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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: X. Wen; X. Wen; V. Unger; G. Jurasinski; +15 Authors

    The rewetting of drained peatlands alters peat geochemistry and often leads to sustained elevated methane emission. Although this methane is produced entirely by microbial activity, the distribution and abundance of methane-cycling microbes in rewetted peatlands, especially in fens, is rarely described. In this study, we compare the community composition and abundance of methane-cycling microbes in relation to peat porewater geochemistry in two rewetted fens in northeastern Germany, a coastal brackish fen and a freshwater riparian fen, with known high methane fluxes. We utilized 16S rRNA high-throughput sequencing and quantitative polymerase chain reaction (qPCR) on 16S rRNA, mcrA, and pmoA genes to determine microbial community composition and the abundance of total bacteria, methanogens, and methanotrophs. Electrical conductivity (EC) was more than 3 times higher in the coastal fen than in the riparian fen, averaging 5.3 and 1.5 mS cm−1, respectively. Porewater concentrations of terminal electron acceptors (TEAs) varied within and among the fens. This was also reflected in similarly high intra- and inter-site variations of microbial community composition. Despite these differences in environmental conditions and electron acceptor availability, we found a low abundance of methanotrophs and a high abundance of methanogens, represented in particular by Methanosaetaceae, in both fens. This suggests that rapid (re)establishment of methanogens and slow (re)establishment of methanotrophs contributes to prolonged increased methane emissions following rewetting.

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    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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    DOAJ
    Article . 2018
    Data sources: DOAJ
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    Biogeosciences
    Article
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    Biogeosciences
    Article . 2018 . Peer-reviewed
    License: CC BY
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    Biogeosciences (BG)
    Other literature type . 2019
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    Biogeosciences
    Article . 2018
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    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Copernicus Publications
    Other literature type . 2019
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      DOAJ
      Article . 2018
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      Biogeosciences
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      Biogeosciences
      Article . 2018 . Peer-reviewed
      License: CC BY
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      Biogeosciences (BG)
      Other literature type . 2019
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      Biogeosciences
      Article . 2018
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      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
      Copernicus Publications
      Other literature type . 2019
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Jiarui Liu; André Pellerin; Gilad Antler; Gareth Izon; +6 Authors

    Sediment-hosted marine sulfur cycling has played a significant role in regulating Earth's surface chemistry over our planet's history. Microbially-mediated reactions involving sulfur are often accompanied by sulfur isotope fractionation that, in turn, is captured by sulfate and sulfide minerals, providing the opportunity to track changes in the microbial utilization of sulfur and thus the marine sulfur cycle. Studying sulfur diagenesis within the Bornholm Basin, Baltic Sea, we explore the interplay between carbon, sulfur and iron, focusing on the fate of sulfur and the dynamics of the sulfur and oxygen isotopic response as a function of the varying thickness of the organic carbon-rich Holocene Mud Layer (HML) across the basin. Using a one-dimensional reaction-transport model, porewater sulfate and sulfide profiles were used to calculate net sulfate reduction rates (SRR) and net sulfide production rates, respectively. These calculations suggest a positive relationship between the thickness of the HML and net rates of sulfate reduction and sulfide production. Given that ascending sulfide is enriched in 34S relative to that produced in-situ, a heightened sulfide flux promotes spatially variable precipitation of 34S-enriched pyrite (δ34S ≈ −10‰) close to the sediment–water interface. Modeling results indicate that this isotopically “heavy” sulfide is formed as a consequence of mixing between ascending sulfide (up to +6.3‰) and that produced in-situ (ca. −40‰). Further, we show that the sulfur and oxygen isotopic composition of porewater sulfate is controlled by the net SRR: when the net SRR is high (i.e., in sulfide-replete settings) the downcore increase in δ18OSO4 is dampened relative to increase in δ34SSO4, whereas when net SRR is low (i.e., in iron-rich parts of the basin) downcore δ18OSO4 values increase while δ34SSO4 values remain invariant. We conclude that sedimentation rates and open system diffusion strongly influence the distribution of sulfur species and their sulfur isotopic composition, as well as the oxygen isotopic composition of sulfate, through the interaction between iron, sulfur and methane. This work highlights the importance of considering diffusion to better understand open system diagenesis and the δ34S signatures of sulfate and sulfide in both modern settings and ancient rocks.

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    Authors: Jonas Nüchel; Peder Klith Bøcher; Wen Xiao; A-Xing Zhu; +1 Authors

    Many threatened species have undergone range retraction, and are confined to small fragmented populations. To increase their survival prospects, it is necessary to find suitable habitat outside their current range, to increase and interconnect populations. Species distribution models may be used to this purpose and can be an important part of the conservation strategies. One pitfall is that such mapping will typically assume that the current distribution represents the optimal habitat, which may not be the case for threatened species. Here, we use maximum entropy modelling (Maxent) and rectilinear bioclimatic envelope modelling with current and historical distribution data, together with the location of protected areas, and environmental and anthropogenic variables, to answer three key questions for the conservation of Rhinopithecus, a highly endangered genus of primates consisting of five species of which three are endemic to China, one is endemic to China and Myanmar and one is endemic to Vietnam; Which environmental variables best predict the distribution? To what extent is Rhinopithecus living in an anthropogenically truncated niche space? What is the genus’ potential distribution in the region? Mean temperature of coldest and warmest quarter together with annual precipitation and precipitation during the driest quarter were the variables that best explained Rhinopithecus’ distribution. The historical records were generally in warmer and wetter areas and in lower elevation than the current distribution, strongly suggesting that Rhinopithecus today survives in an anthropogenic truncated niche space. There is 305,800–319,325 km2 of climatic suitable area within protected areas in China, of which 96,525–100,275 km2 and 17,175–17,550 km2 have tree cover above 50 and 75%, respectively. The models also show that the area predicted as climatic suitable using Maxent was 72–89% larger when historical records were included. Our results emphasise the importance of considering historical records when assessing restoration potential and show that there is high potential for restoring Rhinopithecus to parts of its former range. Electronic supplementary material The online version of this article (10.1007/s10531-018-1507-0) contains supplementary material, which is available to authorized users.

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    Biodiversity and Conservation
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    Biodiversity and Conservation
    Article . 2018 . Peer-reviewed
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      Biodiversity and Conservation
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      Biodiversity and Conservation
      Article . 2018 . Peer-reviewed
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  • image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Authors: Bela-ong, Dennis; Schyth, Brian Dall; Zou, Jun; Secombes, Christopher J; +1 Authors

    Mechanisms that account for the high protective efficacy in teleost fish of a DNA vaccine expressing the glycoprotein (G) of Viral hemorrhagic septicemia virus (VHSV) are thought to involve early innate immune responses mediated by interferons (IFNs). Microribonucleic acids (miRNAs) are a diverse class of small (18–22 nucleotides) endogenous RNAs that potently mediate post-transcriptional silencing of a wide range of genes and are emerging as critical regulators of cellular processes, including immune responses. We have recently reported that miR-462 and miR-731 were strongly induced in rainbow trout infected with VHSV. In this study, we analyzed the expression of these miRNAs in fish following administration of the DNA vaccine and their potential functions. Quantitative RT-PCR analysis revealed the increased levels of miR-462, and miR-731 in the skeletal muscle tissue at the site of vaccine administration and in the liver of vaccinated fish relative to empty plasmid backbone-injected controls. The increased expression of these miRNAs in the skeletal muscle correlated with the increased levels of the type I interferon (IFN)-inducible gene Mx, type I IFN and IFN-γ genes at the vaccination site. Intramuscular injection of fish with either type I IFN or IFN-γ plasmid construct resulted in the upregulation of miR-462 and miR-731 at the site of injection, suggesting that the induction of these miRNAs is elicited by IFNs. To analyze the function of miR-462 and miR-731, specific silencing of these miRNAs using anti-miRNA oligonucleotides was conducted in poly I:C-treated rainbow trout fingerlings. Following VHSV challenge, anti-miRNA-injected fish had faster development of disease and higher mortalities than control fish, indicating that miR-462/731 may be involved in IFN-mediated protection conferred by poly I:C.

    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao PURE Aarhus Universi...arrow_drop_down
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    PURE Aarhus University; Vaccine
    Other literature type . Article . 2015 . Peer-reviewed
    License: Elsevier TDM
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Theses@asb
    Article . 2015
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      PURE Aarhus University; Vaccine
      Other literature type . Article . 2015 . Peer-reviewed
      License: Elsevier TDM
      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
      Theses@asb
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      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
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    Authors: Mikael K. Sejr; Mikael K. Sejr; Kim N. Mouritsen; Dorte Krause-Jensen; +6 Authors

    Understanding the influence of physical drivers and their scale-dependent interactions on ecosystem structure and function is becoming increasingly relevant as ecologists are challenged to quantify and predict the biological implications of anthropogenic activities and climate changes. Here, we aim to quantify the impact of multiple physical drivers (ice scour, wave exposure, and air temperature) and their interactions with small scale modifying factors (tidal level, substrate rugosity, and canopy forming macroalgae) on rocky intertidal community structure. We did this by quantifying intertidal biomass, cover and species richness at three tidal levels (high, mid, and low) at four sites in a sub-arctic Greenland fjord. We found a well-developed intertidal community, with a total of 16 macroalgae and 20 invertebrate species. At one locality, the total biomass was dominated by canopy forming algae exceeding 16 kg wet weight per m–2. Physical stress from ice scour, waves, and air exposure had negative effects on all three community metrics but important interactions and modifying processes were identified. The effect of tidal level differed between sites ranging from an absence of organisms at both high- and mid-intertidal level at the most ice- and wave exposed site to extensive cover across all three tidal levels at the wave and ice sheltered site. Canopy forming macroalgae and substrate rugosity both modified the impacts of physical stress. In the absence of ice scour, canopy forming algae formed extensive cover that modified extreme air temperatures, and the abundance of dominant invertebrate species were all positively related to the biomass of macroalgae. Rugosity provided refuge from ice scour, facilitating increased species richness and cover at exposed sites. Moreover, we detected no negative effects of fast ice, and ice scour impacts were primarily found where presence of glacial ice was combined with wave exposure. Our results provide an example of how large-scale physical factors pass through a filter of several modifying smaller scale processes before their impact on plot scale community structure is manifested.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Frontiers in Marine ...arrow_drop_down
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    Frontiers in Marine Science
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    Article . 2021
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      Frontiers in Marine Science
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    Authors: Qiu, C.; Zhu, D.; Ciais, P.; Guenet, B.; +50 Authors

    Peatlands store substantial amounts of carbon and are vulnerable to climate change. We present a modified version of the Organising Carbon and Hydrology In Dynamic Ecosystems (ORCHIDEE) land surface model for simulating the hydrology, surface energy, and CO2 fluxes of peatlands on daily to annual timescales. The model includes a separate soil tile in each 0.5° grid cell, defined from a global peatland map and identified with peat-specific soil hydraulic properties. Runoff from non-peat vegetation within a grid cell containing a fraction of peat is routed to this peat soil tile, which maintains shallow water tables. The water table position separates oxic from anoxic decomposition. The model was evaluated against eddy-covariance (EC) observations from 30 northern peatland sites, with the maximum rate of carboxylation (Vcmax) being optimized at each site. Regarding short-term day-to-day variations, the model performance was good for gross primary production (GPP) (r2 = 0.76; Nash–Sutcliffe modeling efficiency, MEF = 0.76) and ecosystem respiration (ER, r2 = 0.78, MEF = 0.75), with lesser accuracy for latent heat fluxes (LE, r2 = 0.42, MEF = 0.14) and and net ecosystem CO2 exchange (NEE, r2 = 0.38, MEF = 0.26). Seasonal variations in GPP, ER, NEE, and energy fluxes on monthly scales showed moderate to high r2 values (0.57–0.86). For spatial across-site gradients of annual mean GPP, ER, NEE, and LE, r2 values of 0.93, 0.89, 0.27, and 0.71 were achieved, respectively. Water table (WT) variation was not well predicted (r2 cmax and latitude (temperature), which better reflects the spatial gradients of annual NEE than using an average Vcmax value. Source at https://doi.org/10.5194/gmd-11-497-2018.

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    https://doi.org/10.5445/ir/100...
    Article . 2018
    License: CC BY
    Data sources: Datacite
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    KITopen
    Article . 2018
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    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Copernicus Publications
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      https://doi.org/10.5445/ir/100...
      Article . 2018
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      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
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    Authors: Gong, Xianzhe; Skrivergaard, Stig; Korsgaard, Benjamin; Schreiber, Lars; +3 Authors

    AbstractStrain S3-2T, isolated from sediment of a frozen freshwater pond, shares 99% 16S rRNA gene sequence identity with strains of the genus Janthinobacterium. Strain S3-2T is a facultative anaerobe that lacks the ability to produce violacein but shows antibiotic resistance, psychrotolerance, incomplete denitrification, and fermentation. The draft genome of strain S3-2T has a size of ~5.8 Mbp and contains 5,297 genes, including 115 RNA genes. Based on the phenotypic properties of the strain, the low in silico DNA-DNA hybridization (DDH) values with related genomes (<35%), and the low whole genome-based average nucleotide identity (ANI) (<86%) with other strains within the genus Janthinobacterium, we propose that strain S3-2T is the type strain (= DSM 102223 = LMG 29653) of a new species within this genus. We propose the name Janthinobacterium psychrotolerans sp. nov. to emphasize the capability of the strain to grow at low temperatures.

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    Standards in Genomic Sciences
    Other literature type . Article . 2017 . Peer-reviewed
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      Standards in Genomic Sciences
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    Authors: Mikkelsen, Lonnie; Mouritsen, Kim Nørgaard; Dahl, Karsten; Teilmann, Jonas; +1 Authors

    Stony reefs in shallow water support abundant and species-rich animal communities, and may thus attract top predators such as the harbour porpoise. In summer 2008, the nature res- toration project Blue Reef re-established 45 000 m 2 of cavernous stony reef at Laeso Trindel in the northern Kattegat, Denmark. To investigate whether the re-established reef attracts harbour por- poises, the acoustic activity of porpoises was monitored by static acoustic data loggers, T-PODs, before and after the restoration project. T-PODs were placed at the Laeso Trindel reef and at a ref- erence station 10 km away between June and August from 2006 to 2012. Results showed that por- poise activity increased significantly at Laeso Trindel reef after the reconstruction in 2008. The number of minutes with porpoise recordings (PPM) increased on average from 9.5 PPM per day in 2006 to a maximum in 2010 (15.2 PPM per day) followed by a small decrease (12.75 PPM per day in 2012). An increase in mean encounter duration from 3.0 min in 2006 to 4.7 min in 2010 (3.7 min in 2012) showed that porpoises not only appeared more often, but also stayed longer at Laeso Trindel. Furthermore, there was a striking diel pattern in porpoise activity at Laeso Trindel, with significantly higher activity during the night. This pattern became increasingly apparent over the study period. At the reference station, in contrast, most activity took place during the day through- out the study. The results suggest that these changes reflect a new food source which occurs at night on the re-established stony reef and is exploited by the porpoises.

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    Marine Ecology Progress Series
    Article . 2013 . Peer-reviewed
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      Marine Ecology Progress Series
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    Authors: Jakob Thyrring; Susse Wegeberg; Martin E. Blicher; Dorte Krause-Jensen; +6 Authors

    Climate change has ecosystem‐wide cascading effects. Little is known, however, about the resilience of Arctic marine ecosystems to environmental change. Here we quantify and compare large‐scale patterns in rocky intertidal biomass, coverage and zonation in six regions along a north‐south gradient of temperature and ice conditions in West Greenland (60–72°N). We related the level and variation in assemblage composition, biomass and coverage to latitudinal‐scale environmental drivers. Across all latitudes, the intertidal assemblage was dominated by a core of stress‐tolerant foundation species that constituted > 95% of the biomass. Hence, canopy‐forming macroalgae, represented byFucus distichussubsp.evanescensandF. vesiculosusand, up to 69°N, alsoAscophyllum nodosum, together withSemibalanus balanoides, occupied > 70% of the vertical tidal range in all regions. Thus, a similar functional assemblage composition occurred across regions, and no latitudinal depression was observed. The most conspicuous difference in species composition from south to north was that three common species (the macroalgaeAscophyllum nodosum, the amphipodGammarus setosusand the gastropodLittorina obtusata) disappeared from the mid‐intertidal, although at different latitudes. There were no significant relationships between assemblage metrics and air temperature or sea ice coverage as obtained from weather stations and satellites, respectively. Although the mean biomass decreased > 50% from south to north, local biomass in excess of 10 000 g ww m−2was found even at the northernmost site, demonstrating the patchiness of this habitat and the effect of small‐scale variation in environmental characteristics. Hence, using the latitudinal gradient in a space‐for‐time substitution, our results suggest that while climate modification may lead to an overall increase in the intertidal biomass in north Greenland, it is unlikely to drive dramatic functional changes in ecosystem structure in the near future. Our dataset provides an important baseline for future studies to verify these predictions for Greenland's intertidal zone.

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    Ecography
    Article . 2021 . Peer-reviewed
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    PURE Aarhus University
    Conference object . 2020
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      PURE Aarhus University
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    Authors: T. Jilbert; T. Jilbert; E. Asmala; E. Asmala; +12 Authors

    Iron (Fe) plays a key role in sedimentary diagenetic processes in coastal systems, participating in various redox reactions and influencing the burial of organic carbon. Large amounts of Fe enter the marine environment from boreal river catchments associated with dissolved organic matter (DOM) and as colloidal Fe oxyhydroxides, principally ferrihydrite. However, the fate of this Fe pool in estuarine sediments has not been extensively studied. Here we show that flocculation processes along a salinity gradient in an estuary of the northern Baltic Sea efficiently transfer Fe and OM from the dissolved phase into particulate material that accumulates in the sediments. Flocculation of Fe and OM is partially decoupled. This is likely due to the presence of discrete colloidal ferrihydrite in the freshwater Fe pool, which responds differently from DOM to estuarine mixing. Further decoupling of Fe from OM occurs during sedimentation. While we observe a clear decline with distance offshore in the proportion of terrestrial material in the sedimentary particulate organic matter (POM) pool, the distribution of flocculated Fe in sediments is modulated by focusing effects. Labile Fe phases are most abundant at a deep site in the inner basin of the estuary, consistent with input from flocculation and subsequent focusing. The majority of the labile Fe pool is present as Fe (II), including both acid-volatile sulfur (AVS)-bound Fe and unsulfidized phases. The ubiquitous presence of unsulfidized Fe (II) throughout the sediment column suggests Fe (II)-OM complexes derived from reduction of flocculated Fe (III)-OM, while other Fe (II) phases are likely derived from the reduction of flocculated ferrihydrite. Depth-integrated rates of Fe (II) accumulation (AVS-Fe + unsulfidized Fe (II) + pyrite) for the period 1970-2015 are greater in the inner basin of the estuary with respect to a site further offshore, confirming higher rates of Fe reduction in near-shore areas. Mossbauer Fe-57 spectroscopy shows that refractory Fe is composed largely of superparamagnetic Fe (III), high-spin Fe (II) in silicates, and, at one station, also oxide minerals derived from past industrial activities. Our results highlight that the cycling of Fe in boreal estuarine environments is complex, and that the partial decoupling of Fe from OM during flocculation and sedimentation is key to understanding the role of Fe in sedimentary diagenetic processes in coastal areas. Peer reviewed

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    Biogeosciences; PURE Aarhus University
    Article . 2018 . Peer-reviewed
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    Article . 2018
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    Other literature type . 2018
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    Copernicus Publications
    Other literature type . 2018
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      Biogeosciences; PURE Aarhus University
      Article . 2018 . Peer-reviewed
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      Article . 2018
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      Other literature type . 2018
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    Authors: X. Wen; X. Wen; V. Unger; G. Jurasinski; +15 Authors

    The rewetting of drained peatlands alters peat geochemistry and often leads to sustained elevated methane emission. Although this methane is produced entirely by microbial activity, the distribution and abundance of methane-cycling microbes in rewetted peatlands, especially in fens, is rarely described. In this study, we compare the community composition and abundance of methane-cycling microbes in relation to peat porewater geochemistry in two rewetted fens in northeastern Germany, a coastal brackish fen and a freshwater riparian fen, with known high methane fluxes. We utilized 16S rRNA high-throughput sequencing and quantitative polymerase chain reaction (qPCR) on 16S rRNA, mcrA, and pmoA genes to determine microbial community composition and the abundance of total bacteria, methanogens, and methanotrophs. Electrical conductivity (EC) was more than 3 times higher in the coastal fen than in the riparian fen, averaging 5.3 and 1.5 mS cm−1, respectively. Porewater concentrations of terminal electron acceptors (TEAs) varied within and among the fens. This was also reflected in similarly high intra- and inter-site variations of microbial community composition. Despite these differences in environmental conditions and electron acceptor availability, we found a low abundance of methanotrophs and a high abundance of methanogens, represented in particular by Methanosaetaceae, in both fens. This suggests that rapid (re)establishment of methanogens and slow (re)establishment of methanotrophs contributes to prolonged increased methane emissions following rewetting.

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    DOAJ
    Article . 2018
    Data sources: DOAJ
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    Biogeosciences
    Article
    License: CC BY
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    Biogeosciences
    Article . 2018 . Peer-reviewed
    License: CC BY
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    Biogeosciences (BG)
    Other literature type . 2019
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    Biogeosciences
    Article . 2018
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    Copernicus Publications
    Other literature type . 2019
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      DOAJ
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      Biogeosciences
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      Biogeosciences
      Article . 2018 . Peer-reviewed
      License: CC BY
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      Biogeosciences (BG)
      Other literature type . 2019
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      Biogeosciences
      Article . 2018
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      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
      Copernicus Publications
      Other literature type . 2019
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    Authors: Jiarui Liu; André Pellerin; Gilad Antler; Gareth Izon; +6 Authors

    Sediment-hosted marine sulfur cycling has played a significant role in regulating Earth's surface chemistry over our planet's history. Microbially-mediated reactions involving sulfur are often accompanied by sulfur isotope fractionation that, in turn, is captured by sulfate and sulfide minerals, providing the opportunity to track changes in the microbial utilization of sulfur and thus the marine sulfur cycle. Studying sulfur diagenesis within the Bornholm Basin, Baltic Sea, we explore the interplay between carbon, sulfur and iron, focusing on the fate of sulfur and the dynamics of the sulfur and oxygen isotopic response as a function of the varying thickness of the organic carbon-rich Holocene Mud Layer (HML) across the basin. Using a one-dimensional reaction-transport model, porewater sulfate and sulfide profiles were used to calculate net sulfate reduction rates (SRR) and net sulfide production rates, respectively. These calculations suggest a positive relationship between the thickness of the HML and net rates of sulfate reduction and sulfide production. Given that ascending sulfide is enriched in 34S relative to that produced in-situ, a heightened sulfide flux promotes spatially variable precipitation of 34S-enriched pyrite (δ34S ≈ −10‰) close to the sediment–water interface. Modeling results indicate that this isotopically “heavy” sulfide is formed as a consequence of mixing between ascending sulfide (up to +6.3‰) and that produced in-situ (ca. −40‰). Further, we show that the sulfur and oxygen isotopic composition of porewater sulfate is controlled by the net SRR: when the net SRR is high (i.e., in sulfide-replete settings) the downcore increase in δ18OSO4 is dampened relative to increase in δ34SSO4, whereas when net SRR is low (i.e., in iron-rich parts of the basin) downcore δ18OSO4 values increase while δ34SSO4 values remain invariant. We conclude that sedimentation rates and open system diffusion strongly influence the distribution of sulfur species and their sulfur isotopic composition, as well as the oxygen isotopic composition of sulfate, through the interaction between iron, sulfur and methane. This work highlights the importance of considering diffusion to better understand open system diagenesis and the δ34S signatures of sulfate and sulfide in both modern settings and ancient rocks.

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    Authors: Jonas Nüchel; Peder Klith Bøcher; Wen Xiao; A-Xing Zhu; +1 Authors

    Many threatened species have undergone range retraction, and are confined to small fragmented populations. To increase their survival prospects, it is necessary to find suitable habitat outside their current range, to increase and interconnect populations. Species distribution models may be used to this purpose and can be an important part of the conservation strategies. One pitfall is that such mapping will typically assume that the current distribution represents the optimal habitat, which may not be the case for threatened species. Here, we use maximum entropy modelling (Maxent) and rectilinear bioclimatic envelope modelling with current and historical distribution data, together with the location of protected areas, and environmental and anthropogenic variables, to answer three key questions for the conservation of Rhinopithecus, a highly endangered genus of primates consisting of five species of which three are endemic to China, one is endemic to China and Myanmar and one is endemic to Vietnam; Which environmental variables best predict the distribution? To what extent is Rhinopithecus living in an anthropogenically truncated niche space? What is the genus’ potential distribution in the region? Mean temperature of coldest and warmest quarter together with annual precipitation and precipitation during the driest quarter were the variables that best explained Rhinopithecus’ distribution. The historical records were generally in warmer and wetter areas and in lower elevation than the current distribution, strongly suggesting that Rhinopithecus today survives in an anthropogenic truncated niche space. There is 305,800–319,325 km2 of climatic suitable area within protected areas in China, of which 96,525–100,275 km2 and 17,175–17,550 km2 have tree cover above 50 and 75%, respectively. The models also show that the area predicted as climatic suitable using Maxent was 72–89% larger when historical records were included. Our results emphasise the importance of considering historical records when assessing restoration potential and show that there is high potential for restoring Rhinopithecus to parts of its former range. Electronic supplementary material The online version of this article (10.1007/s10531-018-1507-0) contains supplementary material, which is available to authorized users.

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    Biodiversity and Conservation
    Article
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    Biodiversity and Conservation
    Article . 2018 . Peer-reviewed
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      Biodiversity and Conservation
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      Biodiversity and Conservation
      Article . 2018 . Peer-reviewed
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    Authors: Bela-ong, Dennis; Schyth, Brian Dall; Zou, Jun; Secombes, Christopher J; +1 Authors

    Mechanisms that account for the high protective efficacy in teleost fish of a DNA vaccine expressing the glycoprotein (G) of Viral hemorrhagic septicemia virus (VHSV) are thought to involve early innate immune responses mediated by interferons (IFNs). Microribonucleic acids (miRNAs) are a diverse class of small (18–22 nucleotides) endogenous RNAs that potently mediate post-transcriptional silencing of a wide range of genes and are emerging as critical regulators of cellular processes, including immune responses. We have recently reported that miR-462 and miR-731 were strongly induced in rainbow trout infected with VHSV. In this study, we analyzed the expression of these miRNAs in fish following administration of the DNA vaccine and their potential functions. Quantitative RT-PCR analysis revealed the increased levels of miR-462, and miR-731 in the skeletal muscle tissue at the site of vaccine administration and in the liver of vaccinated fish relative to empty plasmid backbone-injected controls. The increased expression of these miRNAs in the skeletal muscle correlated with the increased levels of the type I interferon (IFN)-inducible gene Mx, type I IFN and IFN-γ genes at the vaccination site. Intramuscular injection of fish with either type I IFN or IFN-γ plasmid construct resulted in the upregulation of miR-462 and miR-731 at the site of injection, suggesting that the induction of these miRNAs is elicited by IFNs. To analyze the function of miR-462 and miR-731, specific silencing of these miRNAs using anti-miRNA oligonucleotides was conducted in poly I:C-treated rainbow trout fingerlings. Following VHSV challenge, anti-miRNA-injected fish had faster development of disease and higher mortalities than control fish, indicating that miR-462/731 may be involved in IFN-mediated protection conferred by poly I:C.

    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao PURE Aarhus Universi...arrow_drop_down
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    PURE Aarhus University; Vaccine
    Other literature type . Article . 2015 . Peer-reviewed
    License: Elsevier TDM
    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Theses@asb
    Article . 2015
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      PURE Aarhus University; Vaccine
      Other literature type . Article . 2015 . Peer-reviewed
      License: Elsevier TDM
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      Theses@asb
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    Authors: Mikael K. Sejr; Mikael K. Sejr; Kim N. Mouritsen; Dorte Krause-Jensen; +6 Authors

    Understanding the influence of physical drivers and their scale-dependent interactions on ecosystem structure and function is becoming increasingly relevant as ecologists are challenged to quantify and predict the biological implications of anthropogenic activities and climate changes. Here, we aim to quantify the impact of multiple physical drivers (ice scour, wave exposure, and air temperature) and their interactions with small scale modifying factors (tidal level, substrate rugosity, and canopy forming macroalgae) on rocky intertidal community structure. We did this by quantifying intertidal biomass, cover and species richness at three tidal levels (high, mid, and low) at four sites in a sub-arctic Greenland fjord. We found a well-developed intertidal community, with a total of 16 macroalgae and 20 invertebrate species. At one locality, the total biomass was dominated by canopy forming algae exceeding 16 kg wet weight per m–2. Physical stress from ice scour, waves, and air exposure had negative effects on all three community metrics but important interactions and modifying processes were identified. The effect of tidal level differed between sites ranging from an absence of organisms at both high- and mid-intertidal level at the most ice- and wave exposed site to extensive cover across all three tidal levels at the wave and ice sheltered site. Canopy forming macroalgae and substrate rugosity both modified the impacts of physical stress. In the absence of ice scour, canopy forming algae formed extensive cover that modified extreme air temperatures, and the abundance of dominant invertebrate species were all positively related to the biomass of macroalgae. Rugosity provided refuge from ice scour, facilitating increased species richness and cover at exposed sites. Moreover, we detected no negative effects of fast ice, and ice scour impacts were primarily found where presence of glacial ice was combined with wave exposure. Our results provide an example of how large-scale physical factors pass through a filter of several modifying smaller scale processes before their impact on plot scale community structure is manifested.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Frontiers in Marine ...arrow_drop_down
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    Frontiers in Marine Science
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    DOAJ
    Article . 2021
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      Frontiers in Marine Science
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    Authors: Qiu, C.; Zhu, D.; Ciais, P.; Guenet, B.; +50 Authors

    Peatlands store substantial amounts of carbon and are vulnerable to climate change. We present a modified version of the Organising Carbon and Hydrology In Dynamic Ecosystems (ORCHIDEE) land surface model for simulating the hydrology, surface energy, and CO2 fluxes of peatlands on daily to annual timescales. The model includes a separate soil tile in each 0.5° grid cell, defined from a global peatland map and identified with peat-specific soil hydraulic properties. Runoff from non-peat vegetation within a grid cell containing a fraction of peat is routed to this peat soil tile, which maintains shallow water tables. The water table position separates oxic from anoxic decomposition. The model was evaluated against eddy-covariance (EC) observations from 30 northern peatland sites, with the maximum rate of carboxylation (Vcmax) being optimized at each site. Regarding short-term day-to-day variations, the model performance was good for gross primary production (GPP) (r2 = 0.76; Nash–Sutcliffe modeling efficiency, MEF = 0.76) and ecosystem respiration (ER, r2 = 0.78, MEF = 0.75), with lesser accuracy for latent heat fluxes (LE, r2 = 0.42, MEF = 0.14) and and net ecosystem CO2 exchange (NEE, r2 = 0.38, MEF = 0.26). Seasonal variations in GPP, ER, NEE, and energy fluxes on monthly scales showed moderate to high r2 values (0.57–0.86). For spatial across-site gradients of annual mean GPP, ER, NEE, and LE, r2 values of 0.93, 0.89, 0.27, and 0.71 were achieved, respectively. Water table (WT) variation was not well predicted (r2 cmax and latitude (temperature), which better reflects the spatial gradients of annual NEE than using an average Vcmax value. Source at https://doi.org/10.5194/gmd-11-497-2018.

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    https://doi.org/10.5445/ir/100...
    Article . 2018
    License: CC BY
    Data sources: Datacite
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    KITopen
    Article . 2018
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    image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
    Copernicus Publications
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      https://doi.org/10.5445/ir/100...
      Article . 2018
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      image/svg+xml Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao Closed Access logo, derived from PLoS Open Access logo. This version with transparent background. http://commons.wikimedia.org/wiki/File:Closed_Access_logo_transparent.svg Jakob Voss, based on art designer at PLoS, modified by Wikipedia users Nina and Beao
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    Authors: Gong, Xianzhe; Skrivergaard, Stig; Korsgaard, Benjamin; Schreiber, Lars; +3 Authors

    AbstractStrain S3-2T, isolated from sediment of a frozen freshwater pond, shares 99% 16S rRNA gene sequence identity with strains of the genus Janthinobacterium. Strain S3-2T is a facultative anaerobe that lacks the ability to produce violacein but shows antibiotic resistance, psychrotolerance, incomplete denitrification, and fermentation. The draft genome of strain S3-2T has a size of ~5.8 Mbp and contains 5,297 genes, including 115 RNA genes. Based on the phenotypic properties of the strain, the low in silico DNA-DNA hybridization (DDH) values with related genomes (<35%), and the low whole genome-based average nucleotide identity (ANI) (<86%) with other strains within the genus Janthinobacterium, we propose that strain S3-2T is the type strain (= DSM 102223 = LMG 29653) of a new species within this genus. We propose the name Janthinobacterium psychrotolerans sp. nov. to emphasize the capability of the strain to grow at low temperatures.

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    Standards in Genomic Sciences
    Other literature type . Article . 2017 . Peer-reviewed
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      Standards in Genomic Sciences
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    Authors: Mikkelsen, Lonnie; Mouritsen, Kim Nørgaard; Dahl, Karsten; Teilmann, Jonas; +1 Authors

    Stony reefs in shallow water support abundant and species-rich animal communities, and may thus attract top predators such as the harbour porpoise. In summer 2008, the nature res- toration project Blue Reef re-established 45 000 m 2 of cavernous stony reef at Laeso Trindel in the northern Kattegat, Denmark. To investigate whether the re-established reef attracts harbour por- poises, the acoustic activity of porpoises was monitored by static acoustic data loggers, T-PODs, before and after the restoration project. T-PODs were placed at the Laeso Trindel reef and at a ref- erence station 10 km away between June and August from 2006 to 2012. Results showed that por- poise activity increased significantly at Laeso Trindel reef after the reconstruction in 2008. The number of minutes with porpoise recordings (PPM) increased on average from 9.5 PPM per day in 2006 to a maximum in 2010 (15.2 PPM per day) followed by a small decrease (12.75 PPM per day in 2012). An increase in mean encounter duration from 3.0 min in 2006 to 4.7 min in 2010 (3.7 min in 2012) showed that porpoises not only appeared more often, but also stayed longer at Laeso Trindel. Furthermore, there was a striking diel pattern in porpoise activity at Laeso Trindel, with significantly higher activity during the night. This pattern became increasingly apparent over the study period. At the reference station, in contrast, most activity took place during the day through- out the study. The results suggest that these changes reflect a new food source which occurs at night on the re-established stony reef and is exploited by the porpoises.

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    Marine Ecology Progress Series
    Article . 2013 . Peer-reviewed
    Data sources: Crossref
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      Marine Ecology Progress Series
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    Authors: Jakob Thyrring; Susse Wegeberg; Martin E. Blicher; Dorte Krause-Jensen; +6 Authors

    Climate change has ecosystem‐wide cascading effects. Little is known, however, about the resilience of Arctic marine ecosystems to environmental change. Here we quantify and compare large‐scale patterns in rocky intertidal biomass, coverage and zonation in six regions along a north‐south gradient of temperature and ice conditions in West Greenland (60–72°N). We related the level and variation in assemblage composition, biomass and coverage to latitudinal‐scale environmental drivers. Across all latitudes, the intertidal assemblage was dominated by a core of stress‐tolerant foundation species that constituted > 95% of the biomass. Hence, canopy‐forming macroalgae, represented byFucus distichussubsp.evanescensandF. vesiculosusand, up to 69°N, alsoAscophyllum nodosum, together withSemibalanus balanoides, occupied > 70% of the vertical tidal range in all regions. Thus, a similar functional assemblage composition occurred across regions, and no latitudinal depression was observed. The most conspicuous difference in species composition from south to north was that three common species (the macroalgaeAscophyllum nodosum, the amphipodGammarus setosusand the gastropodLittorina obtusata) disappeared from the mid‐intertidal, although at different latitudes. There were no significant relationships between assemblage metrics and air temperature or sea ice coverage as obtained from weather stations and satellites, respectively. Although the mean biomass decreased > 50% from south to north, local biomass in excess of 10 000 g ww m−2was found even at the northernmost site, demonstrating the patchiness of this habitat and the effect of small‐scale variation in environmental characteristics. Hence, using the latitudinal gradient in a space‐for‐time substitution, our results suggest that while climate modification may lead to an overall increase in the intertidal biomass in north Greenland, it is unlikely to drive dramatic functional changes in ecosystem structure in the near future. Our dataset provides an important baseline for future studies to verify these predictions for Greenland's intertidal zone.

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    Ecography
    Article . 2021 . Peer-reviewed
    License: CC BY
    Data sources: Sygma; Crossref
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    PURE Aarhus University
    Conference object . 2020
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      Ecography
      Article . 2021 . Peer-reviewed
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      PURE Aarhus University
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    Authors: T. Jilbert; T. Jilbert; E. Asmala; E. Asmala; +12 Authors

    Iron (Fe) plays a key role in sedimentary diagenetic processes in coastal systems, participating in various redox reactions and influencing the burial of organic carbon. Large amounts of Fe enter the marine environment from boreal river catchments associated with dissolved organic matter (DOM) and as colloidal Fe oxyhydroxides, principally ferrihydrite. However, the fate of this Fe pool in estuarine sediments has not been extensively studied. Here we show that flocculation processes along a salinity gradient in an estuary of the northern Baltic Sea efficiently transfer Fe and OM from the dissolved phase into particulate material that accumulates in the sediments. Flocculation of Fe and OM is partially decoupled. This is likely due to the presence of discrete colloidal ferrihydrite in the freshwater Fe pool, which responds differently from DOM to estuarine mixing. Further decoupling of Fe from OM occurs during sedimentation. While we observe a clear decline with distance offshore in the proportion of terrestrial material in the sedimentary particulate organic matter (POM) pool, the distribution of flocculated Fe in sediments is modulated by focusing effects. Labile Fe phases are most abundant at a deep site in the inner basin of the estuary, consistent with input from flocculation and subsequent focusing. The majority of the labile Fe pool is present as Fe (II), including both acid-volatile sulfur (AVS)-bound Fe and unsulfidized phases. The ubiquitous presence of unsulfidized Fe (II) throughout the sediment column suggests Fe (II)-OM complexes derived from reduction of flocculated Fe (III)-OM, while other Fe (II) phases are likely derived from the reduction of flocculated ferrihydrite. Depth-integrated rates of Fe (II) accumulation (AVS-Fe + unsulfidized Fe (II) + pyrite) for the period 1970-2015 are greater in the inner basin of the estuary with respect to a site further offshore, confirming higher rates of Fe reduction in near-shore areas. Mossbauer Fe-57 spectroscopy shows that refractory Fe is composed largely of superparamagnetic Fe (III), high-spin Fe (II) in silicates, and, at one station, also oxide minerals derived from past industrial activities. Our results highlight that the cycling of Fe in boreal estuarine environments is complex, and that the partial decoupling of Fe from OM during flocculation and sedimentation is key to understanding the role of Fe in sedimentary diagenetic processes in coastal areas. Peer reviewed

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    Biogeosciences; PURE Aarhus University
    Article . 2018 . Peer-reviewed
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    Article . 2018
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    Other literature type . 2018
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    Copernicus Publications
    Other literature type . 2018
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      Biogeosciences; PURE Aarhus University
      Article . 2018 . Peer-reviewed
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      Article . 2018
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      Other literature type . 2018
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