bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transcription Factors DksA and PsrA are synergistic contributors toL. pneumophilavirulence inAcanthamoeba castellaniiprotozoa
Authors: Graham Christopher I. , Gierys Andrew J. , MacMartin Teassa L. , Penner Tiffany V. , Beck Jordan C. , Prehna Gerd , de Kievit Teresa R. , Brassinga Ann Karen C. 
Published: July 2024

AbstractThe environmental bacteriumLegionella pneumophila, an intracellular parasite of free-living freshwater protozoa as well as an opportunistic human pathogen, has a biphasic lifestyle. The switch from the vegetative replicative form to the environmentally resilient transmissive phase form is governed by a complex stringent response-based regulatory network that includes RNA polymerase co-factor DksA. Here we report that, through a dysfunctional DksA mutation (DksA1), a synergistic interplay was discovered between DksA and transcription regulator PsrA using theAcanthamoeba castellaniiprotozoan infection model. Surprisingly,in transexpression of PsrA partially rescued the growth defect of adksA1strain. Whilein transexpression of DksA expectantly could fully rescued the growth defect of thedksA1strain, it could also surprisingly rescue the growth defect of a ΔpsrAstrain. Conversely, the severe intracellular growth defect of a ΔdksAstrain could be rescued byin transexpression of DksA and DksA1, but not PsrA.In vitrophenotypic assays show that either DksA or DksA1 were required for extended culturability of bacterial cells, but normal cell morphology and pigmentation required DksA only.Comparative structural modeling predicts that the DksA1 mutation affects coordination of Mg2+into the active site of RNAP compromising transcription efficiency. Taken together, we propose that PsrA transcriptionally assists DksA in the expression of select transmissive phase traits.Additionally,in vitroevidence suggests that the long chain fatty chain metabolic response is mediated by PsrA together with DksA inferring a novel regulatory link to the stringent response pathway.
Optogenetic control of a horizontally acquired region in yeast prevent stuck fermentations
Authors: Figueroa David , Ruiz Diego , Tellini Nicolò , De Chiara Matteo , Kessi-Pérez Eduardo I. , Martínez Claudio , Liti Gianni , Querol Amparo , Guillamón José M. , Salinas Francisco 
Published: July 2024

ABSTRACTNitrogen limitations in the grape must is the main cause of stuck fermentations during the winemaking process. InSaccharomyces cerevisiae, a genetic segment known as region A, which harbors 12 protein-coding genes, was acquired horizontally from a phylogenetically distant yeast species. This region is mainly present in the genome of wine yeast strains, carrying genes that have been associated with nitrogen utilization. Despite the putative importance of region A in yeast fermentation, its contribution to the fermentative process is largely unknown. In this work, we used a wine yeast strain to evaluate the contribution of region A to the fermentation process. To do this, we first sequenced the genome of the wine yeast strain known as ‘ALL’ using long-read sequencing and determined that region A is present in a single copy with two possible subtelomeric locations. We then implemented an optogenetic system in this wine yeast strain to precisely regulate the expression of each gene inside this region, generating a collection of 12 strains that allow for light- activated gene expression. To evaluate the role of these genes during fermentation, we assayed this collection using microculture and fermentation experiments in synthetic must with varying amounts of nitrogen concentration. Our results show that changes in gene expression for genes within this region can impact growth parameters and fermentation rate. We additionally found that the expression of various genes in region A is necessary to complete the fermentation process and prevent stuck fermentations under low nitrogen conditions. Altogether, our optogenetics-based approach demonstrates the importance of region A in completing fermentation under nitrogen-limited conditions.IMPORTANCEStuck fermentations due to limited nitrogen availability in grape must represents one of the main problems in the winemaking industry. Nitrogen limitation in grape musts reduce yeast biomass and fermentation rate, resulting in incomplete fermentations with high levels of residual sugar, undesired by-products, and microbiological instability. Here, we used an optogenetic approach to demonstrate that expression of genes within region A is necessary to complete fermentations under low nitrogen availability. Overall, our results support the idea that region A is a genetic signature for wine yeast strains adapted to low nitrogen conditions.
Developmental, regenerative, and behavioral dynamics in acoel reproduction
Authors: Chandra Vikram , Tseng Samantha E. , Kann Allison P. , Bolaños D. Marcela , Srivastava Mansi 
Published: July 2024

AbstractAcoel worms belong to an enigmatic and understudied animal lineage in the phylum Xenacoelomorpha. Sparse taxonomic and histological work suggests that these worms exhibit a diversity of reproductive anatomies and likely a corresponding diversity in reproductive behavior. Here, we study the reproductive life history of the three-banded panther wormHofstenia miamia, an acoel that is emerging as a lab-tractable model system. Using confocal microscopy and histology, we describeH. miamia’s reproductive organs, identifying structures previously unknown in acoels. Following a cohort of worms from zygote to adulthood, we quantify the developmental dynamics of their reproductive organs, and find that these organs emerge in a stereotyped sequence as a function of increasing body size. Studying the dynamics of organ growth and de-growth during regeneration and in starvation, we show that reproductive organs follow similar growth rules in these contexts, suggesting that they are regulated by a size-associated program in all growth contexts. Finally, we study egg-laying behavior, finding thatH. miamialay their eggs through their mouths after loading them into their pharynges. Worms lay eggs for multiple months after a single mating, suggesting long-term sperm storage despite lacking a storage organ; we also find that worms can lay viable eggs without mating, indicating a capacity for self-fertilization. Further, we show that worms assess their environment to make decisions about when and where to lay their eggs, and sometimes lay eggs in communal clutches. Together, our work establishes foundational knowledge to enable the experimental study of reproductive anatomy, physiology, and behavior in acoels.
Single-cell analysis of pediatric acute myeloid leukemia samples uncovers treatment-resistant stem and mast cells
Authors: Ohlstrom Denis , Bakhtia Mojtaba , Mumme Hope , Michaud Marina , Chien Frank , Pilcher William , Satpathy Sarthak , Jordan Sean , Bhasin Swati , Bhasin Manoj 
Published: July 2024

AbstractPediatric acute myeloid leukemia (pAML) is a heterogeneous malignancy driven by diverse cytogenetic mutations. While risk stratification improved by identifying cytogenetic lesions, prognostication remains inadequate with 30% of standard-risk patients experiencing relapse within 5 years. Single-cell RNA sequencing (scRNAseq) enabled the interrogation of malignant cell heterogeneity in pAML and characterization of the immune microenvironment. Herein we report the largest pAML scRNAseq analysis to date with 708,285 cells from 164 bone marrow biopsies of 95 patients and 11 healthy controls. We uncovered treatment-resistant (TR) subtypes of pAML specific to RUNX1-RUNX1T1, FLT3-ITD, and CBFB-MYH11 patients. The enrichment of TR subtype gene signatures on the TARGET pAML data supported an association with significantly poor outcomes. Intriguingly, in addition to leukemic stem cells, we identified mast cell-like pAML associated with treatment resistance and poor outcomes. Together, immature and mature pAML subtypes are promising biomarkers for identifying patients at increased risk of relapse within cytogenetic categories.
Measurement of the sodium and iodine scintillation quenching factors across multiple NaI(Tl) detectors to identify systematics
Authors: Cintas D. , Hedges S. , Thompson W. G. , An P. , Awe C. , Barbeau P. S. , Barbosa de Souza E. , Jo J. H. , Li L. , Martínez M. , Maruyama R. H. , Rich G. C. , Runge J. , Sarsa M. L. 
Published: July 2024

The amount of light produced by nuclear recoils in scintillating targets is strongly quenched compared to that produced by electrons. A precise understanding of the quenching factor is particularly interesting for weakly interacting massive particles (WIMP) searches and coherent elastic neutrino-nucleus scattering (CEνNS) measurements since both rely on nuclear recoils, whereas energy calibrations are more readily accessible from electron recoils. There is a wide variation among the current measurements of the quenching factor in sodium iodide (NaI) crystals, especially below 10 keV, the energy region of interest for dark matter and CEνNS studies. A better understanding of the quenching factor in NaI(Tl) is of particular interest for resolving the decades-old puzzle in the field of dark matter between the null results of most WIMP searches and the claim for dark matter detection by the DAMA/LIBRA collaboration. In this work, we measured sodium and iodine quenching factors for five small NaI(Tl) crystals grown with similar thallium concentrations and growth procedures. Unlike previous experiments, multiple crystals were tested, with measurements made in the same experimental setup to control systematic effects. The quenching factors agree in all crystals we investigated, and both sodium and iodine quenching factors are smaller than those reported by DAMA/LIBRA. The dominant systematic effect was due to the electron equivalent energy calibration originating from the nonproportional behavior of the NaI(Tl) light yield at lower energies, potentially the cause for the discrepancies among the previous measurements.

Published by the American Physical Society
2024
“Effing Awful!”: developing audio representation as a medium for conveying people’s experiences of flooded homes
Authors: Angel David , Chmutina Ksenia , Haines Victoria , Del Pinto Monia 
Published: July 2024

PurposeDisaster research is often geared towards logocentrism and has relatively few outputs that explore alternative forms of representation, particularly those using an artistic medium. This paper explores how the creative use of audio representation can enhance understanding of flooding experiences, challenging the predominant text-based approach within qualitative study.Design/methodology/approachDuring a series of visits to people who had been flooded in 2019 in the UK, interviews and ambient sounds were recorded, analysed and then intertwined with musical elements composed by the lead author. The result is a phonographic representation of the synthesised data. The process explores a tripartite, creative, sonic approach that comingles thematic spoken excerpts with local sounds and musical compositions.FindingsThis article presents three sonic vignettes that illustrate the use of audio as a medium for academic research outputs. It contributes to the current consensus that the interpretation, representation and dissemination of research findings should be broadened beyond the dominance of the written word to align with the ethos of the Disaster Studies Manifesto.Research limitations/implicationsThe research contributes to disaster scholarship by developing a transdisciplinary approach to explore people’s experiences. By retaining the participants’ voices at its core, it makes use of in-depth, rich data to illustrate individuality, rather than aiming to generalise.Originality/valueVery little disaster research has focussed on pushing the boundaries of investigation by using the arts as a lens for both the researcher and their audience. Such work may connect with a wider range of people compared to a text-based “traditional” academic output. It can offer new opportunities for practical uses within Disaster Risk Reduction, for example as a communicative and educational tool.Contribution to impactThis paper contributes to understanding the impact of developing audio representation as a medium for conveying people’s experiences of flooded homes.
The role of macro institutional factors in determining types of entrepreneurial start-ups: a longitudinal panel study
Authors: Li Tianchen 
Published: July 2024

Purpose
What shapes entrepreneurs’ intention to allocate entrepreneurial effort towards different types of entrepreneurial start-ups? Grounded in a “national business systems” approach, the purpose of this paper is to examine the impacts of institutional dimensions on Schumpeterian and Kirznerian entrepreneurship.

Design/methodology/approach
Drawing upon a global context comprising 82 countries over the period between 2007 and 2018, this research applies a dynamic panel modelling approach, namely, the dynamic panel generalised method of moments estimator. This estimator allows to account for unobserved country-specific heterogeneity and to address endogeneity constraints that might occur between institutions and entrepreneurship.

Findings
The findings reveal that there are positive relationships between financial capital and both Schumpeterian and Kirznerian entrepreneurship. Educational capital positively affects the allocation of entrepreneurial efforts towards opportunity-based entrepreneurial activities. Moreover, institutional regulatory conditions could hinder the allocation of entrepreneurs’ resources into a Schumpeterian while facilitating the allocation of resources into a Kirznerian type of venture. Finally, a higher level of corruption promotes innovative entrepreneurial activities (i.e. a Schumpeterian type of venture) and leads to constraints on Kirznerian entrepreneurship.

Practical implications
The research findings demonstrate the significance of the macro environment for enacting and implementing policies to reap the benefits of different types of start-ups. It suggests different political actions are needed to motivate highly qualified individuals to engage in Schumpeterian and Kirznerian entrepreneurship, rather than focusing purely on enhancing a country’s overall start-up rates.

Originality/value
By acknowledging the multidimensional nature of entrepreneurship, this research provides greater theoretical exposition and empirical support for the role played by macro-level institutions in determining types of entrepreneurship. It reveals the important role played by macro institutional conditions in influencing choices about different types of start-ups and gives rise to the multidimensional nature of entrepreneurship.
Mentorship as a tool for improving construction artisan's skills to achieve sustainable development Goal 8 via qualitative approach
Authors: Ebekozien Andrew , Aigbavboa Clinton Ohis , Samsurijan Mohamad Shaharudin , Aliu John , Nwaole Angeline Ngozika Chibuike 
Published: July 2024

PurposeThe paucity of artisans in some construction trades and the transitioning of the experience of the few for sustainability calls for concern. Mentorship programmes offer a promising mechanism to support construction artisans through those transitions. Mentorship may enhance artisan decent work and economic growth, like increased income for artisans. This is part of Sustainable Development Goal 8 (Goal 8). Hence, this study aims to investigate issues hindering construction artisan skills growth and suggest measures to improve construction artisan skills through mentorship mechanisms to achieve Goal 8.Design/methodology/approachThe study adopted a qualitative approach and collected data via oral interviews with knowledgeable participants. The participants were consultant experts in mentorship and Sustainable Development Goals (SDGs) matters, construction organisation management staffers and construction artisans in the Nigerian construction industry. The study covered Lagos and Abuja and achieved saturation at the 30th interviewee. Also, the research utilised a thematic method to analyse the collated data.FindingsEnhanced knowledge sharing accelerates junior artisans’ learning skills quickly, improving artisans’ performance, ensuring sustainability of the skills learned (knowledge retention), encouraging collaboration, building the next generation of leaders and transitioning of experience to mentees emerged as mentorship’s role in developing construction artisans’ skills. Findings show that mentorship mechanisms to develop construction artisan skills face encumbrances. The perceived 32 encumbrances were re-clustered into mentee, mentor and government-related encumbrances. Also, achieving Goal 8 regarding construction artisans may be threatened if these issues are not checked. Thus, the study recommended measures improving construction artisan skills through mentorship mechanisms to achieve Goal 8.Originality/valueIdentifying the major encumbrances facing construction artisan skills improvement through mentorship would be useful to advocate measures to improve construction artisan’s skills to achieve Goal 8.
Non-profit and hybrid organizations as multi-sided platforms: insights from the analysis of sustainability models
Authors: Landoni Paolo , Trabucchi Daniel 
Published: July 2024

PurposeThis study investigates the sustainability models of non-profit and hybrid organizations, which aim to balance economic, social and environmental objectives. The research introduces the Sustainability Model Canvas to analyze these organizations and identify common patterns, unique characteristics and managerial insights to balance the triple bottom line.Design/methodology/approachThe research utilizes the Sustainability Model Canvas to examine the sustainability models of 200 non-profit and hybrid organizations. Data were collected from secondary sources, including articles, reports and websites. The analysis was conducted using the activity system theoretical framework, which helped to identify design elements and themes within the business models of the studied organizations.FindingsThe study reveals four primary sustainability model patterns: donated income, earned income, public income and auto-generated income. An additional mixed approach pattern is identified, combining elements from the four primary patterns. The research highlights the parallels between these sustainability models and multi-sided platform business models, offering managerial suggestions for leveraging these patterns to achieve sustainability.Research limitations/implicationsThe study is based on secondary data, which may limit the depth of insights compared to primary data collection. At the same time, the chance to consider hybrid organization through multi-sided platform lenses provides relevant contributions to both the literature streams.Practical implicationsThe identified sustainability model patterns and managerial suggestions can serve as blueprints for non-profit and hybrid organizations aiming to design or innovate their sustainability models. The Sustainability Model Canvas offers a practical tool for organizations to visualize and balance their triple bottom line objectives.Social implicationsThe research underscores the importance of integrating social and environmental considerations into business models, promoting a holistic approach to sustainability that can lead to broader social and environmental benefits.Originality/valueThis research contributes to the business model literature by extending the focus beyond traditional profit-oriented organizations to include non-profit and hybrid organizations. The introduction of the Sustainability Model Canvas provides a new tool for designing and analyzing sustainability-oriented business models. The study also suggests considering sustainability models as multi-sided platforms, offering new insights for both academic and practical applications.
Analysing the dropout patterns of individual children in Nepal: relationship between school dropout and grade repetition/entrance age
Authors: Ezaki Naruho 
Published: July 2024

PurposeUsing longitudinal data of children in Nepal, this study examines the relationships between dropouts, grade repetition and the causes of dropout, such as entrance age, to derive concrete recommendations to improve the basic education completion rates in Nepal, one of the targets of Sustainable Development Goal 4 (SDG4).Design/methodology/approachThe data for this study were drawn from school records kept in the target schools, home visit surveys and interviews with principals and teachers. After comparing the repetition experience and the frequency of repetitions between graduates and dropouts, the study analysed the dropout patterns of individual children. The study then examined the effects of repetition and entrance age on children’s schooling.FindingsThe results identified a large group of children who dropped out of school without any repetition, with only 15.9% of the children repeating a grade immediately before dropping out. The findings indicated that harsh family environments, being overage and low educational expectations were factors in sudden dropout.Originality/valueCollecting longitudinal data is difficult in developing countries, and few studies use such data. The question of access to education has been re-ignited by the COVID-19 pandemic; this study used longitudinal data to thoroughly analyse children’s dropout patterns and provide specific recommendations that will contribute to the achievement of SDG4.
Mechanoreception of pneumatic soft robotic finger without tactile sensor based on dual-position feature
Authors: Shi Kai , Li Jun , Bao Gang 
Published: July 2024

Purpose
Mechanoreception is crucial for robotic planning and control applications, and for robotic fingers, mechanoreception is generally obtained through tactile sensors. As a new type of robotic finger, the soft finger also requires mechanoreception, like contact force and object stiffness. Unlike rigid fingers, soft fingers have elastic structures, meaning there is a connection between force and deformation of the soft fingers. It allows soft fingers to achieve mechanoreception without using tactile sensors. This study aims to provide a mechanoreception sensing scheme of the soft finger without any tactile sensors.

Design/methodology/approach
This research uses bending sensors to measure the actual bending state under force and calculates the virtual bending state under assumed no-load conditions using pressure sensors and statics model. The difference between the virtual and actual finger states is the finger deformation under load, and its product with the finger stiffness can be used to calculate the contact force. There are distinctions between the virtual and actual finger state change rates in the pressing process. The difference caused by the stiffness of different objects is different, which can be used to identify the object stiffness.

Findings
Contact force perception can achieve a detection accuracy of 0.117 N root mean square error within the range of 0–6 N contact force. The contact object stiffness perception has a detection average deviation of about 15%, and the detection standard deviation is 10% for low-stiffness objects and 20% for high-stiffness objects. It performs better at detecting the stiffness of low-stiffness objects, which is consistent with the sensory ability of human fingers.

Originality/value
This paper proposes a universal mechanoreception method for soft fingers that only uses indispensable bending and pressure sensors without tactile sensors. It helps to reduce the hardware complexity of soft robots. Meanwhile, the soft finger no longer needs to deploy the tactile sensor at the fingertip, which can benefit the optimization design of the fingertip structure without considering the complex sensor installation. On the other hand, this approach is no longer confined to adding components needed. It can fully use the soft robot body’s physical elasticity to convert sensor signals. Essentially, It treats the soft actuators as soft sensors.