bluuebunny/crossref_metadata_2025_split huggingface dataset:
Signatures of mitonuclear coevolution in a warbler species complex
Authors: Wang Silu , Ore Madelyn J. , Mikkelsen Else K. , Lee-Yaw Julie , Toews David P. L. , Rohwer Sievert , Irwin Darren 
Published: July 2021

AbstractDivergent mitonuclear coadaptation could facilitate speciation. We investigate this possibility in two hybridizing species of warblers, Setophaga occidentalis and S. townsendi, in western North America. Inland S. townsendi harbor distinct mitochondrial DNA haplotypes from those of S. occidentalis. These populations also differ in several nuclear DNA regions. Coastal S. townsendi demonstrate mixed mitonuclear ancestry from S. occidentalis and inland S. townsendi. Of the few highly-differentiated chromosomal regions between inland S. townsendi and S. occidentalis, a 1.2 Mb gene block on chromosome 5 is also differentiated between coastal and inland S. townsendi. Genes in this block are associated with fatty acid oxidation and energy-related signaling transduction, thus linked to mitochondrial functions. Genetic variation within this candidate gene block covaries with mitochondrial DNA and shows signatures of divergent selection. Spatial variation in mitonuclear ancestries is correlated with climatic conditions. Together, these observations suggest divergent mitonuclear coadaptation underpins cryptic differentiation in this species complex.
Nanoscale cooperative adsorption for materials control
Authors: Ye Rong , Zhao Ming , Mao Xianwen , Wang Zhaohong , Garzón Diego A. , Pu Heting , Zhao Zhiheng , Chen Peng 
Published: July 2021

AbstractAdsorption plays vital roles in many processes including catalysis, sensing, and nanomaterials design. However, quantifying molecular adsorption, especially at the nanoscale, is challenging, hindering the exploration of its utilization on nanomaterials that possess heterogeneity across different length scales. Here we map the adsorption of nonfluorescent small molecule/ion and polymer ligands on gold nanoparticles of various morphologies in situ under ambient solution conditions, in which these ligands are critical for the particles’ physiochemical properties. We differentiate at nanometer resolution their adsorption affinities among different sites on the same nanoparticle and uncover positive/negative adsorption cooperativity, both essential for understanding adsorbate-surface interactions. Considering the surface density of adsorbed ligands, we further discover crossover behaviors of ligand adsorption between different particle facets, leading to a strategy and its implementation in facet-controlled synthesis of colloidal metal nanoparticles by merely tuning the concentration of a single ligand.
Triadic embeddedness structure in family networks predicts mobile communication response to a sudden natural disaster
Authors: Jia Jayson S. , Li Yiwei , Lu Xin , Ning Yijian , Christakis Nicholas A. , Jia Jianmin 
Published: July 2021

AbstractKinship networks are a fundamental social unit in human societies, and like social networks in general, provide social support in times of need. Here, we investigate the impact of sudden environmental shock, the Ms 7.0 2013 Ya’an earthquake, on the mobile communications patterns of local families, which we operationalize using anonymized individual-level mobile telecommunications metadata from family plan subscribers of a major carrier (N = 35,565 people). We demonstrate that families’ communications dynamics after the earthquake depended on their triadic embeddedness structure, a structural metric we propose that reflects the number of dyads in a family triad that share social ties. We find that individuals in more embedded family structures were more likely to first call other family plan members and slower in calling non-family ties immediately after the earthquake; these tendencies were stronger at higher earthquake intensity. In the weeks after the event, individuals in more embedded family structures had more reciprocal communications and contacted more social ties in their broader social network. Overall, families that are structurally more embedded displayed higher levels of intra-family coordination and mobilization of non-family social connections.
Prediction of quality of life in early breast cancer upon completion of adjuvant chemotherapy
Authors: Carmona-Bayonas Alberto , Calderón Caterina , Hernández Raquel , Fernández Montes Ana , Castelo Beatriz , Ciria-Suarez Laura , Antoñanzas Mónica , Rogado Jacobo , Pacheco-Barcia Vilma , Asensio Martínez Elena , Ivars Alejandra , Ayala de la Peña Francisco , Jimenez-Fonseca Paula 
Published: July 2021

AbstractQuality of life (QoL) is a complex, ordinal endpoint with multiple conditioning factors. A predictive model of QoL after adjuvant chemotherapy can support decision making or the communication of information about the range of treatment options available. Patients with localized breast cancer (n = 219) were prospectively recruited at 17 centers. Participants completed the EORTC QLQ-C30 questionnaire. The primary aim was to predict health status upon completion of adjuvant chemotherapy adjusted for multiple covariates. We developed a Bayesian model with six covariates (chemotherapy regimen, TNM stage, axillary lymph node dissection, perceived risk of recurrence, age, type of surgery, and baseline EORTC scores). This model allows both prediction and causal inference. The patients with mastectomy reported a discrete decline on all QoL scores. The effect of surgery depended on the interaction with age. Women with ages on either end of the range displayed worse scores, especially with mastectomy. The perceived risk of recurrence had a striking effect on health status. In conclusion, we have developed a predictive model of health status in patients with early breast cancer based on the individual’s profile.
Sequential electrodeposition of Cu–Pt bimetallic nanocatalysts on boron-doped diamond electrodes for the simple and rapid detection of methanol
Authors: Traipop Surinya , Yakoh Abdulhadee , Jampasa Sakda , Chaiyo Sudkate , Boonyongmaneerat Yuttanant , Panpranot Joongjai , Praserthdam Piyasan , Chailapakul Orawon 
Published: July 2021

AbstractIn this work, a novel electrochemical sensor for methanol determination was established by developing a bimetallic catalyst with superiority to a monometallic catalyst. A Cu–Pt nanocatalyst was proposed and easily synthesized by sequential electrodeposition onto a boron-doped diamond (BDD) electrode. The successful deposition of this nanocatalyst was then verified by scanning electron microscopy and energy dispersive spectroscopy. The electrodeposition technique and sequence of metal deposition significantly affected the surface morphology and electrocatalytic properties of the Cu–Pt nanocatalyst. The presence of Cu atoms reduced the adsorption of other species on the Pt surface, consequently enhancing the long-term stability and poisoning tolerance of Pt nanocatalysts during the methanol oxidation process. This advanced sensor was also integrated with sequential injection analysis to achieve automated and high-throughput analysis. This combination can significantly improve the detection limit of the developed sensor by approximately 100 times compared with that of the cyclic voltammetric technique. The limit of detection of this sensor was 83 µM (S/N = 3), and wide linearity of the standard curve for methanol concentrations ranging from 0.1 to 1000 mM was achieved. Finally, this proposed sensor was successfully applied to detect methanol in fruit and vegetable beverage samples.
Expression profiling of the Dof gene family under abiotic stresses in spinach
Authors: Yu Hongying , Ma Yaying , Lu Yijing , Yue Jingjing , Ming Ray 
Published: July 2021

AbstractDNA-binding with one finger (Dof) are plant-specific transcription factors involved in numerous pathways of plant development, such as abiotic stresses responses. Although genome-wide analysis of Dof genes has been performed in many species, but these genes in spinach have not been analyzed yet. We performed a genome-wide analysis and characterization of Dof gene family in spinach (Spinacia oleracea L.). Twenty-two Dof genes were identified and classified into four groups with nine subgroups, which was further corroborated by gene structure and motif analyses. Ka/Ks analysis revealed that SoDofs were subjected to purifying selection. Using cis-acting elements analysis, SoDofs were involved in plant growth and development, plant hormones, and stress responses. Expression profiling demonstrated that SoDofs expressed in leaf and inflorescence, and responded to cold, heat, and drought stresses. SoDof22 expressed the highest level in male flowers and under cold stress. These results provided a genome-wide analysis of SoDof genes, their gender- and tissue-specific expression, and response to abiotic stresses. The knowledge and resources gained from these analyses will benefit spinach improvement.
Prevalence of cardiovascular risk factors, the use of statins and of aspirin in Takayasu Arteritis
Authors: Laurent Charlotte , Prieto-González Sergio , Belnou Pierre , Carrat Fabrice , Fain Olivier , Dellal Azeddine , Cid Maria C. , Hernández-Rodríguez José , Mekinian Arsène 
Published: July 2021

AbstractThe aim of this study was to assess the prevalence of cardiovascular risk factors in TAK, to describe the use of aspirin and statins and the risk factors associated with vascular ischemic complications and relapses. We conducted a retrospective study on TAK patients diagnosed between 2010 and 2018. Demographic, clinical, laboratory data and treatments were evaluated at diagnosis and during the follow-up. We included fifty-two TAK patients with median age 37.5 years [range 16–53] and 43 (83%) women. At diagnosis, cardiovascular risk factors were present in 32 (62%) patients: hypertension (n = 20, 38%), hyperlipidemia (n = 8, 15%), tobacco use (n = 16, 31%). During the median 4-year follow-up [range 0.1–17 years], 17 (33%) patients had at least one ischemic event and 15 (29%) patients needed endovascular procedure. Whereas TAK patients with cardiovascular risk factors were more frequently on statins and anti-hypertensive drugs, they have higher rates of cumulative ischemic complications (5 (24%) versus 21 (67%); p = 0.004), but similar rates of aspirin-treated patients. Patients who have developed vascular ischemic events were more frequently smokers (53% versus 20%; p = 0.03). The vascular complication-free survival was not significantly different in TAK patients with or without statins or aspirin at diagnosis. During the follow-up, 27 (52%) patients had at least one relapse, and the relapse-free survival was not significantly different in patients treated with statins or aspirin. Cardiovascular risk factors in TAK have to be strictly controlled since these risk factors could be associated with increased risk of ischemic complications.
Dumbbell configuration of silicon adatom defects on silicene nanoribbons
Authors: Huy Huynh Anh , Ho Quoc Duy , Tuan Truong Quoc , Le Ong Kim , Le Hoai Phuong Nguyen 
Published: July 2021

AbstractUsing density functional theory (DFT), we performed theoretical investigation on structural, energetic, electronic, and magnetic properties of pure armchair silicene nanoribbons with edges terminated with hydrogen atoms (ASiNRs:H), and the absorptions of silicon (Si) atom(s) on the top of ASiNRs:H. The calculated results show that Si atoms prefer to adsorb on the top site of ASiNRs:H and form the single- and/or di-adatom defects depending on the numbers. Si absorption defect(s) change electronic and magnetic properties of ASiNRs:H. Depending on the adsorption site the band gap of ASiNRs:H can be larger or smaller. The largest band gap of 1 Si atom adsorption is 0.64 eV at site 3, the adsorption of 2 Si atoms has the largest band gap of 0.44 eV at site 1-D, while the adsorption at sites5 and 1-E turn into metallic. The formation energies of Si adsorption show that adatom defects in ASiNRs:H are more preferable than pure ASiNRs:H with silicon atom(s). 1 Si adsorption prefers to be added on the top site of a Si atom and form a single-adatom defect, while Si di-adatom defect has lower formation energy than the single-adatom and the most energetically favorable adsorption is at site 1-F. Si adsorption atoms break spin-degeneracy of ASiNRs:H lead to di-adatom defect at site 1-G has the highest spin moment. Our results suggest new ways to engineer the band gap and magnetic properties silicene materials.
Endoplasmic reticulum phospholipid scramblase activity revealed after protein reconstitution into giant unilamellar vesicles containing a photostable lipid reporter
Authors: Mathiassen Patricia P. M. , Menon Anant K. , Pomorski Thomas Günther 
Published: July 2021

AbstractTransbilayer movement of phospholipids in biological membranes is mediated by a diverse set of lipid transporters. Among them are scramblases that facilitate a rapid bi-directional movement of lipids without metabolic energy input. Here, we established a new fluorescence microscopy-based assay for detecting phospholipid scramblase activity of membrane proteins upon their reconstitution into giant unilamellar vesicles formed from proteoliposomes by electroformation. The assay is based on chemical bleaching of fluorescence of a photostable ATTO-dye labeled phospholipid with the membrane-impermeant reductant sodium dithionite. We demonstrate that this new methodology is suitable for the study of the scramblase activity of the yeast endoplasmic reticulum at single vesicle level.
Difference in light use strategy in red alga between Griffithsia pacifica and Porphyridium purpureum
Authors: Xie Mingyuan , Li Wenjun , Lin Hanzhi , Wang Xiaoxiao , Dong Jianwen , Qin Song , Zhao Fuli 
Published: July 2021

AbstractPhycobilisomes (PBSs) are the largest light-harvesting antenna in red algae, and feature high efficiency and rate of energy transfer even in a dim environment. To understand the influence of light on the energy transfer in PBSs, two red algae Griffithsia pacifica and Porphyridium purpureum living in different light environment were selected for this research. The energy transfer dynamics in PBSs of the two red algae were studied in time-resolved fluorescence spectroscopy in sub-picosecond resolution. The energy transfer pathways and the related transfer rates were uncovered by deconvolution of the fluorescence decay curve. Four time-components, i.e., 8 ps, 94 ps, 970 ps, and 2288 ps were recognized in the energy transfer in PBSs of G. pacifica, and 10 ps, 74 ps, 817 ps and 1292 ps in P. purpureum. In addition, comparison in energy transfer dynamics between the two red algae revealed that the energy transfer was clearly affected by lighting environment. The findings help us to understand the energy transfer mechanisms of red algae for adaptation to a natural low light environment.
Unpalatable plants induce a species-specific associational effect on neighboring communities
Authors: Erfanian Mohammad Bagher , Memariani Farshid , Atashgahi Zohreh , Mesdaghi Mansour , Saeedi Maliheh , Darrudi Mojtaba , Hamedian Maliheh , Hosseini Saeede , Ejtehadi Hamid 
Published: July 2021

AbstractIn grazing conditions, unpalatable species may induce either associational defense or neighbor contrast susceptibility in neighboring communities. Using surveys from eight grasslands, we tested whether various unpalatable species have the same impacts on neighboring communities in response to grazing. The studied unpalatable species were: Phlomis cancellata (an unpalatable nonpoisonous plant), Euphorbia boissieriana, E.microsciadia (poisonous plants), and Seseli transcaucasicum (a highly poisonous plant). Our results showed that, in the ungrazed grasslands, communities containing P. cancellata had lower biodiversity than communities without it. In the moderately- and heavily grazed grasslands, P. cancellata induced associational defense in the neighboring communities. In heavily grazed grasslands, both Euphorbia species promoted neighbor contrast susceptibility in the neighboring communities. Similarly, S. transcaucasicum in a heavily grazed grassland, induced neighbor contrast susceptibility. Different responses of plant community vulnerability among the studied unpalatable plants might be due to herbivore different foraging decisions. Accordingly, grazers selectively choose from other patches when facing P. cancellata and other plant individuals when there is a poisonous plant in a patch. Our results suggested that grazing intensity may not substantially affect the foraging decisions of sheep and goats in response to unpalatable species. We recommend monitoring the abundance of poisonous species to maintain the sustainable use of grasslands.
CAD systems for colorectal cancer from WSI are still not ready for clinical acceptance
Authors: Oliveira Sara P. , Neto Pedro C. , Fraga João , Montezuma Diana , Monteiro Ana , Monteiro João , Ribeiro Liliana , Gonçalves Sofia , Pinto Isabel M. , Cardoso Jaime S. 
Published: July 2021

AbstractMost oncological cases can be detected by imaging techniques, but diagnosis is based on pathological assessment of tissue samples. In recent years, the pathology field has evolved to a digital era where tissue samples are digitised and evaluated on screen. As a result, digital pathology opened up many research opportunities, allowing the development of more advanced image processing techniques, as well as artificial intelligence (AI) methodologies. Nevertheless, despite colorectal cancer (CRC) being the second deadliest cancer type worldwide, with increasing incidence rates, the application of AI for CRC diagnosis, particularly on whole-slide images (WSI), is still a young field. In this review, we analyse some relevant works published on this particular task and highlight the limitations that hinder the application of these works in clinical practice. We also empirically investigate the feasibility of using weakly annotated datasets to support the development of computer-aided diagnosis systems for CRC from WSI. Our study underscores the need for large datasets in this field and the use of an appropriate learning methodology to gain the most benefit from partially annotated datasets. The CRC WSI dataset used in this study, containing 1,133 colorectal biopsy and polypectomy samples, is available upon reasonable request.
Effects of intracorneal ring segments implementation technique and design on corneal biomechanics and keratometry in a personalized computational analysis
Authors: Bagheri Niksa Mohammadi , Kadkhodaei Mahmoud , Pirhadi Shiva , Mosaddegh Peiman 
Published: July 2021

AbstractThe implementation of intracorneal ring segments (ICRS) is one of the successfully applied refractive operations for the treatment of keratoconus (kc) progression. The different selection of ICRS types along with the surgical implementation techniques can significantly affect surgical outcomes. Thus, this study aimed to investigate the influence of ICRS implementation techniques and design on the postoperative biomechanical state and keratometry results. The clinical data of three patients with different stages and patterns of keratoconus were assessed to develop a three-dimensional (3D) patient-specific finite-element model (FEM) of the keratoconic cornea. For each patient, the exact surgery procedure definitions were interpreted in the step-by-step FEM. Then, seven surgical scenarios, including different ICRS designs (complete and incomplete segment), with two surgical implementation methods (tunnel incision and lamellar pocket cut), were simulated. The pre- and postoperative predicted results of FEM were validated with the corresponding clinical data. For the pre- and postoperative results, the average error of 0.4% and 3.7% for the mean keratometry value ($$\text {K}_{\text{mean}}$$

K
mean

) were predicted. Furthermore, the difference in induced flattening effects was negligible for three ICRS types (KeraRing segment with arc-length of 355, 320, and two separate 160) of equal thickness. In contrast, the single and double progressive thickness of KeraRing 160 caused a significantly lower flattening effect compared to the same type with constant thickness. The observations indicated that the greater the segment thickness and arc-length, the lower the induced mean keratometry values. While the application of the tunnel incision method resulted in a lower $$\text {K}_{\text{mean}}$$

K
mean

value for moderate and advanced KC, the induced maximum Von Mises stress on the postoperative cornea exceeded the induced maximum stress on the cornea more than two to five times compared to the pocket incision and the preoperative state of the cornea. In particular, an asymmetric regional Von Mises stress on the corneal surface was generated with a progressive ICRS thickness. These findings could be an early biomechanical sign for a later corneal instability and ICRS migration. The developed methodology provided a platform to personalize ICRS refractive surgery with regard to the patient’s keratoconus stage in order to facilitate the efficiency and biomechanical stability of the surgery.
Life experience rather than domestication accounts for dogs’ increased oxytocin release during social contact with humans
Authors: Wirobski Gwendolyn , Range Friederike , Schaebs Franka S. , Palme Rupert , Deschner Tobias , Marshall-Pescini Sarah 
Published: July 2021

AbstractDogs’ increased human-directed sociability compared to wolves may be the result of increased oxytocin system activity and decreased stress responses, but comparative studies accounting for life experience are lacking. We compared hand-raised, pack-living wolves’ and dogs’ behavior and hormone concentrations after interacting with a closely bonded and a familiar human. Both preferred the bonded partner, but dogs showed less variability in human-directed sociability than wolves. Physical contact was not associated with oxytocin but correlated positively with glucocorticoids in the pack-living animals when the human was not bonded. To clarify the role of life experience, we tested pet dogs and found that oxytocin concentrations correlated positively with physical contact with their owners, while glucocorticoids remained unaffected. Results show that, given similar experiences, wolf-dog differences in human-directed sociability and associated hormones are subtle and indicate that factors related to life as a pet dog rather than domestication account for oxytocin release during human–dog interactions.