Fragilariopsis kerguelensis images from sediment core PS1768-8

Background: Light microscopic analysis of diatom frustules is widely used both in basic and applied research, notably taxonomy, morphometrics, water quality monitoring and paleo-environmental studies. In these applications, usually large numbers of frustules need to be identified and / or measured. Although there is a need for automation in these applications, and image processing and analysis methods supporting these tasks have previously been developed, they did not become widespread in diatom analysis. While methodological reports for a wide variety of methods for image segmentation, diatom identification and feature extraction are available, no single implementation combining a subset of these into a readily applicable workflow accessible to diatomists exists. Results: The newly developed tool SHERPA offers a versatile image processing workflow focused on the identification and measurement of object outlines, handling all steps from image segmentation over object identification to feature extraction, and providing interactive functions for reviewing and revising results. Special attention was given to ease of use, applicability to a broad range of data and problems, and supporting high throughput analyses with minimal manual intervention. Conclusions: Tested with several diatom datasets from different sources and of various compositions, SHERPA proved its ability to successfully analyze large amounts of diatom micrographs depicting a broad range of species. SHERPA is unique in combining the following features: application of multiple segmentation methods and selection of the one giving the best result for each individual object; identification of shapes of interest based on outline matching against a template library; quality scoring and ranking of resulting outlines supporting quick quality checking; extraction of a wide range of outline shape descriptors widely used in diatom studies and elsewhere; minimizing the need for, but enabling manual quality control and corrections. Although primarily developed for analyzing images of diatom valves originating from automated microscopy, SHERPA can also be useful for other object detection, segmentation and outline-based identification problems.

TECHNO encrustation description and analysis

The distribution of radioactivities in a large polymetallic encrustation (TECHNO) sampled from the Pacific sea floor has been studied in great detail. The study includes measurements of the long-lived U and Th decay series isotopes, alpha-particle tracks and SUP-10 Be and SUP-26 Al (Results on the latter two cosmonuclides have been reported by Guichard, Reyss and Yokoyama, 1978). The data are discussed in terms of their implication on age dating of the sample. Two interpretations of the data are presented leading to vastly different time scales for the formation of the sample. Here the opinion is divided among the authorship. One group, as well as Guichard et al (1978), favours the million-years scale and the other favors scale measured in thousands of years. The principal pros-and-cons aspects of the two views are mentioned.

Hydrography and water chemistry of the open Mediterranean Sea

On a cruise from the eastern into western Mediterranean Sea in November/December 1978 a total of 126 samples were collected from 8 vertical profiles and 7 coastal stations for trace metal analysis. The sampling, processing and analysis was performed under strict "clean room" conditions. The concentration of the open-sea samples are close to oceanic results gathered under similar conditions. The grand averages from all profiles (± st. dev. of the individual samples) of 0.40 ± 0.16 µg/l Zn, 17.4 ± 7.4 ng/l Cd, 0.21 ± 0.07 µg/l Cu, 0.21 ± 0.13 µg/l Mn and 0.25 ± 0.09 µg/l Fe indicate that a "metal problem" does not exist in the open Mediterranean. A biologically mediated deplition in surface waters or correlation with nutrients have not been observed under the conditions established on this cruise. This is probably due top low primary production and seasonal advection processes prevailing in this sea. The data for manganese show generally higher values in the surface layer (0-75 m) than in deep waters. This could evidently proved in the nearshore profile indicating a terrigenous source for manganese.