83639 REL 53: Rev 1: WE H: Work Element Summary

Work Element Summary PDF

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Basics

Contract Number:

83639 REL 53

Contract Title:

1998-014-00 EXP OCEAN SURVIVAL OF SALMONIDS (NOAA)

Contract Start Date:

1/1/2024

Contract End Date:

12/31/2024

WE ID:

162. Analyze/Interpret Data

Work Element Usage Report

Title:

H: 162 - Assess the role of the plume and nearshore ocean on salmon growth & survival

Description:

Data will be collected to determine the following:

Through analytical assessment of biological features of juvenile salmon in and out of the Columbia River plume, assess the role of unique features of the Columbia River plume that affect salmon growth and survival.

NOAA will:
1) Continue to identify and refine the suite of plume and ocean indicators that best predict adult returns and survival and support the use of early warning indicators for listed interior Columbia Basin ESUs and DPSs.

2) Examine the extent of coupling among estuarine, plume and early ocean habitats and marine survival of interior Columbia juvenile salmon and steelhead.

Tasks will include:

- Species of juvenile salmon will be confirmed from survey sampling in 2024, weighed and measured, and dissected (if warranted). All data will be entered and QA/QC.

- Identify genetic composition of juvenile Chinook salmon from surveys conducted in 2023; collect samples for analysis from salmon sampled in 2024.

- Identify temporal and spatial relationships among Insulin-like Growth Factor (IGF-1) levels as a metric of growth in juvenile salmon as they relate to early ocean survival.

- Examine food habits of salmon that may relate to connectivity to Columbia River estuary habitat.

- Integrate abundance, distribution and growth characteristics of juvenile salmon in the environment in relation to ocean condition in coastal marine waters of Oregon and Washington through correlational, spatial, multivariate, and generalized linear models.

- Continue to develop and refine indicators of juvenile salmon survival

WE Agreement Type:

Contracted

Deliverable Specification:

Submit May and June 2024 reports and continue analysis of data collected from project.

WSE Effective Budget:

$215,112

% of Total WSE Effective Budget:

61.42%

WSE Start:

01/01/2024

WSE End:

12/31/2024

WSE Completion:

12/30/2024

WSE Progress:

Concluded

WSE ID Continued From:

n/a

WSE ID Continued To:

n/a

Finite or Recurring:

Recurring

Budget History

SOWRevision	Planned	Updated	Contractor Comments (optional)	BPA Comments (optional)
Work Element Budget (Current Performance Period)	$215,112	$215,112

Milestones

6 Milestones

Sort	Type	Title	Start	End	Status	Modified By	Modified Date
A	PUBPROTOCOL	Review, revise, & finalize Study Plan sample design protocol and methds in monitoringResources.org	1/1/2024	12/31/2024	Concluded	Jason Karnezis	8/14/2023 7:25:28 AM
		Description: The Study Plan's Sample Design, Protocol and Methods for this work element are stored at MonitoringResources.org and need to be completed (i.e., "Finalized" through MonitoringResources.org), preferably prior to data analysis but must be completed upon submittal of your annual report. Preparations for contract renewals must include reviewing any previously finalized Sample Designs, Protocols & Methods to ensure that they are consistent with how work will be done in any subsequent contract.
B		Survey Report--May 2024	6/1/2024	12/31/2024	Concluded	Jason Karnezis	10/4/2023 9:20:21 AM
		Description: May 2024 survey report NOAA Lead: Burke Survey reports will be submitted electronically and will be submitted to BPA by the end of the year of each survey. Reports are submitted at the Project Level in CBfish. Survey reports will be completed and include information on: sampling locations, physical conditions at each station. These reports provide a description of survey objectives, results of the survey as well as a summary of data collected on each juvenile salmon sampling survey and include the following items: • Tables showing: (1) station and station location along with start position of each trawl (lat and long), start and end time and trawl duration and trawl duration; (2) hydrographic data at each station (sea surface temperature, sea surface salinity, fluorometer voltage, % transmission, depth and value of oxygen minimum) (3) a table that lists the catches of taxa in the trawl, by station. (4) Information on Genetic Stock Composition • Tables showing: the number of salmonids caught in each haul along with catch per unit effort in units of number of fish caught per km towed, • Charts showing (in plan view): the spatial distribution of 1m temperature, 1m salinity, 1m % transmission, minimum oxygen values, and CPUE of each salmonid taxa.
C		Survey report--June 2024	7/15/2024	12/31/2024	Concluded	Jason Karnezis	10/4/2023 9:20:21 AM
		Description: June 2024 survey report (NOAA lead: Burke) Survey reports will be submitted electronically and will be submitted to BPA by the end of the contract. Reports are submitted at the Project Level in CBfish. Survey Reports will be completed and include information on: sampling locations, physical conditions at each station, pelagic species observed from trawls. These reports provide a description of survey objectives, results of the survey as well as a summary of data collected on each juvenile salmon sampling survey and include the following items: • Tables showing: (1) station and station location along with start position of each trawl (lat and long), start and end time and trawl duration and trawl duration; (2) hydrographic data at each station (sea surface temperature, sea surface salinity, fluorometer voltage, % transmission, depth and value of oxygen minimum) and (3) a table that lists the catches of taxa in the trawl, by station. • Tables showing: number of salmonids caught in each haul along with catch per unit effort in units of number of fish caught per km towed, • Charts showing (in plan view): the spatial distribution of 1m temperature, 1m salinity, 1m % transmission, minimum oxygen values and Catch Per Unit Effort (CPUE) of each salmonid taxa.
D		Otoliths data analysis--NOAA--subset of May 2015-2024 surveys	1/1/2024	12/31/2024	Concluded	Jason Karnezis	9/27/2023 4:32:24 PM
		Description: Otolith analyses on as many individuals from both Mid/Upper Columbia River, Spring/Summer Chinook and Snake Spring Chinook from May 2024 and samples as a measure of ocean-estuarine residence time as it relates to growth. Continue analysis on May 2015-2024 otolith samples. There was no May 2020 survey due to Covid. We intend to compare attributes from fish that have just arrived in the plume to those from fish that have been in the ocean for longer periods. This requires analysis of strontium/calcium ratios in their otoliths and structural analysis of daily increments to get an accurate estimate of ocean residence time.
E		Data Entry on 2024 & 2023 Fish	1/1/2024	12/31/2024	Concluded	Jason Karnezis	9/27/2023 4:32:54 PM
		Description: Update database. Data regarding each individual juvenile salmon sampled in 2024 and some information from sampling in 2023 entered into a SQL server database of all juvenile salmon sampled from this project from 1998 to the present. Data includes: species, size, location of capture, associated oceanographic conditions of sample site and growth features.
F	DELIV	Survey Reports and Continued Analysis		12/31/2024	Concluded	Jason Karnezis	10/11/2023 3:08:28 PM
		Description: Submit May and June 2024 reports and continue analysis of data collected from project.

Metrics

Implementation Metrics

Metric	Planned	Actual
1464. Primary R, M, and E Focal Strategy [Population Status, Hydrosystem, Tributary Habitat, Estuary/Ocean, Harvest, Hatchery, Predation, Multiple Strategies]	Estuary/Ocean	Estuary/Ocean
1472. Primary R, M, and E Type [Status and Trend Monitoring, Action Effectiveness Research, Uncertainties Research, Project Implementation/ Compliance Monitoring]	Uncertainty Research	Uncertainty Research
1478. Secondary R, M, and E Type [Status and Trend Monitoring, Action Effectiveness Research, Uncertainties Research, Project Implementation/ Compliance Monitoring]	Status and Trend Monitoring	Status and Trend Monitoring
1495. Secondary R, M, and E Focal Strategy [Population Status, Hydrosystem, Tributary Habitat, Estuary/Ocean, Harvest, Hatchery, Predation, Multiple Strategies]	Multiple Strategies	Multiple Strategies

Location

<a target='blank' href='https://www.monitoringresources.org/Designer/Design/Detail/5208'>Location data for Area of Inference (AOI) should be entered into MonitoringResources.org. Click here to go to that site.</a>

Focal Species

Primary Focal Species:

Chinook (Oncorhynchus tshawytscha) - All Populations; Steelhead (Oncorhynchus mykiss) - All Populations

Secondary Focal Species:

Sockeye (Oncorhynchus nerka) - All Populations; Coho (Oncorhynchus kisutch) - Lower Columbia River ESU (Threatened)

Environmental Compliance

This work element does not require Environmental Compliance

RM&E Metadata

Data Repositories:

Title	Link
NOAA Ocean Indicators Tool	http://www.nwfsc.noaa.gov
NOAA Public Access to Research Results (PARR)	https://www.ngdc.noaa.gov/parr.html
StreamNet Data Store	https://app.streamnet.org/datastore_search_classic.cfm

Study Plan:

Study Plan Name	Study Plan Owner	Protocol State	Sample Design Name
Ocean Survey of Juvenile Salmon (1998-014-00) v1.0	Cheryl Morgan	Draft	Assess the role of the estuary and plume on salmon growth and survival - Oregon State University v1.0

Methods:

ID	Name	Type	Optional	Customized Based On	Status
4088	Columbia estuary purse seining v1.0	Data Collection	Yes	N/A	Finalized
4090	Individual-Based Model of Salmon Migration v1.0	Data Analysis/Interpretation	No	N/A	Finalized
650	Modified Assessing growth in juvenile salmon using plasma Insulin-like growth factor-I (IGF-1) v1.0	Data Collection	No	Assessing growth in juvenile salmon using plasma Insulin-like growth factor-I (IGF-1) v1.0	Finalized
1376	Northwest Fisheries Science Center Ocean Salmon Survey DNA extraction for Renibacterium salmoninarum v1.0	Data Collection	Yes	N/A	Finalized
1405	Northwest Fisheries Science Center Ocean Salmon Survey Macroparasite Recovery v1.0	Data Collection	No	N/A	Finalized
1379	Northwest Fisheries Science Center Ocean Salmon Survey Nested Polymerase Chain Reaction (PCR) to detect Renibacterium salmoninarum v1.0	Data Collection	Yes	N/A	Finalized
1380	Northwest Fisheries Science Center Ocean Salmon Survey Renibacterium salmoninarum ABC gene Quantitative PCR (qPCR) v1.0	Data Collection	Yes	N/A	Finalized
1707	Northwest Fishery Science Center Ocean Salmon Survey determination of chlorophyll a concentration v1.0	Data Analysis/Interpretation	No	N/A	Finalized
1361	NWFS_Center_Ocean Salmon Survey Bongo Net Marine Zooplantkon Sampling v1.0	Data Collection	No	N/A	Finalized
4081	NWFS_Center_Ocean Salmon Survey Bongo Net Zooplankton Analysis v1.0	Data Analysis/Interpretation	No	N/A	Finalized
1375	NWFS_Center_Ocean Salmon Survey CTD Data Processing v1.0	Data Analysis/Interpretation	No	N/A	Finalized
1706	NWFS_Center_Ocean Salmon Survey Data Analysis for Vessel-based Marine Bird Counts v1.0	Data Analysis/Interpretation	Yes	N/A	Finalized
1704	NWFS_Center_Ocean Salmon Survey Hydroacoustic Data Processing and Analysis v1.0	Data Analysis/Interpretation	Yes	N/A	Finalized
1382	NWFS_Center_Ocean Salmon Survey juvenile salmon Trophic analysis v1.0	Data Collection	No	N/A	Finalized
1371	NWFS_Center_Ocean Salmon Survey Marine Fish Sampling v1.0	Data Collection	No	N/A	Finalized
1373	NWFS_Center_Ocean Salmon Survey Ocean Water Chemistry and Chlorophyll Sampling v1.0	Data Collection	No	N/A	Finalized
1343	NWFS_Center_Ocean Salmon Survey Salmon Stock Identification v1.0	Data Analysis/Interpretation	No	N/A	Finalized
1372	NWFS_Center_Ocean Salmon Survey Salmonid Marine Survival v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4098	NWFS_Center_Ocean Salmon Survey Vertical Net Marine Zooplanktkon Sampling v1.0	Data Collection	No	N/A	Finalized
1722	NWFS_Center_Ocean Salmon Survey Vertical Net Zooplankton Analysis v1.0	Data Analysis/Interpretation	Yes	N/A	Finalized
4093	NWFSC_Ocean Salmon Survey Analysis of Juvenile Salmon Predation Risk v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4092	NWFSCenter_Ichthyoplankton Ocean salmon prey biomass data analysis v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4134	NWFSCenter_Ichthyoplankton Ocean salmon prey community analysis v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4091	NWFSCenter_Ichthyoplankton Ocean salmon prey sampling v1.0	Data Collection	No	N/A	Finalized
1374	NWFSCenter_Ocean Salmon Survey Catch per Unit Effort v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4089	NWFSCenter_Ocean Salmon Survey juvenile salmon Trophic data analysis v1.0	Data Analysis/Interpretation	No	N/A	Finalized
4094	NWFSCenter_Ocean Salmon Survey Ocean Water Nutrient Analysis v1.0	Data Analysis/Interpretation	No	N/A	Finalized
1359	NWFSCenter_Ocean Salmon Survey Oceanographic Sampling v1.0	Data Collection	No	N/A	Finalized
1404	NWFSCenter_Ocean Salmon Survey Salmon Necropsy v1.0	Data Collection	No	N/A	Finalized
1705	NWFSCenter_Ocean Salmon Survey Vessel-based Marine Bird Counts - Strip Transect Sampling v1.0	Data Collection	Yes	N/A	Finalized
1413	NWFSCSalmon Ocean Survey: Reconstruction of juvenile migratory history and marine growth using otolith structure and chemistry v1.0	Data Analysis/Interpretation	Yes	N/A	Finalized
1703	Ocean Salmon Survey Hydroacoustic Surveys v1.0	Data Collection	Yes	N/A	Finalized
1341	Parentage assignments using SNPPIT software v1.0	Data Analysis/Interpretation	No	N/A	Finalized
5446	SNP genotyping using Genotyping in Thousands (GT-seq) on Illumina Sequencer platform v1.0	Data Collection	No	N/A	Finalized

Metrics:

Title	Category	Subcategory	Subcategory focus 1	Subcategory focus 2
Abundance of juvenile salmonids	Fish	Abundance of Fish (ID: 46)	Fish Life Stage: Juvenile Fish	Fish Origin: Both
Species composition of fish	Fish	Composition: Fish Species Assemblage (ID: 56)	Fish Life Stage: Juvenile Fish	Fish Origin: Both
Condition indices of fish	Fish	Condition of Life Stage: Fish (ID: 57)	Fish Life Stage: Juvenile Fish	NA
Distribution of fish	Fish	Distribution of Fish Species (ID: 62)	Fish Life Stage: Juvenile Fish	NA
Food web interactions	Fish	Food Web Interaction: Fish (ID: 69)	NA	NA
Genetic stock identification	Fish	Stock Identity (ID: 95)	Fish Life Stage: RANGE: Juvenile to Juvenile	NA
Timing of life stage of fish	Fish	Timing of Life Stage: Fish (ID: 101)	Fish Life Stage: Juvenile Fish	NA
Oceanographic sampling	Hydrology/Water Quantity	Ocean Conditions (ID: 106)	NA	NA
Plankton Species Composition	Plankton	Composition: Plankton Assemblage (ID: 127)	Species Life Stage: RANGE: Juvenile to Adult Species	NA
Plankton Density	Plankton	Abundance of Plankton (ID: 250)	Species Life Stage: RANGE: Juvenile to Adult Species	NA

Area of Inference:

Name	Value
Latitude, Longitude	44.719299, -124.175278
Latitude, Longitude	44.723202, -124.804245
Latitude, Longitude	48.30973, -125.456235
Latitude, Longitude	48.317036, -124.819028

Please correct the errors noted below.

Implementation Metrics