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.
Organisations
| 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/ |
