Two-pore channels (TPCs) contain two copies of a Shaker-like six-transmembrane (6-TM) domain in each subunit and are ubiquitously expressed in both animals and plants as organellar cation channels. ...Here we present the crystal structure of a vacuolar two-pore channel from Arabidopsis thaliana, AtTPC1, which functions as a homodimer. AtTPC1 activation requires both voltage and cytosolic Ca(2+). Ca(2+) binding to the cytosolic EF-hand domain triggers conformational changes coupled to the pair of pore-lining inner helices from the first 6-TM domains, whereas membrane potential only activates the second voltage-sensing domain, the conformational changes of which are coupled to the pair of inner helices from the second 6-TM domains. Luminal Ca(2+) or Ba(2+) can modulate voltage activation by stabilizing the second voltage-sensing domain in the resting state and shift voltage activation towards more positive potentials. Our Ba(2+)-bound AtTPC1 structure reveals a voltage sensor in the resting state, providing hitherto unseen structural insight into the general voltage-gating mechanism among voltage-gated channels.
Lee examines Is Commanding Korean a Source of Competitiveness?: An Analysis of Publications in English by Korean Economics Professors Affiliated with Korean Universities. The authors explore how and ...why over the last two decades an increasing number of economics papers by Korea-based scholars have been written in English, even as a decreasing number of these papers address topics related primarily to the Korean economy. Utilizing the conventional supply-and-demand framework and econometric methods, the authors provide a good overview of the globalization of economics research in Korea and make useful policy suggestions, primarily a call for more data availability. Examining the comprehensive data from the Korean Researcher Information, the authors first demonstrate that the share of English-language articles has increased significantly over the past two decades. The authors then focus their analysis on empirical papers to investigate how language choice is associated with topic choice. After showing how the share of articles addressing Korean subjects has steadily increased, they demonstrate how this phenomenon was largely driven by Korean-language publications. They posit that a scholar's expertise in Korean subjects or facility with Korean did not increase their "competitiveness" in global competition.
The mitochondrial calcium uniporter (MCU) is a highly selective calcium channel localized to the inner mitochondrial membrane. Here, we describe the structure of an MCU orthologue from the fungus ...Neosartorya fischeri (NfMCU) determined to 3.8 Å resolution by phase-plate cryo-electron microscopy. The channel is a homotetramer with two-fold symmetry in its amino-terminal domain (NTD) that adopts a similar structure to that of human MCU. The NTD assembles as a dimer of dimers to form a tetrameric ring that connects to the transmembrane domain through an elongated coiled-coil domain. The ion-conducting pore domain maintains four-fold symmetry, with the selectivity filter positioned at the start of the pore-forming TM2 helix. The aspartate and glutamate sidechains of the conserved DIME motif are oriented towards the central axis and separated by one helical turn. The structure of NfMCU offers insights into channel assembly, selective calcium permeation, and inhibitor binding.
Na(+)/Ca(2+) exchangers use the Na(+) electrochemical gradient across the plasma membrane to extrude intracellular Ca(2+) and play a central role in Ca(2+) homeostasis. Here, we elucidate their ...mechanisms of extracellular ion recognition and exchange through a structural analysis of the exchanger from Methanococcus jannaschii (NCX_Mj) bound to Na(+), Ca(2+) or Sr(2+) in various occupancies and in an apo state. This analysis defines the binding mode and relative affinity of these ions, establishes the structural basis for the anticipated 3:1 Na(+)/Ca(2+)-exchange stoichiometry and reveals the conformational changes at the onset of the alternating-access transport mechanism. An independent analysis of the dynamics and conformational free-energy landscape of NCX_Mj in different ion-occupancy states, based on enhanced-sampling molecular dynamics simulations, demonstrates that the crystal structures reflect mechanistically relevant, interconverting conformations. These calculations also reveal the mechanism by which the outward-to-inward transition is controlled by the ion occupancy, thereby explaining the emergence of strictly coupled Na(+)/Ca(2+) antiport.
Stable isotope analysis was used to investigate the benthic food web dynamics in the Geum River estuary where continuous river flow has been blocked by a sea dike over the past 25 years. In order to ...address the dike effect(s) on distribution of food sources (i.e., organic matters and microphytobenthos) and their utilization by marine predators, a three years monitoring survey (total of 30 surveys) was seasonally conducted at four fixed locations at both inside of dike and outer tidal flats. All the collected biota (total of 19 species; >1100 individuals and microphytobenthos) and abiotic (n = 118) samples were analyzed for carbon (δ13C) and nitrogen (δ15N) stable isotopes. In particular, two dominant marine bivalves inhabiting outer reach of tidal flats, Mactra veneriformis and Cyclina sinensis, were targeted to identify their feeding strategies that being related to a year-round population growth. In general, the stable isotopic signatures of samples indicated dissimilarity in distribution of organic matters between inside and outside of dike, supporting geographical and/or trophic isolation. The taxa-dependent trophic levels are also evidenced in consistent manner, with two to three levels being positioned over the years. Meantime, their dietary contributions varied in time, i.e., seasonal chances in compositions of major food sources (microphytobenthos and particulate organic matters) were observed for two target bivalves. Such temporal variations could be further linked to selective feedings that evidenced by age(size)-dependent and/or tissue specific distributions. Altogether, the present study suggested seasonality, diet preference, and growth dependent food web dynamics in the Geum River estuary. Overall, the present study suggested that the stable isotopic technique could be a powerful tool for characterizing the long-term anthropogenic influences of a sea dike on marine food-web dynamics.
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•Isotopic compositions of marine organisms and food sources identified in a closed estuary•Terrestrial organic matters in discharged water lesser contributed to benthic food web.•Microphytobenthos contributed as key diet for macrobenthos in growth dependent manner.•Benthic bivalves showed organ-specific allocation of organic matter for nutrient storage.•A closed estuary preventing a natural river flow altered typical marine trophic pathways.
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Natural purification of pollutants is highly recognized as regulating ecosystem services; however, the purification capacity of tidal flats remains largely unknown and/or ...unquantified. A 60-day mesocosm transplant experiment was conducted in situ to assess the purification capacity of natural tidal flats. We adopted the advanced sediment quality triad approach, monitoring 10 endpoints, including chemical reduction, toxicity changes, and community recoveries. The results indicated that contaminated sediments rapidly recovered over time, particularly > 50% within a day, then slowly recovered up to ∼ 70% in a given period (60 days). A significant early reduction of parent pollutants was evidenced across all treatments, primarily due to active bacterial decomposition. Notably, the presence of benthic fauna and vegetated halophytes in the treatments significantly enhanced the purification of pollutants in both efficacy and efficiency. A forecast linear modeling further suggested additive effects of biota on the natural purification of tidal flats, reducing a full recovery time from 500 to 300 days. Overall, the triad approach with machine learning practices successfully demonstrated quantitative insight into the integrated assessment of natural purification.
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•We first address the recovery timeline of the HSOS by 10-years monitoring dataset.•Concentrations of residual oils in the environments rapidly dropped to background levels.•Recovery ...of benthic ecosystem was evaluated based on the number of species and H′.•Damaged benthic communities were fully recovered after ~6 years.•The high tidal mixing and intensive initial cleanup might have contributed to rapid recovery.
The 2007 Hebei Spirit oil spill (HSOS), the largest in the national history, has negatively impacted the entire environment and ecosystem along the west coast of South Korea. Although many studies have reported the damages and impacts from the HSOS, quantitative assessment evaluating the recovery time and status have not been documented. Here, we first address the recovery timeline of the HSOS, by comprehensive analyses of 10-years accumulated data in quantitative manner. Concentrations of residual oils in seawater, sediments, and oysters rapidly dropped to backgrounds in 16, 75, and 33 months, respectively. Also, damaged benthic communities of intertidal and subtidal areas were fully recovered only after ~6 years. The present results collectively indicated unexpectedly fast recovery of the damaged environment and ecosystem from such a huge oil spill. The high tidal mixing (~9 m tidal height) and intensive human cleanup (~1.2 million volunteers) at the initial cleanup period might have contributed to rapid recovery; cf. 4–5 times faster than the Exxon Valdez oil spill. However, potential risk to human health remains unclear. Thus, it is warranted to conduct more in depth epidemiological studies to address chronic health effects associated with the cleanup volunteers as well as the local residents who have been living nearby the oil spill impacted sites.
Dispersion and biodegradation of petroleum hydrocarbons are significantly enhanced by formation of oil-suspended particulate matter aggregates (OSAs), but little is known about their adverse effects ...on benthic invertebrates or microbes. In this study, we investigated: (1) bioaccumulation of polycyclic aromatic hydrocarbons (PAHs) by the marine bivalve, Mactra veneriformis and (2) changes in composition and relative abundances of microbes, during 50-d of an OSAs feeding experiment. Total concentrations of PAHs increased more rapidly during the first week of exposure, peaked at Day 30, then gradually declined to the end of experiment. While bioaccumulation of PAHs by clams varied among the 20 target compounds, two major groups of PAHs were identified by cluster analysis. One group including 3-methylphenanthrene, 1,6-dimethylphenanthrene, 1,2,6,9-tetramethylphenanthrene, and benzoaanthracene showed a fairly constant rate of accumulation, while the second group including 2-methyldibenzothiophene, 2,4-dimethyldibenzothiophene, 2,4,7-trimethyldibenzothiophene, 3-methylchrysene, 6-ethylchrysene, and 1,3,6-trimethylchrysene exhibited a bell-shaped pattern. Bioaccumulation of PAHs by clams was dependent on changes in abundance of Gammaproteobacteria, indicating active degradations of hydrocarbons by selected species. Six key species included: Porticoccus litoralis, Porticoccus hydrocarbonoclasticus, Cycloclasticus spirillensus, Alcanivorax borkumensis, Alcanivorax dieselolei, and Alkalimarinus sediminis. These results are the first to demonstrate interactions of OSAs and macrofauna/microbe in oil cleanup operations.
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•Spatial variation of meiofauna assemblage prevailed somehow masking seasonal fluctuations.•Sediments properties were key environmental factors that determine meiofauna ...assemblages.•Anthropogenic pressures significantly influenced diversity and composition of meiofauna taxa.•Hypoxia directly influenced drastic community collapse on both macrofauna and meiofauna.•Benthic communities varied in response time and sensitivity to environmental stresses/gradients.
The present study investigated the spatiotemporal distributions of meiofauna and corresponding environmental variables in two different subtidal environments. The two habitats represent unique geographical localities; (1) Jinhae Bay for semi-enclosed industrial bay (under anthropogenic pressure) and (2) Samcheok coast for open sea area (rather in natural condition) in Korea. Biotic and abiotic data were seasonally collected from six monitoring stations in each area for 3 years (2013–16) at two study areas and all the data were comparatively analyzed. First, abiotic data such as sediment properties and water quality parameters showed significant variations in time (season/year) and space (site/area) cross the study areas and within sites in each area. Second, meiofauna assemblages, such as number of taxa, abundance, and composition, greatly varied between seasons and localities, reflecting (in)direct association(s) to local activities and/or environmental gradients. Of note, the Jinhae Bay community was directly influenced by a hypoxia during summer season. In general, the site-specific variations rather prevailed masking seasonal fluctuations, indicating significance of both oceanographic settings and terrestrial land use activities. Among the environmental parameters measured, sediment grain size appeared to be the key factor in determining the meiofaunal assemblages and distributions, particularly under natural condition shown at Samcheok. Altogether, clear separations in meiofaunal community cross sites (inner vs. outer stations) and areas (enclosed industrial bay vs. open sea) implied anthropogenic pressures and certain impacted boundaries. In addition, association of benthic communities to anthropogenic environments seemed to prevail in macrofaunal community, being simultaneously influenced by abiotic seasonal fluctuations. Overall, two contrasting nearshore habitats exhibited typical spatiotemporal distributions of subtidal benthic communities being collectively influenced by anthropogenic stresses and site-specific environmental gradients.
The potential leakage from marine CO2 storage sites is of increasing concern, but few studies have evaluated the probable adverse effects on marine organisms. Fish, one of the top predators in marine ...environments, should be an essential representative species used for water column toxicity testing in response to waterborne CO2 exposure. In the present study, we conducted fish life cycle toxicity tests to fully elucidate CO2 toxicity mechanism effects. We tested sub-lethal and lethal toxicities of elevated CO2 concentrations on marine medaka (Oryzias melastigma) at different developmental stages. At each developmental stage, the test species was exposed to varying concentrations of gaseous CO2 (control air, 5%, 10%, 20%, and 30%), with 96 h of exposure at 0–4 d (early stage), 4–8 d (middle stage), and 8–12 d (late stage). Sub-lethal and lethal effects, including early developmental delays, cardiac edema, tail abnormalities, abnormal pigmentation, and mortality were monitored daily during the 14 d exposure period. At the embryonic stage, significant sub-lethal and lethal effects were observed at pH < 6.30. Hypercapnia can cause long-term and/or delayed developmental embryonic problems, even after transfer back to clean seawater. At fish juvenile and adult stages, significant mortality was observed at pH < 5.70, indicating elevated CO2 exposure might cause various adverse effects, even during short-term exposure periods. It should be noted the early embryonic stage was found more sensitive to CO2 exposure than other developmental stages of the fish life cycle. Overall, the present study provided baseline information for potential adverse effects of high CO2 concentration exposure on fish developmental processes at different life cycle stages in marine ecosystems.
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•Adverse effects of elevated CO2 varied cross developmental stages of marine medaka.•Embryo developmental delay to elevated CO2 showed in concentration-dependent manner.•Middle stage of development was the most sensitive period to CO2 exposure for mortality.•Despite transfer to clean water, CO2 exposed embryos could not be recovered.•Key symptoms by elevated CO2 exposure encompassed mortality and cardiac edema.
Among the various developmental stages of medaka fish tested, the middle embryonic stage (4–8 d) was the most sensitive to CO2 exposure; this was a critical period based on high fish mortality rates.
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