Biological and environmental rhythms in (dark) deep-sea hydrothermal ecosystems

During 2011, two deep-sea observatories focusing on hydrothermal vent ecology were up and running in the Atlantic (Eiffel Tower, Lucky Strike vent field) and the Northeast Pacific Ocean (NEP) (Grotto, Main Endeavour Field). Both ecological modules recorded imagery and environmental variables jointly for a time span of 23 days (7–30 October 2011) and environmental variables for up to 9 months (October 2011–June 2012). Community dynamics were assessed based on imagery analysis and rhythms in temporal variation for both fauna and environment were revealed. Tidal rhythms were found to be at play in the two settings and were most visible in temperature and tubeworm appearances (at NEP). A  ∼  6 h lag in tidal rhythm occurrence was observed between Pacific and Atlantic hydrothermal vents, which corresponds to the geographical distance and time delay between the two sites.info:eu-repo/semantics/publishedVersio

Impact of returning scientific cruises and prolonged on-site presence on litter abundance at the deep-sea nodule fields in the Peru Basin

Marine litter can be found along coasts, continental shelves and slopes, down into the abyss. The absence of light, low temperatures and low energy regimes characterising the deeper habitats ensure the persistence of litter over time. Therefore, manmade items within the deep sea will likely accumulate to increasing quantities. Here we report the litter abundance encountered at the Pacific abyssal nodule fields from the Peru Basin at 4150 m depth. An average density of 2.67 litter items/ha was observed. Litter composed of plastic was the most abundant followed by metal and glass. At least 58 % of the items observed could be linked to the research expeditions conducted in the area and appeared to be mostly accidental disposals from ships. The data gathered was used to address temporal trends in litter abundance as well as the impact of human on-site presence and return cruises in the context of future deep-sea mining efforts

FAIRMODE: A FORUM FOR AIR QUALITY MODELLING IN EUROPE

FAIRMODE (Forum for AIR quality MODelling in Europe) is an air quality modelling network that was established as a joint initiative of the European Environment Agency (EEA) and European Commission’s Joint Research Centre (JRC). In a common effort EEA and JRC aim at responding to the requirements of the new Air Quality Directive, with particular focus on the introduction of modelling as a necessary tool for air quality assessment and air quality management. The main aim of the modelling network is to bring together air quality modellers and model users in order to promote and support harmonised use of modelling for the assessment of air quality by EU and EEA member countries. The network will thus encourage synergy – at a local, national and European level - through the development and implementation of a common infrastructure based on best practices for reporting and storing information relevant to air quality modelling. A major objective of the FAIRMODE initiative is to provide guidance to present and future air quality model users in EEA’s EIONET partnership network. FAIRMODE also aims to enhance awareness of model usefulness, reliability and accuracy through model validation and intercomparison exercises at a national or European level. The JRC has taken on a leading role in the co-ordination of the latter activities gaining from its experience in leading the “Eurodelta” and “CityDelta” intercomparison exercises. A centralised web portal has been created in support of FAIRMODE, which is currently being used for internal communication purposes of the network participants, but will also provide the means for exchange of relevant material and experiences between all interested modellers and model users. The initial activities of the network will be organised by two main Work Groups, focusing on the preparation of a Guidance Document for model use and on model QA/QC procedures (input data, other uncertainties) respectively. The progress of the preparation of these documents as well as of the rest of the regular activities of the network will be reviewed and discussed within the frame of annual Plenary meetings and Steering Committee meetings

How and why DNA barcodes underestimate the diversity of microbial eukaryotes

Background: Because many picoplanktonic eukaryotic species cannot currently be maintained in culture, direct sequencing of PCR-amplified 18S ribosomal gene DNA fragments from filtered sea-water has been successfully used to investigate the astounding diversity of these organisms. The recognition of many novel planktonic organisms is thus based solely on their 18S rDNA sequence. However, a species delimited by its 18S rDNA sequence might contain many cryptic species, which are highly differentiated in their protein coding sequences. Principal Findings: Here, we investigate the issue of species identification from one gene to the whole genome sequence. Using 52 whole genome DNA sequences, we estimated the global genetic divergence in protein coding genes between organisms from different lineages and compared this to their ribosomal gene sequence divergences. We show that this relationship between proteome divergence and 18S divergence is lineage dependant. Unicellular lineages have especially low 18S divergences relative to their protein sequence divergences, suggesting that 18S ribosomal genes are too conservative to assess planktonic eukaryotic diversity. We provide an explanation for this lineage dependency, which suggests that most species with large effective population sizes will show far less divergence in 18S than protein coding sequences. Conclusions: There is therefore a trade-off between using genes that are easy to amplify in all species, but which by their nature are highly conserved and underestimate the true number of species, and using genes that give a better description of the number of species, but which are more difficult to amplify. We have shown that this trade-off differs between unicellular and multicellular organisms as a likely consequence of differences in effective population sizes. We anticipate that biodiversity of microbial eukaryotic species is underestimated and that numerous ''cryptic species'' will become discernable with the future acquisition of genomic and metagenomic sequences

A novel approach to screen and compare emission inventories

A methodology is proposed to support the evaluation and comparison of different types of emission inventories. The strengths and weaknesses of the methodology are presented and discussed based on an example. The approach results in a “diamond” diagram useful to flag out anomalous behaviors in the emission inventories and to get insight in possible explanations. In particular, the “diamond” diagram is shown to provide meaningful information in terms of: discrepancies between the total emissions reported by macrosector and pollutant, contribution of each macro-sector to the total amount of emissions released by pollutant, and the identification and quantification of the different factors causing the discrepancies between total emissions. A practical example in Barcelona is used for testing and to provide relevant information for the analyzed emission datasets. The tests show the capability of the proposed methodology to flag inconsistencies in the existing inventories. The proposed methodology system may be useful for regional and urban inventory developers as an initial evaluation of the consistency of their inventories

A multi-model study of the hemispheric transport and deposition of oxidised nitrogen.

Fifteen chemistry-transport models are used to quantify, for the first time, the export of oxidised nitrogen (NOy) to and from four regions (Europe, North America, South Asia, and East Asia), and to estimate the uncertainty in the results. Between 12 and 24% of the NOx emitted is exported from each region annually. The strongest impact of each source region on a foreign region is: Europe on East Asia, North America on Europe, South Asia on East Asia, and East Asia on North America. Europe exports the most NOy, and East Asia the least. East Asia receives the most NOy from the other regions. Between 8 and 15% of NOx emitted in each region is transported over distances larger than 1000 km, with 3–10% ultimately deposited over the foreign regions

The sensitivity of aerosol in Europe to two different emission inventories and temporal distribution of emissions

The sensitivity to two different emission inventories, injection altitude and temporal variations of anthropogenic emissions in aerosol modelling is studied, using the two way nested global transport chemistry model TM5 focussing on Europe in June and December 2000. The simulations of gas and aerosol concentrations and aerosol optical depth (AOD) with the EMEP and AEROCOM emission inventories are compared with EMEP gas and aerosol surface based measurements, AERONET sun photometers retrievals and MODIS satellite data. For the aerosol precursor gases SO2 and NOx in both months the model results calculated with the EMEP inventory agree better ( overestimated by a factor 1.3 for both SO2 and NOx) with the EMEP measurements than the simulation with the AEROCOM inventory ( overestimated by a factor 2.4 and 1.9, respectively). Besides the differences in total emissions between the two inventories, an important role is also played by the vertical distribution of SO2 and NOx emissions in understanding the differences between the EMEP and AEROCOM inventories. In December NOx and SO2 from both simulations agree within 50% with observations. In June SO4= evaluated with the EMEP emission inventory agrees slightly better with surface observations than the AEROCOM simulation, whereas in December the use of both inventories results in an underestimate of SO4 with a factor 2. Nitrate aerosol measured in summer is not reliable, however in December nitrate aerosol calculations with the EMEP and AEROCOM emissions agree with 30%, and 60%, respectively with the filter measurements. Differences are caused by the total emissions and the temporal distribution of the aerosol precursor gases NOx and NH3. Despite these differences, we show that the column integrated AOD is less sensitive to the underlying emission inventories. Calculated AOD values with both emission inventories underestimate the observed AERONET AOD values by 20 - 30%, whereas a case study using MODIS data shows a high spatial agreement. Our evaluation of the role of temporal distribution of anthropogenic emissions on aerosol calculations shows that the daily and weekly temporal distributions of the emissions are only important for NOx, NH3 and aerosol nitrate. However, for all aerosol species SO4=, NH4+, POM, BC, as well as for AOD, the seasonal temporal variations used in the emission inventory are important. Our study shows the value of including at least seasonal information on anthropogenic emissions, although from a comparison with a range of measurements it is often difficult to firmly identify the superiority of specific emission inventories, since other modelling uncertainties, e. g. related to transport, aerosol removal, water uptake, and model resolution, play a dominant role

The effect of cigarette smoke exposure on the development of inflammation in lungs, gut and joints of TNFΔARE mice

The inflammatory cytokine TNF-alpha is a central mediator in many immune-mediated diseases, such as Crohn's disease (CD), spondyloarthritis (SpA) and chronic obstructive pulmonary disease (COPD). Epidemiologic studies have shown that cigarette smoking (CS) is a prominent common risk factor in these TNF-dependent diseases. We exposed TNF Delta ARE mice; in which a systemic TNF-alpha overexpression leads to the development of inflammation; to 2 or 4 weeks of air or CS. We investigated the effect of deregulated TNF expression on CS-induced pulmonary inflammation and the effect of CS exposure on the initiation and progression of gut and joint inflammation. Upon 2 weeks of CS exposure, inflammation in lungs of TNF Delta ARE mice was significantly aggravated. However, upon 4 weeks of CS-exposure, this aggravation was no longer observed. TNF Delta ARE mice have no increases in CD4+ and CD8+ T cells and a diminished neutrophil response in the lungs after 4 weeks of CS exposure. In the gut and joints of TNF Delta ARE mice, 2 or 4 weeks of CS exposure did not modulate the development of inflammation. In conclusion, CS exposure does not modulate gut and joint inflammation in TNF Delta ARE mice. The lung responses towards CS in TNF Delta ARE mice however depend on the duration of CS exposure