bluuebunny/crossref_metadata_2025_split huggingface dataset:
Mechanical–chemical coupling phase-field modeling for inhomogeneous oxidation of zirconium induced by stress–oxidation interaction
Authors: Lin Chen , Ruan Haihui , Shi San-Qiang 
Published: August 2020

AbstractA phase-field model is proposed to study the inhomogeneous growth of zirconia induced by the stress–oxidation interaction, which captures the complex interplay among diffusion, oxidation kinetics, interfacial morphology evolution, and stress variation in an oxidation process. Through this numerical model, many experimentally observed but insufficiently understood phenomena can be well explained. Specifically, the numerical simulations reveal quantitatively the causes of interface roughening or smoothening during the inward oxide growth, the roughness-dependent oxide growth rate, and the nucleation sites of premature cracking. These numerical findings can be used as the theoretical references for the improving the durability of oxide scale and prolonging the service life of zirconium-based alloy cladding used in the nuclear power plant.
Hidden and mirage collective modes in two dimensional Fermi liquids
Authors: Klein Avraham , Maslov Dmitrii L. , Chubukov Andrey V. 
Published: August 2020

AbstractThe longstanding view of the zero sound mode in a Fermi liquid is that for repulsive interaction it resides outside the particle-hole continuum and gives rise to a sharp peak in the corresponding susceptibility, while for attractive interaction it is a resonance inside the particle-hole continuum. We argue that in a two-dimensional Fermi liquid there exist two additional types of zero sound: “hidden” and “mirage” modes. A hidden mode resides outside the particle-hole continuum already for attractive interaction. It does not appear as a sharp peak in the susceptibility, but determines the long-time transient response of a Fermi liquid and can be identified in pump-probe experiments. A mirage mode emerges for strong enough repulsion. Unlike the conventional zero sound, it does not correspond to a true pole, yet it gives rise to a peak in the particle-hole susceptibility. It can be detected by measuring the width of the peak, which for a mirage mode is larger than the single-particle scattering rate.
Potential roles of nitrate and nitrite in nitric oxide metabolism in the eye
Authors: Park Ji Won , Piknova Barbora , Jenkins Audrey , Hellinga David , Parver Leonard M. , Schechter Alan N. 
Published: August 2020

AbstractNitric oxide (NO) signaling has been studied in the eye, including in the pathophysiology of some eye diseases. While NO production by nitric oxide synthase (NOS) enzymes in the eye has been characterized, the more recently described pathways of NO generation by nitrate (NO3−) and nitrite (NO2−) ions reduction has received much less attention. To elucidate the potential roles of these pathways, we analyzed nitrate and nitrite levels in components of the eye and lacrimal glands, primarily in porcine samples. Nitrate and nitrite levels were higher in cornea than in other eye parts, while lens contained the least amounts. Lacrimal glands exhibited much higher levels of both ions compared to other organs, such as liver and skeletal muscle, and even to salivary glands which are known to concentrate these ions. Western blotting showed expression of sialin, a known nitrate transporter, in the lacrimal glands and other eye components, and also xanthine oxidoreductase, a nitrate and nitrite reductase, in cornea and sclera. Cornea and sclera homogenates possessed a measurable amount of nitrate reduction activity. These results suggest that nitrate ions are concentrated in the lacrimal glands by sialin and can be secreted into eye components via tears and then reduced to nitrite and NO, thereby being an important source of NO in the eye.
Functional MRI study of language organization in left-handed and right-handed trilingual subjects
Authors: Yazbek Sandrine , Smayra Tarek , Mallak Iyad , Hage Stephanie , Sleilaty Ghassan , Atat Chirine , Abdel Hay Joe , Moussa Ronald 
Published: August 2020

AbstractFunctional MRI (fMRI) is gaining importance in the preoperative assessment of language. Selecting the appropriate language to test by fMRI in trilingual patients is intricate. Our objective is to compare fMRI maps for all three languages in left- and right-handed trilingual subjects. 15 right- and 15 left-handed trilingual volunteers were included in the study. We performed fMRI for each volunteer with a visual responsive naming paradigm that was repeated three times, once in each language. The activated areas and the laterality indices were calculated and correlation with the age of acquisition and proficiency of each language was determined. Strong statistical correlation was found between the Laterality Index (LI) of the three languages, in both the right and left-handed groups. Discordant lateralization of language was only observed in four left-handed subjects who demonstrated bilateral and left-lateralization. In right-handed subjects, the activation maps for the first and the second acquired language were similar. The largest activation was seen with the last acquired language. Irrespective of language proficiency and age of acquisition, the language lateralization might change for left-handed subjects. In right-handed subjects, there is no change and the last acquired language results in the largest activation. fMRI performed for a single language can accurately determine language lateralization in right-handed subjects, whereas in left-handed subjects, it is mandatory to test all languages.
Tailored duration of adjuvant trastuzumab for human epidermal growth factor receptor 2-positive breast cancer
Authors: Yu Ke-Da , Wang Xin , Chen Wan-Kun , Fan Lei , Mo Miao , Chen Han 
Published: August 2020

AbstractWe assumed that the effect of adjuvant trastuzumab on survival is mediated by the treatment time and we conducted this trial-level meta-regression to determine the appropriate length of treatment. Twelve adjuvant trastuzumab trials (from January 2000 to June 2019, consisting of 20,271 patients) were included. We considered 12-month trastuzumab treatment as the standard. The primary study endpoint was disease-free survival (DFS). By quantifying the relationship between shortened treatment time (month) and altered recurrence risk (expressed as hazard ratio), we found the regression coefficient β was 0.05 (95% confidence interval: 0.02–0.08, P = 0.002), indicating the recurrence risk would increase 5.1% for each month that treatment was shortened. Accordingly, 3, 6, and 9-month reductions in treatment time resulted in 16%, 35%, and 57% increases in recurrence risk, respectively. We revealed a significant linear association between shortened treatment time of trastuzumab and recurrence risk. The clinical duration of adjuvant trastuzumab should be tailored.
Genetically detoxified pertussis toxin displays near identical structure to its wild-type and exhibits robust immunogenicity
Authors: Ausar Salvador F. , Zhu Shaolong , Duprez Jessica , Cohen Michael , Bertrand Thomas , Steier Valérie , Wilson Derek J. , Li Stephen , Sheung Anthony , Brookes Roger H. , Pedyczak Artur , Rak Alexey , Andrew James D. 
Published: August 2020

AbstractThe mutant gdPT R9K/E129G is a genetically detoxified variant of the pertussis toxin (PTx) and represents an attractive candidate for the development of improved pertussis vaccines. The impact of the mutations on the overall protein structure and its immunogenicity has remained elusive. Here we present the crystal structure of gdPT and show that it is nearly identical to that of PTx. Hydrogen-deuterium exchange mass spectrometry revealed dynamic changes in the catalytic domain that directly impacted NAD+ binding which was confirmed by biolayer interferometry. Distal changes in dynamics were also detected in S2-S5 subunit interactions resulting in tighter packing of B-oligomer corresponding to increased thermal stability. Finally, antigen stimulation of human whole blood, analyzed by a previously unreported mass cytometry assay, indicated broader immunogenicity of gdPT compared to pertussis toxoid. These findings establish a direct link between the conserved structure of gdPT and its ability to generate a robust immune response.
A copper site is required for iron transport by the periplasmic proteins P19 and FetP
Authors: Chan Anson C K , Lin Helen , Koch Doreen , Grass Gregor , Nies Dietrich H , Murphy Michael E P 
Published: August 2020

Abstract
Campylobacter jejuni is a leading cause of food-borne gastrointestinal disease in humans and uropathogenic Escherichia coli is a leading cause of urinary tract infections. Both human pathogens harbour a homologous iron uptake system (termed cjFetM-P19 in C. jejuni and ecFetM-FetP in E. coli). Although these systems are important for growth under iron limitation, the mechanisms by which these systems function during iron transport remain undefined. The copper ions bound to P19 and FetP, the homologous periplasmic proteins, are coordinated in an uncommon penta-dentate manner involving a Met-Glu-His3 motif and exhibit positional plasticity. Here we demonstrate the function of the Met and Glu residues in modulating copper binding and controlling copper positioning through site-directed variants, binding assays, and crystal structures. Growth of C. jejuni strains with these p19 variants is impaired under iron limited conditions as compared to the wild-type strain. Additionally, an acidic residue-rich secondary site is required for binding iron and function in vivo. Finally, western blot analyses demonstrate direct and specific interactions between periplasmic P19 and FetP with the large periplasmic domain of their respective inner membrane transporters cjFetM and ecFetM.
Construction and analysis of artificial chromosomes with de novo holocentromeres in Caenorhabditis elegans
Authors: Lin Zhongyang , Yuen Karen Wing Yee 
Published: August 2020

Abstract
Artificial chromosomes (ACs), generated in yeast (YACs) and human cells (HACs), have facilitated our understanding of the trans-acting proteins, cis-acting elements, such as the centromere, and epigenetic environments that are necessary to maintain chromosome stability. The centromere is the unique chromosomal region that assembles the kinetochore and connects to microtubules to orchestrate chromosome movement during cell division. While monocentromeres are the most commonly characterized centromere organization found in studied organisms, diffused holocentromeres along the chromosome length are observed in some plants, insects and nematodes. Based on the well-established DNA microinjection method in holocentric Caenorhabditis elegans, concatemerization of foreign DNA can efficiently generate megabase-sized extrachromosomal arrays (Exs), or worm ACs (WACs), for analyzing the mechanisms of WAC formation, de novo centromere formation, and segregation through mitosis and meiosis. This review summarizes the structural, size and stability characteristics of WACs. Incorporating LacO repeats in WACs and expressing LacI::GFP allows real-time tracking of newly formed WACs in vivo, whereas expressing LacI::GFP-chromatin modifier fusions can specifically adjust the chromatin environment of WACs. The WACs mature from passive transmission to autonomous segregation by establishing a holocentromere efficiently in a few cell cycles. Importantly, WAC formation does not require any C. elegans genomic DNA sequence. Thus, DNA substrates injected can be changed to evaluate the effects of DNA sequence and structure in WAC segregation. By injecting a complex mixture of DNA, a less repetitive WAC can be generated and propagated in successive generations for DNA sequencing and analysis of the established holocentromere on the WAC.
The whole is greater than the sum of its parts: at the intersection of order, disorder, and kinetochore function
Authors: Audett Margaux R. , Maresca Thomas J. 
Published: August 2020

Abstract
The kinetochore (KT) field has matured tremendously since Earnshaw first identified CENP-A, CENP-B, and CENP-C [1,2]. In the past 35 years, the accumulation of knowledge has included: defining the parts list, identifying epistatic networks of interdependence within the parts list, understanding the spatial organization of subcomplexes into a massive structure – hundreds of megadaltons in size, and dissecting the functions of the KT in its entirety as well as of its individual parts. Like nearly all cell and molecular biology fields, the structure–function paradigm has been foundational to advances in the KT field. A point nicely highlighted by the fact that we are at the precipice of the in vitro reconstitution of a functional KT holo complex. Yet conventional notions of structure cannot provide a complete picture of the KT especially since it contains an abundance of unstructured or intrinsically disordered constituents. The combination of structured and disordered proteins within the KT results in an assembled system that is functionally greater than the sum of its parts.
Mechanism and significance of chromosome damage repair by homologous recombination
Authors: Kawale Ajinkya S. , Sung Patrick 
Published: August 2020

Abstract
Homologous recombination (HR) is a major, conserved pathway of chromosome damage repair. It not only fulfills key functions in the removal of deleterious lesions such as DNA double-strand breaks (DSBs) and interstrand cross-links (ICLs), but also in replication fork repair and protection. Several familial and acquired cancer predisposition syndromes stem from defects in HR. In particular, individuals with mutations in HR genes exhibit predisposition to breast, ovarian, pancreatic, and prostate cancers, and they also show signs of accelerated aging. However, aberrant and untimely HR events can lead to the loss of heterozygosity, genomic rearrangements, and cytotoxic nucleoprotein intermediates. Thus, it is critically important that HR be tightly regulated. In addition to DNA repair, HR is also involved in meiotic chromosome segregation and telomere maintenance in cells that lack telomerase. In this review, we focus on the role of HR in DSB repair (DSBR) and summarize the current state of the field.
Natural Language Input: Maternal Education, Socioeconomic Deprivation, and Language Outcomes in Typically Developing Children
Authors: Sultana Nuzhat , Wong Lena L. N. , Purdy Suzanne C. 
Published: August 2020

PurposeThe current study was designed to investigate the differences in language input related to family factors (maternal level of education [MLE] and socioeconomic level of deprivation [SLD]) and their association with language outcomes in preschoolers.MethodThis study used New Zealand SLD and MLE classification systems to examine differences in language input related to these factors among 20 typically developing preschool children aged 2–5 years. The quantity of children's language input (adult words [AWs], conversational turns [CTs]) was calculated using the Language ENvironment Analysis audiotaping technology for two typical weekend days. Four 5-min Language ENvironment Analysis recording segments were transcribed and coded, and parental language strategies were classified as optimal language strategy, moderate language strategy, or sub-optimal language strategy (S-OLS) for child language outcomes. The receptive and expressive language of each child was assessed using the Preschool Language Scales–Fifth Edition.ResultsMann–WhitneyUtests showed significant differences between the quantity of language input (AWs/hr, CTs/hr) for high and low MLE and high and low SLD groups. Consistent with the literature, the use of S-OLSs was significantly lower for families with high MLE (Mdn= .25, IQR = .14) and low SLD (Mdn= .22, IQR = .13) than for families with low MLE (Mdn= .41, IQR = .24) and high SLD (Mdn= .41, IQR = .26). Spearman correlation coefficients indicated significant associations between language input (AWs/hr, CTs/hr, S-OLSs) and language outcomes.ConclusionsReduced language input and the frequent use of S-OLSs associated with low maternal education and high deprivation and low language outcomes for these children highlight the importance for all parents/families to learn optimal language strategies to support the development of strong language skills in their children in young age.
How We Fail Children With Developmental Language Disorder
Authors: McGregor Karla K. 
Published: August 2020

Purpose
For over two decades, we have known that children with developmental language disorder (DLD) are underserved. We have also known that DLD does not attract the research attention that it merits given its prevalence and impact. The purposes of this clinical focus article are to present evidence that these failures continue, explore the reasons behind these failures, and propose solutions.

Method
I reviewed the literature and applied bibliometric analysis procedures from Bishop (2010) to quantify research efforts aimed at DLD compared to other neurodevelopmental disorders.

Results
The percentage of children who are deemed eligible for clinical services because of DLD continues to fall well short of estimates based on the prevalence of DLD in community samples. The amount of research conducted on DLD relative to other neurodevelopmental disorders remains low. Contributing factors include a lack of awareness of DLD, the hidden nature of DLD, entrenched policies, and the dissonance created when speech-language pathologists must diagnose DLD in school settings.

Conclusions
Expanded approaches to supporting children with DLD are required. These might include engagement in advocacy and awareness campaigns; clearer communication with the families we serve and enhanced collaborations with classroom teachers; the implementation of school-based language screenings; participation in policymaking; and the development of service delivery models that operate alongside those that exist in our schools and complement their function.

Supplemental Material

https://doi.org/10.23641/asha.12743273
Ejection of close-in super-Earths around low-mass stars in the giant impact stage
Authors: Matsumoto Yuji , Gu Pin-Gao , Kokubo Eiichiro , Oshino Shoichi , Omiya Masashi 
Published: August 2020

Context.Earth-sized planets were observed in close-in orbits around M dwarfs. While more and more planets are expected to be uncovered around M dwarfs, theories of their formation and dynamical evolution are still in their infancy.Aims.We investigate the giant impact stage for the growth of protoplanets, which includes strong scattering around low-mass stars. The aim is to clarify whether strong scattering around low-mass stars affects the orbital and mass distributions of the planets.Methods.We performed anN-body simulation of protoplanets by systematically surveying the parameter space of the stellar mass and surface density of protoplanets.Results.We find that protoplanets are often ejected after twice or three times the close-scattering around late M dwarfs. The ejection sets the upper limit of the largest planet mass. By adopting the surface density that linearly scales with the stellar mass, we find that as the stellar mass decreases, less massive planets are formed in orbits with higher eccentricities and inclinations. Under this scaling, we also find that a few close-in protoplanets are generally ejected.Conclusions.The ejection of protoplanets plays an important role in the mass distribution of super-Earths around late M dwarfs. The mass relation of observed close-in super-Earths and their central star mass is reproduced well by ejection.
Formation of low-spinning 100 M⊙ black holes
Authors: Belczynski K. , Banerjee S. 
Published: August 2020

Aims. It is speculated that a merger of two massive stellar-origin black holes in a dense stellar environment may lead to the formation of a massive black hole in the pair-instability mass gap (∼50−135 M⊙). Such a merger-formed black hole is expected to typically have a high spin (a ∼ 0.7). If such a massive black hole acquires another black hole it may lead to another merger detectable by LIGO/Virgo in gravitational waves. Acquiring a companion may be hindered by gravitational-wave kick/recoil, which accompanies the first merger and may quickly remove the massive black hole from its parent globular or nuclear cluster. We test whether it is possible for a massive merger-formed black hole in the pair-instability gap to be retained in its parent cluster and have low spin. Such a black hole would be indistinguishable from a primordial black hole.
Methods. We employed results from numerical relativity calculations of black hole mergers to explore the range of gravitational-wave recoil velocities for various combinations of merging black hole masses and spins. We compared merger-formed massive black hole speeds with typical escape velocities from globular and nuclear clusters.
Results. We show that a globular cluster is highly unlikely to form and retain a ∼100 M⊙ black hole if the spin of the black hole is low (a ≲ 0.3). Massive merger-formed black holes with low spins acquire high recoil speeds (≳ 200 km s−1) from gravitational-wave kick during formation that exceed typical escape speeds from globular clusters (∼ 50 km s−1). However, a very low-spinning (a ∼ 0.1) and massive (∼100 M⊙) black hole could be formed and retained in a galactic nuclear star cluster. Even though such massive merger-formed black holes with such low spins acquire high speeds during formation (∼ 400 km s−1), they may avoid ejection since massive nuclear clusters have high escape velocities (∼ 300−500 km s−1). A future detection of a massive black hole in the pair-instability mass gap with low spin would therefore not be proof of the existence of primordial black holes, which are sometimes claimed to have low spins and arbitrarily high masses.