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This study investigated the effect of salinity on microbial composition and denitrification capacity of woodchip bioreactors treating recirculating aquaculture system (RAS) effluents. Twelve laboratory-scale woodchip bioreactors were run in triplicates at 0, 15, 25, and 35 ppt salinities, and water chemistry was monitored every third day during the first 39 days of operation. Microbial communities of the woodchips bioreactors were analyzed at the start, after one week, and at the end of the trial. Woodchip bioreactors removed nitrate at all salinities tested. The highest NO3-N removal rate of 22.0 ± 6.9 g NO3-N/m3/d was obtained at 0 ppt, while 15.3 ± 4.9, 12.5 ± 5.4 and 11.8 ± 4.0 g NO3-N/m3/d were obtained at salinities of 15, 25 and 35 ppt, respectively. Nitrate removal rates thus decreased with salinity, being 54–69% lower than at 0 ppt. Leaching of total ammonia nitrogen (TAN) and orthophosphate (PO4-P) from woodchips was initially higher at saline treatments compared to 0 ppt, while initial leaching of BOD5 appeared to be similar across all treatments. Production of alkalinity per g NO3-N removed was higher at 0 (3.6 ± 0.5 gCaCO3/gNO3-N) and 15 ppt (3.5 ± 0.8) than at the more saline treatments (25 ppt: 2.0 ± 0.9, 35 ppt: 1.12 ± 0.5 gCaCO3/gNO3-N), indicating that heterotrophic denitrification was the dominant nitrate removing process at 0 and 15 ppt, while autotrophic denitrification processes probably interfered with the alkalinity balance at 25 and 35 ppt. In the woodchip reactors, Gammaproteobacteria was the most abundant taxa. However, salinity shaped the woodchip microbiome, resulting in an increase in the abundance of sulfide oxidizing autotrophic denitrifiers, but decrease in the overall abundance of denitrifying microbes at higher salinities, which presumably explained the reduced nitrate removal rates at elevated salinities. This study demonstrates that woodchip bioreactors can be applied to remove nitrate from saline RAS effluents albeit at lower nitrate removal rates compared to freshwater installations.

Insoluble residue (INS) is a lignin-rich fraction of brewer's spent grain (BSG) that also contains β-glucan and arabinoxylan, the major constituents of dietary fiber. We investigated the effects of INS in diet-induced obese mice in terms of lipid metabolism and metabolic diseases. Male mice (C57bl6) were fed a high-fat diet (HFD), a HFD + 20% INS, a HFD + 20% cellulose (CEL), a HFD with a combination of 20% INS-CEL (1:1), or a control diet for 14 weeks. Insulin and glucose tolerance tests were performed after 12 weeks. Fasting plasma lipids, bile acid, and fecal bile acid were measured after 14 weeks of feeding, and tissues were collected for gene expression analysis. Body weight gain was significantly reduced with all fibers, but only INS and INS-CEL decreased fasting plasma low-density lipoprotein cholesterol and total cholesterol compared to HFD. CEL and INS-CEL significantly improved insulin resistance. Fecal bile acids were significantly increased by all fibers, but there was no change in plasma bile acid. Clostridium leptum was increased with all fibers, but universal bacterial diversity was only with INS and INS-CEL. In addition, INS significantly increased the abundance of Bacteriodes, while CEL decreased Atopobium and Lactobacillus. INS feeding significantly upregulated various genes of cholesterol and bile acid metabolism, such as Srebp2, Hmgcr, Ldlr, Cyp7a1, Pparα, Fxr, and Pxr, in the liver. INS, INS-CEL, and CEL significantly attenuated liver steatosis. Our results suggest that INS from BSG induced beneficial systemic changes in mice via gut microbiota, bile acids, and gene expression in the liver.

Polyacrylamides are widely applied for instance in wastewater treatment, papermaking, oil recovery and mining. Since they are bulk chemicals used in large quantities around the world, their fate in nature is of considerable interest. Both single microbial species as well as mixed populations have been investigated for degradation. Biodegradation of polyacrylamide begins with amidase catalysed deamination of polyacrylamide to ammonia and polyacrylate. The liberated ammonia is then used as a nitrogen source for growth by the microbes. The carbon backbone, polyacrylate, is more recalcitrant to biodegradation than the amide moieties. There are nevertheless reports on microbial growth with polyacrylamide and polyacrylate as the carbon sources. Several aerobic bacteria isolated from polyacrylamide and polyacrylate containing environments, as well as from soil, have been shown to catabolize these polymers. Although enzymology of the bacterial degradation is largely unknown, some hypothetical pathways have been suggested. With white-rot fungi degradation has been demonstrated to be initiated by an indirect radical mechanism catalysed by oxidative enzymes. Anaerobic decomposition has been reported for sulfur-reducing bacteria and mixed bacterial populations.

Electrosynthesis of formate is a promising technology to convert CO2 and electricity from renewable sources into a biocompatible, soluble, non-flammable, and easily storable compound. In the model methanogen Methanococcus maripaludis, uptake of cathodic electrons was shown to proceed indirectly via formation of formate or H2 by undefined, cell-derived enzymes. Here, we identified that the multi-enzyme heterodisulfide reductase supercomplex (Hdr-SC) of M. maripaludis is capable of direct electron uptake and catalyzes rapid H2 and formate formation in electrochemical reactors (-800 mV vs Ag/AgCl) and in Fe(0) corrosion assays. In Fe(0) corrosion assays and electrochemical reactors, purified Hdr-SC primarily catalyzed CO2 reduction to formate with a coulombic efficiency of 90% in the electrochemical cells for 5 days. Thus, this report identified the first enzyme that stably catalyzes the mediator-free electrochemical reduction of CO2 to formate, which can serve as the basis of an enzyme electrode for sustained electrochemical production of formate.

Botanical air filtration is a promising technology for reducing indoor air contaminants, but the underlying mechanisms need better understanding. Here, we made a set of chamber fumigation experiments of up to 16 weeks of duration, to study the filtration efficiencies for seven volatile organic compounds (VOCs; decane, toluene, 2-ethylhexanol, α-pinene, octane, benzene, and xylene) and to monitor microbial dynamics in simulated green wall systems. Biofiltration functioned on sub-ppm VOC levels without concentration-dependence. Airflow through the growth medium was needed for efficient removal of chemically diverse VOCs, and the use of optimized commercial growth medium further improved the efficiency compared with soil and Leca granules. Experimental green wall simulations using these components were immediately effective, indicating that initial VOC removal was largely abiotic. Golden pothos plants had a small additional positive impact on VOC filtration and bacterial diversity in the green wall system. Proteobacteria dominated the microbiota of rhizosphere and irrigation water. Airborne VOCs shaped the microbial communities, enriching potential VOC-utilizing bacteria (especially Nevskiaceae and Patulibacteraceae) in the irrigation water, where much of the VOC degradation capacity of the biofiltration systems resided. These results clearly show the benefits of active air circulation and optimized growth media in modern green wall systems.

The objective of this study was to evaluate the ability of one versatile peroxidase and the biocatalytically generated complex Mn(III)-malonate to polymerize coniferyl alcohol (CA) to obtain dehydrogenation polymers (DHPs) and to characterize how closely the structures of the formed DHPs resemble native lignin. Hydrogen peroxide was used as oxidant and Mn2+ as mediator. Based on the yields of the polymerized product, it was concluded that the enzymatic reaction should be performed in aqueous solution without organic solvents at 4.5 ≤ pH ≤ 6.0 and with 0.75 ≤ H2 O2 :CA ratio ≤ 1. The results obtained from the Mn3+ -malonate-mediated polymerization showed that the yield was almost 100%. Reaction conditions had, however, effect on the structures of the formed DHPs, as detected by size exclusion chromatography and pyrolysis-GC/MS. It can be concluded that from the structural point of view, the optimal pH for DHP formation using the presently studied system was 3 or 4.5. Low H2 O2 /CA ratio was beneficial to avoid oxidative side reactions. However, the high frequency of β-β linkages in all cases points to dimer formation between monomeric CA rather than endwise polymerization. © 2017 American Institute of Chemical Engineers Biotechnol. Prog., 34:81-90, 2018.

MotivationIn the analysis of metabolism using omics data, two distinct and complementary approaches are frequently used: Principal component analysis (PCA) and Stoichiometric flux analysis. PCA is able to capture the main modes of variability in a set of experiments and does not make many prior assumptions about the data, but does not inherently take into account the flux mode structure of metabolism. Stoichiometric flux analysis methods, such as Flux Balance Analysis (FBA) and Elementary Mode Analysis, on the other hand, produce results that are readily interpretable in terms of metabolic flux modes, however, they are not best suited for exploratory analysis on a large set of samples.ResultsWe propose a new methodology for the analysis of metabolism, called Principal Metabolic Flux Mode Analysis (PMFA), which marries the PCA and Stoichiometric flux analysis approaches in an elegant regularized optimization framework. In short, the method incorporates a variance maximization objective form PCA coupled with a Stoichiometric regularizer, which penalizes projections that are far from any flux modes of the network. For interpretability, we also introduce a sparse variant of PMFA that favours flux modes that contain a small number of reactions. Our experiments demonstrate the versatility and capabilities of our methodology.AvailabilityMatlab software for PMFA and SPMFA is available in https://github.com/ aalto-ics-kepaco/PMFA.Contactsahely@iitpkd.ac.in, juho.rousu@aalto.fi, Peter.Blomberg@vtt.fi, Sandra.Castillo@vtt.fiSupplementary informationDetailed results are in Supplementary files. Supplementary data are available at https://github.com/aalto-ics-kepaco/PMFA/blob/master/Results.zip.

Open fjords are subject to contrasting environmental conditions, owing to meltwater glacial inputs, terrestrial runoff, and marine water mass exchanges, which are exacerbated by anthropogenic and climate perturbations. Following a slope-dependent water circulation, the subtidal sandy sediment belt regulates the convergent transport of nutrients downward the fjord depths, and the effective entrapment of suspended particles and microorganisms. In this study, we aimed at testing how glacial and seawater inputs may influence the bacterial community structure of subtidal sand deposits in the Kongsfjorden. Through total and viable cell counting and an amplicon sequencing approach, we found relevant differences in bacterial community structure along the glacio-marine sampling transect. Viable and high nucleic acid content (HNA) cells represented an important fraction of the total community, generally decreasing toward the glacier front. Besides the predominance of Alpha- and Gammaproteobacteria, Bacteroidetes, Firmicutes and Parcubacteria, the bacterial community structure was likely affected by the glacial activity in the inner fjord, with the occurrence of distinctive phylotypes belonging to Gemmatimonadates, Nitrospirae, Acidobacteria, and Chloroflexi. Overall, our outcomes highlighted that exploring the bacterial community distribution and structure can provide new insights into the active role of sand deposits in coastal cold environments.

Cyanobacteria and green algae harness solar energy to split water and to fix CO 2 . Under specific conditions, they are capable of photoproduction of molecular hydrogen (H 2 ). This study compares the light-energy-to-hydrogen-energy conversion efficiency (LHCE) in two heterocystous, N 2 -fixing cyanobacteria (wild-type Calothrix sp. strain 336/3 and the Δ hupL mutant of Anabaena sp. strain PCC 7120) and in the sulfur-deprived green alga, Chlamydomonas reinhardtii strain CC-124, after entrapment of the cells in thin Ca 2+ -alginate films. The experiments, performed under photoautotrophic conditions, showed higher LHCEs in the cyanobacteria as compared to the green alga. The highest efficiency of ca. 2.5% was obtained in films of the entrapped Δ hupL strain under low light condition (2.9 W m −2 ). Calothrix sp. 336/3 films produced H 2 with a maximum efficiency of 0.6% under 2.9 W m −2 , while C. reinhardtii films produced H 2 most efficiently under moderate light (0.14% at 12.1 W m −2 ). Exposure of the films to light above 16 W m −2 led to noticeable oxidative stress in all three strains, which increased with light intensity. The presence of oxidative stress was confirmed by increased ( i ) degradation of chlorophylls and some structural carotenoids (such as β -carotene), ( ii ) production of hydroxylated carotenoids (such as zeaxanthin), and ( iii ) carbonylation of proteins. We conclude that the H 2 photoproduction efficiency in immobilized algae and cyanobacteria can be further improved by entrapping cultures in immobilization matrices with increased permeability for gases, especially oxygen, while matrices with low porosity produced increased amounts of xanthophylls and other antioxidant compounds.

BACKGROUNDThis study elaborates the possibility to apply combined ionic liquid (IL) and enzyme treatments for pulp fibre modification. The approach involves swelling of fibre surfaces with IL followed by enzymatic modification of the disrupted fibre surface using carbohydrate active enzymes. RESULTSThe capacity of seven cellulose-dissolving or cellulose-swelling ionic liquids to swell pulp fibres was compared. In addition, thirteen cellulases and five xylanases were screened for their IL tolerance, which determines their applicability in combined or sequential IL-enzyme treatments of fibres. Among the studied ionic liquids, 1-ethyl-3-methylimidazolium dimethylphosphate ([EMIM]DMP) and 1,3-dimethylimidazolium dimethylphosphate ([DMIM]DMP) had the strongest effect on fibre swelling. These solvents were also found to be the least inactivating for the studied enzymes. CONCLUSIONEnzyme compatibility and cellulose-dissolving capability are not two conflicting properties of an ionic liquid. (c) 2017 Society of Chemical Industry

Sugarcane biorefineries, despite their contribution to sustainable transportation fuels and mitigation of carbon emissions in the mobility sector, produce a large amount of carbon dioxide in their conversion processes. According to the Paris climate agreement, a carbon neutral energy system has to be launched in the years to come, and in this scenario, greenhouse gases emission free industrial processes and alternative carbon sources will be needed. Therefore, this paper presents the evaluation of carbon mass balance of a typical Brazilian ethanol mill to better understand its potential for energy and carbon yield improvement. Due to the fact that Brazilian sugarcane mills are evolving from first generation to integrated first and second generation plant, four different scenarios were analysed. For a first generation plant without (S-I) and with conversion of straw to electricity (S-II) and for the integrated plant (S-III), results of carbon mass balance showed that the harvested sugarcane carbon was mainly converted into CO2 and in a smaller proportion into ethanol. In the modelled cases S-I to S-III the conversion of sugarcane carbon into CO2 and ethanol ranged from 41% to 53% and 17%–22%, respectively. Because this carbon amount in the CO2 flows provides an interesting platform to both increase the bioenergy produced and the harvested carbon-to-fuels ratio, a fourth scenario (S-IV) that studies the integration of power-to-gas (PtG) technologies into the mill was also considered. PtG can increase the sugarcane fuels energy content from 9.3 kW/ha to 33.6 kW/ha using 1361.3 MWe of electricity, increasing the amount of sugarcane carbon transformed into sugarcane based fuels to 54% and converting CO2 into a high value added product.

Feather degrading bacteria from birds' nests were characterized to find safe bacterial strains that could be utilized to convert feathers into soluble form and bacterial biomass for feed purposes. Of all tested 571 isolates 122 were keratinolytic. Partial sequencing of the 16S rRNA gene revealed that the keratinolytic isolates represented Proteobacteria (genera Pseudomonas and Stenotrophomonas) and Firmicutes (genera Bacillus, Exiguobacterium, Paenibacillus, Rummeliibacillus, and Sporosarcina). Bacillus cereus group and gram-negative bacterial isolates were not further characterized due to safety concerns related to potential pathogenicity or potential exposure of animals or workers to endotoxins (lipopolysaccharide part of the gram-negative cell wall). Keratinolytic strains showed clear differences in their ability to solubilize feathers with feather weight losses up to 30%. Amino acid composition of feather hydrolysates shifted from feather composition towards more bacterial-like composition. Especially the levels of lysine could be increased in the feather hydrolysate with bacterial fermentation. Feathers can be effectively hydrolyzed with non-pathogenic bacteria without any additional nutrients. The resulting feather hydrolysate is easier to digest than feather material and it has an improved amino acid composition regarding some limiting amino acids. The amino acid content of the final product can be tailored by varying the fermentation time and thus the ratio of bacterial cells to the feather hydrolysate.

Motivation Incorporating gene interaction data into the identification of ‘hit’ genes in genomic experiments is a well-established approach leveraging the ‘guilt by association’ assumption to obtain a network based hit list of functionally related genes. We aim to develop a method to allow for multivariate gene scores and multiple hit labels in order to extend the analysis of genomic screening data within such an approach. Results We propose a Markov random field-based method to achieve our aim and show that the particular advantages of our method compared with those currently used lead to new insights in previously analysed data as well as for our own motivating data. Our method additionally achieves the best performance in an independent simulation experiment. The real data applications we consider comprise of a survival analysis and differential expression experiment and a cell-based RNA interference functional screen. Availability and implementation We provide all of the data and code related to the results in the paper. Supplementary information Supplementary data are available at Bioinformatics online.

Chemical, physical and biological technologies for removal of sulphate from mine tailings pond water (8 g SO42−/L) were investigated. Sulphate concentrations of approximately 1,400, 700, 350 and 20 mg/L were obtained using gypsum precipitation, and ettringite precipitation, biological sulphate reduction or reverse osmosis (RO) after gypsum pre-treatment, respectively. Gypsum precipitation can be widely utilized as a pre-treatment method, as was shown in this study. Clearly the lowest sulphate concentrations were obtained using RO. However, RO cannot be the only water purification technology, because the concentrate needs to be treated. There would be advantages using biological sulphate reduction, when elemental sulphur could be produced as a sellable end product. Reagent and energy costs for 200 m3/h tailings pond water feed based on laboratory studies and process modelling were 1.1, 3.1, 1.2 and 2.7 MEur/year for gypsum precipitation, ettringite precipitation, RO and biological treatment after gypsum precipitation, respectively. The most appropriate technology or combination of technologies should be selected for every industrial site case by case.

Non-productive enzyme binding onto lignin is the major inhibitory mechanism, which reduces hydrolysis rates and yields and prevents efficient enzyme recycling in the hydrolysis of lignocellulosics. The detailed mechanisms of binding are still poorly understood. Enzyme-lignin interactions were investigated by comparing the structural properties and binding behaviour of fungal monocomponent enzymes, cellobiohydrolases TrCel7A and TrCel6A, endoglucanases TrCel7B and TrCel5A, a xylanase TrXyn11 and a ß-glucosidase AnCel3A, onto lignins isolated from steam pretreated spruce and wheat straw. The enzymes exhibited decreasing affinity onto lignin model films in the following order: TrCel7B > TrCel6A > TrCel5A > AnCel3A > TrCel7A > TrXyn11. As analysed in Avicel hydrolysis, TrCel6A and TrCel7B were most inhibited by lignin isolated from pretreated spruce. This could be partially explained by adsorption of the enzyme onto the lignin surface. Enzyme properties, such as enzyme surface charge, thermal stability or surface hydrophobicity could not alone explain the adsorption behaviour.

Simple and cost-effective methods with sufficient sensitivities for preliminary screening of cyanobacterial toxins are in high demand for assessing water quality and safety. We have recently developed a highly sensitive and rapid time-resolved fluorometry based non-competitive immunoassay for detection of microcystins and nodularins. The assay is based on a synthetic broad-specific anti-immunocomplex antibody SA51D1 capable of recognizing the immunocomplex formed by a generic anti-Adda monoclonal antibody (mAb) bound to either microcystins or nodularins. Using the same antibody pair, here we describe a very simple and cost-efficient non-competitive ELISA test for microcystins and nodularins based on conventional alkaline phosphatase (AP) activity measurement. The recombinant SA51D1 single-chain fragment of antibody variable domain (scFv) was produced as a fusion with bacterial alkaline phosphatase in Escherichia coli. After one step affinity purification through His-tag, the scFv-AP fusion protein could directly be used in the assay. For the assay, toxin standard/sample, biotinylated anti-Adda mAb and the scFv-AP were incubated together for one hour on streptavidin-coated microtiter wells, washed and AP activity was then measured by incubating (1 h at 37 ˚C) with chromogenic substrate para-nitrophenylphosphate (pNPP). The assay was capable of detecting all the eleven tested toxin variants (microcystin-LR, -dmLR, -RR, -dmRR, -YR, LA -LY, -LF -LW, -WR, and nodularin-R) below WHO guide line value of 1 µg L-1. The detection limit (based on blank+3SD response) for microcystin-LR was ~0.2 µg L-1. The assay was verified using spiked (0.25 - 4 µg L-1 of microcystin-LR) tap, river and lake water samples with recoveries from 64 to 101%. The assay showed good correlation (r2>0.9) with four reference methods for its performance in detecting extracted intracellular microcystin/nodularin from 17 natural surface water samples. The described easy-to-perform assay has a high potential to be used in resource-poor settings as quantitative measurements can be obtained using a simple ELISA reader or easy-to-interpret qualitative results by visual readout. Based on the non-competitive format, the assay does not need any chemical toxin conjugates and offers robustness as compared to the currently available competitive format assays.

Cultivation of microalgae Chlorella sp. with livestock waste compost as an alternative nutrient source was investigated in this present study. Five culture media with different nutrient concentrations were prepared. The characteristics of algal growth and lipid production were examined. The results showed that the specific growth rate together with biomass and lipid productivities was different among all the cultures. As the initial nutrient concentration decreased, the lipid content of Chlorella sp. increased. The variations in lipid productivity of Chlorella sp. among all the cultures were mainly due to the deviations in biomass productivity. The livestock waste compost medium with 2000 mg L−1 COD provided an optimal nutrient concentration for Chlorella sp. cultivation, where the highest productivities of biomass (288.84 mg L−1 day−1) and lipid (104.89 mg L−1 day−1) were presented.

This work wassupported by the Academy of Finland through its Centres of Excel-lence Programme (2014–2019) and under Projects No. 259034 and264493. Hydrophobins are surface-active proteins produced by filamentous fungi. They have amphiphilic structures and form multimers in aqueous solution to shield their hydrophobic regions. The proteins rearrange at interfaces and self-assemble into films that can show a very high degree of structural order. Little is known on dynamics of multimer interactions in solution and how this is affected by other components. In this work we examine the multimer dynamics by stopped-flow fluorescence measurements and Förster Resonance Energy Transfer (FRET) using the class II hydrophobin HFBII. The half-life of exchange in the multimer state was 0.9 s at 22 °C with an activation energy of 92 kJ/mol. The multimer exchange process of HFBII was shown to be significantly affected by the closely related HFBI hydrophobin, lowering both activation energy and half-life for exchange. Lower molecular weight surfactants interacted in very selective ways, but other surface active proteins did not influence the rates of exchange. The results indicate that the multimer formation is driven by specific molecular interactions that distinguish different hydrophobins from each other.

Background Diagnosing frontotemporal dementia may be challenging. New methods for analysis of regional brain atrophy patterns on magnetic resonance imaging (MRI) could add to the diagnostic assessment. Therefore, we aimed to develop automated imaging biomarkers for differentiating frontotemporal dementia subtypes from other diagnostic groups, and from one another. Methods In this retrospective multicenter cohort study, we included 1213 patients (age 67 ± 9, 48% females) from two memory clinic cohorts: 116 frontotemporal dementia, 341 Alzheimer's disease, 66 Dementia with Lewy bodies, 40 vascular dementia, 104 other dementias, 229 mild cognitive impairment, and 317 subjective cognitive decline. Three MRI atrophy biomarkers were derived from the normalized volumes of automatically segmented cortical regions: 1) the anterior vs. posterior index, 2) the asymmetry index, and 3) the temporal pole left index. We used the following performance metrics: area under the receiver operating characteristic curve (AUC), sensitivity, and specificity. To account for the low prevalence of frontotemporal dementia we pursued a high specificity of 95%. Cross-validation was used in assessing the performance. The generalizability was assessed in an independent cohort (n = 200). Results The anterior vs. posterior index performed with an AUC of 83% for differentiation of frontotemporal dementia from all other diagnostic groups (Sensitivity = 59%, Specificity = 95%, positive likelihood ratio = 11.8, negative likelihood ratio = 0.4). The asymmetry index showed highest performance for separation of primary progressive aphasia and behavioral variant frontotemporal dementia (AUC = 85%, Sensitivity = 79%, Specificity = 92%, positive likelihood ratio = 9.9, negative likelihood ratio = 0.2), whereas the temporal pole left index was specific for detection of semantic variant primary progressive aphasia (AUC = 85%, Sensitivity = 82%, Specificity = 80%, positive likelihood ratio = 4.1, negative likelihood ratio = 0.2). The validation cohort provided corresponding results for the anterior vs. posterior index and temporal pole left index. Conclusion This study presents three quantitative MRI biomarkers, which could provide additional information to the diagnostic assessment and assist clinicians in diagnosing frontotemporal dementia., Highlights • Quantitative MRI biomarkers (API, ASI, and TPL) for detection of FTD and its subtypes. • API differentiated FTD from other diagnostic groups with AUC of 83%. • ASI and TPL showed highest performance for PPA subtypes. • A subcortical bvFTD subtype resembling AD atrophy pattern seems undetectable for MRI.

Scope: According to Eurostat 2016, approximately 119 million European citizens live at-risk-of-poverty (ROP). This subpopulation is highly diverse by ethnicity, age, and culture in the different EU states, but they all have in common a low income that could represent an increased risk of nutrient deficiencies due to poor nutritional habits. This study aims to investigate the human urine metabolome in the search of common biomarkers representing dietary deficiencies amongst European populations at ROP. Methods and results: 2732 urine samples were collected from 1391 subjects across five different European countries, including the United Kingdom, Finland, Italy, Lithuania, and Serbia, and analyzed using 1H-NMR spectroscopy. The resulting urine metabolome data were explored according to study design factors including economic status, country, and gender. Conclusion: Partitioning of the effects derived from the study design factors using ANOVA-simultaneous component analysis (ASCA) revealed that country and gender effects were responsible for most of the systematic variation. The effect of economic status was, as expected, much weaker than country and gender, but more pronounced in Lithuania than in other countries. Citrate and hippurate were among the most powerful ROP biomarkers. The possible relationship between these markers and nutritional deficiencies amongst the ROP population is discussed.

The excessive use of antibiotics in food animal production has contributed to resistance in pathogenic bacteria, thereby triggering regulations and consumer demands to limit their use. Alternatives for disease control are therefore required that are cost-effective and compatible with intensive production. While vaccines are widely used and effective, they are available against a minority of animal diseases, and development of novel vaccines and other immunotherapeutics is therefore needed. Production of such proteins recombinantly in plants can provide products that are effective and safe, can be orally administered with minimal processing, and are easily scalable with a relatively low capital investment. The present report thus advocates the use of plants for producing vaccines and antibodies to protect farm animals from diseases that have thus far been managed with antibiotics; and highlights recent advances in product efficacy, competitiveness, and regulatory approval.

Each year, thousands of hectares of peatland that had been harvested are being released in Finland, which can offer an opportunity to increase energy crops and attain the bioenergy targets for non-agriculture lands. In this study, the Geographic Information System (GIS) method was used to improve the assessment of decentralized renewable energy resources. The amount of peat production lands and future cutaway areas for energy crop production was calculated as a case study by using ArcGIS and the Finnish Topographic database. There are almost 1000 km2 of peat production lands in Finland, and theoretically, approximately 300 km2 of cutaway peatlands could be used for energy crops after 30 years. The dry biomass yield of reed canary grass (Phalaris arundinacea) or timothy-fescue grass (mix of Phleum pratense and Festuca pratensis) could be higher than 100 Gg a−1 in these lands indicating methane potential of approximately 300 GWh. The exhausted peat production areas in the western region of Finland have significant potential for use for energy crops; North and South Ostrobothnia account for almost 45% of the total peat production land. A future goal could be to use the cutaway peat production lands more efficiently for bioenergy to mitigate climate change. Since the use of wastelands (including peatlands) are being considered in Europe as a way to avoid competition with food production, the GIS method used in the study to identify suitable peat lands could be applicable to biomass resource studies being conducted in many countries. peerReviewed

Bio-oils were produced through intermediate (IP) and fast pyrolysis (FP), using Eucalyptus sp . (hardwood) and Picea abies (softwood), wood wastes produced in large scale in Pulp and Paper industries. Characterization of these bio-oils was made using GC/qMS and GC × GC/TOFMS. The use of GC × GC provided a broader characterization of bio-oils and it allowed tracing potential markers of hardwood bio-oil, such as dimethoxy-phenols, which might co-elute in 1D-GC. Catalytic FP increased the percentage of aromatic hydrocarbons in P. abies bio-oil, indicating its potential for fuel production. However, the presence of polyaromatic hydrocarbons (PAH) draws attention to the need of a proper management of pyrolysis process in order to avoid the production of toxic compounds and also to the importance of GC × GC/TOFMS use to avoid co-elutions and consequent inaccuracies related to identification and quantification associated with GC/qMS. Ketones and phenols were the major bio-oil compounds and they might be applied to polymer production.

The carotenoid composition of the filamentous heterocystous N2-fixing cyanobacterium Calothrix sp. 336/3 was investigated under three conditions: in full medium (non-diazotrophic growth); in the absence of combined nitrogen (diazotrophic growth); and after long-term H2 photoproduction (diazotrophic medium and absence of nitrogen in the atmosphere). Anabaena sp. PCC 7120 and its ΔhupL mutant with disrupted uptake hydrogenase were used as reference strains. Analysis of identified carotenoids and enzymes involved in carotenogenesis showed the presence of three distinct biosynthetic pathways in Calothrix sp. 336/3. The first one is directed towards biosynthesis of myxoxanthophylls, such as myxol 2'-methylpentoside and 2-hydroxymyxol 2'-methylpentoside. The second pathway results in production of hydroxylated carotenoids, such as zeaxanthin, caloxanthin and nostoxanthin, and the last pathway is responsible for biosynthesis of echinenone and hydroxylated forms of ketocarotenoids, such as 3'-hydroxyechinenone and adonixanthin. We found that carotenogenesis in filamentous heterocystous cyanobacteria varies depending on the nitrogen status of the cultures, with significant accumulation of echinenone during diazotrophic growth at the expense of β-carotene. Under the severe N deficiency and high CO2 supply, which leads to efficient H2 photoproduction, cyanobacteria degrade echinenone and β-carotene, and accumulate glycosylated and hydroxylated carotenoids, such as myxol (or ketomyxol) 2'-methylpentosides, 3'-hydroxyechinenone and zeaxanthin. We suggest that the stability of the photosynthetic apparatus in Calothrix sp. 336/3 cells under N deficiency and high carbon conditions, which also appeared as the partial recovery of the pigment composition by the end of the long-term (∼1 month) H2 photoproduction process, might be mediated by a high content of hydroxycarotenoids.