The JERICO e-Infrastructure – Joint Coastal Ocean Research Environment (J-CORE): IMDIS 2021 Poster

Miguel Charcos, SOCIB (Spain) presents a poster on “The JERICO e-Infrastructure – Joint Coastal Ocean Research Environment (J-CORE)” at the International Conference on Marine Data and Information Systems (IMDIS) 12-14th April 2021 virtual conference.
The JERICO e-Infrastructure Poster, IMDIS 2021
The JERICO e-Infrastructure Poster, IMDIS 2021

Introduction to e-JERICO

The Joint European Research Infrastructure network for Coastal Observatory (JERICO) integrates a variety of observing platforms and technologies to observe and monitor the coastal areas in Europe. This meta-observing system provides complex and coupled information of the physical, chemical and biological processes through data from fixed buoys, piles, moorings, drifters, ferrybox, gliders, HF radars and coastal cable observatories. Achieving an understanding of the coastal processes requires high-quality data that cannot be obtained without standard and methodical work from the entire JERICO community. JERICO achieved the necessary interconnection between the various partners during the JERICO and JERICO-NEXT projects over the last eight years. This progress resulted in a diversity of resources for users including data, best practices, Sensor Web Enablement, software, manuals and publications. Moreover, JERICO aims to provide high quality data and data products in an optimal way facilitating the outcomes for different data user types including science, society, governments and private sectors.

Providing easy access and disseminating information of this amalgam of multidisciplinary resources requires a virtual infrastructure capable of linking and integrating each of these resources in a single and standard digital platform. The harmonization and connection of the information will have a critical impact on integrating observations of the physical, chemical and biological fields from the various regions that are dispersed around Europe. Virtual infrastructures address the need to integrate resources to support work and research. The current tendency in the international context is to implement these virtual and collaborative environments. For example, the European Plate Observing System (EPOS) succeeded in adopting this strategy to facilitate and integrate resources from distributed research infrastructures in a diversified context that is similar to JERICO. Similarly, for coastal ocean data, e-JERICO will provide access to the distributed resources from JERICO in a seamless and custom way according to the needs of the various users.

e-JERICO conceptial design

Providing organized and custom information to users requires implementing two concepts. On one hand, it is necessary to collect the information of the resources that are available in the community. Then, the information of these resources should be organized, linked and persisted in a metadata database, namely a resources catalog. On the other hand, the system should manage the requests from users, access the information in the resource catalog and provide the user with the custom outputs based on the context of the specific request. These requests may require access to the resources per sé that are distributed in the various infrastructures of the JERICO community and other external systems. e-JERICO is not an aggregator of data, but a data and service provider to the ocean community. It draws on different repositories such as EMODnet, ICOS, the Ocean Best Practices System, Ocean Docs and others. Due to the diverse nature of these resources and the heterogeneity of methods of the infrastructures hosting them, resources can be stored, accessed and interpreted in a myriad ways. The interaction between the main core system with the data centers and infrastructures is realized through an interoperability module that is capable of translating the distributed information into the common standard of e-JERICO. On the other side, the user access or machine-to-machine interaction requires a layer to gather the external petition and returns the information in a customized manner. Figure 1 illustrates the components of the e-JERICO infrastructure and their relationship. Managing the resources of the community and their connections facilitate processes aiming to monitor and evaluate the status of the system, to provide statistics and key performance indicators of the work of the community as well as measurement of FAIRness of the data cycle for each specific flow.

Figure 1: e-JERICO conceptual design
Figure 1: e-JERICO conceptual design

Conclusion

This presentation will review the capabilities and challenges in building the emerging e-JERICO. It is an interesting illustration of working in a very diverse environment supporting users from science to applications and policy, supplying data, data products, services and other resources of the JERICO community in an integrated, free, open, and organized way. Through this e-infrastructure, JERICO will facilitate the access to coastal information and enhance the capacity to manage the interaction between distributed infrastructures worldwide, in particular across Europe.

Data To Product Thematic Services Integration into J-CORE: IMDIS 2021 Poster

Miguel Charcos, SOCIB (Spain) presents a poster on “Data to Product Thematic Services Integration into J-CORE” at the International Conference on Marine Data and Information Systems (IMDIS) 12-14th April 2021 virtual conference. 

Data To Product Thematic Services Integration into J-CORE Poster
Data To Product Thematic Services Integration into J-CORE Poster

Introduction

The Joint European Research Infrastructure network for Coastal Observatory (JERICO) is a Pan European coastal marine observatory network that integrates a large diversity of resources including data from multiple types of observatories. This diversity of data and platforms offers an assortment of assets to support the creation of high-quality and diverse data products. In the new phase of the project, namely JERICO-S3, the implementation of a virtual infrastructure (called e-JERICO) will allow access to the information from assets, including data, that are distributed among all internal and external stakeholders. It will also provide a full range of access to documents, tools, software, and ocean best practices (OBPs). JERICO-S3 aims, among other objectives, to demonstrate the benefits of an e-Infrastructure for JERICO (e-JERICO) by designing and implementing the first elements of this virtual environment. Data To Product Thematic Services (D2PTS) are practical cases that respond to specific needs of the coastal community despite a diversity of data and platforms by providing added value products of different kinds. Four D2PTS will support the pilot phase and provide these capabilities of e-JERICO during the operation phase. They will provide advanced products, software capabilities, and services, for specific thematic interests in the Integrated Regional Sites (IRS) and Pilot SuperSites (PSS) around the coast of Europe.

The HF-Radar (HFR) D2PTS will provide physical oceanography products to fill the gap in water surface current data products addressing the need for a comprehensive understanding of ocean surface flows. It offers advanced analysis software and services for HFR. A pilot application will be undertaken in Iberian Peninsula IRS and NW-Mediterranean PSS. The glider D2PTS will contribute with estimations types and transport monitoring of seawater masses by combining Biogeochemical (BGC) and physical parameters. These advanced products will fill a gap in physical ocean transport analysis. A pilot application will be undertaken in the Gulf of Finland (GoF) and NW-Mediterranean PSSs. The BGC D2PTS will provide advanced data products (e.g.. HAB situation and remote sensing “sea-truth”) based on combined multiplatform NRT data, demonstrating the capabilities of coordinated transnational observations. It will respond to the needs of the integration of multiplatform observations. A pilot application will be undertaken in the GoF PSS. The JERICO-EcoTaxa D2PTS will provide new insights in the biological field by facilitating the study of coastal plankton monitoring products from optical and imaging sensors. It responds to a need to bring together the biological community to a joint effort of analysing biological images. A pilot application will be undertaken in NW-MED, Gulf of Finland, Channel and NorthSea PSSs.

D2PTS Integration

From a general perspective, e-JERICO (see Figure 1) harvests and connects information of different assets (i.e. data, documents, tools, software, etc) in a knowledge-based catalog of interconnected resources from distributed infrastructures such as data aggregators (EMODnet, SeaDatanet, CMEMS), Sensor Observation Services (SOS), documentation repositories (OBPS, OceanDocs) and software repositories. Thematic services will be integrated into e-JERICO in different ways depending on their level of maturity. The D2PTS represents various scenarios of integration that will demonstrate the entire range of capabilities of the e-JERICO infrastructure.

Figure 1: Interaction flow of D2PTS that are integrated in e-JERICO
Figure 1: Interaction flow of D2PTS that are integrated in e-JERICO

The integration of services provides the D2PTS users the opportunity to take advantage of the information of the JERICO community that is represented in the resource catalog. In a basic scenario, users will be able to access all the information to run the D2PTS including the necessary support such as manuals, best practices and portal information. A more advanced level of integration will allow thematic services to make use of the information of the resource catalog to support the service. For example, the BGC D2PTS can collect the list of platforms of the region to improve collaboration and the search of multiplatform data. Integration of a service could even allow seamless and remote execution of processing components alone or workflows of concatenated services. In this poster, we will examine the way these diverse resources are handled in e-JERICO for the four D2PTS.

Best practices for in vivo fluorometry

Join our quest!

In JERICO-S3, we continue our efforts towards measuring synchronously different environmental variables (especially biogeochemistry and biology) at high frequency and spatial resolution and filling observational gaps in under-sampled areas or periods. This helps to understand phytoplankton dynamics and distribution in coastal waters. Our task is to improve the readiness of ship-based and autonomous platform observing networks by guaranteeing their robustness, reliability, and long-term sustainability.

We are pleased to present you our questionnaire on in vivo fluorometry (single wavelength or multispectral) for phytoplankton biomass and pigmentary groups analysis.

This questionnaire (not longer than 15 minutes to fill) aims to collect the different practices followed by users and to help us define common best practice guidelines for in vivo fluorometry.  

The results will be presented and discussed during a virtual workshop by mid-June. All participants will be invited to join

Deadline May 30, 2021.

Best practices for plankton automated imagery

Join our quest!

In JERICO-S3, we continue our efforts towards measuring synchronously different environmental variables (especially biogeochemistry and biology) at high frequency and spatial resolution and filling observational gaps in under-sampled areas or periods. This will help to understand phytoplankton dynamics and distribution in coastal waters. Our task is to improve the readiness of ship-based and autonomous platform observing networks by guaranteeing their robustness, reliability, and long-term sustainability.

We are pleased to present you our questionnaire on automated imagery (in vivo/in situ, in vivo/in flow, in vitro) for plankton analysis.

This questionnaire (not longer than 15 minutes to fill) aims to collect the different practices followed by users and to help us define common best practice guidelines. 

The results will be presented and discussed during a virtual workshop by mid-June. All participants will be invited to join

Deadline May 30, 2021.

JERICO-S3: 2nd Call for Transnational Access Now Open

The JERICO-S3 Research Infrastructure wishes to announce the 2nd call of 3 Transnational Access funding calls to support a wide range of marine researchers by giving free of charge access to high-quality infrastructures and support services at unique multi-disciplinary sites consisting of a mix of gliders, fixed platforms, ferryboxes, cabled observatories, HF radar, benthic stations, and bio-sensors. The call is open for project proposals from 29th March 2021 to 31st May 2021.

Successful applicants will be able to carry out first-class experiments on one or more of the multi-disciplinary, multi-platform coastal observing systems thus maximising impact for science, environmental managers, industries, and other relevant stakeholders. Users will have access to the best available equipment and knowledgeable personnel at each of the facilities to enable improved research outputs and scientific excellence.

In this 2nd call, JERICO-S3 would like to highlight and support the collaboration between JERICO-RI TA facilities and AQUACOSM-plus infrastructures. As a specific action, JERICO-S3 and AQUACOSM-plus study jointly how extreme events affect plankton ecosystems, by applying both observations on natural communities and by experimentation at selected sites (Cretan Sea, North-West Mediterranean and Baltic Sea). JERICO-S3 TA projects supporting these actions are especially welcomed and strongly encourage the involvement between the RI-RI facilities.

Between June 2020 and January 2024, we will offer more than 8800 days of Transnational Access (TA) to more than 40 different integrated marine coastal observation facilities located at 21 JERICO-RI partners throughout Europe. Detailed information about each JERICO-RI facility, technical design and available resources etc. can be found here.

To determine the capabilities and service offerings of each facility we strongly encourage all TA applicants to contact the respective facility providers as early as possible in the proposal process about possible usage of facilities and cooperation at the infrastructures. Please ensure that the objectives and aims of the call are fully addressed before submitting a proposal for Transnational Access. The TA application form and Guidelines can be found online.

This is a unique opportunity for scientists and engineers to avail of high-quality, interlinked instrumented infrastructures operating in coastal and shelf-sea areas for carrying out research and/or testing activities.

Contact JERICO.TA (at) marine.ie for more details

TalTech recover the Keri cable bottom profiling station in the Baltic Sea.

The Division of Marine Physics (DMP) at TalTech recently recovered the Keri cabled bottom profiling station, part of the Gulf of Finland Pilot Supersite of JERICO-RI.

The Keri profiling station is deployed on the seabed at 110 m depth year-round. The autonomous profiler regularly samples the water column from the bottom to the sea surface several times a day.

The station is expected to be deployed back to the sea after maintenance in February 2021.

In addition, near bottom nutrient analysers were recovered after 6 months of deployment. 

Follow DMP here.

AQUACOSM-plus Call for Transnational Access on the MEDIMEER infrastructure

JERICO-S3 is pleased to publicise the Announcement of Transnational Access of AQUACOSM-plus European project on MEDIMEER infrastructure. This marine in situ mesocosm experiment, which will be carried out in the Pilot Supersite of North-Western Mediterranean Sea, will also serve to improve synergies between Jerico-S3 (Marine coastal observatories, facilities, expertise and data for Europe) observing community and AQUACOSM-plus mesocosm experimenting community. It is opened from 09 February and will be closed on 26 February (13h CET).

MEDIMEER in situ mesocosms infrastructure. Photo Credit: Behzad Mostajir

The call includes Transnational Access 8 additional marine and freshwater infrastructures.

Further information can be found on the AQUACOSM-plus project website. 

Full details of MEDIMEER facility and the Transnational Access available are available here

Year’s first “CANALES” oceanographic cruise by the research vessel SOCIB

During the first week of February 2021, the Balearic Islands Coastal Observing and Forecasting System (SOCIB) has performed the oceanographic campaign “CANALES WINTER 2021” on board the Research Vessel SOCIB (R/V SOCIB). This campaign is part of the SOCIB “CANALES” endurance line and is also a contribution to JERICO-S3 EU funded infrastructure project. The aim is to further deepen the knowledge of state and variability of the Balearic Sea, consolidating and further developing scientific research.

CANALES WINTER 2021. Photo Credit: Balearic Islands Coastal Observing and Forecasting System (SOCIB).

The oceanographic cruise has performed two transects in the Mallorca Channel and two in the Ibiza Channel, two relevant enclaves in the Mediterranean Sea, in a biodiversity hotspot that allows researchers to understand the processes and complex inter-basin circulation and exchange of water masses, at a “choke point” in the cyclonic return flow before it exits into the Atlantic Ocean through the Strait of Gibraltar. To that end, the campaign has involved the sampling of physical, chemical and biological parameters (CTD casts and water sampling). In addition, the SOCIB team on board R/V SOCIB has deployed two surface drifters (SVP-B) in the Ibiza Channel, within the framework of the Global Drifter Program (NOAA). Furthermore, samples of microplastics have been also collected in both channels to monitor the current status of the distribution of floating plastic debris in order to verify its correspondence with forecasting models.

As a part of the “CANALES” endurance line, the researchers have also performed a synchronized CTD cast with the current operating glider in the Ibiza channel to compare the data between glider and CTD.

This content was originally published on socib.es.

SOCIB starts a new glider mission in the Balearic Sea

The first 2021 CANALES mission started last month with the successful launch of the G3 glider from the waters between Cala Figuera and the Dragonera Island.

The Balearic Islands Coastal Observing and Forecasting System (SOCIB) has launched the glider sdeep06 for the GFMR0109 mission, as part of the SOCIB permanent “CANALES” endurance line in the Balearic Sea. The field team aboard the Zodiac Hurricane 920, SOCIB I, has conducted the procedure of launching the glider without technical complications, despite the poor state of the sea. Currently, the glider has begun its mission that will last until March, collecting valuable oceanographic data from the surface to nearly a thousand meters deep and sending it via satellite.

G3 Glider launches the first CANALES mission of 2021 in January. Photo Credit: Balearic Islands Coastal Observing and Forecasting System (SOCIB)

The mission will perform two transects in the Mallorca Channel and eight in the Ibiza Channel, two relevant enclaves in the Mediterranean Sea, in a biodiversity hotspot that allows researchers to understand the processes and complex inter-basin exchange of water masses, before the cyclonic return flow exits into the Atlantic Ocean through the Strait of Gibraltar. To that end, the mission will involve the sampling of physical, chemical and biological parameters: glider’s CTD (conductivity-temperature-depth), Eco Triplet (backscattering, fluorescence EX/EM), oxygen, and PAR (Photosynthetically Active Radiation).

The glider sdeep06, along with the other three that were added to SOCIB’s fleet in mid-2020, has been co-funded by the European Regional Development Fund (ERDF), within the framework of the Operational Programme of the Balearic Islands for the 2014-2020 programming period. These four G3 gliders are added to the two fully operational G2 gliders, and the seaglider, allowing SOCIB to complement its routine and strategic programme of glider endurance line in the Mediterranean Sea.

These gliders along with the SOCIB’s glider fleet are offered via competitive access for the scientific community, allowing to use high-quality autonomous underwater infrastructures operating in the coastal, shelf, and open sea areas for carrying out research, monitoring, and/or testing activities.

Web Link: Follow the glider in real-time

WebLinks:

SOCIB

Procedure of launching the glider: 03 Launching – EN – YouTube

Competitive Access:

https://socib.es/?seccion=gliderCompetitiveAccess&facility=gliderGeneralOverview

Follow the glider in real time: http://apps.socib.es/dapp/?status=active&platformtypes=glider

This content was originally published on socib.es

 

 

 

 

 

Best practices in flow cytometry questionnaire launched

Join our effort!

In JERICO-S3, we continue our efforts towards measuring synchronously different variables (especially biogeochemistry and biology) and filling observational gaps in under-sampled areas to understand phytoplankton dynamics and distribution in coastal waters. Our task is to improve the readiness of ship-based and autonomous platform observing networks by guaranteeing their robustness, reliability, and long-term sustainability.

A questionnaire (not longer than 15 minutes to fill) aims to collect the different practices followed by the users and to define the best practices for in vivo automated (including online) flow cytometry. The results will be presented and discussed during a virtual workshop early next year. Participants will be invited to join through existing networks.

The questionnaire is available to complete online.

Deadline 8th of January 2021.