Contributors | Affiliation | Role |
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Semmens, Brice X. | University of California-San Diego (UCSD-SIO) | Principal Investigator |
Landry, Michael R. | University of California-San Diego (UCSD-SIO) | Co-Principal Investigator |
Swalethorp, Rasmus | University of California-San Diego (UCSD-SIO) | Contact |
Rauch, Shannon | Woods Hole Oceanographic Institution (WHOI BCO-DMO) | BCO-DMO Data Manager |
This study was carried out within the temperate to subtropical Southern California Bight and surrounding coastal areas between 32° and 35° N, and 117° and 120° W. Specific locations sampled fall within the CalCOFI and CCE-LTER programs' quarterly survey grid from lines 76.7 to 93.4 and stations 26 to 55.
Sampling took place during February 2021 and April 2021 on R/V Bob and Betty Beyster cruises BBB2102 and BBB2104 and on R/V Shearwater cruise SW2104. Each cruise was composed of one or more day trips using one of the two research vessels. The two-three letters in the cruise ID number indicate the research vessel and the four digits indicate YYMM.
Zooplankton were collected using a 71-centimeter (cm) diameter dual Bongo plankton net system equipped with a small CTD to record depth and physical variables during horizontal net tows at a ship speed of 1.5-2.5 knots down to 30-33 meters (m) depth. The Bongo was equipped with two nets, one with a 53-micrometer (µm) and the other with a 202 µm mesh size, and a flowmeter mounted in the center of each of the two nets.
Once the nets were retrieved, they were gently rinsed with saltwater. The content of the cod-ends was then concentrated onto a sieve of 50 µm mesh size, transferred into glass jars, and preserved in buffered 3.7% formaldehyde. The 53 µm samples were split using a 10-milliliter (mL) Hensen Stempel Pipette and sorted under a dissecting microscope. Zooplankton were identified based on morphological characteristics and measured using an eyepiece micrometer. The 202 µm samples were size fractioned into two replicate small (202 - 999 µm), one large (1000 - 4999 µm), and one extra large (> 5000 µm) size fractions, split into appropriately sized subsamples using a Folsom splitter, and analyzed by ZooScan. The organism's images were then identified manually and sized using ImageJ. In most identified taxonomic groups, up to 30 individuals were size-measured and a target of 50 individuals were counted per sample. Length measurements represent the total body length for all organisms except copepodites where prosome length was measured instead. Width measurements were taken at the widest part of the body.
Known problems or issues: Unicellular organisms such as dinoflagellates, diatoms, and tintinnids are underrepresented in the samples due to their small size and fragile structure.
The flowmeter was calibrated between cruises to accurately calculate the volume of water strained by the 53 and 202 µm nets and the abundance of zooplankton.
- Imported original file "Zooplankton abundance data from Bongo plankton net tows.xlsx" into the BCO-DMO system.
- Marked 'nd' as a missing data value (missing data are blank/empty in the final CSV file).
- Created local and UTC date/time fields in ISO 8601 format; removed original separate date and time columns.
- Rounded numeric fields.
- Saved the final file as "915900_v1_zooplankton_abund_and_size.csv".
File |
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915900_v1_zooplankton_abund_and_size.csv (Comma Separated Values (.csv), 43.11 KB) MD5:d0505d59d76ad6ac8b2bcf0415fd3cf9 Primary data file for dataset ID 915900, version 1 |
Parameter | Description | Units |
Cruise | Cruise identifier | unitless |
ISO_DateTime_UTC | Date and time (UTC) in ISO 8601 format | unitless |
ISO_DateTime_PDT | Date and time (PDT) is ISO 8601 format | unitless |
Line | CalCOFI line | unitless |
St | CalCOFI station | unitless |
Lat | Latitude; positive values = North | decimal degrees |
Long | Longitude; negative values = West | decimal degrees |
Tow_depth | Maximum depth of net | meters (m) |
Mesh_size | Bongo net mesh size | micrometers (um) |
Taxa | Zooplankton latin name (the taxonomic resolution varies between groups) | unitless |
Development_stage | Zooplankton development stage | unitless |
ind_per_cubic_m | Zooplankton abundance | individuals per cubic meter |
Avg_length | Average zooplankton length | micrometers (um) |
SD_length | Length standard deviation | micrometers (um) |
Avg_width | Average zooplankton width | micrometers (um) |
SD_width | Width standard deviation | micrometers (um) |
Num_Measured | Number of organisms that were size measured | unitless |
Dataset-specific Instrument Name | 71 cm diameter dual Bongo plankton net system |
Generic Instrument Name | Bongo Net |
Dataset-specific Description | Zooplankton were collected using a 71 cm diameter dual Bongo plankton net system equipped with a small CTD to record depth and physical variables during horizontal net tows at a ship speed of 1.5-2.5 knots down to 30-33 m depth. The Bongo was equipped with two nets, one with a 53 µm and the other with a 202 µm mesh sized, and a flowmeter mounted in the center of each of the two nets. |
Generic Instrument Description | A Bongo Net consists of paired plankton nets, typically with a 60 cm diameter mouth opening and varying mesh sizes, 10 to 1000 micron. The Bongo Frame was designed by the National Marine Fisheries Service for use in the MARMAP program. It consists of two cylindrical collars connected with a yoke so that replicate samples are collected at the same time. Variations in models are designed for either vertical hauls (OI-2500 = NMFS Pairovet-Style, MARMAP Bongo, CalVET) or both oblique and vertical hauls (Aquatic Research). The OI-1200 has an opening and closing mechanism that allows discrete "known-depth" sampling. This model is large enough to filter water at the rate of 47.5 m3/minute when towing at a speed of two knots. More information: Ocean Instruments, Aquatic Research, Sea-Gear |
Dataset-specific Instrument Name | Folsom splitter |
Generic Instrument Name | Folsom Plankton Splitter |
Dataset-specific Description | The 202 µm samples were size fractioned into two replicate small (202 - 999 µm), one large (1000 - 4999 µm) and one extra large (> 5000 µm) size fractions, split into appropriately sized subsamples using a Folsom splitter, and analyzed by ZooScan |
Generic Instrument Description | A Folsom Plankton Splitter is used for sub-sampling of plankton and ichthyoplankton samples. |
Dataset-specific Instrument Name | Zeiss Stemi 2000-C dissecting microscope |
Generic Instrument Name | Microscope - Optical |
Dataset-specific Description | The 53 µm samples were split using a 10 ml Hensen Stempel Pipette, sorted under a dissecting microscope and zooplankton identified based on morphological characteristics and measured using an eyepiece micrometer |
Generic Instrument Description | Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". |
Dataset-specific Instrument Name | Hensen Stempel Pipette |
Generic Instrument Name | Plankton sub-sampler |
Dataset-specific Description | The 53 µm samples were split using a 10 ml Hensen Stempel Pipette, sorted under a dissecting microscope and zooplankton identified based on morphological characteristics and measured using an eyepiece micrometer. |
Generic Instrument Description | Various devices for sub-sampling plankton samples
Folsom splitter: http://www.aquaticresearch.com/folsom_plankton_splitter.htm
Motoda box splitter: http://www.aquaticresearch.com/motodo_plankton_splitter.htm
Hensen Stempel Pippette: http://www.envcoglobal.com/catalog/product/plankton-counting/hensen-stem...
Sedgewick-Rafter Plankton Counting Chamber: http://www.benmeadows.com/wildco-sedgewick-rafter-counting-chambers_3681... |
Dataset-specific Instrument Name | ZooScan |
Generic Instrument Name | ZooSCAN |
Dataset-specific Description | The 202 µm samples were size fractioned into two replicate small (202 - 999 µm), one large (1000 - 4999 µm) and one extra large (> 5000 µm) size fractions, split into appropriately sized subsamples using a Folsom splitter, and analyzed by ZooScan. |
Generic Instrument Description | Description excerpt from Hydroptic website
http://www.hydroptic.com/index.php/public/Page/product_item/ZOOSCAN
The ZooSCAN (CNRS patent) system makes use of scanner technology with custom lighting and a watertight scanning chamber into which liquid zooplankton samples can be placed. The scanner recovers a high-resolution, digitial image and the sample can be recovered without damage. These digital images can then be investigated by computer processing. While the resolution of the digitized zooplankton images is lower than the image obtained using a binocular microscope this technique has proved to be more than adequate for large sample sets. Identification of species is done by automatic comparison of the image (vignette) of each individual animal in the scanned image with a library data set which may be built by the investigator for each individual survey or imported from a previous survey. The latest machine learning algorithm allows high recognition levels even if we recommend complementary manual sorting to achieve a high number of taxonomic groups. |
Website | |
Platform | R/V Bob and Betty Beyster |
Start Date | 2021-02-01 |
End Date | 2021-02-01 |
Website | |
Platform | R/V Bob and Betty Beyster |
Start Date | 2021-04-06 |
End Date | 2021-04-07 |
Website | |
Platform | R/V Shearwater |
Start Date | 2021-04-13 |
End Date | 2021-04-15 |
NSF Award Abstract:
Like many species of small pelagic marine fish, recruitment and productivity of Northern Anchovy fluctuate by orders of magnitude among years. When abundant, the anchovy support a wide range of marine species, including marine mammals, seabirds and a diverse group of marine fishes. Anchovy, which previously thrived during periods of cool-water temperatures and strong coastal upwelling, are currently booming with abundances far in excess of any historical record, even though the California Current Ecosystem is experiencing an unprecedented marine heat wave. This unexpected occurrence challenges the most basic understanding of the mechanisms driving population dynamics in the species. This project is investigating the effects of trophic relationships on population productivity by capitalizing on the immediate research opportunity afforded by the novel, yet ephemeral, state of a local marine heat wave. Findings from the work are being used to develop a mechanistic model of coastal pelagic fish population dynamics generally, and anchovy dynamics in particular. Funded field and lab work are supporting opportunities for undergraduate training and research, and are generating open-access data that serve the research and teaching/training communities into the future.
This RAPID project augments the scheduled Fall research cruises jointly run by the California Cooperative Oceanic Fisheries Investigation and the California Current Ecosystem Long-Term Ecological Research programs. Together, these programs conduct regional oceanographic surveys that include anchovy spawning grounds and larval nursery areas. The RAPID-augmented sampling is designed to test the emerging hypothesis that anchovy populations are trophodynamically mediated at the larval stage, whereby high recruitment results from increased trophic transfer efficiency from the base of the food web. Larval diets and prey selection analyses are being paired with amino acid compound-specific isotope analysis (δ15N) of the larvae and prey field to generate detailed information on larval trophic ecology. Larval diets and plankton community structure are being related to available data on upwelling and productivity to assess environmental and biological drivers to trophic transfer efficiency. Collectively, these analyses are revealing how food chain length is regulated at the larval level through prey selection, at the prey level through community composition, and at the base of the food chain via coastal upwelling and primary production. Furthermore, this project is establishing whether the current trophic level of anchovy larvae is equal to that of historic population booms and if this is the result of favorable feeding conditions throughout their habitat. Findings from the study are generating a mechanistic understanding of the trophic underpinnings of small pelagic fish population productivity in coastal upwelling systems.
This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.
Location Description:
This study is carried out within the temperate to subtropical Southern California Bight and surrounding coastal areas between 32° and 35° N, and 117° and 120° W. Specific locations sampled fall within the CalCOFI and CCE-LTER programs quarterly survey grid from lines 76.7 to 93.4 and stations 26 to 55.
Project Affiliations:
California Current Ecosystem Long-term Ecological Research Program (CCE-LTER)
California Cooperative Oceanic Fisheries Investigations (CalCOFI)
Funding Source | Award |
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NSF Division of Ocean Sciences (NSF OCE) |