bluuebunny/crossref_metadata_2025_split huggingface dataset:
Validation of a novel smartphone-based photoplethysmographic method for ambulatory heart rhythm diagnostics: the SMARTBEATS study
Authors: Fernstad Jonatan , Svennberg Emma , Åberg Peter , Kemp Gudmundsdottir Katrin , Jansson Anders , Engdahl Johan 
Published: March 2024

Abstract

Aims
In the current guidelines, smartphone photoplethysmography (PPG) is not recommended for diagnosis of atrial fibrillation (AF), without a confirmatory electrocardiogram (ECG) recording. Previous validation studies have been performed under supervision in healthcare settings, with limited generalizability of the results. We aim to investigate the diagnostic performance of a smartphone-PPG method in a real-world setting, with ambulatory unsupervised smartphone-PPG recordings, compared with simultaneous ECG recordings and including patients with atrial flutter (AFL).

Methods and results
Unselected patients undergoing direct current cardioversion for treatment of AF or AFL were asked to perform 1-min heart rhythm recordings post-treatment, at least twice daily for 30 days at home, using an iPhone 7 smartphone running the CORAI Heart Monitor PPG application simultaneously with a single-lead ECG recording (KardiaMobile). Photoplethysmography and ECG recordings were read independently by two experienced readers. In total, 280 patients recorded 18 005 simultaneous PPG and ECG recordings. Sufficient quality for diagnosis was seen in 96.9% (PPG) vs. 95.1% (ECG) of the recordings (P &lt; 0.001). Manual reading of the PPG recordings, compared with manually interpreted ECG recordings, had a sensitivity, specificity, and overall accuracy of 97.7%, 99.4%, and 98.9% with AFL recordings included and 99.0%, 99.7%, and 99.5%, respectively, with AFL recordings excluded.

Conclusion
A novel smartphone-PPG method can be used by patients unsupervised at home to achieve accurate heart rhythm diagnostics of AF and AFL with very high sensitivity and specificity. This smartphone-PPG device can be used as an independent heart rhythm diagnostic device following cardioversion, without the requirement of confirmation with ECG.
Salmonella enterica serovar Typhimurium ST313 sublineage 2.2 has emerged in Malawi with a characteristic gene expression signature and a fitness advantage
Authors: Kumwenda Benjamin , Canals Rocío , Predeus Alexander V , Zhu Xiaojun , Kröger Carsten , Pulford Caisey , Wenner Nicolas , Lora Lizeth Lacharme , Li Yan , Owen Siân V , Everett Dean , Hokamp Karsten , Heyderman Robert S , Ashton Philip M , Gordon Melita A , Msefula Chisomo L , Hinton Jay C D 
Published: March 2024

Abstract
Invasive non-typhoidal Salmonella (iNTS) disease is a serious bloodstream infection that targets immune-compromised individuals, and causes significant mortality in sub-Saharan Africa. Salmonella enterica serovar Typhimurium ST313 causes the majority of iNTS in Malawi. We performed an intensive comparative genomic analysis of 608 S. Typhimurium ST313 isolates dating between 1996 and 2018 from Blantyre, Malawi. We discovered that following the arrival of the well-characterized S. Typhimurium ST313 lineage 2 in 1999, two multidrug-resistant variants emerged in Malawi in 2006 and 2008, designated sublineages 2.2 and 2.3, respectively. The majority of S. Typhimurium isolates from human bloodstream infections in Malawi now belong to sublineages 2.2 or 2.3. To understand the emergence of the prevalent ST313 sublineage 2.2, we studied two representative strains, D23580 (lineage 2) and D37712 (sublineage 2.2). The chromosome of ST313 lineage 2 and sublineage 2.2 only differed by 29 SNPs/small indels and a 3 kb deletion of a Gifsy-2 prophage region including the sseI pseudogene. Lineage 2 and sublineage 2.2 had distinctive plasmid profiles. The transcriptome was investigated in 15 infection-relevant in vitro conditions and within macrophages. During growth in physiological conditions that do not usually trigger S. Typhimurium SPI2 gene expression, the SPI2 genes of D37712 were transcriptionally active. We identified down-regulation of flagellar genes in D37712 compared with D23580. Following phenotypic confirmation of transcriptomic differences, we discovered that sublineage 2.2 had increased fitness compared with lineage 2 during mixed growth in minimal media. We speculate that this competitive advantage is contributing to the emergence of sublineage 2.2 in Malawi.
Reliability of Noninvasive Sonic Tomography for Detection and Quantification of Internal Defects in Yoshino Cherry
Authors: Lee Gwanggyu , Son Jiwon 
Published: March 2024

Abstract
Preventive maintenance through monitoring and early detection is important for trees that are structurally weak due to internal decay. Once internal decay has occurred, recovery of lost strength is irreversible. The decaying tree becomes vulnerable to external impacts, which may lead to breakage or windthrow. The Yoshino cherry (Cerasus×yedoensis (Matsum.) “Somei-yoshino”) accounts for a high proportion of landscape trees in Asia. Testing the reliability of noninvasive sonic tomography (SoT) to estimate internal defects could facilitate structural stability evaluation and proactive preventive management. We performed noninvasive SoT and invasive resistance microdrilling to detect and quantify internal defects in old and large Yoshino cherry trees. Generally, SoT reflected the areas and location of severe structural defects, showing a correlation with the resistance microdrilling results (R² = 0.542, p &lt; .001). However, when cracks were present in disks, the SoT overestimated defects and errors mainly observed in the transition zone (green). Based on these findings, when evaluating the SoT, careful decisions are needed to distinguish between actual defects and broad sonic shadows. Furthermore, additional evidence from drilling resistance is required to differentiate between incipient decay and cracks. The results of this study provide valuable insights for enhancing the interpretation of sonic tomograms.
Study Implications: We suggest defect boundaries in sonic tomograms should be redefined to improve the accuracy of interpretation for any new species being studied. Careful drilling resistance measurements should be taken, especially in transition zones (green areas in tomogram) and incipient decay zone (light brown areas). Noninvasive sonic tomograms only reflect acoustic properties of the tested cross-section of a tree and cannot be considered an actual representation of the internal conditions until the readings are calibrated to destructive sampling results.
Chromosome-level genome assembly of the European green woodpecker Picus viridis
Authors: Forest Thomas , Achaz Guillaume , Marbouty Martial , Bignaud Amaury , Thierry Agnès , Koszul Romain , Milhes Marine , Lledo Joanna , Pons Jean-Marc , Fuchs Jérôme 
Published: March 2024

Abstract
The European green woodpecker, Picus viridis, is a widely distributed species found in the Western Palearctic region. Here, we assembled a highly contiguous genome assembly for this species using a combination of short- and long-read sequencing and scaffolded with chromatin conformation capture (Hi-C). The final genome assembly was 1.28 Gb and features a scaffold N50 of 37 Mb and a scaffold L50 of 39.165 Mb. The assembly incorporates 89.4% of the genes identified in birds in OrthoDB. Gene and repetitive content annotation on the assembly detected 15,805 genes and a ∼30.1% occurrence of repetitive elements, respectively. Analysis of synteny demonstrates the fragmented nature of the P. viridis genome when compared to the chicken (Gallus gallus). The assembly and annotations produced in this study will certainly help for further research into the genomics of P. viridis and the comparative evolution of woodpeckers. Five historical and seven contemporary samples have been resequenced and may give insights on the population history of this species.
Separation of fast and slow shear waves and prediction of fracture parameters based on non-orthogonal assumptions
Authors: Luo Chuan , Yang Yuyong , Zhou Huailai , Wang Yuanjun 
Published: March 2024

SUMMARY
Natural fractures play a significant role in oil and gas reservoirs. Accurate predictions of fracture parameters are vital in reservoir prediction and oil and gas development. The birefringent phenomenon of shear waves in fractured media makes shear wave splitting (SWS) analysis an important tool in formulating fracture predictions. The traditional SWS analysis method is based on an orthogonal assumption of fast and slow shear waves. However, in an orthotropic medium composed of a background vertical transversely isotropic medium and a set of vertical fractures, fast and slow shear waves are not necessarily orthogonal. This causes the traditional SWS analysis method to fail. To solve this problem, we proposed an SWS analysis algorithm with a non-orthogonal assumption of fast and slow shear waves in this study. First, we introduced a parameter (difference angle) to characterize the angle between slow shear waves and the normal polarization directions of the fast shear waves. Subsequently, based on the traditional two-parameter scanning algorithm, a parameter was added to facilitate three-parameter scanning. In addition, we derived an expression for the two-parameter scanning objective function using the non-orthogonal assumption. Two-parameter scanning can accurately extract fast and slow wave time delay data, but it cannot determine an accurate fast shear wave polarization direction. Therefore, we optimized the three-parameter scanning algorithm as follows: first, we used two-parameter scanning to obtain the fast and slow wave time delays and then performed further scanning to determine the polarization direction of the fast shear wave and difference angle. The optimization algorithm significantly improved the computational efficiency. Subsequently, we tested the accuracy of this method using synthetic single-trace and three-component vertical seismic profile data. We demonstrated the implementation process of the three-parameter scanning method using actual data, separated fast and slow shear waves, and predicted fracture parameters. The final fracture parameters were verified.
Prospective Evaluation of Serum Free Thiols in Inflammatory Bowel Disease: A Candidate to Replace C-Reactive Protein for Disease Activity Assessment?
Authors: Bohra Anuj , Batt Nicholas , Dutt Krishneel , Sluka Pavel , Niewiadomski Olga , Vasudevan Abhinav , Van Langenberg Daniel R 
Published: March 2024

Abstract

Background
Serum free thiols (SFTs) reflecting oxidative stress appear to correlate with inflammatory bowel disease (IBD) activity. We aimed to evaluate the performance of SFTs concentrations vs endoscopic and histological activity, compare SFTs with established biomarkers, and identify clinical and laboratory parameters independently associated with SFT levels in IBD patients.

Methods
Patients with confirmed IBD undergoing routine ileocolonoscopy for activity assessment were prospectively recruited, with serum samples obtained concurrently for SFTs and routine bloods, plus fecal calprotectin and immunochemical tests were collected ±30 days from ileocolonoscopy. Endoscopic activity was assessed via established indices and histological activity graded as inactive/mild/moderate. Receiver-operating characteristic curve analyses were utilized to assess performance of SFTs vs endoscopic activity, and multiple regression analysis was used to identify factors associated with SFT levels.

Results
A total of 141 (80 Crohn’s disease, 61 ulcerative colitis) patients were recruited. Median SFTs were significantly lower in moderate vs inactive/mild endoscopic activity (309 µM vs 433/471 µM, respectively; P &lt; .01). There was no significant difference in median SFTs across inactive/mild/moderate histological activity. SFTs achieved higher sensitivity than C-reactive protein in predicting moderate, endoscopically active disease (89% vs 78%; area under the curve, 0.80 each) yet was outperformed by fecal calprotectin (100%; area under the curve, 0.93). Advancing age and increasing albumin levels were independently associated with SFT levels, and thus are possible confounders.

Conclusions
This prospective study has demonstrated the potential of SFTs as a serum biomarker in IBD. It was more sensitive than C-reactive protein, yet less sensitive than fecal biomarkers for prediction of endoscopically active IBD.
Eradication of Staphylococcus aureus in Implant-Associated Osteomyelitis by an Injectable In Situ-Forming Depot Antibiotics Delivery System
Authors: Fuglsang-Madsen Albert Juan , Henriksen Nicole Lind , Chávez Elizabeth Serrano , Kvich Lasse Andersson , Birch Julie Knippel Melsted , Hartmann Katrine Top , Eriksen Thomas , Bjarnsholt Thomas , Gottlieb Hans , Andresen Thomas Lars , Jensen Louise Kruse , Henriksen Jonas Rosager , Hansen Anders Elias 
Published: March 2024

Abstract

Background
Bone infections with Staphylococcus aureus are notoriously difficult to treat and have high recurrence rates. Local antibiotic delivery systems hold the potential to achieve high in situ antibiotic concentrations, which are otherwise challenging to achieve via systemic administration. Existing solutions have been shown to confer suboptimal drug release and distribution. Here we present and evaluate an injectable in situ-forming depot system termed CarboCell. The CarboCell technology provides sustained and tuneable release of local high-dose antibiotics.

Methods
CarboCell formulations of levofloxacin or clindamycin with or without antimicrobial adjuvants cis-2-decenoic acid or cis-11-methyl-2-dodecenoic acid were tested in experimental rodent and porcine implant-associated osteomyelitis models. In the porcine models, debridement and treatment with CarboCell-formulated antibiotics was carried out without systemic antibiotic administration. The bacterial burden was determined by quantitative bacteriology.

Results
CarboCell formulations eliminated S. aureus in infected implant rat models. In the translational implant-associated pig model, surgical debridement and injection of clindamycin-releasing CarboCell formulations resulted in pathogen-free bone tissues and implants in 9 of 12 and full eradication in 5 of 12 pigs.

Conclusions
Sustained release of antimicrobial agents mediated by the CarboCell technology demonstrated promising therapeutic efficacy in challenging translational models and may be beneficial in combination with the current standard of care.
CsiR-Mediated Signal Transduction Pathway in Response to Low Iron Conditions Promotes Escherichia coli K1 Invasion and Penetration of the Blood-Brain Barrier
Authors: Zheng Yangyang , Sun Hao , Wang Yanling , Jin Chen , Li Xiaoya , Pang Yu , Ge Qianwen , Wang Lei , Liu Bin 
Published: March 2024

Abstract
Escherichia coli K1 is the leading cause of neonatal gram-negative bacterial meningitis, but the pathogenesis of E coli K1 meningitis remains unclear. Blood-brain barrier (BBB) penetration is a crucial step in E coli meningitis development. Here, we uncovered the crucial role of CsiR, a GntR family regulator, in E coli K1 virulence. During infection, csiR expression was induced due to the derepression by Fur in the blood and human brain microvascular endothelial cells (HBMECs). CsiR positively regulated ilvB expression, which is associated with branched chain amino acid synthesis. Furthermore, we revealed that IlvB activated the FAK/PI3K pathway of HBMECs to induce actin cytoskeleton rearrangements, thereby promoting the bacterial invasion and penetration of the BBB. Overall, this study reveals a CsiR-mediated virulence regulation pathway in E coli K1, which may provide a useful target for the prevention or therapy of E coli meningitis.
Dryland microbiomes reveal community adaptations to desertification and climate change
Authors: Coleine Claudia , Delgado-Baquerizo Manuel , DiRuggiero Jocelyne , Guirado Emilio , Harfouche Antoine L , Perez-Fernandez Cesar , Singh Brajesh K , Selbmann Laura , Egidi Eleonora 
Published: March 2024

Abstract
Drylands account for 45% of the Earth’s land area, supporting ~40% of the global population. These regions support some of the most extreme environments on Earth, characterized by extreme temperatures, low and variable rainfall, and low soil fertility. In these biomes, microorganisms provide vital ecosystem services and have evolved distinctive adaptation strategies to endure and flourish in the extreme. However, dryland microbiomes and the ecosystem services they provide are under threat due to intensifying desertification and climate change. In this review, we provide a synthesis of our current understanding of microbial life in drylands, emphasizing the remarkable diversity and adaptations of these communities. We then discuss anthropogenic threats, including the influence of climate change on dryland microbiomes and outline current knowledge gaps. Finally, we propose research priorities to address those gaps and safeguard the sustainability of these fragile biomes.
Slightly acidic electrolyzed water significantly restrains the accumulation of the microalgae Pseudokirchneriella subcapitata in hydroponic systems
Authors: Wu Cuinan , Li Yuanyuan , Wu Xue , Bao Encai , Ye Lin , Cao Kai 
Published: March 2024

Abstract

Aims
This study explored the effects of slightly acidic electrolyzed water (SAEW) on algae to exploit technologies that effectively suppress algal growth in hydroponic systems and improve crop yield.

Methods and Results
The effects of SAEW on algal growth and the response mechanisms of algae to SAEW were investigated. Moreover, we studied whether the application of SAEW adversely affected tomato seedling growth. The results showed that SAEW significantly inhibited algal growth and destroyed the integrity of the algal cells. In addition, the intracellular oxidation−reduction system of algae was greatly influenced by SAEW. The H2O2, O2−, malondialdehyde (MDA), and reactive oxygen species (ROS) fluorescence signals were significantly induced by SAEW, and superoxide dismutase (SOD), peroxidase (POD), and glutathione reductase (GR) activities were greatly enhanced by a low SAEW concentration but significantly inhibited by SAEW with a high available chlorine concentration, which may contribute to heavy oxidative stress on algal growth and cell structure break down, eventually causing the death of algae and cell number decrease. We also found that regardless of the concentration of SAEW (from 10 to 40 mg L−1), there was no significant change in the germination index, length, or fresh weight of the hydroponic tomato seedlings.

Conclusions
Our findings demonstrate that SAEW can be used in hydroponic systems to restrain algae with no negative impact on tomato plants.
Estradiol induces bone osteolysis in triple–negative breast cancer via its membrane–associated receptor ERα36
Authors: Cohen D Joshua , Dennis Cydney D , Deng Jingyao , Boyan Barbara D , Schwartz Zvi 
Published: March 2024

Abstract
Triple–negative breast cancer (TNBC) is thought to be an estradiol–independent, hormone therapy–resistant cancer because of lack of estrogen receptor alpha 66 (ERα66). We identified a membrane–bound splice variant, ERα36, in TNBC cells that responds to estrogen (E2) and may contribute to bone osteolysis. We demonstrated that the MDA-MB-231 TNBC cell line, which expresses ERα36 similarly to MCF7 cells, is responsive to E2, forming osteolytic tumors in vivo. MDA-MB-231 cells activate osteoclasts in a paracrine manner. Conditioned media (CM) from MDA-MB-231 cells treated with bovine serum albumin–bound E2 (E2-BSA) increased activation of human osteoclast precursor cells; this was blocked by addition of anti–ERα36 antibody to the MDA-MB-231 cultures. Osteoclast activation and bone resorption genes were elevated in RAW 264.7 murine macrophages following treatment with E2-BSA–stimulated MDA-MB-231 CM. E2 and E2-BSA increased phospholipase C (PLC) and protein kinase C (PKC) activity in MDA-MB-231 cells. To examine the role of ERα36 signaling in bone osteolysis in TNBC, we used our bone–cancer interface mouse model in female athymic homozygous Foxn1nu mice. Mice with MDA-MB-231 tumors and treated with tamoxifen (TAM), E2, or TAM/E2 exhibited increased osteolysis, cortical bone breakdown, pathologic fracture, and tumor volume; the combined E2/TAM group also had reduced bone volume. These results suggest that E2 increased osteolytic lesions in TNBC through a membrane–mediated PLC/PKC pathway involving ERα36, which was enhanced by TAM, demonstrating the role of ERα36 and its membrane–associated signaling pathway in bone tumors. This work suggests that ERα36 may be a potential therapeutic target in patients with TNBC.
‘Learned Perception’ as a Form of ‘Religious Experience’: Jīva Gosvāmin’s Vaiduṣa-pratyakṣa
Authors: Uskokov Aleksandar 
Published: March 2024

Abstract:
This article interprets the religious epistemology of the Caitanya Vaiṣṇava theologian Jīva Gosvāmin, specifically his division of perception in ‘learned’ and ‘ignorant’, to argue that ‘learned’ perception is supersensible cognitive experience shaped by learning and language. The article goes on to show that the contemporary scholarship on religious experience can learn an important lesson from Jīva’s epistemology, namely that the social construction of categories that shape religious experience need not involve ontological agnosticism with respect to the existence of objects presented in it.
A variable neighbourhood search for minimization of operation times through warehouse layout optimization
Authors: Díaz Jon , Rodriguez Haizea , Fajardo-Calderín Jenny , Angulo Ignacio , Onieva Enrique 
Published: March 2024

Abstract
For companies involved in the supply chain, proper warehousing management is crucial. Warehouse layout arrangement and operation play a critical role in a company’s ability to maintain and improve its competitiveness. Reducing costs and increasing efficiency are two of the most crucial warehousing goals. Deciding on the best warehouse layout is a remarkable optimization problem. This paper uses an optimization method to set bin allocations within an automated warehouse with particular characteristics. The warehouse’s initial layout and the automated platforms limit the search and define the time required to move goods within the warehouse. With the help of historical data and the definition of the time needed to move goods, a mathematical model of warehouse operation was created. An optimization procedure based on the well-known Variable Neighbourhood Search algorithm is defined and applied to the problem. Experimental results demonstrate increments in the efficiency of warehousing operations.