Making marine image data FAIR.

Underwater images are used to explore and monitor ocean habitats, generating huge datasets with unusual data characteristics that preclude traditional data management strategies. Due to the lack of universally adopted data standards, image data collected from the marine environment are increasing in heterogeneity, preventing objective comparison. The extraction of actionable information thus remains challenging, particularly for researchers not directly involved with the image data collection. Standardized formats and procedures are needed to enable sustainable image analysis and processing tools, as are solutions for image publication in long-term repositories to ascertain reuse of data. The FAIR principles (Findable, Accessible, Interoperable, Reusable) provide a framework for such data management goals. We propose the use of image FAIR Digital Objects (iFDOs) and present an infrastructure environment to create and exploit such FAIR digital objects. We show how these iFDOs can be created, validated, managed and stored, and which data associated with imagery should be curated. The goal is to reduce image management overheads while simultaneously creating visibility for image acquisition and publication efforts.

Using integrated models to analyze and predict the variance of diatom community composition in an agricultural area.

With the growing demand of assessing the ecological status, there is the need to fully understand the relationship between the planktic diversity and the environmental factors. Species richness and Shannon index have been widely used to describe the biodiversity of a community. Besides, we introduced the first ordination value from non-metric multidimensional scaling (NMDS) as a new index to represent the community similarity variance. In this study, we hypothesized that the variation of diatom community in rivers in an agricultural area was influenced by hydro-chemical variables. We collected daily mixed water samples using ISCO auto water samplers for diatoms and for water-chemistry analysis at the outlet of a lowland river for a consecutive year. An integrated modeling was adopted including random forest (RF) to decide the importance of the environmental factors influencing diatoms, generalized linear models (GLMs) combined with 10-folder cross validation to analyze and predict the diatom variation. The hierarchical analysis highlighted antecedent precipitation index (API) as the controlling hydrological variable while water temperature, Si2+ and PO4-P as the main chemical controlling factors in our study area. The generalized linear models performed better prediction for Shannon index (R2 = 0.44) and NMDS (R2 = 0.51) than diatom abundance (R2 = 0.25) and species richness (R2 = 0.25). Our findings confirmed that Shannon index and the NMDS as an index showed good performance in explaining the relationship between stream biota and its environmental factors and in predicting the diatom community development based on the hydro-chemical predictors. Our study showed and highlighted the important hydro-chemical factors in the agricultural rivers, which could contribute to the further understanding of predicting diatom community development and could be implemented in the future water management protocol.

Diatoms as an indicator for tile drainage flow in a German lowland catchment.

BACKGROUND: The separation of runoff components within a model simulation is of great importance for a successful implementation of management measures. Diatoms could be a promising indicator for tile drainage flow due to their diverse preferences to different aquatic habitats. In this study, we collected diatom samples of 9 sites (4 tile drainage, TD, and 5 river sites, Ri) in a German lowland catchment at a weekly or biweekly time step from March to July 2013 with the aim of testing the suitability of diatoms for tile drainage flow, which is typical for lowland catchment. RESULTS: Planothidium lanceolatum, Ulnaria biceps, and Navicula gregaria dominated in TD sites with relative abundances of 22.2, 21.5, and 10.9%, respectively. For Ri sites, the most abundant species was Navicula lanceolata (20.5%), followed by Ulnaria biceps (12.9%), Cyclotella meneghiniana (9.5%), and Planothidium lanceolatum (9.3%). Compared with Ri sites, TD had a lower diatom density, biomass, species richness, and percentage of Aquatic/Riparian diatoms (AqRi%). However, the proportion of Riparian diatoms (RiZo%) increased at TD. Indicator value method (IndVal) revealed that the two groups (Ri and TD) were characterized by different indicator species. Fifteen taxa, including Cocconeis placentula, Cyclotella meneghiniana, N. lanceolata, and U. biceps, were significant indicators for Ri sites. Planothidium lanceolatum, Achnanthidium minutissimum, and Navicula gregaria were significant indicators for TD sites. CONCLUSION: A pronounced variation was found in the species lists of diatom community between Ri and TD water body types associated with different indicator species. With respect to hydrograph separation, these findings highlight the suitability of diatoms as an indicator for tile drainage flow. However, spatial and temporal variations of diatoms should be considered in future surveys.

Importance of sampling frequency when collecting diatoms.

There has been increasing interest in diatom-based bio-assessment but we still lack a comprehensive understanding of how to capture diatoms' temporal dynamics with an appropriate sampling frequency (ASF). To cover this research gap, we collected and analyzed daily riverine diatom samples over a 1-year period (25 April 2013-30 April 2014) at the outlet of a German lowland river. The samples were classified into five clusters (1-5) by a Kohonen Self-Organizing Map (SOM) method based on similarity between species compositions over time. ASFs were determined to be 25 days at Cluster 2 (June-July 2013) and 13 days at Cluster 5 (February-April 2014), whereas no specific ASFs were found at Cluster 1 (April-May 2013), 3 (August-November 2013) (>30 days) and Cluster 4 (December 2013 - January 2014) (<1 day). ASFs showed dramatic seasonality and were negatively related to hydrological wetness conditions, suggesting that sampling interval should be reduced with increasing catchment wetness. A key implication of our findings for freshwater management is that long-term bio-monitoring protocols should be developed with the knowledge of tracking algal temporal dynamics with an appropriate sampling frequency.