bluuebunny/crossref_metadata_2025_split huggingface dataset:
A convergent interaction engine: vocal communication among marmoset monkeys
Authors: Burkart J. M. , Adriaense J. E. C. , Brügger R. K. , Miss F. M. , Wierucka K. , van Schaik C. P. 
Published: July 2022

To understand the primate origins of the human interaction engine, it is worthwhile to focus not only on great apes but also on callitrichid monkeys (marmosets and tamarins). Like humans, but unlike great apes, callitrichids are cooperative breeders, and thus habitually engage in coordinated joint actions, for instance when an infant is handed over from one group member to another. We first explore the hypothesis that these habitual cooperative interactions, the marmoset interactional ethology, are supported by the same key elements as found in the human interaction engine: mutual gaze (during joint action), turn-taking, volubility, as well as group-wide prosociality and trust. Marmosets show clear evidence of these features. We next examine the prediction that, if such an interaction engine can indeed give rise to more flexible communication, callitrichids may also possess elaborate communicative skills. A review of marmoset vocal communication confirms unusual abilities in these small primates: high volubility and large vocal repertoires, vocal learning and babbling in immatures, and voluntary usage and control. We end by discussing how the adoption of cooperative breeding during human evolution may have catalysed language evolution by adding these convergent consequences to the great ape-like cognitive system of our hominin ancestors.This article is part of the theme issue ‘Revisiting the human ‘interaction engine’: comparative approaches to social action coordination’.
Sequence organization and embodied mutual orientations: openings of social interactions between baboons
Authors: Mondada Lorenza , Meguerditchian Adrien 
Published: July 2022

Human interactions are organized in sequence, which is a key component of Levinson's ‘interaction engine.’ Referring back to the field where it originated, conversation analysis, we discuss its relevance within the interaction engine, before moving on to show how sequence organization is actually oriented to not only humans in social interaction, but also to non-human animals. On the basis of video-recorded encounters between baboons (Papio anubis), we study canonical sequences constituting openings and, within them, greetings. Openings are thelocuswhere future interactants adjust to each other to coordinately enter in interaction, thus achieving a common definition of their context, activity, and relationships. The analysis shows that the ways individuals spatially approach each other provide systematic interactional affordances for how the first sequences of actions in the opening are formatted, initiated, and responded to. Adopting sequential multimodal analysis, we demonstrate how participants orient to central features of sequence organization—its sequential implicativeness and the expectations it produces—building on them their interpretations of others' actions, their responsivity, and their mutual understanding of the ongoing course of action as it unfolds. This paves the way for further reflections on the pervasiveness of the interactional engine in human and non-human primate communication.This article is part of the theme issue ‘Revisiting the human ‘interaction engine’: comparative approaches to social action coordination’.
McAN: an ultrafast haplotype network construction algorithm
Authors: Li Lun , Xu Bo , Tian Dongmei , Li Cuiping , Li Na , Wang Anke , Zhu Junwei , Xue Yongbiao , Zhang Zhang , Bao Yiming , Zhao Wenming , Song Shuhui 
Published: July 2022

AbstractSummaryHaplotype network is becoming popular due to its increasing use in analyzing genealogical relationships of closely related genomes. We newly proposed McAN, a minimum-cost arborescence based haplotype network construction algorithm, by considering mutation spectrum history (mutations in ancestry haplotype should be contained in descendant haplotype), node size (corresponding to sample count for a given node) and sampling time. McAN is two orders of magnitude faster than the state-of-the-art algorithms, making it suitable for analyzation of massive sequences.AvailabilitySource code is written in C/C++ and available athttps://github.com/Theory-Lun/McANandhttps://ngdc.cncb.ac.cn/biocode/tools/BT007301under the MIT license. The online web service of McAN is available athttps://ngdc.cncb.ac.cn/ncov/online/tool/haplotype. SARS-CoV-2 dataset are available athttps://ngdc.cncb.ac.cn/ncov/.
Distinct GSDMB protein isoforms and protease cleavage processes differentially control pyroptotic cell death and mitochondrial damage in cancer cells
Authors: Oltra Sara S , Sin Laura , Colomo Sara , Pérez-López María , Molina-Crespo Angela , Choi Kyoung-Han , Martinez Lidia , Morales Saleta , González-Paramos Cristina , Orantes Alba , Soriano Mario , Hernandez Alberto , Lluch Ana , Rojo Federico , Albanell Joan , Ko Jae-Kyun , Sarrió David , Moreno-Bueno Gema 
Published: July 2022

AbstractThe formation of Gasdermin (GSDM) pores, leading to pyroptosis or other context-dependent consequences, is directly involved in multiple diseases. Gasdermin-B (GSDMB) plays complex and controversial roles in pathologies, with pyroptosis-dependent and independent functions. GSDMB is promising oncologic therapeutic target since it exhibits either antitumor function, when immunocyte-mediated Granzyme-A (GZMA) cleaves GSDMB releasing its cytotoxic N-terminal domain, or pro-tumoral activities (invasion, metastasis, and drug resistance). However, it is still unknown the precise regulatory mechanisms of GSDMB pyroptosis as well as the differential effects of the four translated GSDMB variants (GSDMB1-4, that differ in the alternative usage of exons 6-7) in this process. Here, we first prove that exon 6 translation (in the interdomain protein linker) is essential for pyroptosis, and therefore, GSDMB isoforms lacking this exon (GSDMB1-2) cannot provoke cancer cell death. Consistently, in large series of breast cancer samples GSDMB2 expression, and not of exon6-containing variants (GSDMB3-4), associates with unfavourable clinical-pathological parameters. Moreover, cellular, and biochemical analyses combined with confocal, live cell imaging, and electron microscopy studies, demonstrated that diverse GSDMB N-terminal constructs containing exon-6 induce mitochondrial damage (increased mitochondrial ROS, membrane potential loss and mitochondrial DNA release) together with pyroptotic membrane cell lysis. While exon-6 residues are not required for membrane or mitochondrial localization, we also identified other key residues for N-terminal domain cytotoxicity. Additionally, we demonstrated that all GSDMB variants share the cleavage sites for GZMA, Neutrophil Elastase (identified in this study) and caspases. Interestingly, whereas Neutrophil Elastase and caspases produce N-terminal fragments in all GSDMB isoforms with no pyroptotic activity, thus acting as a potential inhibitory mechanism, GZMA cleavage activates pyroptosis in an isoform-dependent way. Summarizing, our results have important implications for understanding the complex roles of GSDMB isoforms in cancer and other pathologies and for the future design of GSDMB-targeted therapies.
From multi-omics data to the cancer druggable gene discovery: a novel machine learning-based approach
Authors: Yang Hai , Gan Lipeng , Chen Rui , Li Dongdong , Zhang Jing , Wang Zhe 
Published: July 2022

AbstractThe development of targeted drugs allows precision medicine in cancer treatment and achieving optimal targeted therapies. Accurate identification of cancer drug genes is helpful to strengthen the understanding of targeted cancer therapy and promote precise cancer treatment. However, rare cancer-druggable genes have been found due to the multi-omics data’s diversity and complexity. This study proposes DF-CAGE, a novel machine learning-based method for cancer-druggable gene discovery. DF-CAGE integrated the somatic mutations, copy number variants, DNA methylation, and RNA-Seq data across ~10000 TCGA profiles to identify the landscape of the cancer-druggable genes. We found that DF-CAGE discovers the commonalities of currently known cancer-druggable genes from the perspective of multi-omics data and achieved excellent performance on OncoKB, Target, and Drugbank data sets. Among the ~20,000 protein-coding genes, DF-CAGE pinpointed 465 potential cancer-druggable genes. We found that the candidate cancer druggable genes (CDG-genes) are clinically meaningful and can be divided into highly reliable, reliable, and potential gene sets. Finally, we analyzed the contribution of the omics data to the identification of druggable genes. We found that DF-CAGE reports druggable genes mainly based on the CNAs data, the gene rearrangements, and the mutation rates in the population. These findings may enlighten the study and development of new drugs in the future.
Development of the gut microbiota during early life in premature and term infants
Authors: Sim Kathleen , Powell Elizabeth , Cornwell Emma , Kroll J Simon , Shaw Alexander G 
Published: July 2022

ABSTRACTBackgroundThe gastrointestinal (GI) microbiota has been linked to health consequences throughout life, from early life illnesses (e.g. sepsis and necrotising enterocolitis) to lifelong chronic conditions such as obesity and inflammatory bowel disease. It has also been observed that events in early life can lead to shifts in the microbiota, with some of these changes having been documented to persist into adulthood.A particularly extreme example of a divergent early GI microbiota occurs in premature neonates, who display a very different GI community to term infants. Certain characteristic patterns have been associated with negative health outcomes during the neonatal period, and these patterns may prove to have continual damaging effects if not resolved.ResultsIn this study we contrast a set of premature infants with a paired set of term infants (n=37 pairs) at six weeks of life and at two years. In the samples taken at six weeks we find microbial communities differing in both diversity and specific bacterial groups between the two infant cohorts. We identify clinical factors associated with over-abundance of potentially pathogenic organisms (e.g. Enterobacteriaceae) and reduced abundances of some beneficial organisms (e.g.Bifidobacterium).We contrast these findings with samples taken at two years of age, which show that despite a very different initial microbiota, the two infant groups converge to a similar, more adult-like state. We identify clinical factors, including both prematurity and delivery method, that remain associated with components of the microbiota. Both clinical factors and microbial characteristics are compared to the occurrence of childhood wheeze and eczema, revealing associations between components of the GI microbiota and the development of these allergic conditions.ConclusionsThe faecal microbiota differs greatly between infants born at term and those born prematurely during early life, yet it converges over time. Despite this, early clinical factors remain significantly associated with the abundance of some bacterial groups at two years of age. Given the associations made between health conditions and the microbiota, factors that alter the makeup of the gut microbiota, and potentially its trajectory through life, could have important lifelong consequences.
Closed-loop brain stimulation to reduce pathologic fear
Authors: Ordoñez Sierra Rodrigo , Pedraza Lizeth Katherine , Barcsai Lívia , Pejin Andrea , Kozák Gábor , Takeuchi Yuichi , Lőrincz Magor L. , Devinsky Orrin , Buzsáki György , Berényi Antal 
Published: July 2022

ABSTRACTMaladaptive processing of trauma related memory engrams leads to dysregulated fear reactions. In post-traumatic stress disorder (PTSD), dysfunctional extinction learning prevents discretization of trauma-related memory engrams and leads to generalized fear responses. PTSD is postulated as a mnemonic-based disorder, but we lack markers or treatments targeting pathological fear memory processing. Hippocampal sharp wave-ripples (SWRs) and concurrent neocortical oscillations are scaffolds to consolidate contextual memory, but their role during fear processing remains poorly understood. We demonstrate that closed-loop SWRs triggered neuromodulation of the medial forebrain bundle (MFB) can enhance the consolidation of fear extinction. It modified fear memories that became resistant to induced recall (i.e., ‘renewal’ and ‘reinstatement’) and did not reemerge spontaneously as a PTSD-like phenotype. The effects are mediated by D2 receptor signaling induced synaptic remodeling in the basolateral amygdala. These results suggest that SWRs help consolidating fear extinction memories. Furthermore, enhancing the consolidation of extinction engrams by SWR-triggered induction of reward signals can alleviate pathologic fear reactions in a rodent model of PSTD. No adverse effects were seen, suggesting this potential therapy for PTSD and anxiety disorders.
Enhanced surface nano-analytics of transient biomolecular processes
Authors: Miller Alyssa , Chia Sean , Toprakcioglu Zenon , Hakala Tuuli , Schmid Roman , Feng Yaduo , Kartanas Tadas , Kamada Ayaka , Vendruscolo Michele , Ruggeri Francesco Simone , Knowles Tuomas P. J. 
Published: July 2022

AbstractThe study of the physical and chemical properties of biomolecules enables the characterisation of fundamental molecular processes and mechanisms in health and disease. Bulk and single-molecule analytical methods provide rich information on biomolecules, but often require high concentrations and sample preparation away from physiologically relevant conditions. Here, we present the development and application of a lab-on-a-chip approach which combines rapid sample preparation, mixing and deposition to integrate with a range of nano-analytical methods in chemistry and biology, providing enhanced sensitivity and single molecule resolution. We demonstrate that this method empowers multidimensional study of heterogenous biomolecular systems in physiological buffers and concentrations over multiple length scales by nanoscopy and vibrational spectroscopy. We illustrate the capabilities of this platform by capturing and analysing the structural conformations of transient oligomeric species formed at the early stages of the self-assembly of α-synuclein, which are associated with the onset of Parkinson’s disease.TEASERMaintaining the heterogeneity and structural integrity of monomers and oligomers enables their quantitative study.
Telemonitoring System Architecture for Emotion Recognition with WBSN and Ensemble Learning
Authors: El Azhari Maryam 
Published: July 2022

AbstractTelemonitoring provides a set of technologies that enables remote monitoring of patients with critical health conditions.Wireless Body Area Networks (WBAN) technology has emerged as a major factor contributor to the need for ubiquitous healthcare.It provides a real-time telemonitoring system to treat several chronic diseases using wireless biosensors.The first standard to support communication between biosensors is IEEE 802.15 Task Groups 6 (TG6). The standard regulates the communication in,on or inside the human body for a short-range and low power wireless communications.IEEE 802.15.6 operates on a Medium Access Control (MAC) layer that supports several Physical (PHY) layers such as narrowband (NB),ultra-wideband (UWB),and human body communication (HBC).In this paper,a realtime telemonitoring system architecture for EEG brainwave emotion recognition is presented.The system aims to collect EEG data and forward them to clinicians in order to detect the evolution of the monitored diseases based on brain wave emotion analysis.Ensemble Learning techniques are used for decision making to discern the current health state of the patient.
Structural basis of plp2-mediated cytoskeletal protein folding by TRiC/CCT
Authors: Han Wenyu , Jin Mingliang , Liu Caixuan , Zhao Qiaoyu , Wang Shutian , Wang Yifan , Yin Yue , Peng Chao , Wang Yanxing , Cong Yao 
Published: July 2022

AbstractThe eukaryotic chaperonin TRiC/CCT assists the folding of ~10% cytosolic proteins. The essential cytoskeletal proteins tubulin and actin are the obligate substrates of TRiC and their folding involves cochaperone and co-factors. Here, through cryo-EM analysis, we present a more complete picture of yeast TRiC-assisted tubulin and actin folding in the ATPase-cycle, under the coordination of cochaperone plp2. Our structures revealed that in the open C1 and C2 states, plp2 and substrates tubulin/actin engage with TRiC inside its chamber, one per ring. Noteworthy, we captured a ternary TRiC-plp2-tubulin complex in the closed C3 state, engaged with a full-length β-tubulin in the native folded state even loaded with a GTP, and with a plp2 occupying the opposite ring, not reported before. Another closed C4 state revealed an actin in the intermediate state of folding and a plp2 occupying the other ring. Intriguingly, along with TRiC ring closure, we captured a large translocation of plp2 within TRiC chamber coordinating substrate translocation on the CCT6 hemisphere, potentially facilitating substrate stabilization and folding. Our findings provide structural insights into the folding mechanism of the major cytoskeletal proteins tubulin/actin under the coordination of the complex biogenesis machinery TRiC and plp2, and could extend our understanding on the links between cytoskeletal proteostasis and related human diseases.
Trade openness relationship with macroeconomic factors on Saudi Arabian economy: ARDL application
Authors: Tarchoun Monaem , Ghraieb Ikram 
Published: July 2022

PurposeThis paper examines the relationship of financial market inclusion, economic growth, foreign direct investment and real output on trade openness for the Saudi Arabia Economy. Trade openness potentially is a major source of economic growth and development.Design/methodology/approachThis study is the first employing mixed methods and approaches of autoregressive distributed lag (ARDL) to estimate the long-run and short-run models for the Saudi Arabia Economy.FindingsThe results indicate that the inclusion of financial markets has an important role in the short term and has an effect on trade openness on this economy.Practical implicationsThese results listed are only implications for decision-makers to achieve their objectives. Indeed, to have better economic growth, economic and financial decision-makers can rely on financial inclusion and trade openness.Originality/valueThis article investigates an approach testing the relationship of variables in a short and long term by using annual data from 1990 to 2017 for the Saudi Arabia economy. This paper tests the relationship between finance and economy with an econometric model.
Passionate about food: exploring “foodie” segmentation by nutritional knowledge
Authors: Gunarathne Anoma , Hemmerling Sarah , Labonte Naemi , Zühlsdorf Anke , Spiller Achim 
Published: July 2022

Purpose
This paper aims to empirically identify foodie features and examine their relevance in segmenting German consumers. Furthermore, this study explored potential differences between foodie segments in terms of food involvement and food knowledge.

Design/methodology/approach
Data were collected from 500 German respondents in October 2015 by means of two online surveys using a newly developed version of the foodie instrument based on existing literature. Confirmatory factor analysis, cluster analysis, analysis of variance and post hoc tests were applied to analyse the data.

Findings
Six distinct consumer segments were identified: passionate foodies (12.0%), interested foodies (21.5%); moderate foodies (21.7%), traditional foodies (17.1%), light foodies (18.2%) and non-foodies (9.5%). The nutritional knowledge questionnaire suggests that passionate foodies have only an average level of food literacy compared to other segments.

Research limitations/implications
Behavioural traits and socio-demographic characteristics of foodies and other culinary consumer segments could be time-sensitive, thus future research should take a longitudinal approach so that subsequent decision-making is appropriately dynamic.

Originality/value
To the best of the authors' knowledge, this paper is a first step towards the development of a new foodie lifestyle scale which will be useful to identify, characterise and develop effective marketing strategies for targeting highly involved food consumers.
On the association between fast induced polarization in frozen rocks and dielectric polarization of ice
Authors: Kozhevnikov Nikolai O. 
Published: July 2022

AbstractMost often, fast induced polarization in frozen rocks appears in the transient electromagnetic data at early (less than a few hundreds of microseconds) times as a nonmonotone voltage response. Usually, such transients are interpreted in terms of Pelton's resistivity/conductivity model. The relaxation time τIS found in this way determines the decay rate of transient voltage response to a current step. Conversion of τIS into the relaxation time τVS, determining the decay rate of the current response to a voltage step, gives τVS values typical for dielectric relaxation of ice at temperatures of about several degrees below zero. This result, along with the fact that both fast induced polarization and dielectric polarization of ice are described by the Debye relaxation model, suggests that fast induced polarization in frozen rocks is controlled by the dielectric polarization of ice. As a possible mechanism for such a control, the effect of ice polarization on the surface conductivity of frozen rocks is considered.