📣 Help Shape the Future of UKRI's Gateway to Research (GtR)

We're improving UKRI's Gateway to Research and are seeking your input! If you would be interested in being interviewed about the improvements we're making and to have your say about how we can make GtR more user-friendly, impactful, and effective for the Research and Innovation community, please email gateway@ukri.org.

EO4AgroClimate: VISualisation and Assessment of water quality using an Open Data Cube FOR the weStern English chAnnel - Vis4Sea.

Lead Research Organisation: Plymouth Marine Laboratory
Department Name: Remote Sensing Group

Abstract

There is a wealth of data available to marine scientists to study the environment. These include measurements made from samples collected by boats, data from marine moorings, buoys and unmanned vessels as well as satellite data. For satellite data, this is now available at very high resolution so that a range of parameters and the intricate details of these in rivers, estuaries and the coast can be easily seen from space. Having all of these different sources of data available, makes it hard to analyse in a coherent, consistent and easily findable format. Data Cubes have been invented which are gridded and stacked arrays of different data sets, that can be interrogated easily and efficiently by scientists. The scientific organisation CSIRO in Australia has developed open data cubes, called AquaWatch Data Integration and Analysis System or ADIAS, that allows multiple users to easily interact with large archives of data. Through this platform, computer code, known as machine learning, can be used to turn some of the data sets into water quality parameters, to allow the assessment of whether coastal water is 'clean' or 'poor' quality. In both the western English Channel and eastern Australia, periodic flooding as a result of heavy rainfall is becoming more frequent. This is because the heating of inland water and the sea is causing more evapo-transpiration which results in high rainfall and then flooding. These flooding events can carry agricultural fertilisers, sewage effluent and, in some locations, heavy metals from mining tailing ponds from the rivers to the coast. This poses a risk to human health and to the environment through the deposition of high nutrients, suspended material, viruses and bacteria to the coast. This in turn can be deleterious to Seagrass beds and mud flats are important areas for depositing and drawing down CO2 from the atmosphere. These flooding events can be harmful to both seagrass beds and mud flats by blocking light that is normally available to seagrasses to photosynthesize and by introducing toxic material that disrupt mud flats. The project will measure the effect of flooding on seagrass beds and mud flats in Plymouth Sound, UK and the Fitzeroy River and adjacent coast of Australia. It will also provide maps of areas that are not effected by flooding to allow conservation groups to regenerate Seagrass beds. The information generated by the project will be a freely available to end-users to help the monitoring and management of water quality in the Plymouth Sound catchment. The project data and results will be showcased to interested parties through an end of project stakeholder event. The following groups will be invited to the event: Marine managers (FSA, DEFRA, CEFAS,), Fishery and Shellfishery end users (regional IFCA groups, OS-UK), Marine policy makers (DG-ENV, DG-MARE, OSPAR, ICES, OSPAR ICG COBAM Pelagic Habitats Expert Group), tourism and recreation groups (SAS, Sailing clubs, local anglers, SUP clubs) and Wildlife conservation and Environmental protection groups (UK Wildlife Trusts). Due to Brexit, collaboration with other European scientists is now restricted due to lack of funds. This project will facilitate knowledge and technology exchange between UK and Australia, now that EU collaboration is reduced.

Publications

10 25 50
 
Description Engagement with policy makers
Geographic Reach National 
Policy Influence Type Participation in a guidance/advisory committee
 
Description Improved satellite remote sensing approaches
Geographic Reach Multiple continents/international 
Policy Influence Type Contribution to new or improved professional practice
 
Description Understand the effects of riverine run-off from agriculture and urban effluent in the western English Channel
Geographic Reach Local/Municipal/Regional 
Policy Influence Type Contribution to new or improved professional practice
 
Description EnMap
Amount £0 (GBP)
Funding ID A00001-P00522 
Organisation Specto Natura 
Sector Private
Country United Kingdom
Start 03/2023 
End 03/2025
 
Description Mapping Eelgrass Meadows in Swedish Coastal Areas - Earth Observation in support of Blue Carbon Research'
Amount £50,000 (GBP)
Funding ID UKSAG24_004 
Organisation UK Space Agency 
Sector Public
Country United Kingdom
Start 01/2024 
End 03/2025
 
Title Improved seagrass mapping/monitoring methodology capabilities 
Description Pixalytics Ltd., developed seagrass mapping/monitoring methodology capabilities for both submerged and intertidal habitats. The work has bought existing seagrass research stakeholders together to show case processing the optical satellite/airborne data to enhance the detection of seagrass using EO products. Pixalytics Ltd. will use the PML-developed Jupyter Notebooks as the starting point for deploying the seagrass algorithms to the ADIAS system. 
Type Of Material Improvements to research infrastructure 
Year Produced 2023 
Provided To Others? No  
Impact The work has bought existing seagrass research stakeholders together to show case processing the optical satellite/airborne data to enhance the detection of seagrass using EO products. 
 
Title Open Data Cube 
Description The project has built a cohesive Open Data Cube to facilitate the use of in situ sampling, automated sensor network and multi-source, multi-sensor satellite data for monitoring the water quality in Plymouth Sound, UK and the Fitzroy River and Great Barrier Reef, Australia. Sample Jupyter Notebooks have been produced using the ADIAS architecture to demonstrate the integration of ancillary data in synergy with water quality parameters to aid prediction of conditions that lead to poor water quality events. 
Type Of Material Improvements to research infrastructure 
Year Produced 2023 
Provided To Others? No  
Impact Improved water quality monitoring methods. 
 
Title Fine detail drone flight inage data 
Description Specto-Natura Ltd. Compile a data collection of multiple fine spatial detail drone flights, commercial high cadence very high spatial resolution satellite images and open access public high spatial resolution images to assess the viability of each system individually and in combination to monitor intertidal surfaces. 
Type Of Material Database/Collection of data 
Year Produced 2024 
Provided To Others? Yes  
Impact Ability to assess the viability of each system individually and in combination to monitor intertidal surfaces. 
 
Title Integrated water quality monitoring 
Description A data network has been created by PML for Plymouth Sound that includes in situ monitoring, autonomous sensor, satellite and physical model data. 
Type Of Material Data analysis technique 
Year Produced 2023 
Provided To Others? No  
Impact In situ monitoring, autonomous sensor, satellite and physical model data. 
 
Title Monitoring downstream effects of flooding 
Description CSIRO developed and applied advanced machine learning models to high resolution Landsat satellite data and used in situ from the project to calibrate the models to monitor downstream effects of flooding in the Plymouth Sound coastal ecosystem. 
Type Of Material Data analysis technique 
Year Produced 2024 
Provided To Others? No  
Impact Improved flood monitoring 
 
Title Publishing historical data sets 
Description Pixalytics Ltd. A historical airborne/satellite archive has been compiled and is being iteratively reprocessed as the software being developed within this project is being improved that, when combined with more recent datasets, provides a longer time-series view. 
Type Of Material Data analysis technique 
Year Produced 2023 
Provided To Others? No  
Impact Improved access to historical data. 
 
Description Collaboration with CSIRO 
Organisation Commonwealth Scientific and Industrial Research Organisation
Country Australia 
Sector Public 
PI Contribution PML is collaborating with the Australian AquaWatch mission using CSIRO's Open Data Cube and ADIAS environments to assess the effect of agricultural and urban run-off from flooding on local marine ecosystems in the Western English Channel Observatory, UK and Fitzeroy River, Australia. Data from the western English Channel Observatory and local rivers and estuaries, are being integrated into the data cube and Data Integration and Analysis System.
Collaborator Contribution Use of CSIRO's Open Data Cube and ADIAS environments.
Impact Data from the western English Channel Observatory and local rivers and estuaries, are being integrated into the ODC and ADIAS.
Start Year 2023
 
Description Collaborations with the Aberystwyth University 
Organisation Aberystwyth University
Country United Kingdom 
Sector Academic/University 
PI Contribution There are cross-linkages with Richar Lucas's (University of Aberystwyth) funded project under the same STFC programme, with an across project meeting held in January 2024.
Collaborator Contribution Joint project meeting January 2024
Impact Joint project meeting January 2024
Start Year 2023
 
Description Understanding of seagrass dynamics 
Organisation Stockholm University
Country Sweden 
Sector Academic/University 
PI Contribution Pixalytics is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Collaborator Contribution The project partner Pixalytics Ltd., is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden - as a subcontractor to Pixalytics, the University of Plymouth have reprocessed University acquired UAV data to understand intertidal seagrass dynamics linked to invasive oysters. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Impact Pixalytics is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Start Year 2023
 
Description Understanding of seagrass dynamics 
Organisation University of Plymouth
Country United Kingdom 
Sector Academic/University 
PI Contribution Pixalytics is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Collaborator Contribution The project partner Pixalytics Ltd., is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden - as a subcontractor to Pixalytics, the University of Plymouth have reprocessed University acquired UAV data to understand intertidal seagrass dynamics linked to invasive oysters. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Impact Pixalytics is collaborating with the University of Plymouth on the understanding of seagrass in the Plymouth waters and the University of Stockholm on eelgrass in the waters around the coast of Sweden. Also, the CHRIS/Proba-1 and CASI data processing are benefitting from ESA-funded work to generate Analysis Ready Data (ARD) for historical optical missions.
Start Year 2023
 
Title Additional functionality added to MONDA 
Description Additional functionality added to MONDA; a suite of tools for retrieving, quality checking, and plotting autonomous sensor data (https://github.com/monocle-h2020/MONDA) 
Type Of Technology Webtool/Application 
Year Produced 2024 
Impact None known 
URL https://github.com/monocle-h2020/MONDA
 
Title Data Integration and Analysis System and an Open data cube 
Description CSIRO have developed A Data Integration and Analysis System and an Open data cube. 
Type Of Technology Webtool/Application 
Year Produced 2023 
Impact CSIRO have developed A Data Integration and Analysis System and an Open data cube. 
 
Title Generation of ARD data 
Description Pixalytics Ltd. have expanded previously developed to IDL/Python code to generate ARD data from satellite missions such as CHRIS/Proba-1 and the CASI airborne data. 
Type Of Technology New/Improved Technique/Technology 
Year Produced 2023 
Impact Pixalytics Ltd. have expanded previously developed to IDL/Python code to generate ARD data from satellite missions such as CHRIS/Proba-1 and the CASI airborne data. 
 
Title Jupyter notebooks demonstrating working with data in the ADIAS system. 
Description PML developed a series of Jupyter notebooks demonstrating working with data in the ADIAS system. 
Type Of Technology Software 
Year Produced 2024 
Impact None known. 
 
Title Python code to process data from a drone mounted spectrometer. 
Description PML have expanded previously developed Python code to process data from a drone mounted spectrometer. 
Type Of Technology Software 
Year Produced 2024 
Impact None known 
 
Title Software to implement the machine learning model on LandSat data. 
Description CSIRO developed software to implement the machine learning model on LandSat data. 
Type Of Technology Software 
Year Produced 2024 
Impact None known. 
 
Description Articles on Vis4Sea Drone deployments: 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Media (as a channel to the public)
Results and Impact Articles on Vis4Sea Drone deployments: https://twitter.com/PlymouthMarine/status/1798748783444193655 https://www.facebook.com/search/top?q=plymouth%20marine%20laboratory https://www.linkedin.com/feed/update/urn:li:activity:7204575982907736064/ https://www.instagram.com/explore/tags/vis4sea/
Year(s) Of Engagement Activity 2024
URL https://www.bbc.co.uk/news/uk-england-cornwall-68684401
 
Description Impacts of flooding on coastal water quality from sewage, agricultural and industrial effluent 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact News story on the PML website "Impacts of flooding on coastal water quality from sewage, agricultural and industrial effluent" and associated social media posts https://twitter.com/PlymouthMarine/status/1754798838181708119 and https://www.linkedin.com/feed/update/urn%3Ali%3Aactivity%3A7160563293605011456/?midToken=AQHKtuutn8tAgQ|Sig=2a0L-ZTBmiaH81&trk=eml-email_notification_single_mentioned_you_in_this_01-notifications-1-hero%7Ecard%7Efeed&trkEmail=eml-email_notification_single_mentioned_you_in_this_01-notifications-1-hero%7Ecard%7Efeed-null-1rhu1w%7Elsa5k3kv%7E1m-null-voyagerOffline
Year(s) Of Engagement Activity 2023
URL https://www.pml.ac.uk/News/Impacts-of-flooding-on-water-quality-particularly
 
Description Monitoring water quality in Plymouth Sound and beyond 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact News Article: Monitoring water quality in Plymouth Sound and beyond - Plymouth Marine Laboratory (pml.ac.uk)

Video: Introduction to the Vis4Sea project (youtube.com)
https://www.youtube.com/watch?v=FZFxzm3bSEY
Social media: https://x.com/PlymouthMarine/status/1846915465689411677 https://www.facebook.com/PlymouthMarineLaboratory/videos/1034767251435694 https://www.linkedin.com/feed/update/urn:li:activity:7252681173242466305 https://www.instagram.com/p/DBOlx1Co48b/
Year(s) Of Engagement Activity 2024
URL https://pml.ac.uk/news/monitoring-water-quality-in-plymouth-sound-and-beyond/
 
Description Sensors installed on Tamar Bridge to monitor water quality - media activity 
Form Of Engagement Activity A press release, press conference or response to a media enquiry/interview
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact BBC News item: https://www.bbc.co.uk/news/uk-england-cornwall-68684401

PML web site news article: View from above: monitoring the impacts of flooding on river water quality using optical sensors | Plymouth Marine Laboratory (pml.ac.uk)

And a slide deck on this was posted to various social media channels: Linkedin: https://www.linkedin.com/feed/update/urn:li:activity:7181623200059949056 Twitter thread: https://x.com/PlymouthMarine/status/1775854575251021869?s=20 Instagram post: https://www.instagram.com/p/C5VpZNQNj3X/?img_index=1

Facebook post: https://www.facebook.com/PlymouthMarineLaboratory/posts/pfbid032qvRvfGaDeF57JC6YA2TAC5NuA5EmdwzPdnWFiAmdA7SFaKZkAeaSPHrfLKbzkTHl

CSIRO News article: Australia joins with UK to deliver large-scale water quality monitoring from space - CSIRO
Year(s) Of Engagement Activity 2024
URL https://www.bbc.co.uk/news/uk-england-cornwall-68684401
 
Description Transect 4 sampling: 
Form Of Engagement Activity Engagement focused website, blog or social media channel
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Transect 4 sampling: https://www.linkedin.com/posts/plymouth-marine-laboratory-%26-pml-applications-ltd_vis4sea-waterquality-plymouth-activity-7217144714951602176-4TJk?utm_source=share&utm_medium=member_desktop https://fb.watch/tfyNDyedw3/ https://x.com/PlymouthMarine/status/1811378965719798129
Year(s) Of Engagement Activity 2024
URL https://fb.watch/tfyNDyedw3/