ALBERT

Description: Solar light/dark cycles and seasonal photoperiods underpin daily and annual rhythms of life on Earth. Yet, the Arctic is characterized by severalmonths of permanent illumination (‘‘midnight sun’’). To determine the persistence of 24h rhythms during the midnight sun, we investigated transcriptomic dynamics in the copepod Calanus finmarchicus during the summer solstice period in the Arctic, with the lowest diel oscillation and the highest altitude of the sun’s position. Here we reveal that in these extreme photic conditions, a widely rhythmic daily transcriptome exists, showing that very weak solar cues are sufficient to entrain organisms. Furthermore, at extremely high latitudes and under sea-ice, gene oscillations become re-organized to include 〈24h rhythms. Environmental synchronization may therefore be modulated to include non-photic signals (i.e. tidal cycles). The ability of zooplankton to be synchronized by extremely weak diel and potentially tidal cycles, may confer an adaptive temporal reorganization of biological processes at high latitudes.

Description: In Portugal, particularly in the greater Lisbon area, there are widespread alluvial sandy deposits, which need to be carefully assessed in terms of liquefaction susceptibility and risk zonation. For this purpose, a pilot site has been set up, as part of the European H2020 LIQUEFACT project. An extensive database of geological and geotechnical reports was collected and a comprehensive site investigation campaign was carried out, including boreholes with standard penetration (SPT), piezocone penetrometer and seismic dilatometer tests as well as geophysical methods, complemented by undisturbed soil sampling for laboratory characterisation. The assessment of liquefaction susceptibility based on field tests was made using the simplified procedure, considering the factor of safety against liquefaction ( FSliq), which relates the cyclic resistance ratio (CRR) with the cyclic stress ratio (CSR). While the computation of the CSR is relatively straightforward, the reliability of the CRR strongly depends on the adopted in situ testing technique. Alternative approaches to liquefaction assessment have been proposed, based on quantitative liquefaction damage indexes, namely the Liquefaction Potential Index (LPI) and Liquefaction Severity Number. In this paper, the geotechnical field data is integrated in these distinct approaches to liquefaction assessment. A comparative and in-depth analysis of the conventional approach is presented and the inclusion of specific information on soil type, as a means to overcome the observed differences, is discussed particularly for SPT and VS results. The combination of these criteria enabled to clearly identify the most critical layers, in terms of liquefaction potential and severity.

Description: Published

Description: 109-138

Description: 5T. Sismologia, geofisica e geologia per l'ingegneria sismica

Description: JCR Journal

Description: In this article, we present a study of the perturbations occurring in the Earth’s environment on 7 October 2015. We use a multi-instrument approach, including space and ground observations. In particular, we study the ionospheric conditions at low latitudes. Two ionospheric storms are observed at the low latitude station of Tucumán (26° 51' S, 65° 12' W). We observe a negative ionospheric storm followed by a positive one. These ionospheric perturbations were triggered by two sudden storm commencements (SSCs) of a strong geo-magnetic storm. Preliminary results show that the main mechanism involved in both ionospheric storms is the prompt penetration of electric fields (PPEFs) from the magnetosphere. Furthermore, in the positive storm, disturbed dynamo electric fields are observed acting in combination with the PPEFs. The impact of the solar wind on the Earth’s environment is analyzed using geomagnetic data and proxies, combined with data acquired in the Tucumán Low Latitude Observatory for the Upper Atmosphere. We also investigate the solar and interplanetary drivers of this intense perturbation. We find that, although typically interplanetary coronal mass ejections (ICMEs) are the most geoeffective transient interplanetary events, in this case, a corotating interaction region (CIR) is responsible for these strong perturbations to the geospace.

Description: Published

Description: id 173

Description: 2A. Fisica dell'alta atmosfera

Description: JCR Journal

Description: Third-generation gravitational wave observatories will extend the lower frequency limit of the observation band toward 2 Hz, where new sources of gravitational waves, in particular intermediate-mass black holes (IMBH), will be detected. In this frequency region, seismic noise will play an important role, mainly through the so-called Newtonian noise, i.e., the gravity-mediated coupling between ground motion and test mass displacements. The signal lifetime of such sources in the detector is of the order of tens of seconds. In order to determine whether a candidate site to host the Einstein Telescope observatory is particularly suitable to observe such sources, it is necessary to estimate the probability distributions that, in the characteristic time scale of the signal, the sensitivity of the detector is not perturbed by Newtonian noise. In this paper, a first analysis is presented, focused on the Sos Enattos site (Sardinia, Italy), a candidate to host the Einstein Telescope. Starting from a long data set of seismic noise, this distribution is evaluated considering both the presently designed triangular ET configuration and also the classical ”L” configuration.

Description: Published

Description: 511

Description: 2IT. Laboratori analitici e sperimentali

Description: JCR Journal

Description: This study focuses on two weak points of the present procedure to carry out microzoning study in near-field areas: (1) the Ground Motion Prediction Equations (GMPEs), commonly used in the reference seismic hazard (RSH) assessment; (2) the ambient noise measurements to define the natural frequency of the near surface soils and the bedrock depth. The limitations of these approaches will be discussed throughout the paper based on the worldwide and Italian experiences performed after the 2009 L’Aquila earthquake and then confirmed by the most recent 2012 Emilia Romagna earthquake and the 2016–17 Central Italy seismic sequence. The critical issues faced are (A) the high variability of peak ground acceleration (PGA) values within the first 20–30 km far from the source which are not robustly interpolated by the GMPEs,(B) at the level 1 microzoning activity, the soil seismic response under strong motion shaking is characterized by microtremors’ horizontal to vertical spectral ratios (HVSR) according to Nakamura’s method. This latter technique is commonly applied not being fully compliant with the rules fixed by European scientists in 2004, after a 3-year project named Site EffectS assessment using AMbient Excitations (SESAME). Hereinafter, some “best practices” from recent Italian and International experiences of seismic hazard estimation and microzonation studies are reported in order to put forward two proposals: (a) to formulate site-specific GMPEs in near-field areas in terms of PGA and (b) to record microtremor measurements following accurately the SESAME advice in order to get robust and repeatable HVSR values and to limit their use to those geological contests that are actually horizontally layered.

Description: Published

Description: id 11

Description: 5T. Sismologia, geofisica e geologia per l'ingegneria sismica

Description: JCR Journal

Description: Equatorial plasma bubbles (EPBs) can cause rapid fluctuations in amplitude and phase of radio signals traversing the ionosphere and in turn produce serious ionospheric scintillations and disrupt satellite-based communication links. Whereas numerous studies on the generation and evolution of EPBs have been performed, the prediction of EPB and ionospheric scintillation occurrences still remains unresolved. The generalized Rayleigh–Taylor (R–T) instability has been widely accepted as the physical mechanism responsible for the generation of EPBs. But how the factors, which seed the development of R–T instability and control the dynamics of EPBs and resultant ionospheric scintillations, change on a short-term basis are not clear. In the East and Southeast Asia, there exist significant differences in the generation rates of EPBs at closely located stations, for example, Kototabang (0.2°S, 100.3°E) and Sanya (18.3°N, 109.6°E), indicating that the decorrelation distance of EPB generation is small (hundreds of kilometers) in longitude. In contrast, after the initial generation of EPBs at one longitude, they can drift zonally more than 2000 km and extend from the magnetic equator to middle latitudes of 40° or higher under some conditions. These features make it difficult to identify the possible seeding sources for the EPBs and to accurately predict their occurrence, especially when the onset locations of EPBs are far outside the observation sector. This paper presents a review on the current knowledge of EPBs and ionospheric scintillations in the East and Southeast Asia, including their generation mechanism and occurrence morphology, and discusses some unresolved issues related to their short-term forecasting, including (1) what factors control the generation of EPBs, its day-to-day variability and storm-time behavior, (2) what factors control the evolution and lifetime of EPBs, and (3) how to accurately determine ionospheric scintillation from EPB measurements. Special focus is given to the whole process of the EPB generation, development and disruption. The current observing capabilities, future new facilities and campaign observations in the East and Southeast Asia in helping to better understand the short-term variability of EPBs and ionospheric scintillations are outlined.

Description: Published

Description: 201–238

Description: 2A. Fisica dell'alta atmosfera

Description: JCR Journal

Description: Digital transformation and technological advances are causing a radical change in com‑ munication structures and in the way information is consumed. With rapid development of computing and the Internet, data is generated, recorded, stored and accumulated on a large scale, making it necessary for economic sectors to act quickly in order to adapt their busi‑ nesses to the online environment and thus, ensure their own survival. The application of Big Data in tourism enables to transform all this data into useful information, so that com‑ panies in the sector can defne and optimize their strategies in order to increase their prof‑ its. This article performs a comparative bibliometric analysis of the presence and impact of scientifc production related to Big Data within the area of tourism research indexed in the WoS and Scopus databases. The aim is to know key aspects such as its growth, correlation, citation, coverage, overlap, dispersion or concentration that will support future research‑ ers when they start their work in this emerging feld. From the analysis of the 113 articles selected between the two bases through an advanced search for terms with a time limit set in 2019, it can be concluded that this is a new feld of knowledge, which has aroused great interest since 2017, publishing about two thirds of the articles during the period 2017– 2019. Although WoS and Scopus difer in general terms in scope and coverage policies, both systems are complementary and not exclusive. In the specifc area of Big Data and Tourism Research, Scopus is the base that provides better coverage by collecting a higher number of articles and receiving more citations.

Description: Published

Description: 271–292

Description: OSA5: Energia e georisorse

Description: N/A or not JCR

Description: Desalination remains in Saudi Arabia the supreme viable alternative to boost the future water supply requirements. The present research is focused on the environmental issue observations and modeling based on dissolved trace metals, hydrographic parameters, and nutrients at the discharging plume and nearby locations of Rabig desalination plant (RDP) and Yanbu desalination plant (YDP) located at the north of Jeddah city (~ 150 and 400 km, respectively). A multi-effect distillation (MED) technology is used in RDP whereas, in YDP, a combination of multistage flashing (MSF), reverse osmosis (RO), and MED technologies is in use for the production of potable waters. The concentration of dissolved Cu, Ni, and Zn was assessed by using cathodic stripping voltammetry. The observed pattern was reflecting an average value of dissolved Cu, Ni, and Zn at RDP that was 8.24, 5.28, and 12.69 nM, respectively. The correspondent changes at YDP were 17.53, 18.06, and 71.19 nM of Cu, Ni, and Zn, respectively. The statistical validation shows a significant positive correlation between metals and temperature with salinity and a significant negative correlation of dissolved oxygen and pH. The background concentration of nearby YDP is comparatively higher and which is ascribed by the negative effects of nearby industries. Detailed investigation of circulation pattern and brine discharge analysis near the Yanbu desalination plant also carried out with the help of 3d hydrodynamical numerical model Delft3d.

Description: Observations of the diversity, distribution and abundance of pelagic fauna are absent for many ocean regions in the Atlantic, but baseline data are required to detect changes in communities as a result of climate change. Gelatinous fauna are increasingly recognized as vital players in oceanic food webs, but sampling these delicate organisms in nets is challenging. Underwater (in situ) observations have provided unprecedented insights into mesopelagic communities in particular for abundance and distribution of gelatinous fauna. In September 2018, we performed horizontal video transects (50-1200 m) using the pelagic in situ observation system during a research cruise in the southern Norwegian Sea. Annotation of the video recordings resulted in 12 abundant and 7 rare taxa. Chaetognaths, the trachymedusa Aglantha digitale and appendicularians were the three most abundant taxa. The high numbers of fishes and crustaceans in the upper 100 m was likely the result of vertical migration. Gelatinous zooplankton included ctenophores (lobate ctenophores, Beroe spp., Euplokamis sp., and an undescribed cydippid) as well as calycophoran and physonect siphonophores. We discuss the distributions of these fauna, some of which represent the first record for the Norwegian Sea.

Description: This study presents culture experiments of the cold water species Neogloboquadrina pachyderma (sinistral) and provides new insights into the incorporation of elements in foraminiferal calcite of common and newly established proxies for paleoenvironmental applications (shell Mg/Ca, Sr/Ca and Na/Ca). Specimens were collected from sea ice during the austral winter in the Antarctic Weddell Sea and subsequently cultured at different salinities and a constant temperature. Incorporation of the fluorescent dye calcein showed new chamber formation in the culture at salinities of 30, 31, and 69. Cultured foraminifers at salinities of 46 to 83 only revealed chamber wall thickening, indicated by the fluorescence of the whole shell. Signs of reproduction and the associated gametogenic calcite were not observed in any of the culture experiments. Trace element analyses were performed using an electron microprobe, which revealed increased shell Mg/Ca, Sr/Ca, and Na/Ca values at higher salinities, with Mg/Ca showing the lowest sensitivity to salinity changes. This study enhances the knowledge about unusually high element concentrations in foraminifera shells from high latitudes. Neogloboquadrina pachyderma appears to be able to calcify in the Antarctic sea ice within brine channels, which have low temperatures and exceptionally high salinities due to ongoing sea ice formation.

Description: This paper uses two subsets of ensemble historical-Nat simulations and pi-Control simulations from CMIP5 as well as observational/reanalysis datasets to investigate responses of the tropical Pacific to the 11-yr solar cycle. A statistically significant 11-yr solar signal is found in the upper-ocean layers above the thermocline and tropospheric circulations. A warming response initially appears in the upper layers of the central equatorial Pacific in the solar maximum years in observations, then increases and shifts into the eastern Pacific at lagged 1–3 yr. Meanwhile, an anomalous updraft arises over the western equatorial Pacific and shifts eastwards in the following years with anomalous subsidence over the Maritime Continent. These lagged responses are confirmed by the historical-Nat simulations, except that the initial signal is located more to the west and all the responses are weaker than the observed. A simplified mixed-layer heat budget analysis based on the historical-Nat simulations suggests that the atmospheric forcing, especially the shortwave radiation, is the major contributor to the initial warming response, and the ocean heat transport effect is responsible for the eastward displacement of the lagged warming responses. In the solar maximum years, the zonal ocean temperature gradient in the western-central Pacific is reduced by the initial warming, and anomalous westerly winds appear over the western equatorial Pacific and extend into the eastern Pacific during the lagged years. These anomalous westerly winds reduce the wind-driven ocean dynamical transport, resulting in the initial warming in the central equatorial Pacific being amplified and the surface warming shifting eastward during the lagged 1–3 yr

Description: Environmental factors shape the structure and functioning of benthic communities. In coastal zones of the southwestern Baltic Sea, boulder fields represent one of the most productive habitats, supporting diverse benthic communities that provide many ecosystem services. In this study, the influence of the geological characteristics of boulder fields on the biodiversity of associated hard-bottom communities was investigated at two different spatial scales (few kilometers and tens of kilometers). The analyses on overall richness (taxonomic and functional) and community composition revealed how: (i) locally the size of boulders and (ii) regionally site-specific factors like the boulder density distribution and the sediment distribution can act as environmental driving forces. The overall richness of assemblages was shown to increase with increasing surface area of boulders, by up to 60% for species and up to 40% for functional richness. At both investigated scales, differences in compositional variability (β diversity) of the communities were detected. Locally, smallest boulders hosted more variable communities (β diversity up to 2 times higher), while at the regional level, indications of a larger habitat heterogeneity featuring the highest β diversity were observed. This study exemplifies how geological habitat characteristics shape the biodiversity of boulder field communities. The obtained information could be considered in assessment strategies, in order to avoid misclassifications of habitats naturally limited in biodiversity, making a step forward to the desired objective of protecting, conserving, and managing boulder field communities in the study area and at other comparable sites.

Description: Invasive alien species impacts might be mediated by environmental factors such as climatic warming. For invasive predators, multiple predator interactions could also exacerbate or dampen ecological impacts. These effects may be especially pronounced in highly diverse coastal ecosystems that are prone to profound and rapid regime shifts. We examine emergent effects of warming on the strength of intraspecific multiple predator effects from a highly successful invasive gammarid Gammarus tigrinus, using a functional response approach towards larval chironomids (feeding rates under different prey densities). Single predator maximum feeding rates were three-times higher at 24 °C compared to 18 °C overall, with potentially prey destabilising type II functional responses exhibited. However, pairs of gammarids exhibited intraspecific multiple predator effects that were in turn mediated by temperature regime, whereby synergisms were found at the lower temperature (i.e. positive non-trophic interactions) and antagonisms detected at the higher temperature (i.e. negative non-trophic interactions) under high prey densities. Accordingly, warming scenarios may worsen the impact of this invasive alien species, yet implications of temperature change are dependent on predator–predator interactions. Emergent effects between abiotic and biotic factors should be considered in ecological impact predictions across habitat types for invasive alien species.

Description: Background Edema is commonly seen after surgical fixation of ankle fractures. Rest, ice, compression, and elevation (RICE) is an established combination to prevent swelling but hardly able to stimulate lymphatic resorption. Recently, an epicutaneously applied negative pressure suction apparatus (LymphaTouch®) has been introduced to stimulate lymphatic flow. While postoperative recovery, soft tissue, and osseous healing as well as functional outcome are probably linked to the amount of postoperative swelling, estimates on this relative to prevention (RICE) or prevention + stimulated resorption (RICE + ) of fluid are scarce. Methods and analysis This is a single-center, evaluator-blinded randomized pilot trial to investigate postoperative swelling in adults requiring surgical fixation of a closed unilateral ankle fracture. A total of 50 patients will be recruited and randomly assigned to RICE or RICE + prior to surgery. All patients will undergo evaluator-blinded measurements of the ankle volume the day before surgery and subsequently from the evening of the 2nd postoperative day every 24 h until discharge. RICE will be initiated right after surgery and continued until discharge from the hospital in all patients. Additional application of negative pressure therapy (RICE + ) will be initiated on the morning of the 2nd postoperative day and repeated every 24 h until the time of discharge from the hospital. Outcome measures are (i) the relative amount and the time course of the postoperative swelling, (ii) the demand for analgesic therapy (type and amount) together with the perception of pain, (iii) the rate of complications, and (iv) mobility of the ankle joint and the recovery of walking abilities during a 12-weeks follow-up period. Serum and urine samples taken prior to sugery and during postoperative recovery will allow to evaluate the ratio of naturally occurring stable calcium isotopes (δ 44/42 Ca) as a marker of skeletal calcium accrual.

Description: The influence of climate change on the ecological impacts of invasive alien species (IAS) remains understudied, with deoxygenation of aquatic environments often-overlooked as a consequence of climate change. Here, we therefore assessed how oxygen saturation affects the ecological impact of a predatory invasive fish, the Ponto-Caspian round goby (Neogobius melanostomus), relative to a co-occurring endangered European native analogue, the bullhead (Cottus gobio) experiencing decline in the presence of the IAS. In individual trials and mesocosms, we assessed the effect of high, medium and low (90%, 60% and 30%) oxygen saturation on: (1) functional responses (FRs) of the IAS and native, i.e. per capita feeding rates; (2) the impact on prey populations exerted; and (3) how combined impacts of both fishes change over invasion stages (Pre-invasion, Arrival, Replacement, Proliferation). Both species showed Type II potentially destabilising FRs, but at low oxygen saturation, the invader had a significantly higher feeding rate than the native. Relative Impact Potential, combining fish per capita effects and population abundances, revealed that low oxygen saturation exacerbates the high relative impact of the invader. The Relative Total Impact Potential (RTIP), modelling both consumer species’ impacts on prey populations in a system, was consistently higher at low oxygen saturation and especially high during invader Proliferation. In the mesocosm experiment, low oxygen lowered RTIP where both species were present, but again the IAS retained high relative impact during Replacement and Proliferation stages at low oxygen. We also found evidence of multiple predator effects, principally antagonism. We highlight the threat posed to native communities by IAS alongside climate-related stressors, but note that solutions may be available to remedy hypoxia and potentially mitigate impacts across invasion stages.

Description: Information on the feeding habits of species is essential to develop appropriate conservation actions. This study aimed to assess spatial and temporal variation in the diet of the Eurasian otter, Lutra lutra in the Anzali Wetland, through fecal and stable isotope analysis. Seven main prey items were observed in the analysis of 300 fresh spraints. The highest feeding index was observed for fish, followed by snakes. Among the fish species consumed, the index of preponderance of Prussian carp (Carassius gibelio) was the highest followed by pike (Esox lucius) and white bream (Blicca bjoerkna). Results of Shannon diversity index suggest spatial variation of species diversity within and between feeding items (p 〈 0.05); snakes, frogs, and oriental river prawn (Macrobrachium nipponense) showed a seasonal variation. The otter’s trophic level (TL) (3.79) was higher than the TLs of other Anzali Wetland predators, such as pike. Bayesian mixing model showed source proportion contributions of fish 49.5%, reptiles 16.7%, insects 14.8%, crustacean 10.5%, amphibians 4.3%, birds 4.1%, and mollusks 0.1%. When considering only fish species in the Bayesian mixing model, Prussian carp was the main fish prey in the otters’ diet accounting for 47%. Based on the results of this study, the Eurasian otter plays an important role in the ecology of the Anzali Wetland ecosystem even though it preys on exotic species, such as the Prussian carp and the oriental river prawn.

Description: Cristamonadea is a large class of parabasalian protists that reside in the hindguts of wood-feeding insects, where they play an essential role in the digestion of lignocellulose. This group of symbionts boasts an impressive array of complex morphological characteristics, many of which have evolved multiple times independently. However, their diversity is understudied and molecular data remain scarce. Here we describe seven new species of cristamonad symbionts from Comatermes, Calcaritermes, and Rugitermes termites from Peru and Ecuador. To classify these new species, we examined cells by light and scanning electron microscopy, sequenced the symbiont small subunit ribosomal RNA (rRNA) genes, and carried out barcoding of the mitochondrial large subunit rRNA gene of the hosts to confirm host identification. Based on these data, five of the symbionts characterized here represent new species within described genera: Devescovina sapara n. sp., Devescovina aymara n. sp., Macrotrichomonas ashaninka n. sp., Macrotrichomonas secoya n. sp., and Macrotrichomonas yanesha n. sp. Additionally, two symbionts with overall morphological characteristics similar to the poorly-studied and probably polyphyletic ‘joeniid’ Parabasalia are classified in a new genus Runanympha n. gen.: Runanympha illapa n. sp., and Runanympha pacha n. sp.

Description: The Laptev Sea and the East Siberian Sea are remote areas of the Arctic region where detailed data on phytoplankton composition and spatial distribution remain limited. In the context of the ongoing environmental changes (increasing warming and ice melting) and prospective exploration activities (oil and gas production) on the Arctic shelves, understanding of the seasonal and interannual phytoplankton community dynamics is of critical importance. Our study provides new specifying data on species composition of phytoplankton over the vast area of the Laptev Sea shelf and the East Siberian Sea shelf. We found that the outer shelf of the Laptev and East Siberian seas was characterized by typical late spring diatom species (Chaetoceros furcellatus, Chaetoceros diadema, Chaetoceros debilis, Chaetoceros constrictus). On the inner shelf of the Laptev Sea, which is strongly affected by the Lena River water masses, the phytoplankton were characterized by the transition from the summer to an autumn stage of development. Local algal assemblages were composed by mixo- and heterotrophic dinoflagellates (Dinophysis and Protoperidinium genera) together with marine and brackish water-marine diatoms (Thalassiosira hyperborea, Thalassiosira baltica, Thalassiosira gravida, Thalassiosira nordenskioeldii) accompanied by sporadically occurring freshwater riverine planktonic diatom species (Aulacoseira granulata, Aulacoseira italica, Asterionella formosa). These variations in species composition over the Laptev Sea shelf were attributed to differences in the hydrography, marine chemical conditions, and the sea-ice regime.

Description: Sponges produce distinct fatty acids (FAs) that (potentially) can be used as chemotaxonomic and ecological biomarkers to study endosymbiont-host interactions and the functional ecology of sponges. Here, we present FA profiles of five common habitat-building deep-sea sponges (class Demospongiae, order Tetractinellida), which are classified as high microbial abundance (HMA) species. Geodia hentscheli, G. parva, G. atlantica, G. barretti, and Stelletta rhaphidiophora were collected from boreal and Arctic sponge grounds in the North-Atlantic Ocean. Bacterial FAs dominated in all five species and particularly isomeric mixtures of mid-chain branched FAs (MBFAs, 8- and 9-Me-C16:0 and 10- and 11-Me-C18:0) were found in high abundance (together ≥ 20% of total FAs) aside more common bacterial markers. In addition, the sponges produced long-chain linear, mid- and a(i)-branched unsaturated FAs (LCFAs) with a chain length of 24‒28 C atoms and had predominantly the typical Δ5,9 unsaturation, although the Δ9,19 and (yet undescribed) Δ11,21 unsaturations were also identified. G. parva and S. rhaphidiophora each produced distinct LCFAs, while G. atlantica, G. barretti, and G. hentscheli produced similar LCFAs, but in different ratios. The different bacterial precursors varied in carbon isotopic composition (δ13C), with MBFAs being more enriched compared to other bacterial (linear and a(i)-branched) FAs. We propose biosynthetic pathways for different LCFAs from their bacterial precursors, that are consistent with small isotopic differences found in LCFAs. Indeed, FA profiles of deep-sea sponges can serve as chemotaxonomic markers and support the concept that sponges acquire building blocks from their endosymbiotic bacteria.

Description: Highlights: Recent genomic data reveal that somatic genetic variation (SoGV) is widespread, but evolutionary consequences of this within-organism level of genetic diversity are largely ignored. In modular plant, animal, and fungal species featuring somatic asexual (=clonal) reproduction and long life spans, the segregation of somatic variation into independent modules (ramets) may create phenotypic diversity subject to selection. Recent genomic data suggest that SoGV can be transferred into gametes in species with late-sequestered, transient germlines (all plants and fungi, some basal animals). Somatic evolution is nested within sexual reproduction and needs to be better integrated into population genetic theory for a large number of species encompassing plants, fungi, and basal animals. Somatic genetic variation (SoGV) may play a consequential yet underappreciated role in long-lived, modular species among plants, animals, and fungi. Recent genomic data identified two levels of genetic heterogeneity, between cell lines and between modules, that are subject to multilevel selection. Because SoGV can transfer into gametes when germlines are sequestered late in ontogeny (plants, algae, and fungi and some basal animals), sexual and asexual processes provide interdependent routes of mutational input and impact the accumulation of genetic load and molecular evolution rates of the integrated asexual/sexual life cycle. Avenues for future research include possible fitness effects of SoGV, the identification and implications of multilevel selection, and modeling of asexual selective sweeps using approaches from tumor evolution

Description: Supratidal sands are vitally important for coastal defence in the German Wadden Sea. They are less affected by human activities than other areas as they are located far off the mainland shore, touristical and commercial activities are generally prohibited. Therefore, supratidal sands are of high ecological interest. Nevertheless, the faunal inventory and distribution pattern of microorganisms on these sands were studied very little. The composition of living and dead foraminiferal assemblages was therefore investigated along a transect from the supratidal sand Japsand up to Hallig Hooge. Both assemblages were dominated by calcareous foraminifera of which Ammonia batava was the most abundant species. Elphidium selseyense and Elphidium williamsoni were also common in the living assemblage, but Elphidium williamsoni was comparably rare in the dead assemblage. The high proportions of Ammonia batava and Elphidium selseyense in the living assemblage arose from the reproduction season that differed between species. While Ammonia batava and Elphidium selseyense just finished their reproductive cycles, Elphidium williamsoni was just about to start. This was also confirmed by the size distribution patterns of the different species. The dead assemblage revealed 20 species that were not found in the living assemblage of which some were reworked from older sediments (e.g., Bucella frigida) and some were transported via tidal currents from other areas in the North Sea (e.g., Jadammina macrescens). The living foraminiferal faunas depicted close linkages between the open North Sea and the mainland. Key species revealing exchange between distant populations were Haynesina germanica, Ammonia batava and different Elphidium species. All these species share an opportunistic behaviour and are able to inhabit a variety of different environments; hence, they well may cope with changing environmental conditions. The benthic foraminiferal association from Japsand revealed that transport mechanisms via tides and currents play a major ecological role and strongly influence the faunal composition at this site.

Description: Nutrient depletion in the ecosystem mainly occurred via the base cations leach from the ecosystems. Isotope technology can provide new information on the nutrients’ behavior (cycle) in ecosystems. To better understand the strontium (Sr) biogeochemical cycle in the forest, radiogenic and stable Sr isotopes were determined in various environmental samples (rainwater, groundwater, calcareous soil, vegetation, and bedrocks) collected from a karst forest ecosystem, Southwest China. The Sr supplies are supported via the deposition of atmospheric materials and the weathering of carbonate rock in this area. These supplied sources observably influence the Sr isotope compositions (both stable and radiogenic isotope). Across the ecosystem, the varied ranges of 87Sr/86Sr ratios increased in the order: bedrock (0.708) ~ groundwater (0.708–0.709) ~ rainwater (0.709–0.711) ~ vegetation (0.709–0.710) 〈 surface calcareous soil (0.713–0.719) 〈 deep calcareous soil (0.714–0.724). Both rainwater and groundwater present similar 87Sr/86Sr ratios to the water-draining carbonate-dominated terrain. The 87Sr/86Sr ratios of vegetation are similar to that of rainwater but slightly heavier than groundwater. In contrast, the varied ranges of δ88/86Sr values followed a sequence of rainwater (0.08–0.21‰) 〈 groundwater (0.11–0.27‰) 〈 deep calcareous soil (0.02–0.29‰) 〈 tree leaves (0.12–0.17‰) 〈 surface calcareous soil (0.14–0.29‰) 〈 bedrock (0.40‰) 〈 shrub leaves (0.50‰). The δ88/86Sr values of tree leaves are between surface calcareous soil and deep calcareous soil, and the δ88/86Sr values of shrub leaves are higher than all of the compartments in the forest ecosystem, which indicated vegetation uptake might control the stable strontium fractionation. In combination with the radiogenic and stable Sr isotopes, our investigation presents that the 87Sr/86Sr provides sources’ information, whereas the δ88/86Sr records biogeochemical cycle information.

Description: This work introduces Waterburya agarophytonicola Bonthond and Shalygin gen. nov., sp. nov, a baeocyte producing cyanobacterium that was isolated from the rhodophyte Agarophyton vermiculophyllum (Ohmi) Gurgel et al., an invasive seaweed that has spread across the northern hemisphere. The new species genome reveals a diverse repertoire of chemotaxis and adhesion related genes, including genes coding for type IV pili assembly proteins and a high number of genes coding for filamentous hemagglutinin family (FHA) proteins. Among a genetic basis for the synthesis of siderophores, carotenoids and numerous vitamins, W. agarophytonicola is potentially capable of producing cobalamin (vitamin B-12), for which A. vermiculophyllum is an auxotroph. With a taxonomic description of the genus and species and a draft genome, this study provides as a basis for future research, to uncover the nature of this geographically independent association between seaweed and cyanobiont.

Description: We review the literature on the relationship between water temperature and size of freshwater phytoplankton, to examine the hypothesis that freshwater phytoplankton, like marine phytoplankton and many other groups of organisms, conform to Bergmann's Rule and become smaller with warming. We provide both experimental and field evidence in support of the above hypothesis, much of this evidence was hidden in studies focused on other issues, but presenting temperature and phytoplankton size data. Freshwater phytoplankton size shrinks with increasing temperature at both the species level (by cells or colonies becoming smaller) and at the community level (shift to smaller species). Exceptions to the Rule do occur but in most cases those exceptions can be explained by indirect effects of temperature on phytoplankton size, via processes such as grazing or nutrient availability. With global warming, freshwater phytoplankton are likely to be of smaller size. This article is dedicated to Colin S. Reynolds, who has had a leading role in our personal education and understanding of phytoplankton ecology.

Description: In aquatic systems, invasive submerged macrophytes considerably alter the structure and functioning of communities, thus potentially compromising ecosystem services. The prolific spread of invasive macrophytes is often aided by vegetative fragment propagation, yet the contributions of various commonly occurring invertebrates to such fragmentation are often unquantified. In the present study, we examine fragmentary spread of invasive macrophytes by a group of shredder-herbivores, larval caddisflies. Through novel application of the comparative functional response (FR; resource use as a function of density) approach to the native case-building species Limnephilus lunatus, we compared utilisation of non-native waterweeds Elodea canadensis and E. nuttallii in mono- and polycultures. Furthermore, we quantified de-cased and cased caddisfly-induced fragment production and length changes among non-native E. canadensis, E. nuttallii, Crassula helmsii and Lagarosiphon major under two different plant orientations: horizontal (floating) versus vertical (upright) growth forms. Larval caddisflies exhibited Type II (hyperbolic) FRs towards both Elodea species, and utilised each plant at similar rates when plants were provided separately. When plant species were presented in combination horizontally, E. canadensis was significantly less utilised compared to E. nuttallii, corroborating observations in the field. De-cased larvae produced new plant fragments for all four aquatic macrophytes, whereas cased larvae fragmented plants significantly less. Elodea nuttalii and C. helmsii were fragmented the most overall. Crassula helmsii was utilised to the greatest extent when plants were horizontally orientated, and Elodea species when vertically orientated. This study identifies and quantifies a mechanism from a novel species group that may contribute to the spread of invasive macrophytes in aquatic systems. Whilst exploititative interactions are thought to impede invasion success, here we demonstrate how resource utilisation by a resident species may exacerbate propagule pressure from an invasive species.

Description: The Osborn Plateau is a large intraplate elevation in the eastern Indian Ocean, which has been poorly studied by geological and geophysical methods. On cruise SO258/1 aboard the R/V Sonne, new data were collected by Parasound seismic processing, multibeam survey, and, for the first time, dredging. Faults in the sedimentary cover, which extend to the seafloor surface, indicate high neotectonic activity in the area of the Osborn Plateau. It may have continued up to the present, as well as in the adjacent segment of the Ninetyeast Ridge, where strong earthquakes are recorded. Two reflectors A and C in the upper part of the sedimentary cover mark global regressive changes in the World Ocean level at the Pliocene–Pleistocene and Miocene–Pliocene and boundaries. Reflector B in sediments at the Lower–Upper Pliocene boundary is associated with a change in the regional hydrodynamic regime at the time in the eastern Indian Ocean. Reflector B at the Lower–Upper Pliocene boundary is associated with a change in the local hydrodynamic regime in the region of the plateau and was caused by uncompensated sedimentation. As a result of dredging, strongly altered vitroclastic tuffs were obtained, consisting of palagonized ash particles and lapilli. Analysis of geochemical data on the composition of palagonite made it possible to reconstruct the main geochemical features of the primary composition of glass in tuffs, in particular, high enrichment in incompatible elements (Nb, Zr, Ti, La, etc.). The results of studying the dredged rocks suggest that tuffs dredged on the Osborn Plateau were formed as a result of explosive volcanic eruptions of alkaline basalts under subaerial or relatively shallow conditions and represent the latest eruption products in the region.

Description: In a conserved culture of the purple sulfur bacterium Thiospirillum jenense DSM216T, cells of this species were easily recognized by cell morphology, large-size spirilla and visible flagellar tuft. The Tsp. jenense genome is 3.22 Mb in size and has a GC content of 48.7 mol%. It was readily identified as a member of the Chromatiaceae by the complement of proteins in its genome. A whole genome comparison clearly placed Tsp. jenense near Thiorhodovibrio and Rhabdochromatium species and somewhat more distant from Thiohalocapsa and Halochromatium species. This relationship was also found with the sequences of the photosynthetic reaction center protein PufM. The genome sequence supported important properties of this bacterium: the presence of ribulose-bisphosphate carboxylase and enzymes of the Calvin cycle of autotrophic carbon dioxide fixation but the absence of carboxysomes, an incomplete tricarboxylic acid cycle and the lack of malate dehydrogenase, the presence of a sulfur oxidation pathway including adenylylsulfate reductase (aprAB) but absence of assimilatory sulfate reduction, the presence of hydrogenase (hoxHMFYUFE), nitrogenase and a photosynthetic gene cluster (pufBALMC). The FixNOP type of cytochrome oxidase was notably lacking, which may be the reason that renders the cells highly sensitive to oxygen. Two minor phototrophic contaminants were found using metagenomic binning: one was identified as a strain of Rhodopseudomonas palustris and the second one has an average nucleotide identity of 82% to the nearest neighbor Rhodoferax antarcticus. It should be considered as a new species of this genus and Rhodoferax jenense is proposed as the name.

Description: For many coastal areas including the Baltic Sea, ambitious nutrient abatement goals have been set to curb eutrophication, but benefits of such measures were normally not studied in light of anticipated climate change. To project the likely responses of nutrient abatement on eelgrass (Zostera marina), we coupled a species distribution model with a biogeochemical model, obtaining future water turbidity, and a wave model for predicting the future hydrodynamics in the coastal area. Using this, eelgrass distribution was modeled for different combinations of nutrient scenarios and future wind fields. We are the first to demonstrate that while under a business as usual scenario overall eelgrass area will not recover, nutrient reductions that fulfill the Helsinki Commission’s Baltic Sea Action Plan (BSAP) are likely to lead to a substantial areal expansion of eelgrass coverage, primarily at the current distribution’s lower depth limits, thereby overcompensating losses in shallow areas caused by a stormier climate.

Description: Predicting the ecological impacts of invasive species is impeded by context-dependencies that can mediate the strength of trophic interactions. Reproductive status is a pervasive context across trophic and taxonomic groups, yet has mostly been neglected in studies of invader impact. The present study examines the influence of the reproductive cycle on predatory impacts of a known damaging invasive freshwater crustacean, Gammarus pulex (Amphipoda), using a comparative functional response approach. Across females that were non-ovigerous, or had immature- or mature-stage embryonic broods, all G. pulex exhibited potentially prey destabilising Type II functional responses towards chironomid larvae. Attack rates were highest by immature embryonic brood stages, and significantly lower by mature embryonic brood stages. Conversely, handling times were consistently lower, and hence maximum feeding rates higher, where broods were present as compared to absent. These predatory patterns may reflect changing resource demands for progeny development across the reproductive cycle, the influence of brood bulk, female moult stage and/or motivational aspects of feeding, such as avoidance of filial cannibalism. Accordingly, many aspects of reproduction may alter the intensity of predatory impacts by invasive species. Future studies considering invader impacts should consider the influence of sex and reproductive status to more holistically quantify and predict population-level invader impacts.

Description: Species invasions often occur on coasts and estuaries where abiotic conditions vary, e.g. salinity, temperature, runoff etc. Successful establishment and dispersal of non-indigenous species in many such systems are poorly understood, partially since the species tend to show genetic and ecological plasticity at population level towards many abiotic conditions, including salinity tolerance. Plasticity may be driven by shifting expression of heat shock proteins such as Hsp70, which is widely recognized as indicator of physical stress. In this study, we developed a qPCR assay for expression of the hsp70 gene in the invasive round goby (Neogobius melanostomus) and tested the expression response of fish collected from a brackish environment in the western Baltic Sea to three different salinities, 0, 10 and 30. hsp70 expression was highest in fresh water, indicating higher stress, and lower at brackish (ambient condition for the sampled population) and oceanic salinities, suggestive of low stress response to salinities above the population’s current distribution. The highest stress in fresh water was surprising since populations in fresh water exist, e.g. large European rivers and Laurentian Great Lakes. The results have implications to predictions for the species’ plasticity potential and possible range expansion of the species into other salinity regimes.

Description: Understanding mechanisms of tropical Pacific decadal variability (TPDV) is of high importance for differentiating between natural climate variability and human induced climate change as this region sustains strong global teleconnections. Here, we use an ocean general circulation model along with a Lagrangian tracer simulator to investigate the advection of density compensated temperature anomalies (“spiciness mechanism”) as a potential contributor to TPDV during the 1980–2016 period. Consistent with observations, we find the primary regions of spiciness generation in the eastern subtropics of each hemisphere. Our results indicate that 75% of the equatorial subsurface water originates in the subtropics, of which two thirds come from the Southern hemisphere. We further show two prominent cases where remotely generated spiciness anomalies are advected to the equatorial Pacific, impacting subsurface temperature. The relative contribution of Northern versus Southern Hemisphere prominence and/or interior versus western boundary pathways depends on the specific event. The anomalously warm case largely results from advection via the Southern hemisphere interior (65%), while the anomalously cold case largely results from advection via the Northern hemisphere western boundary (48%). The relatively slow travel times from the subtropics to the equator (〉 4 years) suggests that these spiciness anomalies underpin a potentially predictable contribution to TPDV. However, not all decadal peaks in equatorial spiciness can be explained by remotely generated spiciness anomalies. In those cases, we propose that spiciness anomalies are generated in the equatorial zone through changes in the proportion of Northern/Southern hemisphere source waters due to their different mean spiciness distribution.

Description: Numerical models have become indispensable tools for investigating submarine hydrothermal systems and for relating seafloor observations to physicochemical processes at depth. Particularly useful are multiphase models that account for phase separation phenomena, so that model predictions can be compared to observed variations in vent fluid salinity. Yet, the numerics of multiphase flow remain a challenge. Here we present a novel hydrothermal flow model for the system H 2 O–NaCl able to resolve multiphase flow over the full range of pressure, temperature, and salinity variations that are relevant to submarine hydrothermal systems. The method is based on a 2-D finite volume scheme that uses a Newton–Raphson algorithm to couple the governing conservation equations and to treat the non-linearity of the fluid properties. The method uses pressure, specific fluid enthalpy, and bulk fluid salt content as primary variables, is not bounded to the Courant time step size, and allows for a direct control of how accurately mass and energy conservation is ensured. In a first application of this new model, we investigate brine formation and mobilization in hydrothermal systems driven by a transient basal temperature boundary condition—analogue to seawater circulation systems found at mid-ocean ridges. We find that basal heating results in the rapid formation of a stable brine layer that thermally insulates the driving heat source. While this brine layer is stable under steady-state conditions, it can be mobilized as a consequence of variations in heat input leading to brine entrainment and the venting of highly saline fluids.

Description: The growth of El Niño/Southern Oscillation (ENSO) events is determined by the balance between ocean dynamics and thermodynamics. Here we quantify the contribution of the thermodynamic feedbacks to the sea surface temperature (SST) change during ENSO growth phase by integrating the atmospheric heat fluxes over the temporarily and spatially varying mixed layer to derive an offline “slab ocean” SST. The SST change due to ocean dynamics is estimated as the residual with respect to the total SST change. In observations, 1 K SST change in the Niño3.4 region is composed of an ocean dynamical SST forcing of + 2.6 K and a thermodynamic damping of − 1.6 K, the latter mainly by the shortwave-SST (− 0.9 K) and latent heat flux-SST feedback (− 0.7 K). Most climate models from the Coupled Model Intercomparison Project phase 5 (CMIP5) underestimate the SST change due to both ocean dynamics and net surface heat fluxes, revealing an error compensation between a too weak forcing by ocean dynamics and a too weak damping by atmospheric heat fluxes. In half of the CMIP5 models investigated in this study, the shortwave-SST feedback erroneously acts as an amplifying feedback over the eastern equatorial Pacific, resulting in a hybrid of ocean-driven and shortwave-driven ENSO dynamics. Further, the phase locking and asymmetry of ENSO is investigated in the CMIP5 model ensemble. The climate models with stronger atmospheric feedbacks tend to simulate a more realistic seasonality and asymmetry of the heat flux feedbacks, and they exhibit more realistic phase locking and asymmetry of ENSO. Moreover, the almost linear latent heat flux feedback contributes to ENSO asymmetry in the far eastern equatorial Pacific through an asymmetry in the mixed layer depth. This study suggests that the dynamic and thermodynamic ENSO feedbacks and their seasonality and asymmetries are important metrics to consider for improving ENSO representation in climate models.

Description: In the Comechingones pegmatitic field, central Argentina, leucogranite and pegmatite bodies crop out in a relatively narrow (25 × 10 km) belt, and were emplaced synkinematically with the main deformational event of the crustal-scale Guacha Corral shear zone during the Early Ordovician (~ 475 Ma). These leucogranites and pegmatites are geochemically evolved rocks with high silica and alkalis, low Fe2O3, MgO, TiO2 and CaO, and high ASI values. The leucogranites display quite variable Sr and Nd isotope compositions (initial 87Sr/86Sr ratios from 0.7048 to 0.7170, and εNd values from + 2.0 to − 3.1), some of which do not overlap with almost any other pre-Famatinian rock from the Sierras de Córdoba. The major and trace element geochemistry and the particular Sr and Nd isotope compositions of the leucogranites are here explained by the following processes: (1) water-fluxed partial melting of amphibolites at relatively low P–T conditions generating currently unexposed granodioritic melts with unradiogenic 87Sr/86Sr ratios and radiogenic εNd values; (2) fractionation of mostly plagioclase and monazite leading to compositions close to the leucogranite melts; and (3) assimilation of metasedimentary rocks with crustal isotopic signatures, modelled by assimilation and fractional crystallization processes. The major, trace and isotope compositions of the pegmatites suggest a derivation from partial melting of the same metasedimentary protoliths of the Sierras de Córdoba that were assimilated by leucogranite melts. We propose a feedback relationship among deformation, anatexis, magma evolution and mass transfer in the context of such a crustal-scale shear zone in the foreland of the Famatinian orogen.

Description: Ocean warming is affecting marine ectothermic herbivores as well as the macroalgal species they consume and this has the potential to alter their trophic interaction. However, it is currently still unknown how these two important components of benthic food webs will react to a warming environment. Consumption rates of grazers change with increasing temperatures, but it is unclear whether this is also true for feeding preferences. In this study, multiple-choice feeding assays with the tropical abalone Haliotis squamata from Western Indonesia were conducted in August 2018. After brief acclimation of either the grazer or the macroalgae to moderately elevated water temperatures (maximum 2 °C above the long-term average) in the laboratory, three species of living macroalgae were simultaneously offered to the abalone in feeding assays. Consumption rates of H. squamata were lower under elevated water temperatures, while its feeding preference switched: At 27 °C (2 °C below long-term average), abalone preferred non-acclimated Gracilaria salicornia, but switched to non-acclimated Amphiroa spp. at 31 °C. Interestingly, no such switch in preference occurred when the macroalgae, but not the grazers were acclimated. This indicates that the grazer will presumably be the driver of this potential change in interactions between H. squamata and its macroalgal food. Ocean warming may result in changes in the structure of benthic communities, mediated by changes in the feeding behaviour of herbivorous invertebrates.

Description: In 2019 the RV Meteor cruised from Guadalupe in April/May to Cape Verde in June/July and to Namibia in August/September. The distance is about 10,000 km. The ship has a moon pool for installation of instruments. In Cape Verde we had a first glimpse of the already sparsely populated moon pool. We reached Namibian waters in mid-August. In mid-September, 47 days later and 6000 km south, the ship's moon pool was sampled in the port of Walvis Bay. 13 different taxa could be identified belonging to two phyla, four classes, six orders and 10 families. Most of these species have not yet been observed in the port or in the adjacent areas and are new records for the entire Namibian coast. The goose barnacles Conchoderma auritum (Linnaeus, 1767), Conchoderma virgatum Spengler, 1789 and Lepas anatifera Linnaeus, 1758 were particularly noticeable. They were only surpassed by the large number of amphipods. The species Ericthonius brasiliensis (Dana, 1853), Jassa marmorata Holmes, 1905, Stenothoe senegalensis Krapp-Schickel, 2015 and Paracaprella pusilla Mayer, 1890 are particularly noteworthy here. In addition, the pycnogonid species Endeis straughani Clark, 1970 and the titan acorn barnacle Megabalanus coccopoma (Darwin, 1854) should be mentioned, which occurred very frequently as well. The present study shows, on the one hand, an example of the transatlantic spread of bioinvasive species by ships as vectors and, on the other hand, a convenient method for sampling ship hulls.

Description: The extensive use of silver nanoparticles (AgNPs) in consumer products, medicine, and industry leads to their release into the environment. Thus, a characterization of the concentration, size, fate, and toxicity of AgNPs under environmental conditions is required. In this study, we present the characterization and optimization of an asymmetric flow field-flow fractionation (AF4) system coupled with UV/Vis spectrophotometer and dynamic light scattering (DLS) detector as a powerful tool for the size separation and multi-parameter characterization of AgNPs in complex matrices. The hyphenated AF4-UV/Vis-DLS system was first characterized using individual injections of the different size fractions. We used electrostatically stabilized AgNPs of 20-, 50-, and 80-nm nominal diameters coated with lipoic acid. We investigated the effect of applied cross-flows, carrier solutions, focus times, and quantity of injected particles on the nature of the AF4 fractograms and on the integrity of the AgNPs. Best size separation of a 1:1 mixture of 20- and 80-nm AgNPs was achieved using cross-flows of 0.5 and 0.7 mL/min with 1 mM NaCl and 0.05% v/v Mucasol as carrier solutions. We also researched the behavior of AgNPs in natural waters using the hyphenated AF4-UV/Vis-DLS system, under determined optimal conditions.

Description: This encyclopedia is a reference for aquatic physical, biological and biogeochemical sciences, collecting and connecting a number of topics, concepts and facts about aquatic systems and their scientific investigation. The scope of the book comprises the aquatic physiosphere-biosphere transition zone, an entity that encompasses both inanimate matter and collectives (the physiosphere) as well as living organisms and collectives (the biosphere). This combined approach is meaningful because both realms are intimately linked and because available methods of investigation are often similar. Much can be gained from considering both spheres at and across their interface jointly, and while there is a strong focus on marine systems, most concepts presented are also applicable to freshwater systems. This presented snapshot of knowledge of the transition zone between the aquatic physiosphere and biosphere is taken from a very specific angle: the point of view of a modeler. Modeling is not only a state-of-the-art mode of scientific investigation, but also requires the explicit specification of all assumptions (helping to avoid fallacies), and offers the advantage of being quantitative and allows for theoretical "what if" scenarios. As in any reference work, equal emphasis is given to fundamental facts, the definition of terms and the explanation of concepts, in an attempt to establish a joint language for physicists, biologists and biogeochemists. Although originating from a modeler's approach to nature, the resulting suite of compatible concepts may also be useful beyond modeling purposes. Furthermore, the material is presented in a condensed, straightforward way. Hence, the length of each entry is limited to one (occasionally two) pages, thus offering a quick introductory overview. This excludes lengthy derivations and very specialized details. The book is geared towards researchers, teachers and advanced students in the field of aquatic (marine and limnic) sciences, in particular those interested or involved in interdisciplinary work.

Description: There is a long-standing debate on how the El Niño/Southern Oscillation (ENSO) amplitude may change during the twenty-first century in response to global warming. Here we identify the sources of uncertainty in the ENSO amplitude projections in models participating in the Coupled Model Intercomparison Phase 5 (CMIP5) and Phase 6 (CMIP6), and quantify scenario uncertainty, model uncertainty and uncertainty due to internal variability. The model projections exhibit a large spread, ranging from increasing standard deviation of up to 0.6 °C to diminishing standard deviation of up to − 0.4 °C by the end of the twenty-first century. The ensemble-mean ENSO amplitude change is close to zero. Internal variability is the main contributor to the uncertainty during the first three decades; model uncertainty dominates thereafter, while scenario uncertainty is relatively small throughout the twenty-first century. The total uncertainty increases from CMIP5 to CMIP6: while model uncertainty is reduced, scenario uncertainty is considerably increased. The models with “realistic” ENSO dynamics have been analyzed separately and categorized into models with too small, moderate and too large ENSO amplitude in comparison to instrumental observations. The smallest uncertainties are observed in the sub-ensemble exhibiting realistic ENSO dynamics and moderate ENSO amplitude. However, the global warming signal in ENSO-amplitude change is undetectable in all sub-ensembles. The zonal wind-SST feedback is identified as an important factor determining ENSO amplitude change: global warming signal in ENSO amplitude and zonal wind-SST feedback strength are highly correlated across the CMIP5 and CMIP6 models.

Description: Biodiversity is declining on a global scale and the spread of invasive alien species (IAS) is a major driver, particularly through predatory impacts. Thus, effective means of assessing and predicting the consequences of IAS predation on native prey population stability remains a vital goal for conservation. Here, we applied two classic ecological concepts, consumer functional response (FR) and prey switching, to predict and understand the ecological impacts of juveniles of the lionfish (Pterois volitans), a notorious and widespread marine invader. Functional responses and prey switching propensities were quantified towards three representative prey species: Artemia salina, Palaemonetes varians, and Gammarus oceanicus. Lionfish exhibited potentially destabilising Type II FRs towards individual prey species, owing to high consumption rates at low prey densities, whilst FR magnitudes differed among prey species. Functional response attack rates (a) were highest, and handling times (h) lowest, towards A. salina, followed by P. varians and then G. oceanicus. Maximum feeding rates (1/h) and functional response ratios (FRR; a/h) also followed this impact gradient for the three prey species. Lionfish, however, displayed a potentially population stabilising prey switching propensity (i.e. frequency-dependent predation) when multiple prey species were presented simultaneously, where disproportionately less of rare prey, and more of abundant prey, were consumed. Whilst FR and FRR magnitudes indicate marked per capita lionfish predatory impacts towards prey species, a strong prey switching propensity may reduce in-field impacts by offering low density prey refuge in biodiverse communities. Our results thus corroborate field patterns documenting variable impacts of lionfish, with prey extirpations less likely in diverse communities owing to frequency-dependent predation.

Description: Global freshwaters are increasingly threatened by pollutants emanating from human activities around watersheds. Microplastic pollution is an increasing problem for rivers worldwide, potentially threatening ecological integrity, ecosystem services and human health. We present quantifications and characterisations of sediment microplastic pollution in a subtropical river system in southern Africa, and relate distributions to wastewater treatment works, abiotic variables and urban environments. We additionally apply several diversity indices to decipher how microplastic types differ across the river system seasonally. Over two thousand microplastic particles were found across five sites and three seasons in the river system, comprising microbeads of various colours and microfibres. Microplastic concentrations were highest and most diverse in the hot–wet (mean range 76.0 ± 10.0–285.5 ± 44.5 microplastic kg−1) season as compared to the cool–dry (16.5 ± 4.5–27.0 ± 5.0 microplastic kg−1) and hot–dry (13.0 ± 4.0–29.0 ± 10.0 microplastic kg−1) seasons, and were mostly dominated by microfibres. However, no clear patterns were found in relation to wastewater treatment operations spatially, or in relation to abiotic variables in the river system. This study therefore finds a diverse range of microplastic types widely distributed in the river system that differ across seasons. Our results provide important, novel insights into plastic pollution in an understudied area of the Global South, and point to extensive pollution from sources outside of wastewater treatment works.

Description: A novel Actinobacterium strain YIM 131861 T, was isolated from lichen collected from the South Bank Forest of the Baltic Sea, Germany. It was Gram-stain-positive, strictly aerobic, catalase positive and oxidase negative, yellow pigmented. Cells were motile with a polar flagellum, irregular rod shaped and did not display spore formation. The strain grew at 15 − 30 °C (optimum 25 °C), at pH 6.0 − 10.0 (optimum pH 7.0) and in the presence of 0 − 1.5% (w/v) NaCl (optimum 1%). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 131861 T belonged to the genus Glaciibacter, and exhibited a high sequence similarity (96.4%) with Glaciibacter superstes NBRC 104264 T. The genomic DNA G + C content of strain YIM 131861 T was 68.2 mol%. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between strain YIM 131861 T and Glaciibacter superstes NBRC 104264 T were 73.2 and 19.9% based on the draft genome sequence. The cell-wall peptidoglycan type was B2γ and contained the 2, 4-diaminobutyric acid as the diagnostic amino acid. Whole cell sugars were galactose, rhamnose, ribose and glucose. It contained MK-12 and MK-13 as the predominant menaquinones. The major cellular fatty acids (〉 10%) were identified as anteiso-C15:0, iso-C16:0 and anteiso-C17:0. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol and two unknown glycolipids. Based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, strain YIM 131861 T should belong to the genus Glaciibacter and represents a novel species of the genus Glaciibacter, for which the name Glaciibacter flavus sp. nov. is proposed. The type strain is YIM 131861 T (= CGMCC 1.16588 T = NBRC 113572 T).

Description: The late-tectonic 511.4 ± 0.6 Ma-old Nomatsaus intrusion (Donkerhoek batholith, Damara orogen, Namibia) consists of moderately peraluminous, magnesian, calc-alkalic to calcic granites similar to I-type granites worldwide. Major and trace-element variations and LREE and HREE concentrations in evolved rocks imply that the fractionated mineral assemblage includes biotite, Fe–Ti oxides, zircon, plagioclase and monazite. Increasing K2O abundance with increasing SiO2 suggests accumulation of K-feldspar; compatible with a small positive Eu anomaly in the most evolved rocks. In comparison with experimental data, the Nomatsaus granite was likely generated from meta-igneous sources of possibly dacitic composition that melted under water-undersaturated conditions (X H2O: 0.25–0.50) and at temperatures between 800 and 850 °C, compatible with the zircon and monazite saturation temperatures of 812 and 852 °C, respectively. The Nomatsaus granite has moderately radiogenic initial 87Sr/86Sr ratios (0.7067–0.7082), relatively radiogenic initial εNd values (− 2.9 to − 4.8) and moderately evolved Pb isotope ratios. Although initial Sr and Nd isotopic compositions of the granite do not vary with SiO2 or MgO contents, fSm/Nd and initial εNd values are negatively correlated indicating limited assimilation of crustal components during monazite-dominated fractional crystallization. The preferred petrogenetic model for the generation of the Nomatsaus granite involves a continent–continent collisional setting with stacking of crustal slices that in combination with high radioactive heat production rates heated the thickened crust, leading to the medium-P/high-T environment characteristic of the southern Central Zone of the Damara orogen. Such a setting promoted partial melting of metasedimentary sources during the initial stages of crustal heating, followed by the partial melting of meta-igneous rocks at mid-crustal levels at higher P–T conditions and relatively late in the orogenic evolution.

Description: Seagrasses, a polyphyletic group of about 60 marine angiosperm species, are the foundation of diverse and functionally important marine habitats along sheltered sedimentary coasts. As a novel ecological function with high societal relevance, a role of the seagrass leaf canopy for reducing potentially harmful bacteria has recently been hypothesized in tropical regions, but data for temperate regions are lacking. Here, we tested whether or not the abundance of general bacteria and more specifically, those belonging to the genus Vibrio were reduced within temperate Zostera marina (eelgrass) meadows compared to adjacent sand flats and sampled 5 sites in the south-western Baltic Sea using SCUBA. Compared to non-vegetated area, we found an average reduction of 39% for all Vibrio and 63% for the potentially harmful V. vulnificus/cholerae subtype based on robust plate counting data on Vibrio selective agar. The underlying mechanism of the reduction in bacterial load is currently elusive and clearly merits further study. Our results underline the critical importance of seagrasses in maintaining shallow water ecosystem functioning including water quality and provide further motivation for their protection and restoration.

Description: The Sea of Marmara has been the focus of numerous marine geophysical studies during the last couple of decades. Determination of the interseismic slip distribution along the Main Marmara Fault (MMF) has observational difficulties due to the fact that the fault is under the sea. In addition to the onshore geodetic studies, two underwater geodetic studies were carried out recently and brought new clues about locked/creeping status of two different fault segments. In this study, we investigate the interseismic deformation of the Marmara region from a kinematic perspective using both block and continuum kinematic models. Block model inversion yields relative motion along the block boundaries as well as the distribution of slip deficit on the faults bounding the blocks. Calculated long term slip rates are 19–20 mm/yr for the MMF and 3–4 mm/yr for the Southern branch of the North Anatolian Fault (SNAF). In order to determine the sensitivity of the slip deficit solution to arbitrary spatial discretizations, we perform a series of checkerboard tests and optimize node distribution on the MMF accordingly. We also explore the sensitivity of inversion results on the MMF to assumptions regarding SNAF long term slip and interseismic locking. This study shows that the underwater geodetic data can be combined with the GPS data in a joint inversion, bringing a better constrained slip deficit distribution on the MMF. MMF has aseismic creep in the west of the Marmara Sea, with creep rates approaching long term slip rates in the Central Basin. On the other hand, the fault appears locked from ∼28.2°E eastward. In the best fitting model, the fault segment across Silivri is locked down to ∼10 km. The existence of a hazardous seismic gap in the Sea of Marmara, potentially yielding a magnitude 7.5 earthquake, is thus confirmed. The continuum approach is used to calculate strain rate fields from GPS data alone, from the output (slip rates and block average strain rates) of the best-fitting block model, and from the GPS residuals of this model. Our continuum models show that most of the accumulated strain in the Marmara region is indeed focused around the MMF, but also that strain distributed within the blocks cannot be neglected. On the other hand, the SNAF system differs from the MMF in that it appears as a 50 km wide zone of deformation with a patchy distribution of strain reflecting the activity of individual faults.

Description: Suppression of established populations of invasive alien species can be a complex and expensive process, which is frequently unsuccessful. The Asian clam, Corbicula fluminea (Müller, 1774), is considered a high impact invader that can adversely alter freshwater ecosystems and decrease their socioeconomic value. To date, C. fluminea continues to spread and persist within freshwater environments worldwide, despite repeated management attempts to prevent dispersal and suppress established populations. As extensive C. fluminea beds can often become exposed during low-water conditions, the direct application of hot or cold thermal shock treatments has been proposed as suitable mechanism for their control. Further, mechanical substrate disturbance may enhance the efficacy of thermal shock treatments by facilitating exposures to multiple layers of buried clams. In the present study, we advanced these methods by assessing combined applications of both hot and cold thermal shock treatments for control of C. fluminea, using steam spray (≥100 °C; 350 kPa), low- or high-intensity open-flame burns (~1000 °C) and dry ice (−78 °C). In a direct comparison of raking combined with hot thermal shock applications, both steam and high-intensity open-flame treatments tended to be most effective, especially following multiple applications. In addition, when hot thermal treatments are followed by a final cold shock (i.e. dry ice), steam treatments tended to be most effective. Further, when dry ice was applied either alone or prior to an application of a hot shock treatment, substantial if not complete C. fluminea mortality was observed. Overall, this study demonstrated that combined applications of hot and cold thermal shock treatments, applied following the disruption of the substrate, can substantially increase C. fluminea mortality compared to separate hot or cold treatments.

Description: The tropical Atlantic upper-ocean circulation experiences multiannual to decadal changes associated with different climate modes and is simultaneously adjusting to climate warming. The most energetic current in the tropical Atlantic is the Equatorial Undercurrent (EUC), which flows eastwards along the Equator. On the basis of long-term moored observations, we show that the EUC strengthened by more than 20% from 2008 to 2018. The intensification of the EUC is associated with increasing subsurface oxygen concentrations and a thickening of the upper-ocean oxygenated layer in the equatorial Atlantic. These changes counteract climate-warming-induced deoxygenation in the region. The EUC strengthening is found to be mainly forced by trade wind changes in the western tropical North Atlantic. A 60-yr dataset reveals that the recent oxygen increase in the upper equatorial Atlantic is associated with multidecadal variability. This variability is characterized by low oxygen concentrations in the 1990s and early 2000s, and high oxygen concentrations in the 1960s and 1970s. The observed oxygen variability seems to be linked to a compression and expansion of the habitat of tropical pelagic fish, and must be accounted for when evaluating the possible consequences of deoxygenation for marine ecosystems and fisheries.

Description: We assessed the abundance of microplastics (0.2–5 mm) in drift line sediments from three sites in Kiel Fjord, Western Baltic Sea. The first site is intensively used by beach visitors, the second is in close proximity to a sewage plant and the third is polluted with large-sized plastic litter. Samples were split into three grain size classes (0.2–0.5, 0.5–1, 1–5 mm), washed with calcium chloride solution, and filtered at 0.2 mm. Filters were then visually inspected, and a total of 180 fragments was classified as microplastics, of which 39% were analyzed using Raman spectroscopy. At the site that is close to a sewage plant as well as at the site with intense beach use, 1.8 and 4.5 particles (fibers plus fragments) per kg of dry sediment were found, respectively, while particle abundances reached 30.2 per kg of dry sediment at the site with high litter loads. Our data suggest that the fragmentation of large plastic debris at site seems to be a relevant source for microplastics in Western Baltic Sea beach sediments.

Description: Biological invasions via translocations are a textbook case of globalization’s impact on species distributions. Human-mediated transport helps species to overcome natural spatial boundaries and establish populations, often from a small number of individuals, in ecosystems previously unreachable through natural range expansion. The result is a discontinuous species distribution, with connectivity between the native and non-native range dependent on the recurrence of human-mediated species movement. The genetic diversity of introduced individuals represents a random fraction of the original diversity in the native range, but because connectivity is lost, non-native populations are bound to evolve independently. As a result, translocations can reshuffle genetic diversity in non-native populations, and thus, differentiation patterns arising after introduction may constitute the first step of novel evolutionary trajectories. By performing a meta-analysis on 5516 mitochondrial sequences of 20 different species, we explored whether life- and evolutionary history could explain differentiation among non-native populations of recently translocated organisms. We observed a general pattern consisting of reduced differentiation among non-native populations whose introduction derived from a single and intentional translocation, suggesting that these human actions play a role in reshaping genetic variance in non-native ranges. Additionally, we found geographic distance to be a poor predictor of population differentiation on the non-native range when compared to averaged evolutionary distances—the opposite being true for the native range—reinforcing connectivity break imposed by translocation events. Understanding the factors driving the distribution of genetic diversity upon translocations might not only facilitate the development of plans to mitigate the dispersal of invasive species but also to explore the emergence of novel evolutionary trajectories.

Description: The Arctic cryosphere is changing rapidly due to global warming. Northern Svalbard is a warming hotspot with a temperature rise of ~ 6 °C over the last three decades. Concurrently, modelled data suggest a marked increase in glacier runoff during recent decades in northern Svalbard, and runoff is projected to increase. However, observational data from before anthropogenic influence are sparse and the potential effects on the surface ocean are unclear. Here, we present a 200-year record of Ba/Ca ratios measured in annual increment-forming coralline algae from northern Spitsbergen as a proxy for past glacier-derived meltwater input. Our record shows a significant increasing trend in algal Ba/Ca ratios from the late-1980s onwards matching modelled regional runoff data, suggesting a drastic increase in land-based runoff. The rate of increase is unprecedented during the last two centuries and captures the impact of amplified warming on the coastal surface ocean in the high Arctic. The algal Ba/Ca runoff proxy offers an opportunity to reconstruct past land-based runoff variability in Arctic settings in high resolution, providing important data for validating and improving climate modelling studies.

Description: Global population projections foresee the biggest increase to occur in Africa with most of the available uncultivated land to ensure food security remaining on the continent. Simultaneously, greenhouse gas emissions are expected to rise due to ongoing land use change, industrialisation, and transport amongst other reasons with Africa becoming a major emitter of greenhouse gases globally. However, distinct knowledge on greenhouse gas emissions sources and sinks as well as their variability remains largely unknown caused by its vast size and diversity and an according lack of observations across the continent. Thus, an environmental research infrastructure-as being setup in other regions-is more needed than ever. Here, we present the results of a design study that developed a blueprint for establishing such an environmental research infrastructure in Africa. The blueprint comprises an inventory of already existing observations, the spatial disaggregation of locations that will enable to reduce the uncertainty in climate forcing's in Africa and globally as well as an overall estimated cost for such an endeavour of about 550 Meuro over the next 30 years. We further highlight the importance of the development of an e-infrastructure, the necessity for capacity development and the inclusion of all stakeholders to ensure African ownership.

Description: To date the study of ocean acidification on fish otolith formation has been mainly focused on larval and juvenile stages. In the present pilot study, wild-captured adult Atlantic cod (Gadus morhua) were exposed to two different levels of pCO2, 422µatm (ambient, low pCO2) or 1091µatm (high pCO2), for a period of 30 weeks (from mid-October to early April 2014–2015) in order to study the effects on otolith size, shape and CaCO3 crystallization amongst other biological parameters. We found that otoliths from cod exposed to high pCO2 were slightly smaller (− 3.4% in length; − 3.3% in perimeter), rounder (− 2.9% circularity and + 4% roundness) but heavier (+ 5%) than the low pCO2 group. Interestingly, there were different effects in males and females; for instance, male cods exposed to high pCO2 exhibited significant changes in circularity (− 3%) and roundness (+ 4%) compared to the low pCO2 males, but without significant changes on otolith dimensions, while females exposed to high pCO2 had smaller otoliths as shown for length (− 5.6%), width (− 2%), perimeter (− 3.5%) and area (− 4.8%). Furthermore, while the majority of the otoliths analysed showed normal aragonite deposition, 10% of fish exposed to 1091µatm of pCO2 had an abnormal accretion of calcite, suggesting a shift on calcium carbonate polymorph crystallization in some individuals under high pCO2 conditions. Our preliminary results indicate that high levels of pCO2 in adult Atlantic cod might affect otolith growth in a gender-specific way. Our findings reveal that otoliths from adult cod are affected by ocean acidification, and we believe that the present study will prompt further research into this currently under-explored area.

Description: This book is dedicated to the analysis of bottom waters flows through underwater channels of the Atlantic Ocean. The study is based on recent observations of the authors, analysis of historical data, numerical modeling, and literature review. For example, studying both the measurements from the World Ocean Circulation experiment in the 1990s and recent measurements reveals the decadal variations of water properties in the ocean. Seawater is cooled at high latitudes, descends to the ocean bottom, and slowly flows to the tropical latitudes and further. This current is slow in the deep basins, but intensifies in the abyssal channels connecting the basins. The current overflows submarine topographic structures and sometimes forms deep cataracts when water descends over slopes by several hundred meters. The flow of Antarctic Bottom Water (AABW) is studied on the basis of CTD sections combined with Lowered Acoustic Doppler Profiling (LADCP) carried out annually, and long-term moored measurements of currents. This book is a collection of oceanographic data, interpretation, and analysis, which can be used by field oceanographers, specialists in numerical modeling, and students who specialize in oceanography.

Description: Acesta excavata (Fabricius, 1779) is a slow growing bivalve from the Limidae family and is often found associated with cold-water coral reefs along the European continental margin. Here we present the compositional variability of frequently used proxy elemental ratios (Mg/Ca, Sr/Ca, Na/Ca) measured by laser-ablation mass spectrometry (LA-ICP-MS) and compare it to in-situ recorded instrumental seawater parameters such as temperature and salinity. Shell Mg/Ca measured in the fibrous calcitic shell section was overall not correlated with seawater temperature or salinity; however, some samples show significant correlations with temperature with a sensitivity that was found to be unusually high in comparison to other marine organisms. Mg/Ca and Sr/Ca measured in the fibrous calcitic shell section display significant negative correlations with the linear extension rate of the shell, which indicates strong vital effects in these bivalves. Multiple linear regression analysis indicates that up to 79% of elemental variability is explicable with temperature and salinity as independent predictor values. Yet, the overall results clearly show that the application of Element/Ca (E/Ca) ratios in these bivalves to reconstruct past changes in temperature and salinity is likely to be complicated due to strong vital effects and the effects of organic material embedded in the shell. Therefore, we suggest to apply additional techniques, such as clumped isotopes, in order to exactly determine and quantify the underlying vital effects and possibly account for these. We found differences in the chemical composition between the two calcitic shell layers that are possibly explainable through differences of the crystal morphology. Sr/Ca ratios also appear to be partly controlled by the amount of magnesium, because the small magnesium ions bend the crystal lattice which increases the space for strontium incorporation. Oxidative cleaning with H2O2 did not significantly change the Mg/Ca and Sr/Ca composition of the shell. Na/Ca ratios decreased after the oxidative cleaning, which is most likely a leaching effect and not caused by the removal of organic matter.

Description: Until now, proxy records have been the primary tool for quantitative reconstructions of the physical world of the ancient and late antique Mediterranean. This chapter demonstrates the combined use of proxy datasets and the hitherto underutilized potential of earth system models in the scientific and historical study of past environmental variations and impacts on human societies. Results from model simulations are able to explain hydroclimatic anomalies observed in the proxy records and provide links to relevant mechanisms. The Late Roman Dry Period and the Late Roman Wet Period of the mid-fourth to early eighth centuries AD are each associated with the increase in the frequency of subsistence crises and with the accelerated infrastructural adaptations of communities and agricultural expansion, respectively. The chapter concludes with an examination of the historical and climatic contexts behind one such anomaly, a subsistence crisis in Cappadocia in the late 300s AD.

Description: In order to monitor recovery from acidification caused by acid atmospheric deposition, desmids and water chemistry were sampled in three Dutch moorland pools regularly from 1978 to 2014. Reference desmid samples from the early twentieth century were retrieved from old collections. Changes of the desmid assemblages were assessed by analyses of traits, including indicator values for pH and total phosphate, conservation value, cell volume and surface/volume (s/v) ratio. Direct correspondence analysis (DCA) traced relations between desmids and environmental variables. Between 1916 and 2014, species composition altered due to changes in acidifying atmospheric deposition: The change was most pronounced in pools with relatively flat shores exposed to the atmosphere in extremely dry summers. After the dry summer of 1921, changes were slight, but after the dry summer of 1976, changes were dramatic, when the sulphur and nitrogen compounds stored in the water bottom oxidized and acidified the water. The conservation value declined sharply but increased again until the 1990s, partly due to the decrease in acidifying deposition. Although the acid atmospheric deposition continued to decline until the early 21th century, the conservation value declined again, as did the stability of the desmid assemblages. It is likely that internal eutrophication (nutrients), presence of toxic substances (such as hydrogen sulphide), the decline of aquatic macrophytes (substrate), shading by afforestation (light) and/or reduced supply of carbon dioxide (due to decreased local seepage) play a role. The chemical dynamics due to the large stock of sulphur and nitrogen compounds will hamper the development of rare desmids, bound to stable environmental conditions.

Description: Matrix tri-factorization subject to binary constraints is a versatile and powerful framework for the simultaneous clustering of observations and features, also known as biclustering. Applications for biclustering encompass the clustering of high-dimensional data and explorative data mining, where the selection of the most important features is relevant. Unfortunately, due to the lack of suitable methods for the optimization subject to binary constraints, the powerful framework of biclustering is typically constrained to clusterings which partition the set of observations or features. As a result, overlap between clusters cannot be modelled and every item, even outliers in the data, have to be assigned to exactly one cluster. In this paper we propose Broccoli, an optimization scheme for matrix factorization subject to binary constraints, which is based on the theoretically well-founded optimization scheme of proximal stochastic gradient descent. Thereby, we do not impose any restrictions on the obtained clusters. Our experimental evaluation, performed on both synthetic and real-world data, and against 6 competitor algorithms, show reliable and competitive performance, even in presence of a high amount of noise in the data. Moreover, a qualitative analysis of the identified clusters shows that Broccoli may provide meaningful and interpretable clustering structures.

Description: ZusammenfassungDas Themenheft zu „Data Engineering for Data Science“ gibt uns Anlass, die Rolle dieses Themas in der akademischen Datenbanklehre im Rahmen einer kleinen Umfrage zu erfassen. In diesem Artikel geben wir die Ergebnisse gesammelt wieder. Uns haben 17 Rückmeldungen aus der GI-Fachgruppe Datenbanksysteme erreicht. Im Vergleich zu einer früheren Umfrage zur Lehre im Bereich „Cloud“, 2014 im Datenbankspektrum vorgestellt, zeichnet sich ab, dass Data-Engineering-Inhalte zunehmend auch in grundständigen Lehrveranstaltungen gelehrt werden, sowie außerhalb der Kerninformatik. Data Engineering scheint sich als ein Querschnittsthema zu etablieren, das nicht nur den Masterstudiengängen vorbehalten ist.

Description: Background Nigeria has a high burden of hepatitis B virus (HBV) infection, commonly acquired through vertical transmission. However, there is a lack of an efficient surveillance system for monitoring and understanding the epidemiology of HBV among pregnant women. Building on a previous review on the prevalence of HBV in Nigeria (2000–2013), we conducted a systematic review and meta-analysis of HBV prevalence among pregnant women in Nigeria. Methods Four electronic databases PubMed, Embase, Global Health, and Scopus were systematically searched from January 2014 to February 2021. We also searched the African Journal Online and manually scanned the reference lists of the identified studies for potentially eligible articles. Observational studies that reported the prevalence of HBsAg and/or HBeAg among pregnant women in peer-reviewed journals were included in the study. We performed a meta-analysis using a random-effects model. We defined HBV infection as a positive test to HBsAg. Results From the 158 studies identified, 20 studies with a total sample size of 26, 548 were included in the meta-analysis. The pooled prevalence of HBV infection among pregnant women across the studies was 6.49% (95% confidence interval [CI] = 4.75–8.46%; I2 = 96.7%, p = 0.001; n = 20). The prevalence of HBV was significantly lower among pregnant women with at least secondary education compared with those with no education or primary education (prevalence ratio = 0.7, 95% CI = 0.58–0.87; n = 10). However, the prevalence of HBV was not significantly different by age, religion, marital status, or tribe. The prevalence of HBV was not significantly different among pregnant women with previous surgery, blood transfusion, multiple lifetime sex partners, tribal marks, tattoos, scarification, or sexually transmitted infections, compared with those without these risk factors. From a total sample size of 128 (n = 7), the pooled prevalence of HBeAg among HBV-infected pregnant women was 14.59% (95% CI = 4.58–27.99%; I2 = 65.5%, p = 0.01). Subgroup analyses of HBV infection by study region and screening method, and meta-regression analysis of the study year, sample size, and quality rating were not statistically significant. Conclusions There is an intermediate endemicity of HBV infection among pregnant women in Nigeria. Interventions, such as routine antenatal HBV screening, antiviral prophylaxis for eligible pregnant women, and infant HBV vaccination should be scaled up for the prevention of perinatal transmission of HBV infection in Nigeria.

Description: Background The objective of this study was to compare the prognostic impact of sarcopenia in patients with head and neck cancer (HNC) treated with surgery or radiation. Methods We systematically searched electronic databases to identify articles reporting the impact of sarcopenia on the prognosis of patients with HNC. Hazard ratios (HRs) and 95% confidence intervals (CIs) for overall survival (OS), disease-free survival (DFS), and disease-specific survival (DSS) were extracted and pooled. HR according to treatment modality were estimated using random-effects models. Statistical analyses were carried out using the Comprehensive Meta-Analysis software. Results In total, 18 studies enrolling 3,233 patients were included. Sarcopenia was associated with poor OS in both surgery and radiotherapy groups (hazard ratio [HR] 2.50, 95% confidence interval [CI] 1.95–3.21; HR 1.63, 95% CI 1.40–1.90, respectively). The HR was significantly higher in the surgery group than in the radiotherapy group (p = 0.004), with similar results obtained for DFS (HR 2.59, 95% CI 1.56–4.31; HR 1.56, 95% CI 1.24–1.97 for the surgery and radiotherapy groups, respectively) and DSS (HR 2.96, 95% CI 0.73–11.95; HR 2.67, 95% CI 1.51–4.73 for the surgery and RT groups, respectively). Conclusions Sarcopenia was a poor prognostic factor for HNC, regardless of the treatment modality. However, the adverse effects of sarcopenia on survival were more prominent in the surgery group than in the radiotherapy group. Sarcopenia assessment is required for appropriate treatment decision-making.

Description: We evaluated phytochemical composition, antibacterial, antifungal, anti-oxidant and cytotoxic properties of aqueous (water) and organic extracts (methanol, ethyl acetate and n-hexane) of Chenopodium glaucum. Highest phenolic content 45 mg gallic acid equivalents (GAE)/g d.w was found in aqueous extract followed by ethyl acetate (41mg GAE/g d.w) and methanol extract (34.46 mg GAE/g d.w). Antibacterial potential of aqueous and organic extracts of C. glaucum was examined against Acinetobacter baumannii, Klebsiella pneumoniae, Escherichia coli and Staphylococcus epidermidis. The aqueous, methanolic, ethyl acetate, and n-hexane extract showed antibacterial activity against A. baumannii, K. pneumoniae, E. coli and S. epidermidis. However, against A. baumannii significantly higher inhibition zone (19 mm and 18.96 mm respectively) was shown by ethyl acetate and methanol extracts. Aqueous extract possessed highest growth inhibition (11 mm) against E. coli. Aqueous, ethyl acetate and methanol extracts showed 9 mm, 10 mm, and 10.33 mm zone of inhibition against the K. pneumoniae. For antifungal activity, the extracts were less effective against Aspergillus niger but showed strong antifungal activity against Aspergillus flavus (A. flavus). The antioxidant activity was measured as DPPH (2, 2-diphenyl-1-picrylhydrazyl), H2O2 and ABTS (2, 2’-azino-bis (3-ethylbenzothiazoline-6-sulfonic acid) scavenging activity of free radicals. All the organic extracts of C. glaucum possessed ABTS, DPPH and H2O2 scavenging properties. The highest cytotoxic activity measured as half maximal inhibitory concentration (IC50) against human lungs carcinoma cells was recorded for methanolic (IC50 = 16 μg/mL) and n-hexane (IC50 = 25 μg/mL) extracts, respectively. The Gas chromatography–mass spectrometry (GC-MS) analysis showed 4 major and 26 minor compounds in n-hexane extract and 4 major and 7 minor compounds in methanol extract of the C. glaucum. It is concluded that aqueous and organic extracts of C. glaucum would be potential therapeutic agents and could be exploited on a pilot scale to treat human pathogenic diseases.

Description: In this paper, we derive a simplified formula of electric dipole moments (EDMs) of a fermion. In the Standard Model, it is well-known that non-trivial cancellations between some rainbow-type diagrams induced by W boson exchanges occur in the calculation of the neutron EDM at the two-loop level due to the gauge symmetry. The fermion self-energy and the vertex correction are related through the Ward-Takahashi identity, and this relation causes the exact cancellation of the EDM. We derive EDM formulas for a more general setup by introducing the form factors for the fermion self-energy and the vertex correction so that the derived formulas can be applicable to a larger class of models. We conclude that the non-zero EDM contributions are induced from rainbow-type diagrams with the chirality flipping effects for internal fermions. We also discuss the other possible generalization of the EDM calculation which is applicable to the other classes of models.

Description: The annual assessment of Family Planning (FP) indicators, such as the modern contraceptive prevalence rate (mCPR), is a key component of monitoring and evaluating goals of global FP programs and initiatives. To that end, the Family Planning Estimation Model (FPEM) was developed with the aim of producing survey-informed estimates and projections of mCPR and other key FP indictors over time. With large-scale surveys being carried out on average every 3–5 years, data gaps since the most recent survey often exceed one year. As a result, survey-based estimates for the current year from FPEM are often based on projections that carry a larger uncertainty than data informed estimates. In order to bridge recent data gaps we consider the use of a measure, termed Estimated Modern Use (EMU), which has been derived from routinely collected family planning service statistics. However, EMU data come with known limitations, namely measurement errors which result in biases and additional variation with respect to survey-based estimates of mCPR. Here we present a data model for the incorporation of EMU data into FPEM, which accounts for these limitations. Based on known biases, we assume that only changes in EMU can inform FPEM estimates, while also taking inherent variation into account. The addition of this EMU data model to FPEM allows us to provide a secondary data source for informing and reducing uncertainty in current estimates of mCPR. We present model validations using a survey-only model as a baseline comparison and we illustrate the impact of including the EMU data model in FPEM. Results show that the inclusion of EMU data can change point-estimates of mCPR by up to 6.7 percentage points compared to using surveys only. Observed reductions in uncertainty were modest, with the width of uncertainty intervals being reduced by up to 2.7 percentage points.

Description: Background Hepatic fibrosis is the final pathway of chronic liver disease characterized by excessive accumulation of extracellular matrix (ECM), which eventually develop into cirrhosis and liver cancer. Emerging studies demonstrated that Saikosaponin-d (SSd) exhibits a protective role in liver fibrosis. However, the mechanism underlying anti-liver fibrosis of SSd in vivo and in vitro remains unclear. Methods and results Transforming growth factor (TGF)-β and carbon tetrachloride (CCl4) were used for creating liver fibrosis model in vitro and in vivo, respectively. The role of SSd in regulating liver fibrosis was assessed through Sirius red and Masson staining, and IHC assay. We found that SSd attenuated remarkably CCl4-induced liver fibrosis as evidenced by decreased collagen level, and decreased expression of fibrotic markers Col 1 and α-SMA. Meanwhile, SSd repressed autophagy activation as suggested by decreased BECN1 expression and increased p62 expression. Compared with HSCs from CCl4-treated group, the primary HSCs from SSd-treated mice exhibited a marked inactivation of autophagy. Mechanistically, SSd treatment enhanced the expression of GPER1 in primary HSCs and in TGF-β-treated LX-2 cells. GPER1 agonist G1 repressed autophagy activation, whereas GPER1 antagonist G15 activated autophagy and G15 also damaged the function of SSd on suppressing autophagy, leading to subsequent increased levels of fibrotic marker level in LX-2 cells. Conclusions Our findings highlight that SSd alleviates hepatic fibrosis by regulating GPER1/autophagy pathway.

Description: Using a unique panel dataset of virtually all German academic political scientists, we show that researchers become much more productive due to the accumulation of human capital and third party funding. We also show however, that while universities of excellence have more productive researchers, individuals who go there do not become more productive. Finally, we show how women publish only 9 percent less than men with the same level of prior publication experience, but are about 26 percent less productive over their entire career, as early productivity leads to later productivity, so that women increasingly fall behind. These results cannot be explained through the influence of childbearing. Rather, they support the ‘theory of limited differences’, which argues that small differences in early productivity accumulate to large differences over entire careers, as early success encourages later success. Apart from generally showing why political scientists publish more or less, we specifically identify accumulative advantage as the principal reason why women increasingly fall behind men over the course of their careers.

Description: Background Virtual reality (VR) has proven effective in the treatment of specific phobias and trauma particularly when in-vivo exposure therapy might be costly (e.g. fear of flying, combat scenes). Similarly, VR has been associated with improvement of chronic pain and of acute pain during medical procedures. Despite its effectiveness as a healthcare tool, VR technology is not well-integrated into common practice. This qualitative study aims to explore the provider perception of the value of VR and identify barriers to VR implementation among healthcare providers. Methods A 66-item self-report survey was created to examine application of VR to clinical practice, perceived value of this treatment, ease of learning the technology, billing considerations, and other obstacles. 128 providers (MDs and PhDs) who were located in the United States and had used VR as a therapeutic tool in the past year were identified through research papers, as well as user lists and news articles from VR application websites. Of the 128 providers contacted, 17% (22) completed our online self-report measure. Of these, 13% of respondents (N = 17) completed greater than 75% of the questionnaire and were considered completers. Provider responses were collected over a one-month period and qualitatively analyzed. Results The majority of providers were from an academic institution (n = 12, 70.6%), and all providers practiced in the outpatient setting. Providers most commonly reported using VR for the treatment of acute pain and/or anxiety related to medical procedures (n = 11, 64.7%), followed by specific phobia (n = 6, 35.3%) and social phobia (n = 6, 35.3%). All providers agreed VR is a valuable tool they would recommend to colleagues. The majority (n = 15, 93.8%) believed VR helped their patients progress in treatment, compared with other methods. Providers cited the ability to individualize treatment (n = 14, 87.5%) and increase patient engagement (n = 15, 93.8%) as main benefits of VR. A minority reported negative feedback from patients about content (n = 4, 25%) or about the technology in general (n = 6, 37.5%), whereas all reported some form of positive feedback. The slight majority (n = 10, 58.8%) of providers did not find transitioning to VR difficult. Of those who did, cost was the most commonly cited barrier (n = 6). Regarding reimbursement, only 17.6% (n = 3) of providers reported the ability to bill for VR sessions. Most providers (n = 15, 88.2%) received training on their VR platform which they found beneficial. Comparing the trained and untrained groups found no significant difference in VR comfort level (p = 0.5058), the value of VR in practice (p = 0.551) or whether providers would recommend VR to others (p = 0.551), though sample sizes were small. Conclusions In corroboration with previous research, this study demonstrates that VR is well-received by patients and providers, allowing increased patient engagement and treatment individualization. However, associated costs, including an inability to bill for this service, can present a barrier to further implementation. These findings will guide further development of virtual reality as a standardized tool in psychiatry and pain management.

Description: Purpose To investigate the postoperative course of patients who explanted a diffractive bifocal intraocular lens (IOL) due to waxy vision and implanted with an extended depth of focus IOL. Methods This study evaluated 29 eyes of 25 patients who underwent diffractive bifocal IOL explantation followed by TECNIS Symfony® implantation because of dissatisfaction due to waxy vision at the Takabatake West Eye Clinic between January 2018 and November 2019. The indication criteria for this surgery were patients with uncorrected distance visual acuity of 0.05 logMAR or better, without eye diseases that may affect visual function, and no dissatisfactions about photic phenomena. We investigated patient demographics, uncorrected and corrected visual acuity, manifest refraction, contrast sensitivity, subjective symptoms, time to IOL explantation, explanted IOL type, and spectacle independence. Results The time to the IOL exchange after the initial IOL implantation was 55.3 ± 50.4 days (range: 14–196 days). The logMAR corrected distance visual acuity before and after IOL exchange were −0.13 ± 0.06 and −0.14 ± 0.06, respectively (p = 0.273). After IOL exchange surgery, the area under log contrast sensitivity function increased significantly from 1.07 ± 0.12 to 1.21 ± 0.12 (p 〈 0.001), and the waxy vision symptoms improved. The spectacle independence rate at the last visit was 88.0%. Conclusion For patients who complain of waxy vision despite good visual acuity after diffractive bifocal IOL implantation, exchange to extended depth of focus IOL was considered one of the useful surgical options.

Description: Background One of the factors contributing to a high maternal mortality rate is the utilization of non-healthcare facilities as a birthplace for women. This study analyzed determinants affecting birthplace in middle-to lower-class women in Indonesia. Methods This study analyzed the 2017 Indonesian Demographic and Health Survey (IDHS) data. The total national sample size was 49,627 eligible women. Our sample included 11,104 women, aged 15–49, who had delivered babies and were of low-to-middle economic status. The type of survey dataset was individual record dataset. Data were analyzed with chi-square and multivariate logistic regression tests using Stata 16 software. Results About 64.99% middle to lower class women in Indonesia delivered in healthcare facilities. Women aged 45–49 (OR = 2.103; 95% CI = 1.13–3.93), who graduated from higher schools (OR = 2.885; 95% CI = 1.76–4.73), whose husbands had higher education (OR = 2.826; 95% CI = 1.69–4.74) and were employed (OR = 2.523; 95% CI = 1.23–5.17), who considered access to healthcare facilities was not a problem (OR = 1.528; 95% CI = 1.28–1.82), who had a single child (OR = 2.349; 95% CI = 1.97–2.80), and who lived in urban areas (OR = 2.930; 95% CI = 2.40–3.57) were determinants that significantly correlated with women giving birth in healthcare facilities. Conclusion This study provides insights for policymakers and healthcare centers in the community to strengthen access to healthcare services and devise health promotion strategies for pregnant mothers. Policy interventions designed for middle- to lower-class women should be implemented to support vulnerable groups.

Description: The Monte Rosa nappe consists of a wide range of lithologies that record conditions associated with peak Alpine metamorphism. While peak temperature conditions inferred from previous studies largely agree, variable peak pressures have been estimated for the Alpine high-pressure metamorphic event. Small volumes of whiteschist lithologies with the assemblage chloritoid + phengite + talc + quartz record peak pressures up to 0.6 GPa higher compared to associated metapelitic and metagranitic lithologies, which yield a peak pressure of ca. 1.6 GPa. The reason for this pressure difference is disputed, and proposed explanations include tectonic mixing of rocks from different burial depths (mélange) or local deviations of the pressure from the lithostatic value caused by heterogeneous stress conditions between rocks of contrasting mechanical properties. We present results of detailed field mapping, structural analysis and a new geological map for a part of the Monte Rosa nappe exposed at the cirque du Véraz field area (head of the Ayas valley, Italy). Results of the geological mapping and structural analysis shows the structural coherency within the western portions of the Monte Rosa nappe. This structural coherency falsifies the hypothesis of a tectonic mélange as reason for peak pressure variations. Structural analysis indicates two major Alpine deformation events, in agreement with earlier studies: (1) north-directed nappe emplacement, and (2) south-directed backfolding. We also analyze a newly discovered whiteschist body, which is located at the intrusive contact between Monte Rosa metagranite and surrounding metapelites. This location is different to previous whiteschist occurrences, which were entirely embedded within metagranite. Thermodynamic calculations using metamorphic assemblage diagrams resulted in 2.1 ± 0.2 GPa and 560 ± 20 °C for peak Alpine metamorphic conditions. These results agree with metamorphic conditions inferred for previously investigated nearby whiteschist outcrops embedded in metagranite. The new results, hence, confirm the peak pressure differences between whiteschists and the metagranite and metapelite. To better constrain the prograde pressure–temperature history of the whiteschist, we compare measured Mg zoning in chloritoid with Mg zoning predicted by fractional crystallization pseudo-section modelling for several hypothetical pressure–temperature paths. In order to reach a ca. 0.6 GPa higher peak pressure compared to the metapelite and metagranite, our results suggest that the whiteschist likely deviated from the prograde burial path recorded in metapelite and metagranite lithologies. However, the exact conditions at which the whiteschist pressure deviated are still contentious due to the strong temperature dependency of Mg partitioning in whiteschist assemblages. Our pseudo-section results suggest at least that there was no dramatic isothermal pressure increase recorded in the whiteschist.

Description: Background Many metals exhibit a stress overshoot, the so-called cross-hardening when subjected to a specific strain-path change. Existing tests for sheet metals are limited to an equivalent prestrain of 0.2 and show varying levels of cross-hardening for identical grades. Objective The aim is to determine cross-hardening at large strains, relevant for forming processes. Mild steel grades (DC04, DC06, DX56) and high strength steel grades (BS600, DP600, ZE800) are investigated to quantify the level of cross-hardening between different grades and reveal which grades exhibit cross-hardening at all. Method A novel test setup for large prestrain using hydraulic bulge test and torsion of curved sheets is developed to achieve an orthogonal strain-path change, i.e. the strain rate tensors for two subsequent loadings are orthogonal. The influence of strain rate differences between the tests and clamping of curved sheets on the determined cross-hardening are evaluated. The results are compared to experiments in literature. Results Cross-hardening for sheet metal at prestrains up to 0.6 true plastic strain are obtained for the first time. For DX56 grade the maximum cross-hardening for all prestrains have a constant level of approximately 6%, while the maximum cross-hardening for DC04 and DC06 grades increases, with levels between 7 and 11%. The high strength grades BS600 and ZE800 do not show cross-hardening behavior, while, differencing from previous publications, cross-hardening is observed for dual phase steel DP600. Conclusion Depending on the microstructure of the steel grade the cross-hardening increases with large prestrain or remains constant.

Description: In self-reports, socially desirable responding threatens the validity of prevalence estimates for sensitive personal attitudes and behaviors. Indirect questioning techniques such as the crosswise model attempt to control for the influence of social desirability bias. The crosswise model has repeatedly been found to provide more valid prevalence estimates than direct questions. We investigated whether crosswise model estimates are also less susceptible to deliberate faking than direct questions. To this end, we investigated the effect of “fake good” instructions on responses to direct and crosswise model questions. In a sample of 1,946 university students, 12-month prevalence estimates for a sensitive road traffic behavior were higher and thus presumably more valid in the crosswise model than in a direct question. Moreover, “fake good” instructions severely impaired the validity of the direct questioning estimates, whereas the crosswise model estimates were unaffected by deliberate faking. Participants also reported higher levels of perceived confidentiality and a lower perceived ease of faking in the crosswise model compared to direct questions. Our results corroborate previous studies finding the crosswise model to be an effective tool for counteracting the detrimental effects of positive self-presentation in surveys on sensitive issues.

Description: This paper analyses the effect of mortality rates (under-five and adult mortality) and population growth on the population ageing in a pooled sample of nine lower and upper middle European countries. Therefore, the main goal of this research is to investigate the ageing process of the population in the context of mortality mechanisms (under five and adult mortality) and of population growth in nine European LUMIs. The analysis is implemented in terms of Pooled least squares with cross-section fixed effects methodology. The novelty used within this research is White two-way cluster standard errors & covariance. This study is based on a database from the World Bank and UN covering the period 1995–2019. The expected results are making available quantitative analysis and insights in the context of mechanisms between the ageing process of population, mortality and population growth across these European LUMIs. Results are consistent with the notion that the increasing ageing process within these countries may be a consequence of the negative impact of population growth and from the influence of adult mortality for both sexes. The research results confirm the presence of solid ties of the mechanism between mortality, population growth and population ageing. Therefore, a clear point was provided that mortality acceleration will depend primarily on the level of population growth.

Description: Urbanisation alters landscapes, introduces wildlife to novel stressors, and fragments habitats into remnant ‘islands’. Within these islands, isolated wildlife populations can experience genetic drift and subsequently suffer from inbreeding depression and reduced adaptive potential. The Western tiger snake (Notechis scutatus occidentalis) is a predator of wetlands in the Swan Coastal Plain, a unique bioregion that has suffered substantial degradation through the development of the city of Perth, Western Australia. Within the urban matrix, tiger snakes now only persist in a handful of wetlands where they are known to bioaccumulate a suite of contaminants, and have recently been suggested as a relevant bioindicator of ecosystem health. Here, we used genome-wide single nucleotide polymorphism (SNP) data to explore the contemporary population genomics of seven tiger snake populations across the urban matrix. Specifically, we used population genomic structure and diversity, effective population sizes (Ne), and heterozygosity-fitness correlations to assess fitness of each population with respect to urbanisation. We found that population genomic structure was strongest across the northern and southern sides of a major river system, with the northern cluster of populations exhibiting lower heterozygosities than the southern cluster, likely due to a lack of historical gene flow. We also observed an increasing signal of inbreeding and genetic drift with increasing geographic isolation due to urbanisation. Effective population sizes (Ne) at most sites were small (〈 100), with Ne appearing to reflect the area of available habitat rather than the degree of adjacent urbanisation. This suggests that ecosystem management and restoration may be the best method to buffer the further loss of genetic diversity in urban wetlands. If tiger snake populations continue to decline in urban areas, our results provide a baseline measure of genomic diversity, as well as highlighting which ‘islands’ of habitat are most in need of management and protection.

Description: Metabolic syndrome (MetS) is highly prevalent worldwide. In the United States, estimates show that more than 30% of the adult population has MetS. MetS consists of multiple phenotypes, including obesity, dyslipidemia, and impaired glucose tolerance. Therefore, identifying the molecular mechanisms to explain this complex disease is critical for diagnosing and treating MetS. We previously showed 70 increased genes and 20 decreased genes in whole blood in MetS participants. The present study aimed to identify blood-based DNA methylation biomarkers in non-MetS versus MetS participants. The present study analyzed whole blood DNA samples from 184 adult participants of Latino descent from the Arizona Insulin Resistance (AIR) registry. We used the National Cholesterol Education Program Adult Treatment Panel III (NCEP: ATP III) criteria to identify non-MetS (n = 110) and MetS (n = 74) participants. We performed whole blood methylation analysis on select genes: ATP Synthase, H+ Transporting mitochondrial F1 Complex, Epsilon Subunit (ATP5E), Cytochrome C Oxidase Subunit VIc (COX6C), and Ribosomal Protein L9 (RPL9). The pyrosequencing analysis was a targeted approach focusing on the promoter region of each gene that specifically captured CpG methylation sites. In MetS participants, we showed decreased methylation in two CpG sites in COX6C and three CpG sites in RPL9, all p 〈 0.05 using the Mann-Whitney U test. There were no ATP5E CpG sites differently methylated in the MetS participants. Furthermore, while adjusting for age, gender, and smoking status, logistic regression analysis reaffirmed the associations between MetS and mean methylation within COX6C and RPL9 (both p 〈 0.05). In addition, Spearman’s correlation revealed a significant inverse relationship between the previously published gene expression data and methylation data for RPL9 (p 〈 0.05). In summary, these results highlight potential blood DNA methylation biomarkers for the MetS phenotype. However, future validation studies are warranted to strengthen our findings.

Description: Population-based genomic screening is at the forefront of a new approach to disease prevention. Yet the lack of diversity in genome wide association studies and ongoing debates about the appropriate use of racial and ethnic categories in genomics raise key questions about the translation of genomic knowledge into clinical practice. This article reports on an ethnographic study of a large pragmatic clinical trial of breast cancer screening called WISDOM (Women Informed to Screen Depending On Measures of Risk). Our ethnography illuminates the challenges of using race or ethnicity as a risk factor in the implementation of precision breast cancer risk assessment. Our analysis provides critical insights into how categories of race, ethnicity and ancestry are being deployed in the production of genomic knowledge and medical practice, and key challenges in the development and implementation of novel Polygenic Risk Scores in the research and clinical applications of this emerging science. Specifically, we show how the conflation of social and biological categories of difference can influence risk prediction for individuals who exist at the boundaries of these categories, affecting the perceptions and practices of scientists, clinicians, and research participants themselves. Our research highlights the potential harms of practicing genomic medicine using under-theorized and ambiguous categories of race, ethnicity, and ancestry, particularly in an adaptive, pragmatic trial where research findings are applied in the clinic as they emerge. We contribute to the expanding literature on categories of difference in post-genomic science by closely examining the implementation of a large breast cancer screening study that aims to personalize breast cancer risk using both common and rare genomic markers.

Description: In so-called interactive biorobotics, robotic models of living systems interact with animals in controlled experimental settings. By observing how the focal animal reacts to the stimuli delivered by the robot, one tests hypotheses concerning the determinants of animal behaviour in social contexts. Building on previous methodological reconstructions of interactive biorobotics, this article reflects on the claim, made by several authors in the field, that this strategy may enable one to explain social phenomena in animals. The answer offered here will be negative: interactive biorobotics does not contribute to the explanation of social phenomena. However, it may greatly contribute to the study of animal behaviour by creating social phenomena in the sense discussed by Ian Hacking, i.e. by precisely defining new phenomena to be explained. It will be also suggested that interactive biorobotics can be combined with more classical robot-based approaches to the study of living systems, leading to a so-called simulation-interactive strategy for the mechanistic explanation of social behaviour in animals.