Large-Scale Permanent Slide Imaging and Image Analysis for Diatom Morphometrics

Light microscopy analysis of diatom frustules is widely used in basic and applied research, notably taxonomy, morphometrics, water quality monitoring and paleo-environmental studies. Although there is a need for automation in these applications, various developments in image processing and analysis methodology supporting these tasks have not become widespread in diatom-based analyses. We have addressed this issue by combining our automated diatom image analysis software SHERPA with a commercial slide-scanning microscope. The resulting workflow enables mass-analyses of a broad range of morphometric features from individual frustules mounted on permanent slides. Extensive automation and internal quality control of the results helps to minimize user intervention, but care was taken to allow the user to stay in control of the most critical steps (exact segmentation of valve outlines and selection of objects of interest) using interactive functions for reviewing and revising results. In this contribution, we describe our workflow and give an overview of factors critical for success, ranging from preparation and mounting through slide scanning and autofocus finding to final morphometric data extraction. To demonstrate the usability of our methods we finally provide an example application by analysing Fragilariopsis kerguelensis valves originating from a sediment core, which substantially extends the size range reported in the literature

On the hidden significance of differing micro-sites on tree-ring based climate reconstructions

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Morphometry of the diatom Fragilariopsis kerguelensis from Southern Ocean sediment: High-throughput measurements show second morphotype occurring during glacials

Fragilariopsis kerguelensis is one of the most abundant diatoms in the sediments of the Southern Ocean. Its morphometric features have been proposed as proxies, based on links with, for example, iron availability, sea surface temperature and glacial/interglacial conditions. We investigated morphometric changes in F. kerguelensis valves in a well-studied sediment core record, focusing on transition periods between glacials and interglacials. By applying a high-throughput diatom imaging and morphometry workflow, we found two clearly distinct morphotypes which were differentiated by their rectangularity. One of them occurred preferentially in glacial samples, whilst the other persisted throughout. This indicates that their relative abundances depend on environmental conditions and thereby points to the possibility that paleo-proxies based on F. kerguelensis valve morphometric features might in the future benefit from differentiating these two morphotypes. As an initial exploration of this idea, we show that the abundance ratio of both morphotypes correlates well with paleo-temperatures which had been reconstructed using independent data from the same core. Distinguishing between the two morphotypes only became possible by image analysis for precisely measuring diatom valve outlines and area, highlighting the potential of such methods for diatom analyses

Compilation of Southern Ocean sea-ice records covering the last glacial-interglacial cycle (12–130 ka)

Antarctic sea ice forms a critical part of the Southern Ocean and global climate system. The behaviour of Antarctic sea ice throughout the last glacial-interglacial (G-IG) cycle (12 000–130 000 years) allows us to investigate the interactions between sea ice and climate under a large range of mean climate states. Understanding both temporal and spatial variations in Antarctic sea ice across a G-IG cycle is crucial to a better understanding of the G-IG regulation of atmospheric CO2, ocean circulation, nutrient cycling and productivity. This study presents 28 published qualitative and quantitative estimates of G-IG sea ice from 24 marine sediment cores and an Antarctic ice core. Sea ice is reconstructed from the sediment core records using diatom assemblages and from the ice core record using sea-salt sodium flux. Whilst all regions of the Southern Ocean display the same overall pattern in G-IG sea-ice variations, the magnitudes and timings vary between regions. Sea-ice cover is most sensitive to changing climate in the regions of high sea-ice outflow from the Weddell Sea and Ross Sea gyres, as indicated by the greatest magnitude changes in sea ice in these areas. In contrast the Scotia Sea sea-ice cover is much more resilient to moderate climatic warming, likely due to the meltwater stratification from high iceberg flux through “iceberg alley” helping to sustain high sea-ice cover outside of full glacial intervals. The differing sensitivities of sea ice to climatic shifts between different regions of the Southern Ocean has important implications for the spatial pattern of nutrient supply and primary productivity, which subsequently impact carbon uptake and atmospheric CO2 concentrations changes across a G-IG cycle

An unusual early Holocene diatom event north of the Getz Ice Shelf (Amundsen Sea): Implications for West Antarctic Ice Sheet development

Modern global change affects not only the polar north but also, and to increasing extent, the southern high latitudes, especially the Antarctic regions covered by the West Antarctic Ice Sheet (WAIS). Consequently, knowledge of the mechanisms controlling past WAIS dynamics and WAIS behaviour at the last deglaciation is critical to predict its development in a future warming world. Geological and paleobiological information from major drainage areas of the WAIS, like the Amundsen Sea Embayment, shed light on the history of the WAIS glaciers. Sediment records obtained from a deep inner shelf basin north of the Getz Ice Shelf document a deglacial warming in three phases. Above a glacial diamicton and a sediment package barren of microfossils that document sediment deposition by grounded ice and below an ice shelf or perennial sea ice cover (possibly fast ice), respectively, a sediment section with diatom assemblages dominated by sea ice taxa indicates ice shelf retreat and seasonal ice-free conditions. This conclusion is supported by diatom-based summer temperature reconstructions. The early retreat was followed by a phase, when exceptional diatom ooze was deposited between 12,000 and 13,000 cal. years B.P. Microscopical inspection of this ooze revealed excellent preservation of diatom frustules of the species Corethron pennatum together with vegetative Chaetoceros, thus an assemblage usually not preserved in the sedimentary record. Sediments succeeding this section contain diatom assemblages indicating rather constant Holocene cold water conditions with seasonal sea ice. The deposition of the diatom ooze can be related to changes in hydrographic conditions including strong advection of nutrients. However, sediment focussing in the partly steep inner shelf basins cannot be excluded as a factor enhancing the thickness of the ooze deposits. It is not only the presence of the diatom ooze but also the exceptional preservation and the species composition of the diatom assemblage, which point to specific scenarios involving e.g. changes in the food web that can be related to warmer surface water temperatures. Such warming of shelf waters may be related with an overshooting Atlantic Meridional Overturning Circulation (AMOC) and strong injection of warmer North Atlantic Deep Water into the Southern Ocean water masses at Termination I. Such finding may highlight the effects of AMOC changes on Antarctic ice shelf extent and coastal ecosystems. Keywords: WAIS, Amundsen Sea Embayment, diatoms, deglacial warmin

Long-term summer temperature variations in the Pyrenees from detrended stable carbon isotopes

Substantial effort has recently been put into the development of climate reconstructions from tree-ring stable carbon isotopes, though the interpretation of long-term trends retained in such timeseries remains challenging. Here we use detrended δ13C measurements in Pinus uncinata tree-rings, from the Spanish Pyrenees, to reconstruct decadal variations in summer temperature back to the 13th century. The June-August temperature signal of this reconstruction is attributed using decadally as well as annually resolved, 20th century δ13C data. Results indicate that late 20th century warming has not been unique within the context of the past 750 years. Our reconstruction contains greater am-plitude than previous reconstructions derived from traditional tree-ring density data, and describes particularly cool conditions during the late 19th century. Some of these differences, including early warm periods in the 14th and 17th centuries, have been retained via δ13C timeseries detrending - a novel approach in tree-ring stable isotope chronology development. The overall reduced variance in earlier studies points to an underestimation of pre-instrumental summer temperature variability de-rived from traditional tree-ring parameters

Highly branched isoprenoids reveal onset of deglaciation followed by dynamic sea-ice conditions in the western Amundsen Sea, Antarctica

The Amundsen Sea drainage sector of the West Antarctic Ice Sheet (WAIS) is widely regarded as a candidate for triggering potential WAIS collapse. The grounded ice sheet drains into the Amundsen Sea Embayment and is thereby buttressed by its fringing ice shelves, which have thinned at an alarming rate. Satellite-based observations additionally reveal a considerable long-term decrease in sea-ice cover in the Amundsen Sea over the last two decades although the long-term significance of this trend is unclear due to the short instrumental record since the 1970s. In this context, investigations of past sea-ice conditions are crucial for improving our understanding of the influence that sea-ice variability has on the adjacent marine environment as well as any role it plays in modulating ice shelf and ice sheet dynamics. In this study, we apply novel organic geochemical biomarker techniques to a marine sediment core from the western Amundsen Sea shelf in order to provide a valuable long-term perspective on sea-ice conditions and the retreat of the Getz Ice Shelf during the last deglaciation. We analysed a specific biomarker lipid called IPSO25 alongside a phytoplankton biomarker and sedimentological parameters and additionally applied diatom transfer functions for reconstructing palaeo sea-ice coverage. This multi-proxy data set reveals a dynamic behaviour of the Getz Ice Shelf and sea-ice cover during the deglaciation following the last ice age, with potential linkages to inter-hemispheric seesaw climate patterns. We further apply and evaluate the recently proposed PIPSO25 approach for semi-quantitative sea-ice reconstructions and discuss potential limitations

Highly branched isoprenoids for Southern Ocean sea ice reconstructions: a pilot study from the Western Antarctic Peninsula

Organic geochemical and micropaleontological analyses of surface sediments collected in the southern Drake Passage and the Bransfield Strait, Western Antarctic Peninsula, enable a proxy-based reconstruction of recent sea ice conditions in this climate-sensitive area. We study the distribution of the sea ice biomarker IPSO25, and biomarkers of open marine environments such as more unsaturated highly branched isoprenoid alkenes and phytosterols. Comparison of the sedimentary distribution of these biomarker lipids with sea ice data obtained from satellite observations and diatom-based sea ice estimates provide for an evaluation of the suitability of these biomarkers to reflect recent sea surface conditions. The distribution of IPSO25 supports earlier suggestions that the source diatom seems to be common in near-coastal environments characterized by annually recurring sea ice cover, while the distribution of the other biomarkers is highly variable. Offsets between sea ice estimates deduced from the abundance of biomarkers and satellite-based sea ice data are attributed to the different time intervals recorded within the sediments and the instrumental records from the study area, which experienced rapid environmental changes during the past 100 years. To distinguish areas characterized by permanently ice-free conditions, seasonal sea ice cover and extended sea ice cover, we apply the concept of the PIP25 index from the Arctic Ocean to our data and introduce the term PIPSO25 as a potential sea ice proxy. While the trends in PIPSO25 are generally consistent with satellite sea ice data and winter sea ice concentrations in the study area estimated by diatom transfer functions, more studies on the environmental significance of IPSO25 as a Southern Ocean sea ice proxy are needed before this biomarker can be applied for semi-quantitative sea ice reconstructions

Evaluating the sea ice proxy IPSO25 at the Western Antarctic Peninsula

Sea ice proxies are important tools to reconstruct the climate and environmental history in polar regions. The novel sea ice proxy for the Southern Ocean is the biomarker IPSO25 (Ice Proxy Southern Ocean with 25 carbon atoms), a highly branched isoprenoid (HBI) diene produced by sea ice diatoms. With this poster we present the first approach of a sea ice index derived from IPSO25, called PIPSO25, for past sea ice reconstructions in Antarctica

Medication Complications in Extracorporeal Membrane Oxygenation.

The need for extracorporeal membrane oxygenation (ECMO) therapy is a marker of disease severity for which multiple medications are required. The therapy causes physiologic changes that impact drug pharmacokinetics. These changes can lead to exposure-driven decreases in efficacy or increased incidence of side effects. The pharmacokinetic changes are drug specific and largely undefined for most drugs. We review available drug dosing data and provide guidance for use in the ECMO patient population