Technology for biology measurement and survey
Author: Matt Mowlem Date: 30/06/2016 Version: 1
3/2/17 Title of Presentation 2
http://www.argo.ucsd.edu/index.html
Contextual sensors
• CTD • Oxygen • Nutrients • Carbonate system
3/2/17 Title of Presentation 5
Commercial in situ examples
SeapHOx SBE52 CTD
SEAFET SBE43F DO SUNA (nitrate)
Aanderaa 4830
CT-DO Sensor
Nitrate deployment on gliders • Celtic Sea, April 2015
Alex Vincent & Maeve Lohan, NOC / SOES (U. Soton)
Temperature (°C)
Chlorophyll (mg/m3)
Nitrate (µM)
Lab on chip • Lab on chip: Nitrate, Nitrite, pH, Phosphate, Silicate,
Iron, Manganese, Total Alkalinity, Ammonia, DOP, Dissolved Inorganic Carbon, DON, PCB, PAH, organisms…..
Pump
Valves
Microfluidic Chip
Nitrate deployment on gliders • Celtic Sea, April 2015
Alex Vincent & Maeve Lohan, NOC / SOES (U. Soton)
Temperature (°C)
Chlorophyll (mg/m3)
Nitrate (µM)
NewpCO2Optode(WP6.1,jointlywithKMCONTROS)
Clarke,J.,Ph.D.Thesis,UniversityofSouthampton,2015.
• Successful development of CONTROS O2 optode • pCO2 optode based on dual luminophore
referencing technique (DLR) • Prototype of CONTROS pCO2 optode available
in 2nd half of 2016 • Intensive lab testing of different DLR variants
(frequency-domain vs. time-domain DLR)
à Ph.D. project by Tobias Hahn funded by H2020/AtlantOS: Laboratory and field testing of novel O2 and pCO2 optodes and their application in chemical oceanography
PI:ArneKörtzinger
IOOS Core GOOS EOV GEO BON EBV
Genetic composition
Species populations
Species traits
Community composition
Ecosystem structure
Ecosystem function
Microbes/Phyto
Zooplankton
Fish Top Predators
Optics/Imaging
Acoustics
Genomics
Platforms
Benthos
Data Vis
Biology and Ecosystems EOV feasibility in 2030
Phytoplankton biomass and productivity
biomass: Fluorescence (qualitative only); multispectral fluorescence (qualitative); cytometry (semi quantitative), Nucliec acid amplification (semi quantitative), absorbance, underwater microscopyproductivity: (in situ) incubation (D0, Radiotracer,Isotope), FRRF, NAA (semi quantitative), single cell analysis, Biogeochemical stoichiometry (O,P,N,carbonate…..)
Harmful Algal Bloom (HAB) incidence NAA, cytometry, toxin biosensor, hyperspectral obs.Zooplankton diversity multifrequency active acoustics, imaging, NAA / eDNA
Fish abundance and distribution
Active acoustics, OTN / tagging, /biotelemetry, passive acoustics, imaging, multifrequency active acoustics, imaging, NAA / eDNA
3/2/17 Title of Presentation 16
Biology and Ecosystems EOV feasibility in 2030
ApexpredatorabundanceanddistribuUon
AcUveacousUcs,OTN/tagging/biotelemetry,passiveacousUcs,imaging,mulUfrequencyacUveacousUcs,NAA/eDNA
Livecoralcover hyperspectralimaging(aboveorinwater,duringday,bestintheNIR),imaging,respirometry,carbonateparameters/stoichiometryforlargerscale
Seagrasscover hyperspectralandimaging/thermalimaging,highUdelowUde
Mangrovecover imaging(remotesensed)
Macroalgualcanopycover
insituimagingandsonaralUmetry/goodbathym.Data
3/2/17 Title of Presentation 17
Biology and Ecosystems EOV feasibility in 2030
nektondiet
animaltag,faecal(NAA/analysis),eDNA,anatomysamplestableisotopeanalysis.SedimenttrapsIncorporaUonrate:e.g.Sealglideangle/behaviourfromtagging
biologicalvitalrates
respiraUon,growthfeeding:CaptureandincubaUon.Energyexpenditurefromtagging
3/2/17 Title of Presentation 18
Genomic sampling, HAB, plankton, eDNA
3/2/17 Title of Presentation 19
DTU working with DHI and MBARI to convert and evaluate existing ESP for eDNA
Cytometry: plankton HAB
3/2/17 Title of Presentation 20
Cytometer • Simultaneous
measurement of electrical (impedance) and optical properties of individual cells
• In-lab prototype • No air required for
optics or operation (suitable for deep sea)
• Challenges include sample concentration, and optical detection limits (power in chip)
Zooplankton: VPR
3/2/17 Title of Presentation 22
Particles/plankton: Holography
3/2/17 Title of Presentation 23
Phytoplankton productivity
3/2/17 Title of Presentation 24
Stoichiometry
Acoustic and optical imaging
25
Agadir Canyon Scours Cruise JC027 [2008] Altitude 50 – 100m
Bathymetric Surveys
Darwin Mounds (Rockall) Cruise JC060 [2011] Altitude 15 – 50 m
Celtic Sea Cruise DY008 [2014] Altitude 2.2m
-81.73-81.728-81.726-81.724-81.722-81.72-81.718-81.716-81.714
18.54
18.542
18.544
18.546
18.548
18.55
18.552
18.554
Longitude [deg]
Latit
ude
[deg
]
2.7
2.75
2.8
2.85
2.9
2.95
3
3.05
3.1
3.15
3.2
EH signal from JC44 Magnetometer total field (normalised).
Sidescan Surveys Photographic Surveys
Sub bottom profiler data Pelagia 2013
ADCP data Pelagia 2013
Autonomous imaging
26
Celtic Sea Cruise DY008 [2014]
Photographic Surveys
60 km of camera survey capturing ~37,000 images Altitude of 2.2m
Photographic Surveys are not always easy
-30-20-100102030
4802
4804
4806
4808
4810
Position N [m]
Dep
th [
m]
B1B2B3B4sub
The problem with this work is that you have a very good chance of colliding with the seabed
2D echosounder profiles comparing glider and vessel-based data
Examples of cetacean acoustic data collected using the glider-mounted PAM
Waveforms (A) and power spectra (B) of detected dolphin and porpoise clicks using the modified d-tag
Seabed Fish marks
Zooplankton scattering at thermocline Vessel Glider
Tagging
(Auto)sampling
3/2/17 Title of Presentation 31
Hyperspectral / remote imaging
3/2/17 Title of Presentation 32
AtlantOS objectives
• Recording and supporting emerging networks
• Technology roadmapping • Development of (meta)genomic samplers • EOV / EBDV feasibility assessment • Best practice recording, coordination,
development and dissemination
3/2/17 Title of Presentation 33
This project has received funding from the European Union's Horizon 2020
research and innovation programme under grant agreement No 63321.
