. |
| Data Use Constraints: |
User must read and fully comprehend the metadata prior to use. Applications or inferences derived from the data should be carefully considered for accuracy. Acknowledgement of NOAA/NMFS/AFSC, as the source from which these data were obtained in any publications and/or other representations of these, data is suggested. |
| Metadata Access Constraints: |
none |
| Metadata Use Constraints: |
none |
Distribution Information
Distribution 1
| Download URL: | https://console.cloud.google.com/storage/browser/_details/nmfs_odp_afsc/RACE/RPP/NPRB%20926%3B%20Results%20from%202009%20laboratory%20experiment%20measuring%20nuclear%20RNA.csv |
|---|---|
| Distributor: | Steve Porter (2015 - Present) |
| Description: |
Note: Dataset migrated by Dan Woodrich (AFSC data management coordinator) on 12/14/2021. Contact: Daniel.woodrich@noaa.gov |
| File Type (Deprecated): | csv (comma-separated values) |
| Distribution Format: | CSV - Comma Separated Values (Text) |
Technical Environment
| Description: |
Excel |
|---|
Data Quality
| Completeness Report: |
Not applicable. |
|---|---|
| Quality Control Procedures Employed: |
PORTER, S. M., and K. M. BAILEY. 2013. Using measurements of muscle cell nuclear RNA with flow cytometry to improve assessment of larval condition of walleye pollock (Gadus chalcogrammus). Fish. Bull., U.S. 111:337-351. |
Data Management
| Have Resources for Management of these Data Been Identified?: | No |
|---|---|
| Approximate Percentage of Budget for these Data Devoted to Data Management: | Unknown |
| Do these Data Comply with the Data Access Directive?: | No |
| Is Access to the Data Limited Based on an Approved Waiver?: | No |
| Approximate Delay Between Data Collection and Dissemination: | varies |
| If Delay is Longer than Latency of Automated Processing, Indicate Under What Authority Data Access is Delayed: |
Requires human identification and analysis of samples. |
| Actual or Planned Long-Term Data Archive Location: | To Be Determined |
| If To Be Determined, Unable to Archive, or No Archiving Intended, Explain: |
No current archive supports this data type. |
| Approximate Delay Between Data Collection and Archiving: | varies |
| How Will the Data Be Protected from Accidental or Malicious Modification or Deletion Prior to Receipt by the Archive?: |
local and offsite backups |
Lineage
| Lineage Statement: |
PORTER, S. M., and K. M. BAILEY. 2013. Using measurements of muscle cell nuclear RNA with flow cytometry to improve assessment of larval condition of walleye pollock (Gadus chalcogrammus). Fish. Bull., U.S. 111:337-351. |
|---|
Catalog Details
| Catalog Item ID: | 12673 |
|---|---|
| GUID: | gov.noaa.nmfs.inport:12673 |
| Metadata Record Created By: | Nancy Roberson |
| Metadata Record Created: | 2012-07-23 13:28+0000 |
| Metadata Record Last Modified By: | SysAdmin InPortAdmin |
| Metadata Record Last Modified: | 2023-10-17 16:12+0000 |
| Metadata Record Published: | 2016-05-18 |
| Owner Org: | AFSC |
| Metadata Publication Status: | Published Externally |
| Do Not Publish?: | N |
| Metadata Last Review Date: | 2016-05-18 |
| Metadata Review Frequency: | 1 Year |
| Metadata Next Review Date: | 2017-05-18 |