bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evolutionary loss of threat display in more social species: phylogenetic comparisons, natural interactions in the wild, and experiments with models
Authors: Doherty Clare T.M. , Laidre Mark E. 
Published: October 2020

Abstract
Fitness can be increased dramatically by communication. So why, given the benefits of communication, would displays ever be completely lost evolutionarily? Threat displays, in particular, are relatively cheap to produce and are precursors of attack, so should be especially hard for both senders and receivers to lose completely. Here we explore an evolutionary transition in sociality, testing whether complete evolutionary loss of threat display has occurred in ‘more social’ hermit crab species, which interact more frequently with conspecifics. First, we synthesised literature and observations on the presence versus absence of threat display across hermit crab species, mapping this information onto a phylogenetic tree. We found that all ‘less social’ species — marine and terrestrial — produce threat displays, consistent with threat display being the ancestral state. But ‘more social’ terrestrial species, which are highly derived, do not produce a threat display, suggesting an evolutionary loss. Next, we contrasted natural interactions in the wild within a less social species (Pagurus bernhardus) versus within a more social species (Coenobita compressus), finding that the less social species, despite a lower rate of social encounter, had a higher rate of display per encounter (24%). In contrast, the more social species’ rate of display per encounter was negligible (<1%), effectively indicating a loss in production. Finally, we experimentally reanimated threat display in the more social species, using postured models to test whether receivers retained any responsiveness to threat display. Starkly, receivers were not deterred by threat display, showing equal responsiveness across both threat and non-threat models, regardless of whether the models were stationary or dynamically moving. Our results thus reveal a case of complete collapse of communication involving threat display, implicating the social environment in this loss. In more social species, an extreme dependence on conspecific-derived shells likely drove a ‘desperado effect’, with threat displays being lost because they could not stop others from pursuing these valuable resources.
Colour vision in sengis (Macroscelidea, Afrotheria, Mammalia): choice experiments indicate dichromatism
Authors: Thüs Patricia , Lunau Klaus , Wester Petra 
Published: October 2020

Abstract
Little research has been conducted on the senses of sengis (elephant-shrews, Macroscelidea, Afrotheria, Mammalia); behavioural investigations about the animals’ vision are completely missing. Other Afrotheria (manatees, elephants, tenrecs, rock hyraxes) are dichromats, having two types of cone photoreceptors in the retina. We tested the hypotheses of dichromatic colour vision in sengis. With choice experiments, we examined the potential of two sengi species to discriminate between trained colours (blue, green, red) and different shades of grey, and to differentiate between trained UV-reflecting (high UV reflectance) and UV-absorbing (low UV reflectance) plates. Both sengi species recognised blue and green and could distinguish them from all shades of grey. The ability to perceive red and ultraviolet could not be proven. Thus, the sengis are most likely dichromats based on green and blue sensitive receptor types. We discuss protective mechanisms in the lens as a UV filter explaining maximum sensitivity in the UV suggested for another sengi species after in vitro expression assays.
Host plant acceptance in a generalist insect: threshold, feedback or choice?
Authors: Jones Lachlan C. , Rafter Michelle A. , Walter Gimme H. 
Published: October 2020

Abstract
Generalist insect herbivores feed mainly on one or more primary host species, but unlike specialists they also accept numerous secondary hosts. This raises the question of how generalists retain a broad host range yet allocate most of their eggs to primary hosts. We considered three possible explanations. (1) Threshold: secondary hosts are accepted less readily than primary hosts. (2) Feedback loop: insects ovipositing on primary hosts lay subsequent eggs faster than on secondary hosts. (3) Choice: insects compare plant cues sensed over a certain period and oviposit on preferred plants. We measured time and number of landings leading to egg-laying in a generalist moth, Helicoverpa punctigera, on a primary host and two secondary hosts and recorded subsequent egg-laying rates on each. The moths typically accepted only the primary host on the first landing and laid subsequent eggs on this host earlier in the night, indicating thresholds and feedback operate together.
Revision of Severianoia (Schwenk, 1926) Travassos, 1929 (Nematoda: Oxyuridomorpha) with proposal of S. pachyiuli n. sp. from millipedes of the Western Caucasus
Authors: Malysheva Svetlana V. , Shmatko Vladimir Yu. , Spiridonov Sergei E. 
Published: October 2020

Summary
Severianoia pachyiuli n. sp. is described from the hind gut of Pachyiulus krivolutskyi (Diplopoda: Julidae) from the Republic of Adygea, Russian Federation. Females of the new species can be distinguished from those of S. magna by a smaller body and egg size; S. glomericola by smaller eggs and S. dubia by the organisation of the genital tract. Females of S. pachyiuli n. sp. are morphologically close to females of S. severianoi, but in described species males have significantly smaller body and spicule size. Severianoia pachyiuli n. sp. mostly resembles S. glomeridis by the general morphology in both sexes but differs in the position of the vulva, which is in a more posterior position to mid-body level in the described species. The description is supplemented with SEM and/or light microscope images of adults, juveniles and mature eggs. The phylogeny of the species is inferred from 18S and 28S rDNA. The taxonomic position of other representatives of Severianoia is discussed and Cephalobellus tipulae linstowi is regarded as a junior synonym of S. glomeridis.
Effects of Horizontal Grid Spacing and Inflow Environment on Forecasts of Cyclic Mesocyclogenesis in NSSL’s Warn-on-Forecast System (WoFS)
Authors: Britt Kelsey C. , Skinner Patrick S. , Heinselman Pamela L. , Knopfmeier Kent H. 
Published: October 2020

AbstractCyclic mesocyclogenesis is the process by which a supercell produces multiple mesocyclones with similar life cycles. The frequency of cyclic mesocyclogenesis has been linked to tornado potential, with higher frequencies decreasing the potential for tornadogenesis. Thus, the ability to predict the presence and frequency of cycling in supercells may be beneficial to forecasters for assessing tornado potential. However, idealized simulations of cyclic mesocyclogenesis have found it to be highly sensitive to environmental and computational parameters. Thus, whether convective-allowing models can resolve and predict cycling has yet to be determined. This study tests the capability of a storm-scale, ensemble prediction system to resolve the cycling process and predict its frequency. Forecasts for three cyclic supercells occurring in May 2017 are generated by NSSL’s Warn-on-Forecast System (WoFS) using 3- and 1-km grid spacing. Rare cases of cyclic-like processes were identified at 3 km, but cycling occurred more frequently at 1 km. WoFS predicted variation in cycling frequencies for the storms that were similar to observed variations in frequency. Object-based identification of mesocyclones was used to extract environmental parameters from a storm-relative inflow sector from each mesocyclone. Lower magnitudes of 0–1-km storm-relative helicity and significant tornado parameter are present for the two more frequently cycling supercells, and higher values are present for the case with the fewest cycles. These results provide initial evidence that high-resolution ensemble forecasts can potentially provide useful guidance on the likelihood and cycling frequency of cyclic supercells.
Improving model-based compensation method for real-time hybrid simulation considering error of identified model
Authors: Zhou Zihao , Li Ning 
Published: October 2020

Time delay is a critical and unavoidable problem in real-time hybrid simulation. An accurate and effective compensation method for time delay is necessary for the safety of real-time hybrid simulation and the reliability of test results. Generally, a model-based compensation method can be adopted, which is derived from the identified transfer function by assuming the latter can accurately represent the real plant. However, there must be some differences between the transfer function and the real plant. To facilitate the development of real-time hybrid simulation, we proposed a two-stage feedforward compensation method considering the error between the transfer function identified and the real plant. The compensation strategy proposed in this study was not only based on the transfer function but also introduced an error model as a second-stage compensation into a compensator to realize the synchronization of command and measurement. To verify the efficiency of the proposed method, comparisons in time domain and frequency domain with the feedforward compensator in a model-based feedforward–feedback control method were carried out. Compared with the feedforward compensator, the two-stage method achieved better tracking performance, especially in the high-frequency bandwidth. The test results verified that for a band-limited white noise of 0–30 Hz, the phase lag of the actuation system can be limited to ±5°. Finally, the two-stage method was applied to a real-time hybrid simulation of a two-story frame to illustrate its compensation effect on time delay.
A Simple and Novel Approach in Treating Congenital Symmastia (Using Tisseel in a 2-Step Approach)
Authors: Adjei Bismark , Yao Susie Z. , Mostafa Ashraf , Koshy Ommen 
Published: October 2020

Introduction: Congenital symmastia is notoriously difficult to treat. Many management approaches have been reported but none seem to address the root cause of the anatomic deformity and may result in significant scarring. Method: We propose a minimally invasive approach to treating congenital symmastia with good results and minimal scarring by liposuction and use of a fibrin sealant. Conclusion: Liposuction of the pre-sternal area and injection of fibrin sealant as an adhesive with post-operative pressure garment support worked well to create and maintain a good cleavage.
A Review on Enhancing the Antibacterial Activity of ZnO: Mechanisms and Microscopic Investigation
Authors: Abebe Buzuayehu , Zereffa Enyew Amare , Tadesse Aschalew , Murthy H. C. Ananda 
Published: October 2020

Abstract
Metal oxide nanomaterials are one of the preferences as antibacterial active materials. Due to its distinctive electronic configuration and suitable properties, ZnO is one of the novel antibacterial active materials. Nowadays, researchers are making a serious effort to improve the antibacterial activities of ZnO by forming a composite with the same/different bandgap semiconductor materials and doping of ions. Applying capping agents such as polymers and plant extract that control the morphology and size of the nanomaterials and optimizing different conditions also enhance the antibacterial activity. Forming a nanocomposite and doping reduces the electron/hole recombination, increases the surface area to volume ratio, and also improves the stability towards dissolution and corrosion. The release of antimicrobial ions, electrostatic interaction, reactive oxygen species (ROS) generations are the crucial antibacterial activity mechanism. This review also presents a detailed discussion of the antibacterial activity improvement of ZnO by forming a composite, doping, and optimizing different conditions. The morphological analysis using scanning electron microscopy, field emission-scanning electron microscopy, field-emission transmission electron microscopy, fluorescence microscopy, and confocal microscopy can confirm the antibacterial activity and also supports for developing a satisfactory mechanism.

Graphical abstract
Graphical abstract showing the metal oxides antibacterial mechanism and the fluorescence and scanning electron microscopic images.
Sn2+ Doping: A Strategy for Tuning of Fe3O4 Nanoparticles Magnetization Dipping Temperature/Amplitude, Irreversibility, and Curie Point
Authors: Al-Kindi Umaima S. H. , Al-Harthi Salim H. , Widatallah Hisham M. , Elzain Mohamed E. , Myint Myo T. Z. , Kyaw Htet H. 
Published: October 2020

AbstractDoped magnetite (SnxFe3-2/3xO4) nanoparticles (NPs) (12–50 nm) with different amount of Sn2+ ions (x) were synthesized using co-precipitation method. Sn2+ doping reduces the anticipated oxidation of Fe3O4 NPs to maghemite (γ-Fe2O3), making them attractive in several magnetic applications. Detailed characterizations during heating–cooling cycles revealed the possibility of tuning the unusual observed magnetization dipping temperature/amplitude, irreversibility, and Curie point of these NPs. We attribute this dip to the chemical reduction of γ-Fe2O3 at the NPs surfaces. Along with an increase in the dipping temperature, we found that doping with Sn2+ reduces the dipping amplitude, until it approximately disappears when x = 0.150. Based on the core-shell structure of these NPs, a phenomenological expression that combines both modified Bloch law (M = M0[1 − γ(T/TC)]β) and a modified Curie–Weiss law (M = − α[1/(T − TC)δ]) is developed in order to explain the observed M-T behavior at different applied external magnetic fields and for different Sn2+ concentrations. By applying high enough magnetic field, the value of the parameters γ and δ ≈ 1 which are the same in modified Bloch and Curie–Weiss laws. They do not change with the magnetic field and depend only on the material structure and size. The power β for high magnetic field was 2.6 which is as expected for this size of nanoparticles with the core dominated magnetization. However, the β value fluctuates between 3 and 10 for small magnetic fields indicating an extra magnetic contribution from the shell structure presented by Curie–Weiss term. The parameter (α) has a very small value and it turns to negative values for high magnetic fields.
Embedding covariate adjustments in tree-based automated machine learning for biomedical big data analyses
Authors: Manduchi Elisabetta , Fu Weixuan , Romano Joseph D. , Ruberto Stefano , Moore Jason H. 
Published: October 2020

Abstract
Background
A typical task in bioinformatics consists of identifying which features are associated with a target outcome of interest and building a predictive model. Automated machine learning (AutoML) systems such as the Tree-based Pipeline Optimization Tool (TPOT) constitute an appealing approach to this end. However, in biomedical data, there are often baseline characteristics of the subjects in a study or batch effects that need to be adjusted for in order to better isolate the effects of the features of interest on the target. Thus, the ability to perform covariate adjustments becomes particularly important for applications of AutoML to biomedical big data analysis.

Results
We developed an approach to adjust for covariates affecting features and/or target in TPOT. Our approach is based on regressing out the covariates in a manner that avoids ‘leakage’ during the cross-validation training procedure. We describe applications of this approach to toxicogenomics and schizophrenia gene expression data sets. The TPOT extensions discussed in this work are available at https://github.com/EpistasisLab/tpot/tree/v0.11.1-resAdj.

Conclusions
In this work, we address an important need in the context of AutoML, which is particularly crucial for applications to bioinformatics and medical informatics, namely covariate adjustments. To this end we present a substantial extension of TPOT, a genetic programming based AutoML approach. We show the utility of this extension by applications to large toxicogenomics and differential gene expression data. The method is generally applicable in many other scenarios from the biomedical field.
Genome-wide detection and sequence conservation analysis of long non-coding RNA during hair follicle cycle of yak
Authors: Zhang Xiaolan , Bao Qi , Jia Congjun , Li Chen , Chang Yongfang , Wu Xiaoyun , Liang Chunnian , Bao Pengjia , Yan Ping 
Published: October 2020

AbstractBackgroundLong non-coding RNA (lncRNA) as an important regulator has been demonstrated playing an indispensable role in the biological process of hair follicles (HFs) growth. However, their function and expression profile in the HFs cycle of yak are yet unknown. Only a few functional lncRNAs have been identified, partly due to the low sequence conservation and lack of identified conserved properties in lncRNAs. Here, lncRNA-seq was employed to detect the expression profile of lncRNAs during the HFs cycle of yak, and the sequence conservation of two datasets between yak and cashmere goat during the HFs cycle was analyzed.ResultsA total of 2884 lncRNAs were identified in 5 phases (Jan., Mar., Jun., Aug., and Oct.) during the HFs cycle of yak. Then, differential expression analysis between 3 phases (Jan., Mar., and Oct.) was performed, revealing that 198 differentially expressed lncRNAs (DELs) were obtained in the Oct.-vs-Jan. group, 280 DELs were obtained in the Jan.-vs-Mar. group, and 340 DELs were obtained in the Mar.-vs-Oct. group. Subsequently, the nearest genes of lncRNAs were searched as the potential target genes and used to explore the function of DELs by GO and KEGG enrichment analysis. Several critical pathways involved in HFs development such as Wnt signaling pathway, VEGF signaling pathway, and signaling pathways regulating pluripotency of stem cells, were enriched. To further screen key lncRNAs influencing the HFs cycle, 24 DELs with differ degree of sequence conservation were obtained via a comparative analysis of partial DELs with previously published lncRNA-seq data of cashmere goat in the HFs cycle using NCBI BLAST-2.9.0+, and 3 DELs of them were randomly selected for further detailed analysis of the sequence conservation properties.ConclusionsThis study revealed the expression pattern and potential function of lncRNAs during HFs cycle of yak, which would expand the knowledge about the role of lncRNAs in the HFs cycle. The findings related to sequence conservation properties of lncRNAs in the HFs cycle between the two species may provide valuable insights into the study of lncRNA functionality and mechanism.
Transcription strategies related to photosynthesis and nitrogen metabolism of wheat in response to nitrogen deficiency
Authors: Liu Xin , Yin Chengmiao , Xiang Li , Jiang Weitao , Xu Shaozhuo , Mao Zhiquan 
Published: October 2020

Abstract
Background
Agricultural yield is closely associated with nitrogen application. Thus, reducing the application of nitrogen without affecting agricultural production remains a challenging task. To understand the metabolic, physiological, and morphological response of wheat (Triticum aestivum) to nitrogen deficiency, it is crucial to identify the genes involved in the activated signaling pathways.

Results
We conducted a hydroponic experiment using a complete nutrient solution (N1) and a nutrient solution without nitrogen (N0). Wheat plants under nitrogen-deficient conditions (NDC) showed decreased crop height, leaf area, root volume, photosynthetic rate, crop weight, and increased root length, root surface area, root/shoot ratio. It indicates that nitrogen deficiency altered the phenotype of wheat plants. Furthermore, we performed a comprehensive analysis of the phenotype, transcriptome, GO pathways, and KEGG pathways of DEGs identified in wheat grown under NDC. It showed up-regulation of Exp (24), and Nrt (9) gene family members, which increased the nitrogen absorption and down-regulation of Pet (3), Psb (8), Nar (3), and Nir (1) gene family members hampered photosynthesis and nitrogen metabolism.

Conclusions
We identified 48 candidate genes that were involved in improved photosynthesis and nitrogen metabolism in wheat plants grown under NDC. These genes may serve as molecular markers for genetic breeding of crops.
Early identification of carotid vulnerable plaque in asymptomatic patients
Authors: Jiao Yungen , Qin Yahong , Zhang Zhengang , Zhang Hao , Liu Haiwei , Li Chen 
Published: October 2020

Abstract
Background
This study was to explore the influencing factors of atherosclerotic plaque formation and stability in patients with asymptomatic carotid atherosclerotic plaques, so as to identify the vulnerable plaques at early stage, and then find high-risk group of cardio-cerebrovascular events for early clinical intervention to reduce related mortality and disability.

Methods
A total of 302 enrolled patients with asymptomatic carotid atherosclerotic plaques were divided into 3 groups based on the results of carotid artery color Doppler ultrasound: atherosclerotic unstable plaque (UP) group, atherosclerotic stable plaque (SP) group, and control group without plaques. Serum markers were measured by ELISA. χ2 test, t test, Pearson correlation analysis, and Logistic multivariate regression analysis were used in the analysis, and P < 0.05 was considered statistically significant.

Results
It revealed that high MMP-9, LOX-1and YKL-40 were independent risk factors for unstable plaque formation. The area under the curve (AUC) of serum markers combined with MMP-9, LOX-1 and YKL-40 was 0.850, with sensitivity 87.67%, specificity 81.13%, and diagnostic accuracy 84.92%, which was significantly better than the individual diagnostic efficacy of other three factors. The accuracy rate of Crouse Plaque Score (CPS) in the diagnosis of vulnerable plaques was 61.90%, the 10-year ICVD diagnosis accuracy rate was 56.75%, and the diagnostic accuracy of serum markers was significantly better than CPS and 10-year ICVD.

Conclusion
Noninvasive cervical color Doppler ultrasound combined with serum markers MMP-9, LOX-1 and YKL-40 have significant early recognition effect on asymptomatic carotid vulnerable plaque patients.
Detection of Listeria monocytogenes in a patient with meningoencephalitis using next-generation sequencing: a case report
Authors: Lan Zi-Wei , Xiao Min-Jia , Guan Yuan-lin , Zhan Ya-Jing , Tang Xiang-Qi 
Published: October 2020

Abstract
Background
Listeria monocytogenes (L. monocytogenes) is a facultative intracellular bacterial pathogen which can invade different mammalian cells and reach to the central nervous system (CNS), leading to meningoencephalitis and brain abscesses. In the diagnosis of L. monocytogenes meningoencephalitis (LMM), the traditional test often reports negative owing to the antibiotic treatment or a low number of bacteria in the cerebrospinal fluid. To date, timely diagnosis and accurate treatment remains a challenge for patients with listeria infections.

Case presentation
We present the case of a 66-year-old woman whose clinical manifestations were suspected as tuberculous meningoencephalitis, but the case was finally properly diagnosed as LMM by next-generation sequencing (NGS). The patient was successfully treated using a combined antibacterial therapy, comprising ampicillin and trimethoprim-sulfamethoxazole.

Conclusion
To improve the sensitivity of LMM diagnosis, we used NGS for the detection of L. monocytogenes. Hence, the clinical utility of this approach can be very helpful since it provides quickly and trust results.