bluuebunny/crossref_metadata_2025 huggingface dataset:
Presence of water on exomoons orbiting free-floating planets: a case study
Authors: Ávila Patricio Javier , Grassi Tommaso , Bovino Stefano , Chiavassa Andrea , Ercolano Barbara , Danielache Sebastian Oscar , Simoncini Eugenio
Published: June 2021

A free-floating planet (FFP) is a planetary-mass object that orbits around a non-stellar massive object (e.g. a brown dwarf) or around the Galactic Centre. The presence of exomoons orbiting FFPs has been theoretically predicted by several models. Under specific conditions, these moons are able to retain an atmosphere capable of ensuring the long-term thermal stability of liquid water on their surface. We model this environment with a one-dimensional radiative-convective code coupled to a gas-phase chemical network including cosmic rays and ion-neutral reactions. We find that, under specific conditions and assuming stable orbital parameters over time, liquid water can be formed on the surface of the exomoon. The final amount of water for an Earth-mass exomoon is smaller than the amount of water in Earth oceans, but enough to host the potential development of primordial life. The chemical equilibrium time-scale is controlled by cosmic rays, the main ionization driver in our model of the exomoon atmosphere.
High-altitude population neonatal and maternal phenotypes associated with birthweight protection
Authors: Dolma Padma , Angchuk P. T. , Jain Vandana , Dadhwal Vatsla , Kular Dalvir , Williams David J. , Montgomery Hugh E. , Hillman Sara L.
Published: June 2021

Background

States which reduce foetal oxygen delivery are associated with impaired intrauterine growth. Hypoxia results when barometric pressure falls with ascent to altitude, and with it the partial pressure of inspired oxygen (‘hypobaric hypoxia’). birthweight is reduced when native lowlanders gestate at such high altitude (HA)—an effect mitigated in native (millennia) HA populations. Studying HA populations offer a route to explore the mechanisms by which hypoxia impacts foetal growth.

Methods

Between February 2017 and January 2019, we prospectively studied 316 pregnant women, in Leh, Ladakh (altitude 3524 m, where oxygen partial pressure is reduced by 1/3) and 101 pregnant women living in Delhi (low altitude, 216 m above sea level).

Results

Of Ladakhi HA newborns, 14% were small for gestational age (<10th birthweight centile) vs 19% of newborn at low altitude. At HA, increased maternal body mass index, age, and uterine artery (UtA) diameter were positively associated with growth >10th weight centile.

Conclusions

This study showed that Ladakhi offspring birthweight is relatively spared from the expected adverse HA effects. Furthermore, maternal body composition and greater UtA size may be physiological HA adaptations and warrant further study, as they offer potential mechanisms to overcome hypoxia-related growth issues.

Impact

Reduced foetal oxygen delivery seen in native lowlanders who gestate at HA causes foetal growth restriction—an effect thought to be mitigated in native HA populations.

We found that greater maternal body mass and UtA diameter were associated with increased offspring birthweight in a (Ladakh) HA population.

This supports a role for them as physiological mediators of adaptation and provides insights into potential mechanisms that may treat hypoxia-related growth issues.
2,3-Butanediol synthesis from glucose supplies NADH for elimination of toxic acetate produced during overflow metabolism
Authors: Meng Wensi , Zhang Lijie , Cao Menghao , Zhang Yongjia , Zhang Yipeng , Li Ping , Kang Zhaoqi , Guo Shiting , Xu Ping , Ma Cuiqing , Gao Chao
Published: June 2021

Overflow metabolism-caused acetate accumulation is a major problem that restricts industrial applications of various bacteria. 2,3-Butanediol (2,3-BD) synthesis in microorganisms is an ancient metabolic process with unidentified functions. We demonstrate here that acetate increases and then decreases during the growth of a bacterium Enterobacter cloacae subsp. dissolvens SDM. Both bifunctional acetaldehyde/ethanol dehydrogenase AdhE-catalyzed ethanol production and acetate-induced 2,3-BD biosynthesis are indispensable for the elimination of acetate generated during overflow metabolism. 2,3-BD biosynthesis from glucose supplies NADH required for acetate elimination via AdhE-catalyzed ethanol production. The coupling strategy involving 2,3-BD biosynthesis and ethanol production is widely distributed in bacteria and is important for toxic acetate elimination. Finally, we realized the co-production of ethanol and acetoin from chitin, the second most abundant natural biopolymer whose catabolism involves inevitable acetate production through the coupling acetate elimination strategy. The synthesis of a non-toxic chemical such as 2,3-BD may be viewed as a unique overflow metabolism with desirable metabolic functions.
The archaeal protein SepF is essential for cell division in Haloferax volcanii
Authors: Nußbaum Phillip , Gerstner Maren , Dingethal Marie , Erb Celine , Albers Sonja-Verena
Published: June 2021

In most bacteria, cell division depends on the tubulin homolog FtsZ and other proteins, such as SepF, that form a complex termed the divisome. Cell division also depends on FtsZ in many archaea, but other components of the divisome are unknown. Here, we demonstrate that a SepF homolog plays important roles in cell division in Haloferax volcanii, a halophilic archaeon that is known to have two FtsZ homologs with slightly different functions (FtsZ1 and FtsZ2). SepF co-localizes with both FtsZ1 and FtsZ2 at midcell. Attempts to generate a sepF deletion mutant were unsuccessful, suggesting an essential role. Indeed, SepF depletion leads to severe cell division defects and formation of large cells. Overexpression of FtsZ1-GFP or FtsZ2-GFP in SepF-depleted cells results in formation of filamentous cells with a high number of FtsZ1 rings, while the number of FtsZ2 rings is not affected. Pull-down assays support that SepF interacts with FtsZ2 but not with FtsZ1, although SepF appears delocalized in the absence of FtsZ1. Archaeal SepF homologs lack a glycine residue known to be important for polymerization and function in bacteria, and purified H. volcanii SepF forms dimers, suggesting that polymerization might not be important for the function of archaeal SepF.
Moderate levels of 5-fluorocytosine cause the emergence of high frequency resistance in cryptococci
Authors: Chang Yun C. , Lamichhane Ami Khanal , Cai Hongyi , Walter Peter J. , Bennett John E. , Kwon-Chung Kyung J.
Published: June 2021

The antifungal agent 5-fluorocytosine (5-FC) is used for the treatment of several mycoses, but is unsuitable for monotherapy due to the rapid development of resistance. Here, we show that cryptococci develop resistance to 5-FC at a high frequency when exposed to concentrations several fold above the minimal inhibitory concentration. The genomes of resistant clones contain alterations in genes relevant as well as irrelevant for 5-FC resistance, suggesting that 5-FC may be mutagenic at moderate concentrations. Mutations in FCY2 (encoding a known permease for 5-FC uptake), FCY1, FUR1, UXS1 (encoding an enzyme that converts UDP-glucuronic acid to UDP-xylose) and URA6 contribute to 5-FC resistance. The uxs1 mutants accumulate UDP-glucuronic acid, which appears to down-regulate expression of permease FCY2 and reduce cellular uptake of the drug. Additional mutations in genes known to be required for UDP-glucuronic acid synthesis (UGD1) or a transcriptional factor NRG1 suppress UDP-glucuronic acid accumulation and 5-FC resistance in the uxs1 mutants.
A versatile reverse genetics platform for SARS-CoV-2 and other positive-strand RNA viruses
Authors: Amarilla Alberto A. , Sng Julian D. J. , Parry Rhys , Deerain Joshua M. , Potter James R. , Setoh Yin Xiang , Rawle Daniel J. , Le Thuy T. , Modhiran Naphak , Wang Xiaohui , Peng Nias Y. G. , Torres Francisco J. , Pyke Alyssa , Harrison Jessica J. , Freney Morgan E. , Liang Benjamin , McMillan Christopher L. D. , Cheung Stacey T. M. , Guevara Darwin J. Da Costa , Hardy Joshua M. , Bettington Mark , Muller David A. , Coulibaly Fasséli , Moore Frederick , Hall Roy A. , Young Paul R. , Mackenzie Jason M. , Hobson-Peters Jody , Suhrbier Andreas , Watterson Daniel , Khromykh Alexander A.
Published: June 2021

The current COVID-19 pandemic is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). We demonstrate that despite the large size of the viral RNA genome (~30 kb), infectious full-length cDNA is readily assembled in vitro by a circular polymerase extension reaction (CPER) methodology without the need for technically demanding intermediate steps. Overlapping cDNA fragments are generated from viral RNA and assembled together with a linker fragment containing CMV promoter into a circular full-length viral cDNA in a single reaction. Transfection of the circular cDNA into mammalian cells results in the recovery of infectious SARS-CoV-2 virus that exhibits properties comparable to the parental virus in vitro and in vivo. CPER is also used to generate insect-specific Casuarina virus with ~20 kb genome and the human pathogens Ross River virus (Alphavirus) and Norovirus (Calicivirus), with the latter from a clinical sample. Additionally, reporter and mutant viruses are generated and employed to study virus replication and virus-receptor interactions.
Natural selection increases female fitness by reversing the exaggeration of a male sexually selected trait
Authors: Okada Kensuke , Katsuki Masako , Sharma Manmohan D. , Kiyose Katsuya , Seko Tomokazu , Okada Yasukazu , Wilson Alastair J. , Hosken David J.
Published: June 2021

Theory shows how sexual selection can exaggerate male traits beyond naturally selected optima and also how natural selection can ultimately halt trait elaboration. Empirical evidence supports this theory, but to our knowledge, there have been no experimental evolution studies directly testing this logic, and little examination of possible associated effects on female fitness. Here we use experimental evolution of replicate populations of broad-horned flour beetles to test for effects of sex-specific predation on an exaggerated sexually selected male trait (the mandibles), while also testing for effects on female lifetime reproductive success. We find that populations subjected to male-specific predation evolve smaller sexually selected mandibles and this indirectly increases female fitness, seemingly through intersexual genetic correlations we document. Predation solely on females has no effects. Our findings support fundamental theory, but also reveal unforseen outcomes—the indirect effect on females—when natural selection targets sex-limited sexually selected characters.
Adaptive tip-enhanced nano-spectroscopy
Authors: Lee Dong Yun , Park Chulho , Choi Jinseong , Koo Yeonjeong , Kang Mingu , Jeong Mun Seok , Raschke Markus B. , Park Kyoung-Duck
Published: June 2021

Tip-enhanced nano-spectroscopy, such as tip-enhanced photoluminescence (TEPL) and tip-enhanced Raman spectroscopy (TERS), generally suffers from inconsistent signal enhancement and difficulty in polarization-resolved measurement. To address this problem, we present adaptive tip-enhanced nano-spectroscopy optimizing the nano-optical vector-field at the tip apex. Specifically, we demonstrate dynamic wavefront shaping of the excitation field to effectively couple light to the tip and adaptively control for enhanced sensitivity and polarization-controlled TEPL and TERS. Employing a sequence feedback algorithm, we achieve ~4.4 × 104-fold TEPL enhancement of a WSe2monolayer which is >2× larger than the normal TEPL intensity without wavefront shaping. In addition, with dynamical near-field polarization control in TERS, we demonstrate the investigation of conformational heterogeneity of brilliant cresyl blue molecules and the controllable observation of IR-active modes due to a large gradient field effect. Adaptive tip-enhanced nano-spectroscopy thus provides for a systematic approach towards computational nanoscopy making optical nano-imaging more robust and widely deployable.
Effect of metformin versus placebo on metabolic factors in the MA.32 randomized breast cancer trial
Authors: Goodwin Pamela J. , Dowling Ryan J. O. , Ennis Marguerite , Chen Bingshu E. , Parulekar Wendy R. , Shepherd Lois E. , Burnell Margot J. , Vander Meer Rachel , Molckovsky Andrea , Gurjal Anagha , Gelmon Karen A. , Ligibel Jennifer A. , Hershman Dawn L. , Mayer Ingrid A. , Whelan Timothy J. , Hobday Timothy J. , Rastogi Priya , Rabaglio-Poretti Manuela , Lemieux Julie , Thompson Alastair M. , Rea Daniel W. , Stambolic Vuk
Published: June 2021

Metformin may exert anticancer effects through indirect (mediated by metabolic changes) or direct mechanisms. The goal was to examine metformin impact on metabolic factors in non-diabetic subjects and determine whether this impact varies by baseline BMI, insulin, and rs11212617 SNP in CCTG MA.32, a double-blind placebo-controlled randomized adjuvant breast cancer (BC) trial. 3649 subjects with T1-3, N0-3, M0 BC were randomized; pretreatment and 6-month on-treatment fasting plasma was centrally assayed for insulin, leptin, highly sensitive C-reactive protein (hsCRP). Glucose was measured locally and homeostasis model assessment (HOMA) calculated. Genomic DNA was analyzed for the rs11212617 SNP. Absolute and relative change of metabolic factors (metformin versus placebo) were compared using Wilcoxon rank and t-tests. Regression models were adjusted for baseline differences and assessed interactions with baseline BMI, insulin, and the SNP. Mean age was 52 years. The majority had T2/3, node positive, hormone receptor positive, HER2 negative BC treated with (neo)adjuvant chemotherapy and hormone therapy. Median baseline body mass index (BMI) was 27.4 kg/m2 (metformin) and 27.3 kg/m2 (placebo). Median weight change was −1.4 kg (metformin) vs +0.5 kg (placebo). Significant improvements were seen in all metabolic factors, with 6 month standardized ratios (metformin/placebo) of 0.85 (insulin), 0.83 (HOMA), 0.80 (leptin), and 0.84 (hsCRP), with no qualitative interactions with baseline BMI or insulin. Changes did not differ by rs11212617 allele. Metformin (vs placebo) led to significant improvements in weight and metabolic factors; these changes did not differ by rs11212617 allele status.
Metacognition: ideas and insights from neuro- and educational sciences
Authors: Fleur Damien S. , Bredeweg Bert , van den Bos Wouter
Published: June 2021

Metacognition comprises both the ability to be aware of one’s cognitive processes (metacognitive knowledge) and to regulate them (metacognitive control). Research in educational sciences has amassed a large body of evidence on the importance of metacognition in learning and academic achievement. More recently, metacognition has been studied from experimental and cognitive neuroscience perspectives. This research has started to identify brain regions that encode metacognitive processes. However, the educational and neuroscience disciplines have largely developed separately with little exchange and communication. In this article, we review the literature on metacognition in educational and cognitive neuroscience and identify entry points for synthesis. We argue that to improve our understanding of metacognition, future research needs to (i) investigate the degree to which different protocols relate to the similar or different metacognitive constructs and processes, (ii) implement experiments to identify neural substrates necessary for metacognition based on protocols used in educational sciences, (iii) study the effects of training metacognitive knowledge in the brain, and (iv) perform developmental research in the metacognitive brain and compare it with the existing developmental literature from educational sciences regarding the domain-generality of metacognition.
Design of MRI structured spiking neural networks and learning algorithms for personalized modelling, analysis, and prediction of EEG signals
Authors: Saeedinia Samaneh Alsadat , Jahed-Motlagh Mohammad Reza , Tafakhori Abbas , Kasabov Nikola
Published: June 2021

This paper proposes a novel method and algorithms for the design of MRI structured personalized 3D spiking neural network models (MRI-SNN) for a better analysis, modeling, and prediction of EEG signals. It proposes a novel gradient-descent learning algorithm integrated with a spike-time-dependent-plasticity algorithm. The models capture informative personal patterns of interaction between EEG channels, contrary to single EEG signal modeling methods or to spike-based approaches which do not use personal MRI data to pre-structure a model. The proposed models can not only learn and model accurately measured EEG data, but they can also predict signals at 3D model locations that correspond to non-monitored brain areas, e.g. other EEG channels, from where data has not been collected. This is the first study in this respect. As an illustration of the method, personalized MRI-SNN models are created and tested on EEG data from two subjects. The models result in better prediction accuracy and a better understanding of the personalized EEG signals than traditional methods due to the MRI and EEG information integration. The models are interpretable and facilitate a better understanding of related brain processes. This approach can be applied for personalized modeling, analysis, and prediction of EEG signals across brain studies such as the study and prediction of epilepsy, peri-perceptual brain activities, brain-computer interfaces, and others.
Evolution of networks of protein domain organization
Authors: Aziz M. Fayez , Caetano-Anollés Gustavo
Published: June 2021

Domains are the structural, functional and evolutionary units of proteins. They combine to form multidomain proteins. The evolutionary history of this molecular combinatorics has been studied with phylogenomic methods. Here, we construct networks of domain organization and explore their evolution. A time series of networks revealed two ancient waves of structural novelty arising from ancient ‘p-loop’ and ‘winged helix’ domains and a massive ‘big bang’ of domain organization. The evolutionary recruitment of domains was highly modular, hierarchical and ongoing. Domain rearrangements elicited non-random and scale-free network structure. Comparative analyses of preferential attachment, randomness and modularity showed yin-and-yang complementary transition and biphasic patterns along the structural chronology. Remarkably, the evolving networks highlighted a central evolutionary role of cofactor-supporting structures of non-ribosomal peptide synthesis pathways, likely crucial to the early development of the genetic code. Some highly modular domains featured dual response regulation in two-component signal transduction systems with DNA-binding activity linked to transcriptional regulation of responses to environmental change. Interestingly, hub domains across the evolving networks shared the historical role of DNA binding and editing, an ancient protein function in molecular evolution. Our investigation unfolds historical source-sink patterns of evolutionary recruitment that further our understanding of protein architectures and functions.
Frequency-specific alterations of the resting-state BOLD signals in nocturnal enuresis: an fMRI Study
Authors: Zheng Xiangyu , Sun Jiawei , Lv Yating , Wang Mengxing , Du Xiaoxia , Jia Xize , Ma Jun
Published: June 2021

Resting state functional magnetic resonance imaging studies of nocturnal enuresis have focused primarily on regional metrics in the blood oxygen level dependent (BOLD) signal ranging from 0.01 to 0.08 Hz. However, it remains unclear how local metrics show in sub-frequency band. 129 children with nocturnal enuresis (NE) and 37 healthy controls were included in this study. The patients were diagnosed by the pediatricians in Shanghai Children’s Medical Center affiliated to Shanghai Jiao Tong University School of Medicine, according to the criteria from International Children's Continence Society (ICCS). Questionnaires were used to evaluate the symptoms of enuresis and completed by the participants. In this study, fALFF, ReHo and PerAF were calculated within five different frequency bands: typical band (0.01–0.08 Hz), slow-5 (0.01–0.027 Hz), slow-4 (0.027–0.073 Hz), slow-3 (0.073–0.198 Hz), and slow-2 (0.198–0.25 Hz). In the typical band, ReHo increased in the left insula and the right thalamus, while fALFF decreased in the right insula in children with NE. Besides, PerAF was increased in the right middle temporal gyrus in these children. The results regarding ReHo, fALFF and PerAF in the typical band was similar to those in slow-5 band, respectively. A correlation was found between the PerAF value of the right middle temporal gyrus and scores of the urinary intention-related wakefulness. Results in other bands were either negative or in white matter. NE children might have abnormal intrinsic neural oscillations mainly on slow-5 bands.
A multi-technique approach to understanding delithiation damage in LiCoO2 thin films
Authors: Salagre E. , Quílez S. , de Benito R. , Jaafar M. , van der Meulen H. P. , Vasco E. , Cid R. , Fuller E. J. , Talin A. A. , Segovia P. , Michel E. G. , Polop C.
Published: June 2021

We report on the delithiation of LiCoO2 thin films using oxalic acid (C2H2O4) with the goal of understanding the structural degradation of an insertion oxide associated with Li chemical extraction. Using a multi-technique approach that includes synchrotron radiation X-ray diffraction, scanning electron microscopy, micro Raman spectroscopy, photoelectron spectroscopy and conductive atomic force microscopy we reveal the balance between selective Li extraction and structural damage. We identify three different delithiation regimes, related to surface processes, bulk delithiation and damage generation. We find that only a fraction of the grains is affected by the delithiation process, which may create local inhomogeneities. However, the bulk delithiation regime is effective to delithiate the LCO film. All experimental evidence collected indicates that the delithiation process in this regime mimics the behavior of LCO upon electrochemical delithiation. We discard the formation of Co oxalate during the chemical extraction process. In conclusion, the chemical route to Li extraction provides additional opportunities to investigate delithiation while avoiding the complications associated with electrolyte breakdown and simplifying in-situ measurements.
Determination of quasi-primary odors by endpoint detection
Authors: Xu Hanxiao , Kitai Koki , Minami Kosuke , Nakatsu Makito , Yoshikawa Genki , Tsuda Koji , Shiba Kota , Tamura Ryo
Published: June 2021

It is known that there are no primary odors that can represent any other odors with their combination. Here, we propose an alternative approach: “quasi” primary odors. This approach comprises the following condition and method: (1) within a collected dataset and (2) by the machine learning-based endpoint detection. The quasi-primary odors are selected from the odors included in a collected odor dataset according to the endpoint score. While it is limited within the given dataset, the combination of such quasi-primary odors with certain ratios can reproduce any other odor in the dataset. To visually demonstrate this approach, the three quasi-primary odors having top three high endpoint scores are assigned to the vertices of a chromaticity triangle with red, green, and blue. Then, the other odors in the dataset are projected onto the chromaticity triangle to have their unique colors. The number of quasi-primary odors is not limited to three but can be set to an arbitrary number. With this approach, one can first find “extreme” odors (i.e., quasi-primary odors) in a given odor dataset, and then, reproduce any other odor in the dataset or even synthesize a new arbitrary odor by combining such quasi-primary odors with certain ratios.
Conjugated topological interface-states in coupled ring resonators
Authors: Lin Yu-Chuan , Chen Bo-Yu , Hsueh Wen-Jeng
Published: June 2021

The optical properties of topological photonics have attracted much interest recently because its potential applications for robust unidirectional transmission that are immune to scattering at disorder. However, researches on topological series coupled ring resonators (T-SCRR) have been much less discussed. The existence of topological interface-states (TIS) in the T-SCRR is described for the first time in this article. An approach has been developed to achieve this goal via the band structure of dielectric binary ring resonators and the Zak phase of each bandgap. It is found that an ultra-high-Q with complete transmission is obtained by the conjugated topological series coupled ring resonators due to the excitation of conjugated topological interface-states, which is different from those in conventional TIS. Furthermore, the problem of transmission decreases resulting from high-Q increases in the traditional photonic system is significantly improved by this approach. These findings could pave a novel path for developing advanced high-Q filters, optical sensors, switches, resonators, communications and quantum information processors.
Experiment and simulation of single inhibitor SH110 for void-free TSV copper filling
Authors: Wang Fuliang , Le Yuping
Published: June 2021

Three-dimensional integration with through-silicon vias (TSVs) is a promising microelectronic interconnection technology. Three-component additives are commonly used for void-free TSV filling. However, optimising the additive concentrations is an expensive process. To avoid this, a single-component additive was developed: 3-(2-(4,5-dihydrothiazol-2-yl) disulfanyl) propane-1-sulfonic acid/sulfonate (SH110). Sodium 3,3′-dithiodipropane sulfonate (SPS) and SH110 were used as additives for TSV electroplating copper filling. SH110 resulted in void-free filling, whereas large keyhole voids were found for SPS. To understand how the additives affect the filling mechanism, linear sweep voltammetry of the plating solutions was carried out. The interactions between the Cu surface and additives were simulated by molecular dynamics (MD) analysis using Materials Studio software, and quantum chemistry calculations were conducted using GAUSSIAN 09W. SH110 adsorbs to the Cu surface by both 4,5-dihydrothiazole (DHT) and 3-mercaptopropane sulfonate (MPS) moieties, while SPS is adsorbed only by MPS moieties. MD simulations indicated that the adsorption of the coplanar MPS moiety is the main factor governing acceleration. Quantum chemistry calculations showed that DHT provides an inhibitory effect for TSV filling, while MPS acts as an accelerator for SH110. SH110 is an excellent additive exhibiting both the acceleration and the suppression necessary for achieving void-free TSV filling.
The evolution of strongly-held group identities through agent-based cooperation
Authors: Whitaker Roger M. , Colombo Gualtiero B. , Dunham Yarrow
Published: June 2021

Identity fusion represents a strongly-held personal identity that significantly overlaps with that of a group, and is the current best explanation as to why individuals become empowered to act with extreme self-sacrifice for a group of non-kin. This is widely seen and documented, yet how identity fusion is promoted by evolution is not well-understood, being seemingly counter to the selfish pursuit of survival. In this paper we extend agent-based modelling to explore how and why identity fusion can establish itself in an unrelated population with no previous shared experiences. Using indirect reciprocity to provide a framework for agent interaction, we enable agents to express their identity fusion towards a group, and observe the effects of potential behaviours that are incentivised by a heightened fusion level. These build on the social psychology literature and involve heightened sensitivity of fused individuals to perceived hypocritical group support from others. We find that simple self-referential judgement and ignorance of perceived hypocrites is sufficient to promote identity fusion and this is easily triggered by a sub-group of the population. Interestingly the self-referential judgement that we impose is an individual-level behaviour with no direct collective benefit shared by the population. The study provides clues, beyond qualitative and observational studies, as to how hypocrisy may have established itself to reinforce the collective benefit of a fused group identity. It also provides an alternative perspective on the controversial proposition of group selection - showing how fluidity between an individual’s reputation and that of a group may function and influence selection as a consequence of identity fusion.
Multiplex recombinase polymerase amplification assay developed using unique genomic regions for rapid on-site detection of genus Clavibacter and C. nebraskensis
Authors: Larrea-Sarmiento Adriana , Stack James P. , Alvarez Anne M. , Arif Mohammad
Published: June 2021

Clavibacter is an agriculturally important bacterial genus comprising nine host-specific species/subspecies including C. nebraskensis (Cn), which causes Goss's wilt and blight of maize. A robust, simple, and field-deployable method is required to specifically detect Cn in infected plants and distinguish it from other Clavibacter species for quarantine purposes and timely disease management. A multiplex Recombinase Polymerase Amplification (RPA) coupled with a Lateral Flow Device (LFD) was developed for sensitive and rapid detection of Clavibacter and Cn directly from infected host. Unique and conserved genomic regions, the ABC transporter ATP-binding protein CDS/ABC-transporter permease and the MFS transporter gene, were used to design primers/probes for specific detection of genus Clavibacter and Cn, respectively. The assay was evaluated using 52 strains, representing all nine species/subspecies of Clavibacter, other closely related bacterial species, and naturally- and artificially-infected plant samples; no false positives or negatives were detected. The RPA reactions were also incubated in a closed hand at body temperature; results were again specific. The assay does not require DNA isolation and can be directly performed using host sap. The detection limit of 10 pg (~ 3000 copies) and 100 fg (~ 30 copies) was determined for Clavibacter- and Cn-specific primers/probes, respectively. The detection limit for Cn-specific primer/probe set was decreased to 1 pg (~ 300 copies) when 1 µL of host sap was added into the RPA reaction containing tenfold serially diluted genomic DNA; though no effect was observed on Clavibacter-specific primer/probe set. The assay is accurate and has applications at point-of-need diagnostics. This is the first multiplex RPA assay for any plant pathogen.
Ex vivo immune profiling in patient blood enables quantification of innate immune effector functions
Authors: Lehnert Teresa , Leonhardt Ines , Timme Sandra , Thomas-Rüddel Daniel , Bloos Frank , Sponholz Christoph , Kurzai Oliver , Figge Marc Thilo , Hünniger Kerstin
Published: June 2021

The assessment of a patient’s immune function is critical in many clinical situations. In complex clinical immune dysfunction like sepsis, which results from a loss of immune homeostasis due to microbial infection, a plethora of pro- and anti-inflammatory stimuli may occur consecutively or simultaneously. Thus, any immunomodulatory therapy would require in-depth knowledge of an individual patient’s immune status at a given time. Whereas lab-based immune profiling often relies solely on quantification of cell numbers, we used an ex vivo whole-blood infection model in combination with biomathematical modeling to quantify functional parameters of innate immune cells in blood from patients undergoing cardiac surgery. These patients experience a well-characterized inflammatory insult, which results in mitigation of the pathogen-specific response patterns towardsStaphylococcus aureusandCandida albicansthat are characteristic of healthy people and our patients at baseline. This not only interferes with the elimination of these pathogens from blood, but also selectively augments the escape ofC. albicansfrom phagocytosis. In summary, our model could serve as a valuable functional immune assay for recording and evaluating innate responses to infection.
Barrier crossings and winds shape daily travel schedules and speeds of a flight generalist
Authors: Lopez-Ricaurte Lina , Vansteelant Wouter M. G. , Hernández-Pliego Jesús , García-Silveira Daniel , Bermejo-Bermejo Ana , Casado Susana , Cecere Jacopo G. , de la Puente Javier , Garcés-Toledano Fernando , Martínez-Dalmau Juan , Ortega Alfredo , Rodríguez-Moreno Beatriz , Rubolini Diego , Sarà Maurizio , Bustamante Javier
Published: June 2021

External factors such as geography and weather strongly affect bird migration influencing daily travel schedules and flight speeds. For strictly thermal-soaring migrants, weather explains most seasonal and regional differences in speed. Flight generalists, which alternate between soaring and flapping flight, are expected to be less dependent on weather, and daily travel schedules are likely to be strongly influenced by geography and internal factors such as sex. We GPS-tracked the migration of 70 lesser kestrels (Falco naumanni) to estimate the relative importance of external factors (wind, geography), internal factors (sex) and season, and the extent to which they explain variation in travel speed, distance, and duration. Our results show that geography and tailwind are important factors in explaining variation in daily travel schedules and speeds. We found that wind explained most of the seasonal differences in travel speed. In both seasons, lesser kestrels sprinted across ecological barriers and frequently migrated during the day and night. Conversely, they travelled at a slower pace and mainly during the day over non-barriers. Our results highlighted that external factors far outweighed internal factors and season in explaining variation in migratory behaviour of a flight generalist, despite its ability to switch between flight modes.
Development of cellulose nanocrystal-stabilized Pickering emulsions of massoia and nutmeg essential oils for the control of Aedes albopictus
Authors: Seo Seon-Mi , Lee Jae-Woo , Shin Jonghyun , Tak Jun-Hyung , Hyun Jinho , Park Il-Kwon
Published: June 2021

We investigated the larvicidal potential of 10 plant essential oils (EOs) against the Asian tiger mosquito Aedes albopictus. Among the EOs, larvicidal activity against Ae. albopictus was strongest in those derived from massoia (Massoia aromatica) and nutmeg (Myristica fragrans). Larvicidal activities of massoia and nutmeg EOs against Ae. albopictus were 95.0% and 85.0% at 50 μg/mL, respectively. A total of 4 and 14 compounds were identified from massoia and nutmeg, respectively, and two massoia lactones, C10 and C12, were isolated from massoia EO. Among the identified compounds, benzyl salicylate, terpinolene, C12 massoia lactone, sabinene, benzyl benzoate, methyl eugenol, and C10 massoia lactone exhibited the strong larvicidal activity. Cellulose nanocrystal (CNC)-stabilized Pickering emulsions of massoia and nutmeg EOs were developed to overcome the insolubility of EOs in water. CNC/massoia and CNC/nutmeg emulsions were stable for at least 10 days, and larvicidal activities of CNC/massoia PE and CNC/nutmeg were higher than those of crude massoia and nutmeg EOs. This study presents a CNC-stabilized PE, a suitable formulation for EOs, as a potential larvicide against Ae. albopictus.
Extracellular mutation induces an allosteric effect across the membrane and hampers the activity of MRP1 (ABCC1)
Authors: Bin Kanner Yuval , Ganoth Assaf , Tsfadia Yossi
Published: June 2021

Dynamic conformational changes play a major role in the function of proteins, including the ATP-Binding Cassette (ABC) transporters. Multidrug Resistance Protein 1 (MRP1) is an ABC exporter that protects cells from toxic molecules. Overexpression of MRP1 has been shown to confer Multidrug Resistance (MDR), a phenomenon in which cancer cells are capable to defend themselves against a broad variety of drugs. In this study, we used varied computational techniques to explore the unique F583A mutation that is known to essentially lock the transporter in a low-affinity solute binding state. We demonstrate how macro-scale conformational changes affect MRP1’s stability and dynamics, and how these changes correspond to micro-scale structural perturbations in helices 10–11 and the nucleotide-binding domains (NBDs) of the protein in regions known to be crucial for its ATPase activity. We demonstrate how a single substitution of an outward-facing aromatic amino acid causes a long-range allosteric effect that propagates across the membrane, ranging from the extracellular ECL5 loop to the cytoplasmic NBD2 over a distance of nearly 75 Å, leaving the protein in a non-functional state, and provide the putative allosteric pathway. The identified allosteric structural pathway is not only in agreement with experimental data but enhances our mechanical understanding of MRP1, thereby facilitating the rational design of chemosensitizers toward the success of chemotherapy treatments.
The key role of contact time in elucidating the mechanisms of enhanced decontamination by Fe0/MnO2/sand systems
Authors: Cao Viet , Alyoussef Ghinwa , Gatcha-Bandjun Nadège , Gwenzi Willis , Noubactep Chicgoua
Published: June 2021

Metallic iron (Fe0) has shown outstanding performances for water decontamination and its efficiency has been improved by the presence of sand (Fe0/sand) and manganese oxide (Fe0/MnOx). In this study, a ternary Fe0/MnOx/sand system is characterized for its discoloration efficiency of methylene blue (MB) in quiescent batch studies for 7, 18, 25 and 47 days. The objective was to understand the fundamental mechanisms of water treatment in Fe0/H2O systems using MB as an operational tracer of reactivity. The premise was that, in the short term, both MnO2 and sand delay MB discoloration by avoiding the availability of free iron corrosion products (FeCPs). Results clearly demonstrate no monotonous increase in MB discoloration with increasing contact time. As a rule, the extent of MB discoloration is influenced by the diffusive transport of MB from the solution to the aggregates at the bottom of the vessels (test-tubes). The presence of MnOx and sand enabled the long-term generation of iron hydroxides for MB discoloration by adsorption and co-precipitation. Results clearly reveal the complexity of the Fe0/MnOx/sand system, while establishing that both MnOx and sand improve the efficiency of Fe0/H2O systems in the long-term. This study establishes the mechanisms of the promotion of water decontamination by amending Fe0-based systems with reactive MnOx.
One-step synthesis of nitrogen-grafted copper-gallic acid for enhanced methylene blue removal
Authors: Santoso Shella Permatasari , Bundjaja Vania , Angkawijaya Artik Elisa , Gunarto Chintya , Go Alchris Woo , Yuliana Maria , Tran-Nguyen Phuong Lan , Hsieh Chang-Wei , Ju Yi-Hsu
Published: June 2021

Nitrogen-grafting through the addition of glycine (Gly) was performed on a metal- phenolic network (MPN) of copper (Cu2+) and gallic acid (GA) to increase its adsorption capacity. Herein, we reported a one-step synthesis method of MPN, which was developed according to the metal–ligand complexation principle. The nitrogen grafted CuGA (Ng-CuGA) MPN was obtained by reacting Cu2+, GA, and Gly in an aqueous solution at a molar ratio of 1:1:1 and a pH of 8. Several physicochemical measurements, such as Fourier transform infrared (FTIR) spectroscopy, scanning electron microscopy (SEM), N2sorption, X-ray diffraction (XRD), and thermal gravimetry analysis (TGA), were done on Ng-CuGA to elucidate its characteristics. The analysis revealed that the Ng-CuGA has non-uniform spherical shaped morphology with a pore volume of 0.56 cc/g, a pore size of 23.25 nm, and thermal stability up to 205 °C. The applicational potential of the Ng-CuGA was determined based on its adsorption capacity against methylene blue (MB). The Ng-CuGA was able to adsorb 190.81 mg MB per g adsorbent at a pH of 6 and temperature of 30 °C, which is 1.53 times higher than the non-grafted CuGA. Detailed assessment of Ng-CuGA adsorption properties revealed their pH- and temperature-dependent nature. The adsorption capacity and affinity were found to decrease at a higher temperature, demonstrating the exothermic adsorption behavior.
3D assessment of a coral reef at Lalo Atoll reveals varying responses of habitat metrics following a catastrophic hurricane
Authors: Pascoe Kailey H. , Fukunaga Atsuko , Kosaki Randall K. , Burns John H. R.
Published: June 2021

Extreme disturbances such as hurricanes can cause reductions in coral cover and three-dimensional (3D) structural complexity of coral reefs. We examined changes in structural complexity utilizing 3D reconstruction of a coral-reef site before and after Hurricane Walaka passed through Lalo of the Northwestern Hawaiian Islands. This event resulted in complete destruction of the coral-reef habitat, with dramatic changes in benthic cover from pre-hurricane tabulate coral to post-hurricane rubble. Rugosity and mean slope decreased after the hurricane, while structural complexity, captured by vector ruggedness measure (VRM), showed resolution-specific responses. This metric captured the structural complexity of rubble at a high raster resolution of 1 cm and that of tabulate coral at lower resolutions, resulting in decreases in mean VRM values at 2- and 4-cm resolutions but an increase at 1-cm resolution. Variability in profile and planform curvature was reduced after the hurricane due to a disappearance of extreme curvature values created by the tabulate coral after the hurricane. This study highlights the varying responses of habitat complexity metrics to the complete destruction of a coral reef and provides us with insights into how choices of habitat complexity metrics can affect quantitative assessments of 3D habitat structure.
Diagnosis of extracranial carotid stenosis by MRA of the brain
Authors: Wu Chia-Hung , Chen Shu-Ting , Chen Jung-Hsuan , Chung Chih-Ping , Luo Chao-Bao , Yuan Wei-Hsin , Chang Feng-Chi , Hu Han-Hwa
Published: June 2021

Severe extracranial carotid stenosis (SECS) patients may present with nonspecific neurological symptoms that require intracranial magnetic resonance imaging (MRI) and time-of-flight (TOF)-MR angiography (MRA) to exclude intracranial pathology. Recognition of SECS on intracranial TOF-MRA findings is beneficial to provide a prompt carotid imaging study and aggressive stroke prevention. Patients with SECS (January 2016 to May 2019) undergoing percutaneous transluminal angioplasty and stenting (PTAS) were included. Differences in normalized signal intensities (SRICA) and diameters (DICA) between bilateral petrous internal carotid arteries (ICAs) were calculated 1 cm from the orifice. A hypothesized criterion describing the opacification grades (GOPH) of bilateral ophthalmic arteries was proposed. We correlated SRICA (p = 0.041), DICA (p = 0.001) and GOPH (p = 0.012), with the severity of extracranial carotid stenosis on digital subtractive angiography (DSA) in the examined group (n = 113), and all showed statistical significance in predicting percentages of ICA stenosis. The results were further validated in another patient group with SECS after radiation therapy (n = 20; p = 0.704 between the actual and predicted stenosis grades). Our findings support the evaluation of the signal ratio and diameter of intracranial ICA on TOF-MRA to achieve early diagnosis and provide appropriate management of SECS.
A model and predictions for COVID-19 considering population behavior and vaccination
Authors: Usherwood Thomas , LaJoie Zachary , Srivastava Vikas
Published: June 2021

The effect of vaccination coupled with the behavioral response of the population is not well understood. Our model incorporates two important dynamically varying population behaviors: level of caution and sense of safety. Level of caution increases with infectious cases, while an increasing sense of safety with increased vaccination lowers precautions. Our model accurately reproduces the complete time history of COVID-19 infections for various regions of the United States. We propose a parameter $$d_I$$

d
I

as a direct measure of a population’s caution against an infectious disease that can be obtained from the infectious cases. The model provides quantitative measures of highest disease transmission rate, effective transmission rate, and cautionary behavior. We predict future COVID-19 trends in the United States accounting for vaccine rollout and behavior. Although a high rate of vaccination is critical to quickly ending the pandemic, a return towards pre-pandemic social behavior due to increased sense of safety during vaccine deployment can cause an alarming surge in infections. Our results predict that at the current rate of vaccination, the new infection cases for COVID-19 in the United States will approach zero by August 2021. This model can be used for other regions and for future epidemics and pandemics.
Degree of foot process effacement in patients with genetic focal segmental glomerulosclerosis: a single-center analysis and review of the literature
Authors: Ishizuka Kiyonobu , Miura Kenichiro , Hashimoto Taeko , Kaneko Naoto , Harita Yutaka , Yabuuchi Tomoo , Hisano Masataka , Fujinaga Shuichiro , Omori Tae , Yamaguchi Yutaka , Hattori Motoshi
Published: June 2021

Determining the cause of focal segmental glomerulosclerosis (FSGS) has crucial implications for evaluating the risk of posttransplant recurrence. The degree of foot process effacement (FPE) on electron micrographs (EM) of native kidney biopsies can reportedly differentiate primary FSGS from secondary FSGS. However, no systematic evaluation of FPE in genetic FSGS has been performed. In this study, percentage of FPE and foot process width (FPW) in native kidney biopsies were analyzed in eight genetic FSGS patients and nine primary FSGS patients. All genetic FSGS patients showed segmental FPE up to 38% and FPW below 2000 nm, while all primary FSGS patients showed diffuse FPE above 88% and FPW above 3000 nm. We reviewed the literature which described the degree of FPE in genetic FSGS patients and identified 38 patients with a description of the degree of FPE. The degree of FPE in patients with mutations in the genes encoding proteins associated with slit diaphragm and cytoskeletal proteins was varied, while almost all patients with mutations in other FSGS genes showed segmental FPE. In conclusion, the present study suggests that the degree of FPE in native kidney biopsies may be useful for differentiating some genetic FSGS patients from primary FSGS patients.
Variability in waxy (Wx) allele, in-vitro starch digestibility, glycemic response and textural behaviour of popular Northern Himalayan rice varieties
Authors: Naseer Bazila , Naik H. R. , Hussain Syed Zameer , Shikari Asif Bashir , Noor Nowsheen
Published: June 2021

Eight commonly cultivated and consumed rice varieties of Northern Himalayan regions and a popular high amylose rice variety were characterized at Wx locus and evaluated for resistant starch (RS), in-vitro starch digestibility, predicted glycemic index (pGI), glycemic load (GL) and textural parameters. Cytosine and thymine repeats (CT)n at waxy locus (Wx) showed high association with apparent amylose content (AAC). Both pGI and GL varied substantially within the selected varieties. The pGI was relatively lower in high and intermediate amylose Indica varieties compared to low amylose Japonica ones. However, Koshikari despite being a low amylose variety showed relatively lower pGI and GL, due to its higher RS, dietary fiber, protein and fat content. It was thus presumed that in addition to AAC, RS and other grain components also affect the glycemic response. Inherent resistance to enzymatic hydrolysis was also found to be higher in firm textured and less sticky rice varieties. The genotypes—Lalat, Basmati-1509 and Koshikari, in view of their low to moderate pGI and relatively higher RS content, can be explored in future breeding programmes to develop rice varieties whose consumption will help to prevent hyper/hypo glycemic responses in Northern Himalayan regions, where daily staple diet is rice.