Dataset: Florida Straits ISIIS physical environment data

Name: Physical data collected by towed plankton imaging system in a subtropical, pelagic environment from R/V F.G. Walton Smith cruises WS1406 and WS15161 in the Straits of Florida from 2014-2015 (OSTRICH project)
Published: 2016-08-23
Keywords: oceans

View Data: Data not available yet

Cite This Dataset

Project:

Spatial variability of larval fish in relation to their prey and predator fields: Patterns and interactions from cm to 10s of km in a subtropical, pelagic environment (OSTRICH)

Principal Investigator:

Robert K. Cowen (Oregon State University, OSU-HMSC)

Co-Principal Investigator:

Su Sponaugle (Oregon State University, OSU-HMSC)

Contact:

Kelly L. Robinson (University of Louisiana at Lafayette)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

23 Aug 2016

Version Date:

2016-08-23

Restricted:

Yes

Release Date:

2019-08-16

Validated:

Yes

Current State:

Final no updates expected

Physical data collected by towed plankton imaging system in a subtropical, pelagic environment from R/V F.G. Walton Smith cruises WS1406 and WS15161 in the Straits of Florida from 2014-2015 (OSTRICH project)

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Description

Physical data collected by at towed plankton imaging system in a subtropical, pelagic environment; collected on R/V Walton Smith cruises, WS1406 and WS15161.

Status note: These data are restricted from public access until the related manuscript has been published.

Methods & Sampling

The In Situ Ichthyoplankton Imaging System (ISIIS) is a high resolution imaging system designed to image sufficient volumes of water to accurately quantify rare meso- and macroplankton such as fish and crab larvae, and also associated plankters (e.g., ctenophores, larvaceans, euphausiids, chaetognaths, hydrozoans, scyphozoans, pteropods, copepods) in situ (Cowen & Guigand 2008). An additional, finer scale imaging system has been added to the current system (ISIIS-2) and is capable of imaging up to 140 L per second, with pixel resolution of 45-68 um. This yields particle resolution down to ~ 450 um, adding considerable breadth to the full size range of organisms that can be detected and enumerated. The ISIIS is also instrumented with a set of environmental sensors including: Seabird CTD (SBE 49), Biospherical PAR (QCP2300), Seabird dissolved O2 (SBE 43), and Wet Labs Fluorometer (ECO). All data are passed via fiber optic cable to an onboard computer, time-stamped for cross-referencing, and saved on a high-speed disk array. Oxygen data from 2014 were excluded as they were found to be outside the calibrated range of the sensor.

Related references:
Cowen RK, Guigand CM. 2008. In situ Ichthyoplankton Imaging System (ISIIS): system design and preliminary results. Limnol Oceanogr Methods. 6: 126-132. doi:10.4319/lom.2008.6.126

Data Processing Description

Temperature, salinity, pressure, depth, oxygen, fluorescence, and irradiance data are collected at a higher temporal frequency than latitude and longitude observations that come from the ship’s NEMA system. Latitude and longitude values have been linearly interpolated between observations using time.

In 2014, latitude and longitude data from the NEMA system were not automatically logged with the physical data during ISIIS tows. To address this, temperature, salinity, pressure, depth, oxygen, fluorescence, and irradiance data were binned to the nearest second (mean for each second bin) in order to merge them with the ship’s GPS data.

Seawater density (kg per cubic meter) was calculated from pressure, temperature, and salinity using the UNESCO equation of state from the ‘R’ Library ‘OCE’ package.

Temperature, salinity, oxygen, fluorescence, irradiance values less than zero were excluded as they are erroneous

Density values less than 1000 kg per cubic meter were excluded as they are erroneous

Oxygen (2015 only) was corrected for post-calibration sensor drift using the equation:
Final oxygen (ml L-1) = Initial oxygen (ml L-1)*1.0649702 – 0.0029434

Fluorescence (volts) data from the Wet Labs Eco Fluorometer was converted to chlorophyll (ug/L) using the following equation:
chlorophyll (µg L-1) = scale factor*(volts – dark counts)
2014: Scale factor = 25; Dark counts = 0.028. 2015: Scale factor = 24; Dark counts = 0.026.

Large camera parameters used in volume imaged calculations:
2014:
Image width: 2048 pixels
Scan rate: 35,000 lines s-1
Depth of field: 50 cm
Field of view: 11.2 cm

2015:
Image width: 2048 pixels
Scan rate: 35,000 lines s-1
Depth of field: 50 cm
Field of view: 11 cm

Small camera parameters used in volume imaged calculations:
2014:
Image width: 1024 pixels
Scan rate: 62,000 lines s-1
Depth of field: 10 cm
Field of view: 6 cm

2015:
Image width: 1024 pixels
Scan rate: 55,000 lines s-1
Depth of field: 10 cm
Field of view: 4.6 cm

Derived camera data calculated using equations below:
lg.hz.line = horizontal.velocity (cm s-1) / lg.scan.rate
lg.eff.image.length (cm) = lg.image.width *lg.hz.line
lg.vol.image (cm3) = lg.dof*lg.fov*lg.eff.image.length
lg.image.sec (images s-1) = horizontal.velocity (cm s-1)/lg.eff.image.length
lg.vol.rate (m3 s-1) = (lg.image.sec*lg.vol.image)*1E-06
sm.hz.line = horizontal.velocity (cm s-1) / sm.scan.rate
sm.eff.image.length (cm) = sm.image.width *sm.hz.line
sm.vol.image (cm3) = sm.dof*sm.fov*sm.eff.image.length
sm.image.sec (images s-1) = horizontal.velocity (cm s-1)/sm.eff.image.length
sm.vol.rate (m3 s-1) = (sm.image.sec*sm.vol.image)*1E-06

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1419987

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
WS1406	OSTRICH 2014	2014-05-28	R/V F.G. Walton Smith	Robert K. Cowen (Chief Scientist)	data info
WS15161	OSTRICH 2015	2015-06-10	R/V F.G. Walton Smith	Robert K. Cowen (Chief Scientist)	data info

Instruments

In Situ Ichtyoplankton Imaging System

Supplied Name: ISIIS

Supplied Description:

The In Situ Ichthyoplankton Imaging System (ISIIS) is a high resolution imaging system designed to image sufficient volumes of water to accurately quantify rare meso- and macroplankton such as fish and crab larvae, and also associated plankters (e.g., ctenophores, larvaceans, euphausiids, chaetognaths, hydrozoans, scyphozoans, pteropods, copepods) in situ (Cowen & Guigand 2008). An additional, finer scale imaging system has been added to the current system (ISIIS-2) and is capable of imaging up to 140 L s-1, with pixel resolution of 45-68 µm. This yields particle resolution down to ~ 450 µm, adding considerable breadth to the full size range of organisms that can be detected and enumerated. The ISIIS is also instrumented with a set of environmental sensors including: Seabird CTD (SBE 49), Biospherical PAR (QCP2300), Seabird dissolved O2 (SBE 43), and Wet Labs Fluorometer (ECO). All data are passed via fiber optic cable to an onboard computer, time-stamped for cross-referencing, and saved on a high-speed disk array. Oxygen data from 2014 were excluded as they were found to be outside the calibrated range of the sensor.

Instrument Type

Generic Name: In Situ Ichtyoplankton Imaging System

Acronym: ISIIS

Generic Description:

The In Situ Ichthyoplankton Imaging System (ISIIS) is an underwater imaging system aimed at capturing in situ, real time images of marine zooplankton of relatively low abundance such as fish larvae and fragile gelatinous organisms. The first prototype, delivered in 2007, was attached to a relatively simple vehicle towed by an oceanographic vessel at a speed of five knots. The vehicle, and associated imaging system and sensors, was moved up and down through the water column by paying cable in and out via an oceanographic winch. Subsequently, a new vehicle has been designed with the capacity of self undulation using motor actuated dive fins.

The ISIIS system utilizes a high-resolution line-scanning camera with a Light Emitting Diode (LED) light source, modified by plano-convex optics, to create a collimated light field to back-light a parcel of water.

ISIIS was developed in collaboration between the University of Miami's Rosenstiel School of Atmospheric and Marine Science (RSMAS) and the subsea engineering company, Bellamare, LLC, located in San Diego CA. See complete description from RSMAS.

Reference:
Cowen RK and Guigand CM. 2008. In situ Ichthyoplankton Imaging System (ISIIS): system design and preliminary results. Limnol. Oceanogr. Methods. 6:126-132. doi:10.4319/lom.2008.6.126

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
cruise_name	Cruise name	unitless	cruise_name
cruise_id	Official cruise identifier	unitless	cruise_id
transect	Unique transect identifier	unitless	transect
depth	Depth	meters (m)	depth
ISO_DateTime_Local	Local date and time (EDT) of observation (24h) formatted to ISO8601 standard	unitless	ISO_DateTime_Local
lat	Vehicle position latitude	decimal degrees North	lat
lon	Vehicle position longitude	decimal degrees West	lon
temp	Water temperature	degrees Celsius	temp
sal	Salinity	parts per thousand	sal
press	Pressure	decibars (db)	press
density	Seawater density	kilograms per cubic meter (kg/m3)	density
fluor_v	Fluorescence	volts	flvolt
chl	Derived chlorophyll from fluorescence	micrograms per Liter (ug/L)	chl_a
irradiance	Irradiance	microEinsteins per square cm (uE/cm2)	irradiance
heading	Vehicle heading	degrees	head_vehicle
hz_vel_mm_s	Vehicle horizontal velocity	millimeters per second (mm/s)	hzvel
hz_vel_cm_s	Vehicle horizontal velocity	centimeters per second (cm/s)	hzvel
vert_vel	Vehicle vertical velocity	millimeters per second (mm/s)	vtvel
pitch	Vehicle pitch	degrees	pitch
lg_hz_line	Large camera horizontal line	centimeters per line (cm/line)	no_bcodmo_term
lg_eff_image_len	Large camera effective image length	centimeters (cm)	no_bcodmo_term
lg_images_sec	Large camera images per second	images/s	no_bcodmo_term
lg_vol_imaged	Large camera volume imaged	cubic centimeters (cm3)	no_bcodmo_term
lg_vol_rate	Large camera volume rate	cubic meters per second (m3/s)	no_bcodmo_term
sm_hz_line	Small camera horizontal line	centimeters per line (cm/line)	no_bcodmo_term
sm_eff_image_len	Small camera effective image length	centimeters (cm)	no_bcodmo_term
sm_images_sec	Small camera images per second	images/s	no_bcodmo_term
sm_vol_imaged	Small camera imaged volume	cubic centimeters (cm3)	no_bcodmo_term
sm_vol_rate	Small camera volume rate	cubic meters per second (m3/s)	no_bcodmo_term
oxygen	Dissolved oxygen	milliliters per liter (mL/L)	O2

Status message

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Dataset: Florida Straits ISIIS physical environment data