bluuebunny/crossref_metadata_2025_split huggingface dataset:
Vibrio alginolyticusis the pathogen of ‘Baotou’ disease causing serious damage toGracilariopsis lemaneiformiscultivation in China
Authors: Pang Tong , Wang Feng , Guo Qunqun , Zhang Mengjie , Sun Yuanyuan , Liu Jianguo 
Published: August 2024

AbstractGracilariopsis lemaneiformisandSaccharina japonica, the two very important cultivated economic seaweeds, are often co-cultured in China due to their growth periods overlapped for about 3 months. These two seaweeds are often plagued with bleaching diseases during their high-density commercial cultivation. In recent years, a disease called ‘Baotou’ has been causing large-scale yield reductions ofG. lemaneiformisin China. Interestingly,Vibrio alginolyticusonce reported to be beneficial toS. japonicaby reducing the bleaching disease risk, was strongly proved to be the pathogen causing ‘Baotou’ disease in this study. Analysis of 16S rRNA gene profiling revealed thatV. alginolyticuswas the most abundant and dominant bacterium on the algal thalli suffering from ‘Baotou’ disease, whereas its presence was scarcely detected on healthy thalli. Scanning electron microscope (SEM) analysis revealed that a large number ofV. alginolyticuscells were found to be attached to the algal thalli with ‘Baotou’ disease and the rotten thalli acquired by the lab infection treatment.V. alginolyticuscould cause the rotten symptoms which were consistent with those of ‘Baotou’ disease. According to Koch’s postulates,V. alginolyticuswas identified as the pathogen causing ‘Baotou’ disease.IMPORTANCEA highly contagious disease known as ‘Baotou’ disease has persistently triggered significant yield reductions inG. lemaneiformisthroughout China. The pathogen of ‘Baotou’ disease was isolated and identified asV. alginolyticuswhich was once reported to be beneficial toS. japonicaby reducing the bleaching disease risk. The study indicates thatV. alginolyticusis closely involved in the competition or co-existence betweenG. lemaneiformisandS. japonicaco-cultured in China, and provides a novel perspective and evidence that bacteria are closely involved in the competition or co-existence among different species of seaweeds that grow together.
Cargo quantification of functionalized DNA origami for therapeutic application
Authors: Young Olivia J. , Dembele Hawa , Rajwar Anjali , Kwon Ick Chan , Ryu Ju Hee , Shih William M. , Zeng Yang C. 
Published: August 2024

AbstractIn recent years, notable advances in nanotechnology-based drug delivery have emerged. A particularly promising platform in this field is DNA origami-based nanoparticles, which offer highly programmable surfaces, providing precise control over the nanoscale spacing and stoichiometry of various cargo. These versatile particles are finding diverse applications ranging from basic molecular biology to diagnostics and therapeutics. This growing interest creates the need for effective methods to quantify cargo on DNA origami nanoparticles. Our study consolidates several previously validated methods focusing on gel-based and fluorescence-based techniques, including multiplexed quantification of protein, peptide, and nucleic acid cargo on these nanoparticles. This work may serve as a valuable resource for groups researchers keen on utilizing DNA origami-based nanoparticles in therapeutic applications.Graphical abstract
Non-spatial hippocampal behavioral timescale synaptic plasticity during working memory is gated by entorhinal inputs
Authors: Dorian Conor C. , Taxidis Jiannis , Golshani Peyman 
Published: August 2024

ABSTRACTBehavioral timescale synaptic plasticity (BTSP) is a form of synaptic potentiation where the occurrence of a single large plateau potential in CA1 hippocampal neurons leads to the formation of reliable place fields during spatial learning tasks. We asked whether BTSP could also be a plasticity mechanism for generation of non-spatial responses in the hippocampus and what roles the medial and lateral entorhinal cortex (MEC and LEC) play in driving non-spatial BTSP. By performing simultaneous calcium imaging of dorsal CA1 neurons and chemogenetic inhibition of LEC or MEC while mice performed an olfactory working memory task, we discovered BTSP-like events which formed stable odor-specific fields. Critically, the success rate of calcium events generating a significant odor-field increased with event amplitude, and large events exhibited asymmetrical formation with the newly formed odor-fields preceding the timepoint of their induction event. We found that MEC and LEC play distinct roles in modulating BTSP: MEC inhibition reduced the frequency of large calcium events, while LEC inhibition reduced the success rate of odor-field generation. Using two-photon calcium imaging of LEC and MEC temporammonic axons projecting to CA1, we found that LEC projections to CA1 were strongly odor selective even early in task learning, while MEC projection odor-selectivity increased with task learning but remained weaker than LEC. Finally, we found that LEC and MEC inhibition both slowed representational drift of odor representations in CA1 across 48 hours. Altogether, odor-specific information from LEC and strong odor-timed activity from MEC are crucial for driving BTSP in CA1, which is a synaptic plasticity mechanism for generation of both spatial and non-spatial responses in the hippocampus that may play a role in explaining representational drift and one-shot learning of non-spatial information.
Complete Chloroplast Genome Sequence and Phylogenetic Analysis ofCamellia sinensissp. Baihaozao
Authors: Chen Zhiyin , Zhu Youpeng , He Zhiming , Li Hongyu , Huang Jing , Gong Yihui 
Published: August 2024

AbstractBaihaozao (Camellia sinensissp. Baihaozao) is esteemed in the domain of tea plant cultivation for its early harvest period, profusion of bud trichomes, and exceptional suitability for tea processing. Nevertheless, the intricate phylogenetic relationships among species within this genus remain ambiguous, primarily due to the limited availability of genomic data. This study endeavors to comprehensively investigate the genomic resources of Baihaozao by sequencing, assembling, and annotating its entire chloroplast (cp) genome. The sequencing results indicated that the total length of the Baihaozao cp genome is 157,052 base pairs (bp), with an overall guanine-cytosine (GC) content of 37.30%. The genome exhibits a typical quadripartite structure, consisting of a large single-copy region (LSC) of 86,586 bp, a small single-copy region (SSC) of 18,227 bp, and a pair of inverted repeats (IRs) totaling 52,162 bp. A total of 133 genes were identified within this genome, including 8 ribosomal RNA (rRNA) genes, 37 transfer RNA (tRNA) genes, 87 protein-coding genes, and 1 pseudogene. Furthermore, the study identified 157 simple sequence repeats (SSRs) and 90 long repeat sequences. Analysis of codon usage bias indicated that codons encoding leucine (Leu) were the most frequently utilized, whereas those encoding cysteine (Cys) were the least utilized. Examination of nucleotide diversity within the Baihaozao cp genome revealed five highly variable regions with elevated Pi values (rps19,rpl32,ndhF,rpl22,matK), suggesting their potential utility as molecular markers. Phylogenetic analysis of 20 cp genomes of the Theaceae family indicated a close evolutionary relationship between Baihaozao andCamellia sinensisOL450428.1. This study not only provides valuable data support for elucidating the maternal origin of cultivated Camellia species but also holds significant scientific implications for further exploring the phylogenetic relationships and germplasm resource utilization of Camellia plants.
Synergistic Cytotoxicity of Permethrin and N,N-Diethyl-Meta-Toluamide on Sinonasal Epithelial Cells
Authors: Lee Jivianne T. , Basak Saroj K. , Yang Hong-Ho , Sullivan Kimberly A. , Maxim Tom , Shin Daniel S. , Klimas Nancy , Srivatsan Eri S. 
Published: August 2024

ABSTRACTBackgroundN,N-Diethyl-Meta-Toluamide (DEET) and permethrin are pesticides commonly used in combination due to their synergistic insecticidal and repellent properties. This study investigates whether simultaneous exposure to these compounds elicits synergistic cytotoxicity in sinonasal epithelial cells (SNECs).Material and MethodsEthmoid sinus mucosal specimens were procured from eight patients during endoscopic sinus surgery. SNECs were expanded on culture plates and exposed to various concentrations of DEET and permethrin (0-5μm), individually and concurrently, for up to 156 hours. Experiments were replicated in triplicates and cell viability was recorded every 2 hours usingIncuCytereal-time cell imaging system. Synergy score was calculated on the basis of Loewe additivity synergy finder model.ResultsDEET and permethrin exhibited synergistic cytotoxicity across all eight tissues, albeit with variations in onset and magnitude. Peak synergy was observed at 144h for tissue 1 (SLoewe4.2, 95% CI 1.8-7.3; [permethrin concentration, DEET concentration] [2.5μM, 1.25μM]), 48h for tissue 2 (19.9, 16.5-23.6; [1.25, 0.625]), 144h for tissue 3 (15.2, 3.9-30.4; [0.625, 1.25]), 144h for tissue 4 (6.4, −3.6 to 18.0; [0.625, 0.625]), 48h for tissue 5 (10.1, 8.9-12.5; [0.625, 1.25]), 96h for tissue 6 (24.7, 12.2-36.3; [0.625, 0.625]), 48h for tissue 7 (47.7, 29.6-62.2; [0.625, 1.25]), and 96h for 8 (47.4, 26.8-67.0; [0.625, 0.625]).ConclusionThe concurrent exposure of DEET and permethrin can lead to synergistic cytotoxicity in sinonasal epithelia. Further research is warranted in preclinical animal models to explore whether this synergy accelerates the pathogenesis of chronic rhinosinusitis.
Parallel networks to predict TIMP and protease cell activity of Nucleus Pulposus cells exposed and not exposed to pro-inflammatory cytokines
Authors: Baumgartner L. , Witta S. , Noailly J. 
Published: August 2024

AbstractBackgroundIntervertebral disc (IVD) degeneration is characterized by a disruption of the balance between anabolic and catabolic cellular processes. Within the Nucleus Pulposus (NP), this involves increased levels of the pro-inflammatory cytokines Interleukin 1beta (IL1B) and Tumor Necrosis Factor (TNF) and an upregulation of the protease families MMP and ADAMTS. Primary inhibitors of those proteases are the tissue inhibitors of matrix metalloproteinases (TIMP). This work aims at contributing to a better understanding of the dynamics among proteases, TIMP and proinflammatory cytokines within the complex, multifactorial environment of the NP.MethodsThe Parallel Network (PN)-Methodology was used to estimate relative mRNA expressions of TIMP1-3, MMP3 and ADAMTS4 for five simulated human activities; walking, sitting, jogging, hiking with 20 kg extra weight, and exposure to high vibration. Simulations were executed for nutrient conditions in non- and early-degenerated IVD approximations. To estimate the impact of cytokines, the PN-Methodology inferred relative protein levels for IL1B and TNF, re-integrated as secondary stimuli into the network.ResultsTIMP1 and TIMP2 expression were found to be overall lower than TIMP3 exp. In absence of pro-inflammatory cytokines, MMP3 and/or ADAMTS4 expression were strongly downregulated in all conditions but vibration and hiking with extra weight. Pro-inflammatory cytokine exposure resulted in an impaired inhibition of MMP3, rather than of ADAMTS4, progressively rising with increasing nutrient deprivation. TNF mRNA was less expressed than IL1B. However, at the protein level, TNF was mainly responsible for the catabolic shift in the simulated pro-inflammatory environment. Overall, results agreed with previous experimental findings.ConclusionsThe PN-Methodology successfully allowed the exploration of the relative dynamics of TIMP and protease regulations in different mechanical, nutritional, and inflammatory environments, in the NP. It shall stand for a comprehensive tool to integrate in vitro model results in IVD research and approximate NP cell activities in complex multifactorial environments.
Phylodynamics beyond neutrality: The impact of incomplete purifying selection on viral phylogenies and inference
Authors: Koelle Katia , Rasmussen David A. 
Published: August 2024

AbstractViral phylodynamics focuses on using sequence data to make inferences about the population dynamics of viral infectious diseases. These inferences commonly include estimation of the viral growth rate, the reproduction number, and the time of most recent common ancestor. With few exceptions, existing phylodynamic inference approaches assume that all observed and ancestral viral genetic variation is fitness-neutral. This assumption is violated more often than not, with a large body of analyses indicating that fitness varies substantially among genotypes circulating viral populations. Here, we focus specifically on fitness variation arising from deleterious mutations, asking whether incomplete purifying selection of deleterious mutations has the potential to bias phylodynamic inference. We use simulations of an exponentially growing population to explore how incomplete purifying selection distorts tree shape as well as how it shifts the distribution of non-neutral mutations over trees. Consistent with previous results, we find that incomplete purifying selection strongly shapes the distribution of mutations while only weakly impacting tree shape. Despite incomplete purifying selection shifting the distribution of mutations, we find little discernible bias in estimates of the viral growth rate and times of the most recent common ancestor. Our results reassuringly indicate that existing phylodynamic inference approaches may not yield biased epidemiological parameter estimates in the face of incomplete purifying selection, although more work is needed to assess the generalizability of these findings.
Evidence for recruitment-mediated decline in an Eastern box turtle (Terrapene carolina carolina) population based on a 30-year capture-recapture data set from Maryland
Authors: Royle J. Andrew , Quinlan Michael M. , Swarth Christopher W. 
Published: August 2024

AbstractThe Eastern box turtle (Terrapene carolina carolina) population at the Jug Bay Wetlands Sanctuary, Lothian, MD has been monitored continuously for 29 years (1995-2023). We used open population capture-recapture models (Jolly-Seber) to estimate annual population size, survival probability, and recruitment rate. The model allows for unknown sex of individuals and includes information on individuals found dead. Our analysis documents a long-term decline of approximately 67% in box turtle population size at the Sanctuary over this nearly three-decade period. We estimate annual survival for both males and females, which does not show a systematic increase or decrease over time, averaging about 0.90 (95% CI: 0.86, 0.93) for females and 0.97 (95% CI: 0.94, 0.98) for males. Conversely, per-capita recruitment shows a marked decline over the first 15 years of the record, suggesting that population declines may be due to reduced recruitment. Conservation efforts for the species could benefit from a formal population viability analysis to understand the relative effects of survival and recruitment on changes in population size for this long-lived species.
Weak-inertial effects on destabilized receding contact lines
Authors: Varma Akhil 
Published: August 2024

It is known that, beyond a critical speed, the straight contact line of a partially -wetting liquid destabilizes into a corner. One of the earliest theoretical works exploring this phenomenon [Limat and Stone, ] elicited a self-similar conical structure of the interface in the viscous regime. However, noting that inertia is not expected to be negligible at contact line speeds close to and beyond the critical value for many common liquids, we provide the leading-order inertial correction to their solution. In particular, we find the self-similar corrections to the interface shape as well as the flow field, and also determine their scaling with the capillary number. We find that inertia invariably modifies the interface into a cusplike shape with an increased film thickness. Furthermore, when incorporating contact line dynamics into the model, resulting in a narrowing of the corner as the contact line speed increases, we still observe an overall increase in the inertial contribution with speed despite the increased confinement.

Published by the American Physical Society
2024
Enumeration of Spin-Space Groups: Toward a Complete Description of Symmetries of Magnetic Orders
Authors: Jiang Yi , Song Ziyin , Zhu Tiannian , Fang Zhong , Weng Hongming , Liu Zheng-Xin , Yang Jian , Fang Chen 
Published: August 2024

Symmetries of three-dimensional periodic scalar fields are described by 230 space groups (SGs). Symmetries of three-dimensional periodic (pseudo)vector fields, however, are described by the spin-space groups (SSGs), which were initially used to describe the symmetries of magnetic orders. In SSGs, the real-space and spin degrees of freedom are unlocked in the sense that an operation could have different spatial and spin rotations. SSGs give a complete symmetry description of magnetic structures and have natural applications in the band theory of itinerary electrons in magnetically ordered systems with weak spin-orbit coupling. , a concept raised recently that belongs to the symmetry-compensated collinear magnetic orders but has nonrelativistic spin plitting, is well described by SSGs. Because of the vast number and complicated group structures, SSGs have not yet been systematically enumerated. In this work, we exhaust SSGs based on the invariant subgroups of SGs, with spin operations constructed from three-dimensional (3D) real representations of the quotient groups for the invariant subgroups. For collinear and coplanar magnetic orders, the spin operations can be reduced into lower-dimensional real representations. As the number of SSGs is infinite, we consider only SSGs that describe magnetic unit cells up to 12 times crystal unit cells. We obtain 157 289 noncoplanar, 24 788 coplanar-noncollinear, and 1421 collinear SSGs. The enumerated SSGs are stored in an online database with a user-friendly interface. We develop an algorithm to identify SSGs for realistic materials and find SSGs for 1626 magnetic materials. We also discuss several potential applications of SSGs, including the representation theory, topological states protected by SSGs, structures of spin textures, and refinement of magnetic neutron diffraction patterns using SSGs. Our results serve as a solid starting point for further studies of symmetry and topology in magnetically ordered materials.

Published by the American Physical Society
2024
Decentralisation as a marketing strategy for archival services in Zimbabwe
Authors: Sigauke Oscar , Mutsagondo Samson , Sibanda Munyika 
Published: August 2024

Purpose
Archival institutions must make their holdings and services known to the public to ensure increased usage. It is the obligation of archival institutions to adopt strategies to market their services to increase the usage of their holdings. Therefore, this study aims to assess the National Archives of Zimbabwe’s (NAZ) decentralisation drive as a strategy to market its archival services.

Design/methodology/approach
The multiple case study research design, which is interpretive and qualitative, was used for the study. The study used interviews, questionnaires and document review as data collection tools. The collected data were presented, analysed and discussed using the thematic data analysis approach.

Findings
Findings revealed that the NAZ decentralised provincial records centres were actively involved in the marketing of archival services offered by the NAZ. The study also established that the decentralised provincial records centres perform activities such as records surveys, training, oral history, issuance of brochures, guided tours and career guidance, which increase their interactions with communities they serve. The decentralised offices took advantage of these interactions to market archival services offered by the NAZ.

Originality/value
The study illustrated that decentralisation of archival institutions and services to the lower tiers of government is a powerful strategy for the marketing of archival services. Therefore, there is need for archival institutions to adopt or enhance the use of this strategy to increase the usage of archives.
COVID-19 school closures in Latin America: untangling approaches impacting student health and wellbeing
Authors: Torres Irene , Kloft Samantha , Kumar Muskan , Santosh Amita , Pinto-Alvarez Mariana , López-Cevallos Daniel F. 
Published: August 2024

PurposeThis study compared approaches to school closures in four Latin American countries (Bolivia, Colombia, Ecuador, Peru), describing the impact on the health and educational wellbeing of school-age children and youth, and evaluating their approaches in regard to continuing education through the pandemic.Design/methodology/approachWe collected 75 publicly available documents including scientific and gray literature (government documents and news releases), that referred to school closures and their impact on children’s health and wellbeing. We did thematic analyses using open, axial, and selective coding and applied the latest Health Promoting Schools standards and indicators to the findings.FindingsResults showed that countries followed epidemiological reasons for prioritizing school closures while adopting some policies that abide by Health Promoting School principles. While they emphasized the need to reopen schools so that instruction could continue, school closures were among the longest in the world. The most significant impacts on wellbeing identified in the four countries were related to food security and mental health.Research limitations/implicationsThis study focused on a particular set of documents, and it may not capture the full spectrum of relevant information in different contexts or regions.Practical implicationsBy comparing school closures approaches among four Latin American countries, this study highlights the importance of context-specific interventions. In a post-pandemic era, lessons learned from these experiences should help foster more resilient and inclusive educational systems and explore the paths forward for following the new Health Promoting Schools framework in the region.Originality/valueCross-country qualitative analyses on this topic are rare. This study adds to the knowledge base by eliciting lessons for future health education research and policy efforts.
Climate-smart agricultural practices and its implication in Ethiopia: a systematic review
Authors: Tariku Getasew Daru , Kebede Sinkie Alemu 
Published: August 2024

Purpose
The purpose of this paper is to assess the adoption of climate-smart agriculture (CSA) and its implication on improving the farming household food security status, their resilience and livelihood risk management of farmers.

Design/methodology/approach
This systematic review has followed procedures to accomplish the review, including literature searches, screening studies, data extraction, synthesis and presentation of the data.

Findings
Based on the result of the review, the determinants of CSA adoption can be categorized into five categories, including demographic factors (age, sex, family size, dependency ratio, education), economic factors (land size, household income, livestock ownership), institutional factors (extension services, training access, credit services, farm input, market distance), environmental factors (agroecology, change in precipitation, slope of land) and social factors (cooperatives membership, farmers perception). The result also shows that applying CSA practices has an indispensable role on increasing productivity, food security, income, building resilient livelihoods, minimizing production risk and alleviating poverty. This concluded CSA practice has a multidimensional role in the livelihood of agrarian population like Ethiopia, yet its adoption was constrained by several factors.

Originality/value
This review mainly emphasizes on the most commonly practiced CSA strategies that are examined by different scholars.