In situ Determination of Nitrate and Hydrogen Sulfide in the Baltic Sea Using an Ultraviolet Spectrophotometer

Evaluating the health status of marine ecosystems becomes ever increasingly important especially against the backdrop of rising pressures from human activities. This is true especially for coastal seas such as the Baltic Sea that is surrounded by highly industrialized countries. Nutrients and pollutants such as nitrate and hydrogen sulfide, which have a major impact on ecosystem functioning, are two of several key environmental indicators for assessing the status of natural waters, and therefore of considerable interest. The frequency and the spatial coverage of the nitrate and hydrogen sulfide measurements are currently limited by the cost of the laboratory analysis and personnel. Optical in situ sensors can help to overcome this challenge by allowing reagentless and fast detection of dissolved chemical species. A chemical-free optical sensor has been used for direct and simultaneous measurements of both key parameters, and the results were compared with traditional methods. The data were collected during an observational program conducted in the Baltic Sea in February 2018. We used the OPUS UV spectral sensor, which was deployed for the first time in coastal waters, in combination with a deep-sea telemetry system to enable near-real time measurements during CTD profiling. Data processing was carried out using a multiple linear regression procedure. Measurements from both OPUS and on-board analysis were in good agreement. The results showed, that in situ UV-VIS spectrophotometry provides the capability to determine the concentration distributions of nitrate and hydrogen sulfide in the brackish waters of the Baltic Sea

Monitoring Chemical Pollution in Europe’s Seas: Programmes, practices and priorities for research

This report has been produced by the Marine Board Working Group on Existing and Emerging Chemical Pollutants (WGPOL) first convened in 2008 and tasked to examine the assessment and monitoring of existing and emerging chemicals in the European marine and coastal environment. The Working Group considered (i) existing monitoring/assessment frameworks; (ii) current monitoring practices; and (iii) new and emerging chemicals of concern and the mechanisms used to include them in current monitoring programmes. The primary conclusions and recommendations of this position paper are: 1. Fully implement state of the art environmental risk assessment procedures (combining exposure and effect assessment) to evaluate the full impact of chemical substances on the different compartments of coastal and open sea systems. 2. Further improve the coordination, cooperation and harmonization between existing monitoring efforts and those under development, to avoid duplication of effort, loss of expertise and a reduced willingness to fulfil the obligations towards regional conventions. 3. Ensure that the development and implementation of monitoring programmes for the assessment of chemicals in marine and coastal environment are based on a science-based and dynamic process. 4. Apply more resources targeted at developing appropriate approaches, tools and practices (education and training) to improve the acquisition and management of monitoring data. In addition to the above main recommendations, two further recommendations have been identified on the basis of two specific case studies which form part of this paper and which focus on the release, effects and monitoring of (i) hydrophobic and insoluble chemicals in the marine environment from merchant shipping; and (ii) chemicals released by the offshore oil-industry in the North Sea. These case studies highlighted the need to: 5. Develop a consistent, pan-European or regional (legal) framework/regulation which covers the activities of the oil and gas industry at sea. At the same time, more information and research is needed on the release and the effects of chemicals arising from offshore oil and gas activities. 6. Develop and apply state-of-the-art environmental risk assessment procedures (combining exposure and effect assessments, including on human health) to evaluate the impact of noxious liquid substances listed under MARPOL Annex II on the different compartments in coastal and open sea ecosystems

Knowledge Hub on the Integrated Assessment of Chemical Contaminants and their Effects on the Marine Environment

In a time of environmental awareness, spurred on by the possibility that our world is threatened by climate change, it is important to remember that there are other anthropogenic pressures, which are also essential for addressing the protection of the marine and coastal environment. Pollution is a global, complex issue that contributes to biodiversity loss and poor environmental health and comes from the production and release of many of the synthetic chemicals that we use in our daily lives. Chemical contaminants are often underrepresented as a major contributor of environmental deterioration. The Joint Programming Initiative Healthy and Productive Seas and Oceans (JPI Oceans) established in 2018 the JPI Oceans Knowledge Hub on the integrated assessment of chemical contaminants and their effects on the marine environment. The purpose of the Knowledge Hub was to provide recommendations on how to improve the methodological basis for marine chemical status assessment. The work has resulted in the following policy paper which focuses on improving the efficiency and implementation of integrated assessment methodology of effects of chemicals of emerging concern. Substantial additional knowledge of biological effects is needed to achieve Good Environmental Status (GES) of our oceans and coastal areas. The Knowledge Hub is represented by highly skilled scientists and policy makers, appointed by the JPI Oceans Management Board, to ensure that the recommendations provided are useful for policy making

Isolation and anti-HIV-1 integrase activity of lentzeosides A–F from extremotolerant lentzea sp. H45, a strain isolated from a high-altitude Atacama Desert soil

The extremotolerant isolate H45 was one of several actinomycetes isolated from a high-altitude Atacama Desert soil collected in northwest Chile. The isolate was identified as a new Lentzea sp. using a combination of chemotaxonomic, morphological and phylogenetic properties. Large scale fermentation of the strain in two different media followed by chromatographic purification led to the isolation of six new diene and monoene glycosides named lentzeosides A–F, together with the known compound (Z)-3-hexenyl glucoside. The structures of the new compounds were confirmed by HRESIMS and NMR analyses. Compounds 1–6 displayed moderate inhibitory activity against HIV integrase

Immunizations with diverse sarbecovirus receptor-binding domains elicit SARS-CoV-2 neutralizing antibodies against a conserved site of vulnerability.

Viral mutations are an emerging concern in reducing SARS-CoV-2 vaccination efficacy. Second-generation vaccines will need to elicit neutralizing antibodies against sites that are evolutionarily conserved across the sarbecovirus subgenus. Here, we immunized mice containing a human antibody repertoire with diverse sarbecovirus receptor-binding domains (RBDs) to identify antibodies targeting conserved sites of vulnerability. Antibodies with broad reactivity against diverse clade B RBDs targeting the conserved class 4 epitope, with recurring IGHV/IGKV pairs, were readily elicited but were non-neutralizing. However, rare class 4 antibodies binding this conserved RBD supersite showed potent neutralization of SARS-CoV-2 and all variants of concern. Structural analysis revealed that the neutralizing ability of cross-reactive antibodies was reserved only for those with an elongated CDRH3 that extends the antiparallel beta-sheet RBD core and orients the antibody light chain to obstruct ACE2-RBD interactions. These results identify a structurally defined pathway for vaccine strategies eliciting escape-resistant SARS-CoV-2 neutralizing antibodies

Precision of the current methods to measure the alkenone proxy UK'37 and absolute alkenone abundance in sediments : results of an interlaboratory comparison study

Measurements of the UK'37 index and the absolute abundance of alkenones in marine sediments are increasingly used in paleoceanographic research as proxies of past sea surface temperature and haptophyte (mainly coccolith-bearing species) primary productivity, respectively. An important aspect of these studies is to be able to compare reliably data obtained by different laboratories from a wide variety of locations. Hence the intercomparability of data produced by the research community is essential. Here we report results from an anonymous interlaboratory comparison study involving 24 of the leading laboratories that carry out alkenone measurements worldwide. The majority of laboratories produce data that are intercomparable within the considered confidence limits. For the measurement of alkenone concentrations, however, there are systematic biases between laboratories, which might be related to the techniques employed to quantify the components. The maximum difference between any two laboratories for any two single measurements of UK'37 in sediments is estimated, with a probability of 95%, to be <2.18C. In addition, the overall within-laboratory precision for the UK'37 temperature estimates is estimated to be <1.68C (95% probability). Similarly, from the analyses of alkenone concentrations the interlaboratory reproducibility is estimated at 32%, and the repeatability is estimated at 24%. The former is compared to a theoretical estimate of reproducibility and found to be excessively high. Hence there is certainly scope and a demonstrable need to improve reproducibility and repeatability of UK'37 and especially alkenone quantification data across the community of scientists involved in alkenone research

Cluster randomised controlled trial of a peer-led lifestyle intervention program: study protocol for the Kerala diabetes prevention program.

BACKGROUND: India currently has more than 60 million people with Type 2 Diabetes Mellitus (T2DM) and this is predicted to increase by nearly two-thirds by 2030. While management of those with T2DM is important, preventing or delaying the onset of the disease, especially in those individuals at 'high risk' of developing T2DM, is urgently needed, particularly in resource-constrained settings. This paper describes the protocol for a cluster randomised controlled trial of a peer-led lifestyle intervention program to prevent diabetes in Kerala, India. METHODS/DESIGN: A total of 60 polling booths are randomised to the intervention arm or control arm in rural Kerala, India. Data collection is conducted in two steps. Step 1 (Home screening): Participants aged 30-60 years are administered a screening questionnaire. Those having no history of T2DM and other chronic illnesses with an Indian Diabetes Risk Score value of ≥60 are invited to attend a mobile clinic (Step 2). At the mobile clinic, participants complete questionnaires, undergo physical measurements, and provide blood samples for biochemical analysis. Participants identified with T2DM at Step 2 are excluded from further study participation. Participants in the control arm are provided with a health education booklet containing information on symptoms, complications, and risk factors of T2DM with the recommended levels for primary prevention. Participants in the intervention arm receive: (1) eleven peer-led small group sessions to motivate, guide and support in planning, initiation and maintenance of lifestyle changes; (2) two diabetes prevention education sessions led by experts to raise awareness on T2DM risk factors, prevention and management; (3) a participant handbook containing information primarily on peer support and its role in assisting with lifestyle modification; (4) a participant workbook to guide self-monitoring of lifestyle behaviours, goal setting and goal review; (5) the health education booklet that is given to the control arm. Follow-up assessments are conducted at 12 and 24 months. The primary outcome is incidence of T2DM. Secondary outcomes include behavioural, psychosocial, clinical, and biochemical measures. An economic evaluation is planned. DISCUSSION: Results from this trial will contribute to improved policy and practice regarding lifestyle intervention programs to prevent diabetes in India and other resource-constrained settings. TRIAL REGISTRATION: Australia and New Zealand Clinical Trials Registry: ACTRN12611000262909

Inverting family GH156 sialidases define an unusual catalytic motif for glycosidase action

Sialic acids are a family of related sugars that play essential roles in many biological events intimately linked to cellular recognition in both health and disease. Sialidases are therefore orchestrators of cellular biology and important therapeutic targets for viral infection. Here, we sought to define if uncharacterized sialidases would provide distinct paradigms in sialic acid biochemistry. We show that a recently discovered sialidase family, whose first member EnvSia156 was isolated from hot spring metagenomes, defines an unusual structural fold and active centre constellation, not previously described in sialidases. Consistent with an inverting mechanism, EnvSia156 reveals a His/Asp active center in which the His acts as a Bronsted acid and Asp as a Bronsted base in a single-displacement mechanism. A pre-dominantly hydrophobic aglycone site facilitates accommodation of a variety of 2-linked sialosides; a versatility that offers the potential for glycan hydrolysis across a range of biological and technological platforms

Asenjonamides A–C, antibacterial metabolites isolated from Streptomyces asenjonii strain KNN 42.f from an extreme-hyper arid Atacama Desert soil

Bio-guided fractionation of the culture broth extract of Streptomyces asenjonii strain KNN 42.f recovered from an extreme hyper-arid Atacama Desert soil in northern Chile led to the isolation of three new bioactive ?-diketones; asenjonamides A–C (1–3) in addition to the known N-(2-(1H-indol-3-yl)-2-oxoethyl)acetamide (4), a series of bioactive acylated 4-aminoheptosyl-?-N-glycosides; spicamycins A–E (5–9), and seven known diketopiperazines (10–16). All isolated compounds were characterized by HRESIMS and NMR analyses and tested for their antibacterial effect against a panel of bacteria

Size Doesn't Matter: Towards a More Inclusive Philosophy of Biology

notes: As the primary author, O’Malley drafted the paper, and gathered and analysed data (scientific papers and talks). Conceptual analysis was conducted by both authors.publication-status: Publishedtypes: ArticlePhilosophers of biology, along with everyone else, generally perceive life to fall into two broad categories, the microbes and macrobes, and then pay most of their attention to the latter. ‘Macrobe’ is the word we propose for larger life forms, and we use it as part of an argument for microbial equality. We suggest that taking more notice of microbes – the dominant life form on the planet, both now and throughout evolutionary history – will transform some of the philosophy of biology’s standard ideas on ontology, evolution, taxonomy and biodiversity. We set out a number of recent developments in microbiology – including biofilm formation, chemotaxis, quorum sensing and gene transfer – that highlight microbial capacities for cooperation and communication and break down conventional thinking that microbes are solely or primarily single-celled organisms. These insights also bring new perspectives to the levels of selection debate, as well as to discussions of the evolution and nature of multicellularity, and to neo-Darwinian understandings of evolutionary mechanisms. We show how these revisions lead to further complications for microbial classification and the philosophies of systematics and biodiversity. Incorporating microbial insights into the philosophy of biology will challenge many of its assumptions, but also give greater scope and depth to its investigations