technology for biology measurement and survey -...

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

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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

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Biology and Ecosystems EOV feasibility in 2030

nektondiet

animaltag,faecal(NAA/analysis),eDNA,anatomysamplestableisotopeanalysis.SedimenttrapsIncorporaUonrate:e.g.Sealglideangle/behaviourfromtagging

biologicalvitalrates

respiraUon,growthfeeding:CaptureandincubaUon.Energyexpenditurefromtagging

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Genomic sampling, HAB, plankton, eDNA

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DTU working with DHI and MBARI to convert and evaluate existing ESP for eDNA

Cytometry: plankton HAB

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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

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Particles/plankton: Holography

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Phytoplankton productivity

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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

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Hyperspectral / remote imaging

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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.