bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evolution of cross-frequency coupling between endogenous oscillations over the temporal cortex in very premature neonates
Authors: Saadatmehr Bahar , Edalati Mohammadreza , Routier Laura , Mahmoudzadeh Mahdi , Safaie Javad , Kongolo Guy , Ghostine Ghida , Wallois Fabrice , Moghimi Sahar 
Published: February 2022

Abstract
Temporal theta activity in coalescence with slow-wave (TTA-SW) is one of the first neurobiomarkers of the neurodevelopment of perisylvian networks in the electroencephalography (EEG). Dynamic changes in the microstructure and activity within neural networks are reflected in the EEG. Slow oscillation slope can reflect synaptic strength, and cross-frequency coupling (CFC), associated with several putative functions in adults, can reflect neural communication. Here, we investigated the evolution of CFC, in terms of SW theta phase-amplitude coupling (PAC), during the course of very early development between 25 and 32 weeks of gestational age in 23 premature neonates. We used high-resolution EEG and dipole models as spatial filters to extract the source waveforms corresponding to TTA-SW. We also carried out nonlinear phase-dependent correlation measurements to examine whether the characteristics of the SW slopes are associated with TTA-SW coupling. We show that neurodevelopment leads to temporal accumulation of the SW theta PAC toward the trough of SW. Steepness of the negative going slope of SW determined the degree of this coupling. Systematic modulation of SW-TTA CFC during development is a signature of the complex development of local cortico-cortical perisylvian networks and distant thalamo-cortical neural circuits driving this nested activity over the perisylvian networks.
Biofilm and invertebrate consumption by western sandpipers (Calidris mauri) and dunlin (Calidris alpina)during spring migratory stopover: insights from tissue and breath CO2 isotopic (δ13C,δ15N) analyses
Authors: Hobson Keith A , Kuwae Tomohiro , Drever Mark C , Easton Wendy E , Elner Robert W 
Published: February 2022

AbstractShorebirds use key migratory stopover habitats in spring and fall where body proteins are replenished and lipids stored as fuel for the remaining journey. The Fraser River estuary, British Columbia, Canada, is a critical spring stopover site for hundreds of thousands of migrating western sandpiper, Calidris mauri, and dunlin, Calidris alpina. Intertidal biofilm in spring is an important nutritional source for western sandpiper, with previous isotopic research predicting 45–59% of total diet and 50% of total energy needs. However, these studies relied on isotopic mixing models that did not consider metabolic routing of key dietary macromolecules. Complexity arises due to the mixed macromolecular composition of biofilm that is difficult to characterize isotopically. We expanded on these earlier findings by considering a protein pathway from diet to the body protein pool represented by liver tissue, using a Bayesian mixing model based on δ13C and δ15N. We used δ13C measurements of adipose tissue and breath CO2 to provide an estimate of the carbohydrate and protein δ13C values of microphytobenthos and used these derived values to better inform the isotopic mixing models. Our results reinforce earlier estimates of the importance of biofilm to staging shorebirds in predicting that assimilated nutrients from biofilm contribute ~35% of the protein budgets for staging western sandpipers (n = 13) and dunlin (n = 11) and at least 41% of the energy budget of western sandpiper (n = 69). Dunlin’s ingestion of biofilm appeared higher than anticipated given their expected reliance on invertebrate prey compared to western sandpiper, a biofilm specialist. Isotopic analyses of bulk tissues that consider metabolic routing and that make use of breath CO2 and adipose lipid assays can provide new insights into avian physiology. We advocate further isotopic research to better understand biofilm use by migratory shorebirds in general and as a critical requirement for more effective conservation.
PSINDB: the postsynaptic protein–protein interaction database
Authors: Kalman Zsofia E , Dudola Dániel , Mészáros Bálint , Gáspári Zoltán , Dobson Laszlo 
Published: February 2022

Abstract
The postsynaptic region is the receiving part of the synapse comprising thousands of proteins forming an elaborate and dynamically changing network indispensable for the molecular mechanisms behind fundamental phenomena such as learning and memory. Despite the growing amount of information about individual protein–protein interactions (PPIs) in this network, these data are mostly scattered in the literature or stored in generic databases that are not designed to display aspects that are fundamental to the understanding of postsynaptic functions. To overcome these limitations, we collected postsynaptic PPIs complemented by a high amount of detailed structural and biological information and launched a freely available resource, the Postsynaptic Interaction Database (PSINDB), to make these data and annotations accessible. PSINDB includes tens of thousands of binding regions together with structural features, mediating and regulating the formation of PPIs, annotated with detailed experimental information about each interaction. PSINDB is expected to be useful for various aspects of molecular neurobiology research, from experimental design to network and systems biology-based modeling and analysis of changes in the protein network upon various stimuli.
Database URL
https://psindb.itk.ppke.hu/
Left atrial reservoir strain improves diagnostic accuracy of the 2016 ASE/EACVI diastolic algorithm in patients with preserved left ventricular ejection fraction: insights from the KARUM haemodynamic database
Authors: Venkateshvaran Ashwin , Tureli Hande Oktay , Faxén Ulrika Ljung , Lund Lars H , Tossavainen Erik , Lindqvist Per 
Published: February 2022

Abstract

Aims
This study aimed to investigate the incremental value offered by left atrial reservoir strain (LASr) to the 2016 American Society of Echocardiography/European Association of Cardiovascular Imaging (ASE/EACVI) diastolic algorithm to identify elevated left ventricular (LV) filling pressure in patients with preserved ejection fraction (EF).

Methods and results
Near-simultaneous echocardiography and right heart catheterization were performed in 210 patients with EF ≥50% in a large, dual-centre study. Elevated filling pressure was defined as invasive pulmonary capillary wedge pressure (PCWP) ≥15 mmHg. LASr was evaluated using speckle-tracking echocardiography. Diagnostic performance of the ASE/EACVI diastolic algorithm was validated against invasive reference and compared with modified algorithms incorporating LASr. Modest correlation was observed between E/e′, E/A ratio, and LA volume index with PCWP (r = 0.46, 0.46, and 0.36, respectively; P &lt; 0.001 for all). Mitral e′ and TR peak velocity showed no association. The ASE/EACVI algorithm (89% feasibility, 71% sensitivity, 68% specificity) demonstrated reasonable ability (AUC = 0.69) and 68% accuracy to identify elevated LV filling pressure. LASr displayed strong ability to identify elevated PCWP (AUC = 0.76). Substituting TR peak velocity for LASr in the algorithm (69% sensitivity, 84% specificity) resulted in 91% feasibility, 81% accuracy, and stronger agreement with invasive measurements. Employing LASr as per expert consensus (71% sensitivity, 70% specificity) and adding LASr to conventional parameters (67% sensitivity, 84% specificity) also demonstrated greater feasibility (98% and 90%, respectively) and overall accuracy (70% and 80%, respectively) to estimate elevated PCWP.

Conclusions
LASr improves feasibility and overall accuracy of the ASE/EACVI algorithm to discern elevated filling pressures in patients with preserved EF.
Cereblon contributes to cardiac dysfunction by degrading Cav1.2α
Authors: Park Nammi , Marquez Jubert , Pham Trong Kha , Ko Tae Hee , Youm Jae Boum , Kim Min , Choi Seung Hak , Moon Jiyoung , Flores Jessa , Ko Kyung Soo , Rhee Byoung Doo , Shimizu Ippei , Minamino Tohru , Ha Jae Du , Hwang Jong Yeon , Yang Seung Joo , Park Chul-Seung , Kim Hyoung Kyu , Han Jin 
Published: February 2022

Abstract

Aims
Cereblon (CRBN) is a substrate receptor of the E3 ubiquitin ligase complex that was reported to target ion channel proteins. L-type voltage-dependent Ca2+ channel (LTCC) density and dysfunction is a critical player in heart failure with reduced ejection fraction (HFrEF). However, the underlying cellular mechanisms by which CRBN regulates LTCC subtype Cav1.2α during cardiac dysfunction remain unclear. Here, we explored the role of CRBN in HFrEF by investigating the direct regulatory role of CRBN in Cav1.2α activity and examining how it can serve as a target to address myocardial dysfunction.

Methods and results
Cardiac tissues from HFrEF patients exhibited increased levels of CRBN compared with controls. In vivo and ex vivo studies demonstrated that whole-body CRBN knockout (CRBN−/−) and cardiac-specific knockout mice (Crbnfl/fl/Myh6Cre+) exhibited enhanced cardiac contractility with increased LTCC current (I CaL) compared with their respective controls, which was modulated by the direct interaction of CRBN with Cav1.2α. Mechanistically, the Lon domain of CRBN directly interacted with the N-terminal of Cav1.2α. Increasing CRBN levels enhanced the ubiquitination and proteasomal degradation of Cav1.2α and decreased I CaL. In contrast, genetic or pharmacological depletion of CRBN via TD-165, a novel PROTAC-based CRBN degrader, increased surface expression of Cav1.2α and enhanced I CaL. Low CRBN levels protected the heart against cardiomyopathy in vivo.

Conclusion
Cereblon selectively degrades Cav1.2α, which in turn facilitates cardiac dysfunction. A targeted approach or an efficient method of reducing CRBN levels could serve as a promising strategy for HFrEF therapeutics.
Exposure to lysed bacteria can promote or inhibit growth of neighboring live bacteria depending on local abiotic conditions
Authors: Smakman Fokko , Hall Alex R 
Published: February 2022

Abstract
Microbial death is extremely common in nature, yet the ecological role of dead bacteria is unclear. Dead cells are assumed to provide nutrients to surrounding microbes, but may also affect them in other ways. We found that adding lysate prepared from dead bacteria to cultures of Escherichia coli in nutrient-rich conditions suppressed their final population density. This is in stark contrast with the notion that the primary role of dead cells is nutritional, although we also observed this type of effect when we added dead bacteria to cultures that were not supplied with other nutrients. We only observed the growth-suppressive effect of our dead-bacteria treatment after they had undergone significant lysis, suggesting a key role for cellular contents released during lysis. Transcriptomic analysis indicated changes in gene expression in response to dead cells in growing populations, particularly in genes involved in motility. This was supported by experiments with genetic knockouts and copy-number manipulation. Because lysis is commonplace in natural and clinical settings, the growth-suppressive effect of dead cells we describe here may be a widespread and previously unrecognized constraint on bacterial population growth.
Transcription regulation of iron carrier transport genes by ECF sigma factors through signaling from the cell surface into the cytoplasm
Authors: Braun Volkmar , Hartmann Marcus D , Hantke Klaus 
Published: February 2022

Abstract
Bacteria are usually iron-deficient because the Fe3+ in their environment is insoluble or is incorporated into proteins. To overcome their natural iron limitation, bacteria have developed sophisticated iron transport and regulation systems. In gram-negative bacteria, these include iron carriers, such as citrate, siderophores, and heme, which when loaded with Fe3+ adsorb with high specificity and affinity to outer membrane proteins. Binding of the iron carriers to the cell surface elicits a signal that initiates transcription of iron carrier transport and synthesis genes, referred to as “cell surface signaling”. Transcriptional regulation is not coupled to transport. Outer membrane proteins with signaling functions contain an additional N-terminal domain that in the periplasm makes contact with an anti-sigma factor regulatory protein that extends from the outer membrane into the cytoplasm. Binding of the iron carriers to the outer membrane receptors elicits proteolysis of the anti-sigma factor by two different proteases, Prc in the periplasm, and RseP in the cytoplasmic membrane, inactivates the anti-sigma function or results in the generation of an N-terminal peptide of ∼50 residues with pro-sigma activity yielding an active extracytoplasmic function (ECF) sigma factor. Signal recognition and signal transmission into the cytoplasm is discussed herein.
The effect of multiple ınterventions for women at risk for cervical cancer on their health responsibility, beliefs regarding cervical cancer and having screening: a randomized controlled trial
Authors: Altinel B , Akin B 
Published: February 2022

Abstract
This study was intended to analyze the effect of multiple initiations on beliefs about cervical cancer, health responsibility, and screening participation. In total, 134 women aged 40–55 years, who were at risk of cervical cancer and had never had a Pap smear before, were randomly assigned to the experimental (n = 67) and control (n = 67) groups. The 14 weeks of sessions involving the experimental group included group training on cervical cancer, counselling, reminder phone calls and delivery materials, all aimed to increase motivation to be screened regularly for cervical cancer. The control group received the usual care. The study data were collected using an information form, the Health Belief Model Scale, the Healthy Lifestyle Behaviors Scale II and the Assessment Form for Undergoing Pap-Smear Test. After the multiple interventions, there was a significant difference between the experimental and control group’s Health Responsibility, Pap smear benefit and motivation, obstacle and health motivation scores (P &lt; 0,05). The participation rate of women in the experimental group to cervical cancer screening was found to be 93%. Multiple nursing interventions (group training, counselling, reminder phone calls and delivery materials) were effective in increasing participation in cervical cancer screening programs.
The Perceived Impacts of a Bilingual Learner's Dictionary
Authors: Hall Megan , Louw Phillip 
Published: February 2022

AbstractThis paper reports on research into teachers' perceptions of the impact of using a bilingual learner's dictionary. The research, a perceptions of impact study conducted in South Africa from March 2016 to February 2019, investigates the perceptions of teachers on the impact of the dictionary on themselves as teachers, and their perceptions of the dictionary's impact on their pupils. The findings show that teachers perceived dictionary use to have positive impacts on both the language production and language reception skills of pupils in their L2, in line with other studies. However, they also show unexpected teacher perceptions of impacts on content subjects, L1, teaching itself, and attitudes and behaviours (here called the socio-emotional), especially with regard to learning or teaching. The paper situates this research in the literature on dictionary use for production and reception in language learning, and of impact evaluation, as well as highlighting relevant aspects of the South African education system, particularly the use of English as a language of learning and teaching from an early stage. The dictionary in this study was the Oxford Bilingual School Dictionary: isiXhosa and English (De Schryver and Reynolds 2014).
Enhancing pharmacy practice doctoral research with patient and public involvement
Authors: Youssef Essra , Mellor Doug , Walkerly Sujata , Wright David J 
Published: February 2022

Abstract
Evidence shows that patient and public involvement (PPI) can have a positive effect on the quality and relevance of health services research. This article describes the experiences of PPI contributors within a pharmacy practice doctoral research project. This includes practical examples of how PPI contributed to the project and the impact this made. In addition, the PPI contributors and doctoral candidates’ reflections are presented along with learning points to support other doctoral researchers planning PPI in their research.
Sgr A* X-ray flares from non-thermal particle acceleration in a magnetically arrested disc
Authors: Scepi Nicolas , Dexter Jason , Begelman Mitchell C 
Published: February 2022

ABSTRACT
Sgr A* exhibits flares in the near-infrared and X-ray bands, with the luminosity in these bands increasing by factors of 10–100 for ≈60 min. One of the models proposed to explain these flares is synchrotron emission of non-thermal particles accelerated by magnetic reconnection events in the accretion flow. We use the results from particle-in-cell simulations of magnetic reconnection to post-process 3D two-temperature GRMHD simulations of a magnetically arrested disc (MAD). We identify current sheets, retrieve their properties, estimate their potential to accelerate non-thermal particles, and compute the expected non-thermal synchrotron emission. We find that the flux eruptions of MADs can provide suitable conditions for accelerating non-thermal particles to energies γe ≲ 106 and producing simultaneous X-ray and near-infrared flares. For a suitable choice of current-sheet parameters and a simplified synchrotron cooling prescription, the model can simultaneously reproduce the quiescent and flaring X-ray luminosities as well as the X-ray spectral shape. While the near-infrared flares are mainly due to an increase in the temperature near the black hole during the MAD flux eruptions, the X-ray emission comes from narrow current sheets bordering highly magnetized, low-density regions near the black hole, and equatorial current sheets where the flux on the black hole reconnects. As a result, not all infrared flares are accompanied by X-ray ones. The non-thermal flaring emission can extend to very hard (≲ 100 keV) X-ray energies.
Transcriptomic analysis reveals myometrial topologically associated domains linked to the onset of human term labour
Authors: Tyagi Sonika , Chan Eng-Cheng , Barker Daniel , McElduff Patrick , Taylor Kelly A , Riveros Carlos , Singh Esha , Smith Roger 
Published: February 2022

Abstract
Changes in cell phenotype are thought to occur through the expression of groups of co-regulated genes within topologically associated domains (TADs). In this paper, we allocate genes expressed within the myometrium of the human uterus during the onset of term labour into TADs. Transformation of the myometrial cells of the uterus into a contractile phenotype during term human labour is the result of a complex interaction of different epigenomic and genomic layers. Recent work suggests that the transcription factor (TF) RELA lies at the top of this regulatory network. Using deep RNA sequencing (RNAseq) analysis of myometrial samples (n = 16) obtained at term from women undergoing caesarean section prior to or after the onset of labour, we have identified evidence for how other gene expression regulatory elements interact with TFs in the labour phenotype transition. Gene set enrichment analysis of our RNAseq data identified three modules of enriched genes (M1, M2 and M3), which in gene ontology studies are linked to matrix degradation, smooth muscle and immune gene signatures, respectively. These genes were predominantly located within chromosomal TADs suggesting co-regulation of expression. Our transcriptomic analysis also identified significant differences in the expression of long non-coding RNAs (lncRNA), microRNAs (miRNA) and TFs that were predicted to target genes within the TADs. Additionally, network analysis revealed 15 new lncRNA (MCM3AP-AS1, TUG1, MIR29B2CHG, HCG18, LINC00963, KCNQ1OT1, NEAT1, HELLPAR, SNHG16, NUTM2B-AS1, MALAT1, PSMA3-AS1, GABPB1-AS1, NORAD and NKILA) and 4 miRNA (mir-145, mir-223, mir-let-7a and mir-132) as top gene hubs with three TFs (NFKB1, RELA and ESR1) as master regulators. Together, these factors are likely to be involved in co-regulatory networks driving a myometrial transformation to generate an estrogen-sensitive phenotype. We conclude that lncRNA and miRNA targeting the estrogen receptor 1 and nuclear factor kappa B pathways play a key role in the initiation of human labour. For the first time, we perform an integrative analysis to present a multi-level genomic signature made of mRNA, non-coding RNA and TFs in the myometrium for spontaneous term labour.
Drop-off-reinitiation triggered by EF-G-driven mistranslocation and its alleviation by EF-P
Authors: Tajima Kenya , Katoh Takayuki , Suga Hiroaki 
Published: February 2022

Abstract
In ribosomal translation, peptidyl transfer occurs between P-site peptidyl-tRNA and A-site aminoacyl-tRNA, followed by translocation of the resulting P-site deacylated-tRNA and A-site peptidyl-tRNA to E and P site, respectively, mediated by EF-G. Here, we report that mistranslocation of P-site peptidyl-tRNA and A-site aminoacyl-tRNA toward E and A site occurs when high concentration of EF-G triggers the migration of two tRNAs prior to completion of peptidyl transfer. Consecutive incorporation of less reactive amino acids, such as Pro and d-Ala, makes peptidyl transfer inefficient and thus induces the mistranslocation event. Consequently, the E-site peptidyl-tRNA drops off from ribosome to give a truncated peptide lacking the C-terminal region. The P-site aminoacyl-tRNA allows for reinitiation of translation upon accommodation of a new aminoacyl-tRNA at A site, leading to synthesis of a truncated peptide lacking the N-terminal region, which we call the ‘reinitiated peptide’. We also revealed that such a drop-off-reinitiation event can be alleviated by EF-P that promotes peptidyl transfer of Pro. Moreover, this event takes place both in vitro and in cell, showing that reinitiated peptides during protein synthesis could be accumulated in this pathway in cells.