bluuebunny/crossref_metadata_2025 huggingface dataset:
Thinking De<=>coloniality through Haitian Indigenous Ecologies
Authors: Pierre Beaudelaine
Published: June 2020

I write this essay from a place of thirst, discontent, dream; from being housed in the United States but not at home there; from thinking through this writing in English, a language that is not home; and from wanting to continue making a place that is not home. I think through this inquiry from a place of cohabitation with Western ways of knowing that have purposefully demonized peoples of African descent as less than human; from the tradition of Haitian thinkers and resurgents who emphasize spirituality as crucial to recreating themselves endlessly; and from imagining the unseen, unfelt, and invisible powers that illuminate the process. In this place of feverishness, I sit with Haitian writer and singer Mimerose Beaubrun's monograph Nan Dòmi in order to consider the possibilities and impossibilities that might be realized through a practice of decolonial labor that bridges the known and the unknown, the seen and the unseen, the metaphysical and the material. Taking inspiration from María Lugones's phenomenological approach of decoloniality and Beaubrun's theory of nan dòmi (dream/ing), this essay asks: what in Beaubrun's Nan Dòmi opens decoloniality as a radical onto-epistemological terrain from which to rethink subjectivities, politics, and worlds in uneven and unjust geographies?
Widespread severe acute respiratory coronavirus virus 2 (SARS-CoV-2) laboratory surveillance program to minimize asymptomatic transmission in high-risk inpatient and congregate living settings
Authors: Jatt Lauren P. , Winnett Alexander , Graber Christopher J. , Vallone John , Beenhouwer David O. , Goetz Matthew Bidwell
Published: June 2020

We describe a widespread laboratory surveillance program for severe acute respiratory coronavirus virus 2 (SARS-CoV-2) at an integrated medical campus that includes a tertiary-care center, a skilled nursing facility, a rehabilitation treatment center, and temporary shelter units. We identified 22 asymptomatic cases of SARS-CoV-2 and implemented infection control measures to prevent SARS-CoV-2 transmission in congregate settings.
A radical, novel design for a free-living bryozoan colony:Biselenaria placentula(Reuss, 1867)
Authors: Håkansson Eckart , Zágoršek Kamil
Published: June 2020

A series of well-preserved specimens of the little-known Palaeogene speciesBiselenaria placentula(Reuss, 1867) warrant the designation of a new family of free-living cheilostome bryozoans, Biselenariidae n. fam. In contrast to the structural organization of all other free-living, lunulitiform cheilostomes, all zooids are enclosed almost completely by cuticular, exterior walls. Yet, like other lunulitiforms, the colony must be regarded as a highly integrated functional unit, as revealed through the unique, highly complex interior architecture. In creating the new monotypic family, the type speciesBiselenaria placentulais described in detail, while the ambiguous taxonomic status of the only other taxon,B.offaGregory, 1893, is discussed.

UUID:http://zoobank.org/6ad8a795-c45e-4619-b2bb-46916585fbd9
DECIDING SOME MALTSEV CONDITIONS IN FINITE IDEMPOTENT ALGEBRAS
Authors: KAZDA ALEXANDR , VALERIOTE MATT
Published: June 2020

In this paper we investigate the computational complexity of deciding if the variety generated by a given finite idempotent algebra satisfies a special type of Maltsev condition that can be specified using a certain kind of finite labelled path. This class of Maltsev conditions includes several well known conditions, such as congruence permutability and having a sequence of n Jónsson terms, for some given n. We show that for such “path defined” Maltsev conditions, the decision problem is polynomial-time solvable.
A reassessment of the age of the fauna from Cumberland Bone Cave, Maryland, (middle Pleistocene) using coupled U-series and electron spin resonance dating (ESR)
Authors: Withnell Charles B. , Joannes-Boyau Renaud , Bell Christopher J.
Published: June 2020

The deposits in Cumberland Bone Cave (Allegany County, Maryland) preserved one of the most taxonomically diverse pre-radiocarbon Pleistocene faunas in the northeastern United States. The site has long been recognized as an important record of Pleistocene life in the region, but numerical age control for the fauna was never developed, and hypotheses for its age have been based upon biochronological assessments of the mammalian fauna. We used fossil teeth and preserved sediment housed in museum collections to obtain the first numerical age assessment of the fauna from Cumberland Bone Cave. Coupled U-series Electron Spin Resonance (US-ESR) was used to date fossil molars of the extinct peccary,Platygonussp. The age estimates of two teeth gave ages of 722 ± 64 and 790 ± 53 ka. Our results are supported by previously unpublished paleomagnetic data generated by the late John Guilday, and by plotting length-width of the first molar (m1) ofOndatra (muskrats) from Cumberland Bone Cave on the chronocline ofOndatra molar evolution in North America. Our age assessments are surprisingly close to the age estimate previously proposed by Charles Repenning, who based his age on a somewhat complicated model of speciation and morphotype evolution among arvicoline rodents.
A LITTLE-KNOWN COLLECTION OF STUKELEY DRAWINGS IN THE SPALDING GENTLEMEN’S SOCIETY
Authors: Smith John F H
Published: June 2020

Spalding Gentlemen’s Society holds, among its varied collections of William Stukeley papers, a virtually unknown set of forty-four important drawings dating from 1720–64. It is an intimate collection closely connected with Stukeley and his immediate family: portraits, his houses and gardens in Lincolnshire and Kentish Town, and a few miscellaneous family history papers. Originally, the collection was bound into an album which, as the latest drawing dates from the year before Stukeley’s death, was almost certainly compiled post mortem by a family member. For many years the collection was lost, but recent investigation has revealed that c 1866–7 it was purchased by Sir Thomas Phillipps, Bart., and sold at auction in 1910. It has been in Spalding ever since, arriving at the Spalding Gentlemen's Society possibly about 1950. Cataloguing the collection was recently undertaken by this author and the enhanced significance given by this and the revealed provenance enabled the Society to apply successfully to the Heritage Lottery Fund for a grant towards conservation and storage. The great value of the collection is that it hugely increases our knowledge of Stukeley’s houses and gardens, particularly his garden works, and illuminates the evolution of Stukeley’s thoughts on garden design.
Genesis of the Bagenheigeqier Pb–Zn skarn deposit in Inner Mongolia, NE China: constraints from fluid inclusions, isotope systematics and geochronology
Authors: Cai Wen-yan , Wang Ke-yong , Li Jian , Fu Li-juan , Li Shun-da , Yang He , Konare Yassa
Published: June 2020

Most skarns are found near the pluton or in lithologies containing at least some limestone. However, recent research has shown that neither a pluton nor limestone is necessarily required to form a skarn deposit. The newly discovered Bagenheigeqier Pb–Zn skarn deposit is located in NE China. The skarn and Pb–Zn orebodies occur in volcanic lithologies of the Baiyin’gaolao Formation and are controlled by NE–SW-trending faults. The nearest pluton is a granite porphyry, at a distance of 20–250 m from the orebodies. Five paragenetic stages at Bagenheigeqier are recognized: (I) skarn; (II) oxide; (III) early sulphide; (IV) late sulphide; and (V) late quartz–calcite. The fluid inclusions from stages II to V homogenized at temperatures of 402–452, 360–408, 274–319 and 167–212°C, respectively. The hydrogen and oxygen isotope compositions (δ18OH2O, –12.4‰ to +9.3‰; δDH2O, –156.5‰ to –99.1‰) indicate that the ore-fluids were primarily of magmatic origin, with the proportion of meteoric water increasing during the progression of ore formation. Sulphur isotope values (δ34SVCDT, 1.4–5.5‰), lead isotope values (206Pb/204Pb, 18.184–18.717;207Pb/204Pb, 15.520–15.875;208Pb/204Pb, 37.991–38.379) and the initial187Os/188Os ratios of the pyrite (0.307 ± 0.06) suggest that the ore metals were derived from the granite porphyry and Baiyin’gaolao Formation. Re–Os dating of pyrite intergrown with galena and sphalerite yielded a well-constrained isochron age of 151.2 ± 4.7 Ma, which is coeval with the laser ablation – inductively coupled plasma – mass spectrometry zircon U–Pb age of 154 ± 1 Ma for the granite porphyry. The deposit was therefore formed during Late Jurassic time.
A “Monument to the American and Filipino Alliance for Freedom”: The Pacific War Memorial and Second World War Remembrance
Authors: WEIR KIMBERLEY LUSTINA
Published: June 2020

The Pacific War Memorial on Corregidor Island in the Philippines was erected by the United States government to commemorate Filipino and American soldiers who had lost their lives during the Second World War. Inaugurated in 1968, it was the first American memorial on Philippine soil since the United States had recognized the Philippines as an independent country in 1946, following almost fifty years of colonial rule. This article interprets the monument and the wider Corregidor memoryscape. It examines how the United States, the Philippines and the Second World War are depicted both within and around the memorial and what this suggests about the creation and persistence of colonial memory. The article explores the tensions between colonial and decolonized remembrance, and the extent to which the Pacific War Memorial serves as a historical marker for the United States’ achievements in the Philippines.
What has contributed to the large sex differentials in lifespan variation and life expectancy in South Korea?
Authors: Singh Akansha , Kim Younga
Published: June 2020

To date, research on sex differentials in lifespan variation and life expectancy has mainly been conducted in Western countries and there is a dearth of data from South Korea. This study aimed to further the understanding of mortality transition and life expectancy in South Korea, and the associated trajectories of age-at-death variation, through an analysis of life disparity by gender. Using complete life tables for South Korea for 1970–2015, sex differentials (female–male differences) in life disparity and life expectancy at birth were estimated, and sex differentials in life expectancy were decomposed by age and cause of death. The results showed that sex differentials in life expectancy at birth have not reduced significantly in the last 45 years (1970: 7.1 years; 2015: 6.2 years). Life disparity has reduced more rapidly for females than males, and the difference increased from −0.1 year in 1981 to −1.6 years in 2015. Sex differentials in life expectancy and life disparity in South Korea were higher during 1970–2015 than in several Western countries with high life expectancy. The elderly age group (60 and above) contributed 50% of the total sex difference in life expectancy at birth in 1970, and this increased to 70% in 2015. The contribution of the age group 15–59 years reduced significantly over the period. Decomposition of life expectancy at birth by cause revealed that diseases of the circulatory system (2.2 years), followed by external causes (1.3 years), were the most important causes of the sex differences in life expectancy at birth in 1983, and in 2015 neoplasms (2.2 years) and external causes (1.1 years) explained half of the total sex differences. There has been a significant shift in the age-specific pattern of the contribution towards each cause of death. Overall, sex differentials in life disparity and life expectancy at birth have remained significant in South Korea in the last 45 years.
Funding Liquidity Risk and the Dynamics of Hedge Fund Lockups
Authors: Aiken Adam L. , Clifford Christopher P. , Ellis Jesse A. , Huang Qiping
Published: June 2020

We exploit the expiring nature of hedge fund lockups to create a new measure of funding liquidity risk that varies within funds. We find that hedge funds with lower funding risk generate higher returns, and this effect is driven by their increased exposure to equity-mispricing anomalies. Our results are robust to a variety of sampling criteria, variable definitions, and control variables. Further, we address endogeneity concerns in various ways, including a placebo approach and regression discontinuity design. Collectively, our results support a causal link between funding risk and the ability of managers to engage in risky arbitrage.
Machine learning-based analyses support the existence of species complexes for Strongyloides fuelleborni and Strongyloides stercoralis
Authors: Barratt Joel L. N. , Sapp Sarah G. H.
Published: June 2020

Human strongyloidiasis is a serious disease mostly attributable to Strongyloides stercoralis and to a lesser extent Strongyloides fuelleborni, a parasite mainly of non-human primates. The role of animals as reservoirs of human-infecting Strongyloides is ill-defined, and whether dogs are a source of human infection is debated. Published multi-locus sequence typing (MLST) studies attempt to elucidate relationships between Strongyloides genotypes, hosts, and distributions, but typically examine relatively few worms, making it difficult to identify population-level trends. Combining MLST data from multiple studies is often impractical because they examine different combinations of loci, eliminating phylogeny as a means of examining these data collectively unless hundreds of specimens are excluded. A recently-described machine learning approach that facilitates clustering of MLST data may offer a solution, even for datasets that include specimens sequenced at different combinations of loci. By clustering various MLST datasets as one using this procedure, we sought to uncover associations among genotype, geography, and hosts that remained elusive when examining datasets individually. Multiple datasets comprising hundreds of S. stercoralis and S. fuelleborni individuals were combined and clustered. Our results suggest that the commonly proposed ‘two lineage’ population structure of S. stercoralis (where lineage A infects humans and dogs, lineage B only dogs) is an over-simplification. Instead, S. stercoralis seemingly represents a species complex, including two distinct populations over-represented in dogs, and other populations vastly more common in humans. A distinction between African and Asian S. fuelleborni is also supported here, emphasizing the need for further resolving these taxonomic relationships through modern investigations.
Long-term behavioural rewriting of maladaptive drinking memories via reconsolidation-update mechanisms
Authors: Gale Grace , Walsh Katie , Hennessy Vanessa E. , Stemerding L. E. , Ni Koa Sher , Thomas Emily , Kamboj Sunjeev K. , Das Ravi K.
Published: June 2020

Background

Alcohol use disorders can be conceptualised as a learned pattern of maladaptive alcohol-consumption behaviours. The memories encoding these behaviours centrally contribute to long-term excessive alcohol consumption and are therefore an important therapeutic target. The transient period of memory instability sparked during memory reconsolidation offers a therapeutic window to directly rewrite these memories using targeted behavioural interventions. However, clinically-relevant demonstrations of the efficacy of this approach are few. We examined key retrieval parameters for destabilising naturalistic drinking memories and the ability of subsequent counterconditioning to effect long-term reductions in drinking.

Methods

Hazardous/harmful beer-drinking volunteers (N = 120) were factorially randomised to retrieve (RET) or not retrieve (No RET) alcohol reward memories with (PE) or without (No PE) alcohol reward prediction error. All participants subsequently underwent disgust-based counterconditioning of drinking cues. Acute responses to alcohol were assessed pre- and post-manipulation and drinking levels were assessed up to 9 months.

Results

Greater long-term reductions in drinking were found when counterconditioning was conducted following retrieval (with and without PE), despite a lack of short-term group differences in motivational responding to acute alcohol. Large variability in acute levels of learning during counterconditioning was noted. ‘Responsiveness’ to counterconditioning predicted subsequent responses to acute alcohol in RET + PE only, consistent with reconsolidation-update mechanisms.

Conclusions

The longevity of behavioural interventions designed to reduce problematic drinking levels may be enhanced by leveraging reconsolidation-update mechanisms to rewrite maladaptive memory. However, inter-individual variability in levels of corrective learning is likely to determine the efficacy of reconsolidation-updating interventions and should be considered when designing and assessing interventions.
Frequency Domain Design Method of Wavelet Basis Based on Pulsar Signal
Authors: You Sihai , Wang Hongli , He Yiyang , Xu Qiang , Feng Lei
Published: June 2020

During pulsar navigation, the high-frequency noise carried by the pulsar profile signal reduces the accuracy of the pulse TOA (Time of Arrival) estimation. At present, the main method to remove signal noise by using wavelet transform is to redesign the function of the threshold and level of wavelet transform. However, the signal-to-noise ratio and other indicators of the filtered signal need to be further optimised, so a more appropriate wavelet basis needs to be designed. This paper proposes a wavelet basis design method based on frequency domain analysis to improve the denoising effect of pulsar signals. This method first analyses the pulsar contour signal in the frequency domain and then designs a Crab pulsar wavelet basis (CPn, where n represents the wavelet basis length) based on its frequency domain characteristics. In order to improve the real-time performance of the algorithm, a wavelet lifting scheme is implemented. Through simulation, this method analyses the pulsar contour signal data at home and abroad. Results show the signal-to-noise ratio can be increased by 4 dB, the mean square error is reduced by 61% and the peak error is reduced by 45%. Therefore, this method has better filtering effect.
The role of collective action for the emergence and consolidation of democracy
Authors: Li Donni Paolo , Marino Maria
Published: June 2020

The role of citizens' collective action for the emergence and consolidation of democracy is generally analysed within bottom-up theories. However, top-down theories show that elites might impede or promote both democracy and collective action through a set of strategies which are often unobserved and vary over time. Democratic persistence and change require then to be assessed in a dynamic framework which considers both citizens and elites' strategies. For such reason, on a large sample of countries in the period 1971–2014, we jointly estimate the probability of collective action and democracy using a Structural Dynamic Model. This allows us to account for the dynamic nature of the two political phenomena under investigation by controlling for their persistence, for initial conditions and time-varying unobserved heterogeneity. We find that collective action matters for the emergence of democracy but not for its consolidation which seems to be related to more structural economic factors.
Blockchain and institutional complexity: an extended institutional approach
Authors: Frolov Daniil
Published: June 2020

From a modern institutional economics viewpoint, blockchain is an institutional technology that minimizes transaction costs and greatly reduces intermediation. Through an analysis of blockchain, I demonstrate the possibilities of extended institutional approach – a new generation of complexity-focused methodologies and theories of institutional analysis that complement and expand the standard institutional paradigm. By using the theory of transaction value, I argue blockchain technologies not only will lead to a significant reduction in transaction costs but will also reorient intermediaries toward improving the quality of transactions and expanding the offer of additional transaction services. The theory of institutional assemblages indicates it is impossible to form a homogeneous system of blockchain-based institutions associated exclusively with the principles of decentralization, transparency, and openness. Blockchain-based institutions will be of a hybrid and conflicting nature, combining elements of opposing institutional logics – regulatory and algorithmic law, Ricardian and smart contracts, private and public systems, and uncontrollability and arbitration.
Implementing shared decision-making on acute psychiatric wards: a cluster-randomized trial with inpatients suffering from schizophrenia (SDM-PLUS)
Authors: Hamann J. , Holzhüter F. , Blakaj S. , Becher S. , Haller B. , Landgrebe M. , Schmauß M. , Heres S.
Published: June 2020

Aims

Although shared decision-making (SDM) has the potential to improve health outcomes, psychiatrists often exclude patients with more severe mental illnesses or more acute conditions from participation in treatment decisions. This study examines whether SDM is facilitated by an approach which is specifically adapted to the needs of acutely ill patients (SDM-PLUS).

Methods

The study is a multi-centre, cluster-randomised, non-blinded, controlled trial of SDM-PLUS in 12 acute psychiatric wards of five psychiatric hospitals addressing inpatients with schizophrenia or schizoaffective disorder. All patients fulfilling the inclusion criteria were consecutively recruited for the trial at the time of their admission to the ward. Treatment teams of intervention wards were trained in the SDM-PLUS approach through participation in two half-day workshops. Patients on intervention wards received group training in SDM. Staff (and patients) of the control wards acted under ‘treatment as usual’ conditions. The primary outcome parameter was the patients' perceived involvement in decision-making at 3 weeks after study enrolment, analysed using a random-effects linear regression model.

Results

In total, 161 participants each were recruited in the intervention and control group. SDM-PLUS led to higher perceived involvement in decision-making (primary outcome, analysed patients n = 257, mean group difference 16.5, 95% CI 9.0–24.0, p = 0.002, adjusted for baseline differences: β 17.3, 95% CI 10.8–23.6, p = 0.0004). In addition, intervention group patients exhibited better therapeutic alliance, treatment satisfaction and self-rated medication compliance during inpatient stay. There were, however, no significant improvements in adherence and rehospitalisation rates in the 6- and 12-month follow-up.

Conclusions

Despite limitations in patient recruitment, the SDM-PLUS trial has shown that the adoption of behavioural approaches (e.g. motivational interviewing) for SDM may yield a successful application to mental health. The authors recommend strategies to ensure effects are not lost at the interface between in- and outpatient treatment.

Trial registration: The trial was registered at Deutsches Register Klinischer Studien (DRKS00010880).
Higher Anxiety Is Associated with Lower Cardiovascular Autonomic Function in Female Twins
Authors: Nas Zeynep , Riese Harriëtte , van Roon Arie M. , Rijsdijk Frühling V.
Published: June 2020

Anxiety symptoms co-occur with cardiovascular health problems, with increasing evidence suggesting the role of autonomic dysfunction. Yet, there is limited behavior genetic research on underlying mechanisms. In this twin study, we investigated the phenotypic, genetic and environmental associations between a latent anxiety factor and three cardiovascular autonomic function factors: interbeat interval (IBI, time between heart beats), heart rate variability (HRV, overall fluctuation of heart-beat intervals) and baroreflex sensitivity (BRS, efficiency in regulating blood pressure [BP]). Multivariate twin models were fit using data of female twins (N= 250) of the Twin Interdisciplinary Neuroticism Study (TWINS). A significant negative association was identified between latent anxiety and BRS factors (r= −.24, 95% CI [−.40, −.07]). Findings suggest that this relationship was mostly explained by correlated shared environmental influences, and there was no evidence for pleiotropic genetic or unique environmental effects. We also identified negative relationships between anxiety symptoms and HRV (r= −.17, 95% CI [−.34, .00]) and IBI factors (r= −.13, 95% CI [−.29, .04]), though these associations did not reach statistical significance. Findings implicate that higher anxiety scores are associated with decreased efficiency in short-term BP regulation, providing support for autonomic dysfunction with anxiety symptomatology. The baroreflex system may be a key mechanism underlying the anxiety–cardiovascular health relationship.
Alternative performance targets for integrating cover crops as a proactive herbicide-resistance management tool
Authors: Bunchek Jess M. , Wallace John M. , Curran William S. , Mortensen David A. , VanGessel Mark J. , Scott Barbara A.
Published: June 2020

Intensified cover-cropping practices are increasingly viewed as a herbicide-resistance management tool but clear distinction between reactive and proactive resistance management performance targets is needed. We evaluated two proactive performance targets for integrating cover-cropping tactics, including (1) facilitation of reduced herbicide inputs and (2) reduced herbicide selection pressure. We conducted corn (Zea mays L.) and soybean [Glycine max (L.) Merr.] field experiments in Pennsylvania and Delaware using synthetic weed seedbanks of horseweed [Conyza canadensis (L.) Cronquist] and smooth pigweed (Amaranthus hybridus L.) to assess winter and summer annual population dynamics, respectively. The effect of alternative cover crops was evaluated across a range of herbicide inputs. Cover crop biomass production ranged from 2,000 to 8,500 kg ha−1 in corn and 3,000 to 5,500 kg ha−1 in soybean. Experimental results demonstrated that herbicide-based tactics were the primary drivers of total weed biomass production, with cover-cropping tactics providing an additive weed-suppression benefit. Substitution of cover crops for PRE or POST herbicide programs did not reduce total weed control levels or cash crop yields but did result in lower net returns due to higher input costs. Cover-cropping tactics significantly reduced C. canadensis populations in three of four cover crop treatments and decreased the number of large rosettes (>7.6-cm diameter) at the time of preplant herbicide exposure. Substitution of cover crops for PRE herbicides resulted in increased selection pressure on POST herbicides, but reduced the number of large individuals (>10 cm) at POST applications. Collectively, our findings suggest that cover crops can reduce the intensity of selection pressure on POST herbicides, but the magnitude of the effect varies based on weed life-history traits. Additional work is needed to describe proactive resistance management concepts and performance targets for integrating cover crops so producers can apply these concepts in site-specific, within-field management practices.
Morphodynamic Evolution of a Fringing Sandy Shoal: From Tidal Levees to Sea Level Rise
Authors: Elmilady H. , van der Wegen M. , Roelvink D. , van der Spek A.
Published: June 2020

Intertidal shoals are vital components of estuaries. Tides, waves, and sediment supply shape the profile of estuarine shoals. Ensuring their sustainability requires an understanding of how such systems will react to sea level rise (SLR). In contrast to mudflats, sandy shoals have drawn limited attention in research. Inspired by a channel‐shoal system in the Western Scheldt Estuary (Netherlands), this research investigates governing processes of the long‐term morphodynamic evolution of intertidal estuarine sandy shoals across different timescales. We apply a high‐resolution process‐based numerical model (Delft3D) to generate a channel‐shoal system in equilibrium and expose the equilibrium profile to variations in wave forcing and SLR. Combined tidal action and wave forcing initiate ridge formation at the seaward shoal edge, which slowly propagates landward until a linear equilibrium profile develops within 200 years. Model simulations in which forcing conditions have been varied to reproduce observations show that the bed is most dynamic near the channel‐shoal interface. A decrease/increase in wave forcing causes the formation/erosion of small tidal levees at the shoal edge, which shows good resemblance to observed features. The profile recovers when regular wave forcing applies again. Sandy shoals accrete in response to SLR with a long (decades) bed‐level adaptation lag eventually leading to intertidal area loss. This lag depends on the forcing conditions and is lowest near the channel and gradually increases landward. Adding mud makes the shoal more resilient to SLR. Our study suggests that processes near the channel‐shoal interface are crucial to understanding the long‐term morphodynamic development of sandy shoals.
Observations of Electron Vortex at the Dipolarization Front
Authors: Jiang K. , Huang S. Y. , Yuan Z. G. , Deng X. H. , Xu S. B. , Wei Y. Y. , He L. H. , Zhang J. , Zhang Z. H.
Published: June 2020

Dipolarization front (DF), embedded in fast plasma flow, is a sharp structure with the increase of Bz in a short time and plays an important role in the energy dissipation and particle accelerations in the magnetotail. However, detailed physics at the small scales is still unclear in the DF due to the limitation of the previous mission. In the present study, an electron‐scale plateau in Bz is observed at the DF by Magnetospheric Multiscale (MMS) mission. By analyzing the velocity of the electrons, we find that the electron‐scale plateau is surrounded by a sub‐ion‐scale electron vortex, which is the first observation of electron vortex at the DF as far as we know. The magnetic field generated by the electron vortex cancels parts of the increase of Bz and causes the plateau. Strong asymmetric electric field and demagnetization of electrons and ions are observed at the boundary of the electron vortex. These results shed new light on that small‐scale structures can develop within the ion‐scale DF and affect the evolution and kinetic effects at the DF.
Recovering From Bias: A Call for Further Study of Underrepresented Tropical and Low‐Nutrient Estuaries
Authors: Vieillard A. M. , Newell S. E. , Thrush S. F.
Published: June 2020

Estuaries are some of the most dynamic of Earth's ecosystems and are also some of the most heavily impacted by anthropogenic activities. Coastal nutrient pollution has been identified as one of the greatest threats facing these valuable systems worldwide. As a result, a strong literature bias has developed toward heavily eutrophied estuaries in the Northern Hemisphere, with relatively little data available from tropical and low‐nutrient systems. Here we discuss the implications of this bias and argue for a need for further work in a larger variety of systems. Further understanding of these underrepresented systems is vital to future estuarine management.
Differential therapeutic effects of PARP and ATR inhibition combined with radiotherapy in the treatment of subcutaneous versus orthotopic lung tumour models
Authors: Tran Chau Vanessa , Liu Winchygn , Gerbé de Thoré Marine , Meziani Lydia , Mondini Michele , O’Connor Mark J. , Deutsch Eric , Clémenson Céline
Published: June 2020

Background

Subcutaneous mouse tumour models are widely used for the screening of novel antitumour treatments, although these models are poor surrogate models of human cancers.

Methods

We compared the antitumour efficacy of the combination of ionising radiation (IR) with two DNA damage response inhibitors, the PARP inhibitor olaparib and the ATR inhibitor AZD6738 (ceralasertib), in subcutaneous versus orthotopic cancer models.

Results

Olaparib delayed the growth of irradiated Lewis lung carcinoma (LL2) subcutaneous tumours, in agreement with previous reports in human cell lines. However, the olaparib plus IR combination showed a very narrow therapeutic window against LL2 lung orthotopic tumours, with nearly no additional antitumour effect compared with that of IR alone, and tolerability issues emerged at high doses. The addition of AZD6738 greatly enhanced the efficacy of the olaparib plus IR combination treatment against subcutaneous but not orthotopic LL2 tumours. Moreover, olaparib plus AZD6738 administration concomitant with IR even worsened the response to radiation of head and neck orthotopic tumours and induced mucositis.

Conclusions

These major differences in the responses to treatments between subcutaneous and orthotopic models highlight the importance of using more pathologically relevant models, such as syngeneic orthotopic models, to determine the most appropriate therapeutic approaches for translation to the clinic.
Dissociation of salts in water under pressure
Authors: Zhang Cunzhi , Giberti Federico , Sevgen Emre , de Pablo Juan J. , Gygi Francois , Galli Giulia
Published: June 2020

The investigation of salts in water at extreme conditions is crucial to understanding the properties of aqueous fluids in the Earth. We report first principles (FP) and classical molecular dynamics simulations of NaCl in the dilute limit, at temperatures and pressures relevant to the Earth’s upper mantle. Similar to ambient conditions, we observe two metastable states of the salt: the contact (CIP) and the solvent-shared ion-pair (SIP), which are entropically and enthalpically favored, respectively. We find that the free energy barrier between the CIP and SIP minima increases at extreme conditions, and that the stability of the CIP is enhanced in FP simulations, consistent with the decrease of the dielectric constant of water. The minimum free energy path between the CIP and SIP becomes smoother at high pressure, and the relative stability of the two configurations is affected by water self-dissociation, which can only be described properly by FP simulations.
Motion corrected MRI differentiates male and female human brain growth trajectories from mid-gestation
Authors: Studholme Colin , Kroenke Christopher D. , Dighe Manjiri
Published: June 2020

It is of considerable scientific, medical, and societal interest to understand the developmental origins of differences between male and female brains. Here we report the use of advances in MR imaging and analysis to accurately measure global, lobe and millimetre scale growth trajectory patterns over 18 gestational weeks in normal pregnancies with repeated measures. Statistical modelling of absolute growth trajectories revealed underlying differences in many measures, potentially reflecting overall body size differences. However, models of relative growth accounting for global measures revealed a complex temporal form, with strikingly similar cortical development in males and females at lobe scales. In contrast, local cortical growth patterns and larger scale white matter volume and surface measures differed significantly between male and female. Many proportional differences were maintained during neurogenesis and over 18 weeks of growth. These indicate sex related sculpting of neuroanatomy begins early in development, before cortical folding, potentially influencing postnatal development.
Intragenic recruitment of NF-κB drives splicing modifications upon activation by the oncogene Tax of HTLV-1
Authors: Ameur Lamya Ben , Marie Paul , Thenoz Morgan , Giraud Guillaume , Combe Emmanuel , Claude Jean-Baptiste , Lemaire Sebastien , Fontrodona Nicolas , Polveche Hélène , Bastien Marine , Gessain Antoine , Wattel Eric , Bourgeois Cyril F. , Auboeuf Didier , Mortreux Franck
Published: June 2020

Chronic NF-κB activation in inflammation and cancer has long been linked to persistent activation of NF-κB–responsive gene promoters. However, NF-κB factors also massively bind to gene bodies. Here, we demonstrate that recruitment of the NF-κB factor RELA to intragenic regions regulates alternative splicing upon NF-κB activation by the viral oncogene Tax of HTLV-1. Integrative analyses of RNA splicing and chromatin occupancy, combined with chromatin tethering assays, demonstrate that DNA-bound RELA interacts with and recruits the splicing regulator DDX17, in an NF-κB activation-dependent manner. This leads to alternative splicing of target exons due to the RNA helicase activity of DDX17. Similar results were obtained upon Tax-independent NF-κB activation, indicating that Tax likely exacerbates a physiological process where RELA provides splice target specificity. Collectively, our results demonstrate a physical and direct involvement of NF-κB in alternative splicing regulation, which significantly revisits our knowledge of HTLV-1 pathogenesis and other NF-κB-related diseases.
Mesenchymal stem cells offer a drug-tolerant and immune-privileged niche to Mycobacterium tuberculosis
Authors: Jain Neharika , Kalam Haroon , Singh Lakshyaveer , Sharma Vartika , Kedia Saurabh , Das Prasenjit , Ahuja Vineet , Kumar Dhiraj
Published: June 2020

Anti-tuberculosis (TB) drugs, while being highly potent in vitro, require prolonged treatment to control Mycobacterium tuberculosis (Mtb) infections in vivo. We report here that mesenchymal stem cells (MSCs) shelter Mtb to help tolerate anti-TB drugs. MSCs readily take up Mtb and allow unabated mycobacterial growth despite having a functional innate pathway of phagosome maturation. Unlike macrophage-resident ones, MSC-resident Mtb tolerates anti-TB drugs remarkably well, a phenomenon requiring proteins ABCC1, ABCG2 and vacuolar-type H+ATPases. Additionally, the classic pro-inflammatory cytokines IFNγ and TNFα aid mycobacterial growth within MSCs. Mechanistically, evading drugs and inflammatory cytokines by MSC-resident Mtb is dependent on elevated PGE2 signaling, which we verify in vivo analyzing sorted CD45−Sca1+CD73+-MSCs from lungs of infected mice. Moreover, MSCs are observed in and around human tuberculosis granulomas, harboring Mtb bacilli. We therefore propose, targeting the unique immune-privileged niche, provided by MSCs to Mtb, can have a major impact on tuberculosis prevention and cure.
High-throughput interrogation of programmed ribosomal frameshifting in human cells
Authors: Mikl Martin , Pilpel Yitzhak , Segal Eran
Published: June 2020

Programmed ribosomal frameshifting (PRF) is the controlled slippage of the translating ribosome to an alternative frame. This process is widely employed by human viruses such as HIV and SARS coronavirus and is critical for their replication. Here, we developed a high-throughput approach to assess the frameshifting potential of a sequence. We designed and tested >12,000 sequences based on 15 viral and human PRF events, allowing us to systematically dissect the rules governing ribosomal frameshifting and discover novel regulatory inputs based on amino acid properties and tRNA availability. We assessed the natural variation in HIV gag-pol frameshifting rates by testing >500 clinical isolates and identified subtype-specific differences and associations between viral load in patients and the optimality of PRF rates. We devised computational models that accurately predict frameshifting potential and frameshifting rates, including subtle differences between HIV isolates. This approach can contribute to the development of antiviral agents targeting PRF.
Integrated analysis of a compendium of RNA-Seq datasets for splicing factors
Authors: Yu Peng , Li Jin , Deng Su-Ping , Zhang Feiran , Grozdanov Petar N. , Chin Eunice W. M. , Martin Sheree D. , Vergnes Laurent , Islam M. Saharul , Sun Deqiang , LaSalle Janine M. , McGee Sean L. , Goh Eyleen , MacDonald Clinton C. , Jin Peng
Published: June 2020

A vast amount of public RNA-sequencing datasets have been generated and used widely to study transcriptome mechanisms. These data offer precious opportunity for advancing biological research in transcriptome studies such as alternative splicing. We report the first large-scale integrated analysis of RNA-Seq data of splicing factors for systematically identifying key factors in diseases and biological processes. We analyzed 1,321 RNA-Seq libraries of various mouse tissues and cell lines, comprising more than 6.6 TB sequences from 75 independent studies that experimentally manipulated 56 splicing factors. Using these data, RNA splicing signatures and gene expression signatures were computed, and signature comparison analysis identified a list of key splicing factors in Rett syndrome and cold-induced thermogenesis. We show that cold-induced RNA-binding proteins rescue the neurite outgrowth defects in Rett syndrome using neuronal morphology analysis, and we also reveal that SRSF1 and PTBP1 are required for energy expenditure in adipocytes using metabolic flux analysis. Our study provides an integrated analysis for identifying key factors in diseases and biological processes and highlights the importance of public data resources for identifying hypotheses for experimental testing.
Electric field assisted alignment of monoatomic carbon chains
Authors: Kutrovskaya Stella , Chestnov Igor , Osipov Anton , Samyshkin Vlad , Sapegina Irina , Kavokin Alexey , Kucherik Alexey
Published: June 2020

We stabilize monoatomic carbon chains in water by attaching them to gold nanoparticles (NPs) by means of the laser ablation process. Resulting nanoobjects represent pairs of NPs connected by multiple straight carbon chains of several nanometer lengths. If NPs at the opposite ends of a chain differ in size, the structure acquires a dipole moment due to the difference in work functions of the two NPs. We take advantage of the dipole polarisation of carbon chains for ordering them by the external electric field. We deposit them on a glass substrate by the sputtering method in the presence of static electric fields of magnitudes up to 105 V/m. The formation of one-dimensional carbyne quasi-crystals deposited on a substrate is evidenced by high-resolution TEM and X-ray diffraction measurements. The original kinetic model describing the dynamics of ballistically flowing nano-dipoles reproduces the experimental diagram of orientation of the deposited chains.
Dual-Seq reveals genome and transcriptome of Caedibacter taeniospiralis, obligate endosymbiont of Paramecium
Authors: Pirritano Marcello , Zaburannyi Nestor , Grosser Katrin , Gasparoni Gilles , Müller Rolf , Simon Martin , Schrallhammer Martina
Published: June 2020

Interest in host-symbiont interactions is continuously increasing, not only due to the growing recognition of the importance of microbiomes. Starting with the detection and description of novel symbionts, attention moves to the molecular consequences and innovations of symbioses. However, molecular analysis requires genomic data which is difficult to obtain from obligate intracellular and uncultivated bacteria. We report the identification of the Caedibacter genome, an obligate symbiont of the ciliate Paramecium. The infection does not only confer the host with the ability to kill other cells but also renders them immune against this effect. We obtained the C. taeniospiralis genome and transcriptome by dual-Seq of DNA and RNA from infected paramecia. Comparison of codon usage and expression level indicates that genes necessary for a specific trait of this symbiosis, i.e. the delivery of an unknown toxin, result from horizontal gene transfer hinting to the relevance of DNA transfer for acquiring new characters. Prediction of secreted proteins of Caedibacter as major agents of contact with the host implies, next to several toxin candidates, a rather uncharacterized secretome which appears to be highly adapted to this symbiosis. Our data provides new insights into the molecular establishment and evolution of this obligate symbiosis and for the pathway characterization of toxicity and immunity.
Ergot alkaloid mycotoxins: physiological effects, metabolism and distribution of the residual toxin in mice
Authors: Reddy Priyanka , Hemsworth Joanne , Guthridge Kathryn M. , Vinh Antony , Vassiliadis Simone , Ezernieks Vilnis , Spangenberg German C. , Rochfort Simone J.
Published: June 2020

The complex ergot alkaloids, ergovaline and ergotamine, cause dysregulation of physiological functions, characterised by vasoconstriction as well as thermoregulatory and cardiovascular effects in grazing livestock. To assess the effect of the mycotoxins, blood pressure and heart rate of male mice were measured, and metabolite profiling undertaken to determine relative abundances of both ergotamine and its metabolic products in body and brain tissue. Ergotamine showed similar cardiovascular effects to ergovaline, causing elevations in blood pressure and reduced heart rate. Bradycardia was preserved at low-levels of ergovaline despite no changes in blood pressure. Ergotamine was identified in kidney, liver and brainstem but not in other regions of the brain, which indicates region-specific effects of the toxin. The structural configuration of two biotransformation products of ergotamine were determined and identified in the liver and kidney, but not the brain. Thus, the dysregulation in respiratory, thermoregulatory, cardiac and vasomotor function, evoked by ergot alkaloids in animals observed in various studies, could be partially explained by dysfunction in the autonomic nervous system, located in the brainstem.
A cross-reactive mouse monoclonal antibody against rhinovirus mediates phagocytosis in vitro
Authors: Behzadi Mohammad Amin , Choi Angela , Duehr James , Feyznezhad Roya , Upadhyay Chitra , Schotsaert Michael , Palese Peter , Nachbagauer Raffael
Published: June 2020

Rhinoviruses (RVs) are the main cause of the common cold worldwide. To date, more than 160 types of the virus have been recognized, categorized into three major species - A, B, and C. There are currently no approved vaccines available to prevent infection with RVs. To elicit antibodies against conserved regions located on capsid proteins of RV A viruses, mice were sequentially vaccinated with DNA plasmids encoding capsid proteins of different RV A types. After a final boost with whole virus, antibody-expressing hybridomas were generated. After isotyping, 11 monoclonal antibodies (mAbs) expressing an IgG subtype Fc-domain were selected for further expansion and purification. Three mAbs showed cross-reactivity against multiple strains of RV A viruses by ELISA, including strains A1A, A1B, A15, A16 and A49. Other mAbs had strain-specific binding patterns, with the majority of mAbs showing reactivity to RV-A15, the strain used for the final vaccination. We found that the RV-A15-specific mAbs, but not the cross-reactive mAbs, had neutralizing activity against RV-A15. An antibody dependent cellular phagocytosis (ADCP) assay revealed substantial ADCP activity for one of the cross-reactive mAbs. Epitope mapping of the neutralizing mAbs via escape mutant virus generation revealed a shared binding epitope on VP1 of RV-A15 for several neutralizing mAbs. The epitope of the ADCP-active, non-neutralizing mAb was determined by microarray analysis of peptides generated from the VP1 capsid protein. VP1-specific, cross-reactive antibodies, especially those with ADCP activity, could contribute to protection against RV infections.