bluuebunny/crossref_metadata_2025 huggingface dataset:
Systematic identification of yeast mutants with increased rates of cell death reveals rapid stochastic necrosis associated with cell division
Authors: Alexandrov Alexander I. , Grosfeld Erika V. , Mitkevich Olga V. , Bidyuk Victoria A. , Nostaeva Arina V. , Kukhtevich Igor V. , Schneider Robert , Shilov Evgeniy S. , Kushnirov Vitaliy V. , Dmitriev Sergey E. , Gladyshev Vadim N.
Published: October 2021

Cell death plays a major role in development, pathology and aging and can be triggered by various types of acute stimuli which arrest cell growth. However, little is known about chronic cell death in the context of continuing cell division. Here, we performed a genome-wide search for mutants with this type of death in dividing baker’s yeast by assaying staining with phloxine B, which accumulates in dead cells. This screen yielded 83 essential and 43 non-essential gene mutants. Three contrasting types of spatial distribution of dead cells in colonies were observed, which corresponded to gene ontology enrichment for (i) DNA replication and repair, RNA processing, chromatin organization, and nuclear transport; (ii) mitosis and cytokinesis; and (iii) vesicular transport and glycosylation/cell wall homeostasis. To study dynamics of cell death in these mutants, we developed methods for analyzing the death of newborn cells (DON) and cell death in real time using microfluidics-based microscopy. These revealed rapid stochastic necrosis during bud generation or cytokinesis without prior division arrest. Increased death during division was associated with common sensitivity to plasma membrane and cell-wall perturbing agents, and could be mitigated by neutral pH stabilization of the medium. This suggests a common downstream type of cell death caused by a wide range of genetic perturbations.
Fibrosis protein-protein interactions from Google matrix analysis of MetaCore network
Authors: Kotelnikova Ekaterina , Frahm Klaus M. , Shepelyansky Dima L. , Kunduzova Oksana
Published: October 2021

Protein-protein interactions is a longstanding challenge in cardiac remodeling processes and heart failure. Here we use the MetaCore network and the Google matrix algorithms for prediction of protein-protein interactions dictating cardiac fibrosis, a primary causes of end-stage heart failure. The developed algorithms allow to identify interactions between key proteins and predict new actors orchestrating fibroblast activation linked to fibrosis in mouse and human tissues. These data hold great promise for uncovering new therapeutic targets to limit myocardial fibrosis.
Immune, endothelial and neuronal network map in human lymph node and spleen
Authors: Currlin Seth , Nick Harry S. , Jorgensen Marda , Nick Jerelyn A. , Brusko Maigan A. , Hakimian Hunter , Penaloza-Aponte Jesus , Rodriguez Natalie , Medina-Serpas Miguel , Yang Mingder , Seifert Robert P. , Kusmartseva Irina , Brusko Todd M. , Otto Kevin , Posgai Amanda L. , Wasserfall Clive H. , Atkinson Mark A.
Published: October 2021

The spleen and lymph node represent important hubs for both innate and adaptive immunity1,2. Herein, we map immune, endothelial, and neuronal cell networks within these tissues from “normal”/non-diseased organ donors, collected through the NIH Human BioMolecular Atlas Program (HuBMAP)3, using highly multiplexed CODEX (CO-Detection by indEXing) imaging and 3D light sheet microscopy of cleared tissues. Building on prior reports4–6, we observed the lymph node subcapsular sinus expressing podoplanin, smooth muscle actin, and LYVE1. In the spleen, LYVE1 was expressed by littoral cells lining venous sinusoids, whereas podoplanin was restricted to arteries and trabeculae. 3D visualization of perivascular innervation revealed a subset of axonal processes expressing choline acetyl transferase in both tissues, in contrast with prior literature on human spleen7. We further report our novel observations regarding the distinct localization of GAP43 and β3-tubulin within the vascular anatomy of both lymph node and spleen, with Coronin-1A+ cells forming a dense cluster around β3-tubulin positive GAP43 low/negative segments of large vessels in spleen. These data provide an unprecedented 2D and 3D visualization of cellular networks within secondary lymphoid tissues, laying the groundwork for future disease-specific and system-wide studies of neural regulation of immunity in human lymphatics.
High-throughput identification of RNA localization elements reveals a regulatory role for A/G rich sequences
Authors: Arora Ankita , Gutierrez Roberto Castro , Eletto Davide , Becker Raquel , Brown Maya , Moor Andreas E. , Russ Holger A. , Taliaferro Matthew
Published: October 2021

Hundreds of RNAs are enriched in the projections of neuronal cells. For the vast majority of them, though, the sequence elements within them that regulate their localization are unknown. To identify RNA elements capable of directing transcripts to neurites, we designed and deployed a massively parallel reporter assay that tested the localization regulatory ability of thousands of sequence fragments drawn from endogenous mouse 3′ UTRs. We identified peaks of regulatory activity within several 3′ UTRs and found that sequences derived from these peaks were both necessary and sufficient for RNA localization to neurites in mouse cells as well as active in human neurons. The active localization elements were enriched in adenosine and guanosine residues and were tens to hundreds of nucleotides long as shortening of the elements led to significantly reduced activity. Using RNA affinity and mass spectrometry, we found that the RNA-binding protein Unk was associated with the active localization elements. Depletion of Unk in cells reduced the neurite- enrichment of the elements, indicating a functional requirement for Unk in their trafficking. These results provide a framework for the unbiased, high-throughput identification of RNA elements and mechanisms that govern transcript localization.
DNA double-strand break end synapsis by DNA loop extrusion
Authors: Yang Jin , Brandão Hugo B. , Hansen Anders S.
Published: October 2021

DNA double-strand breaks (DSBs) occur every cell cycle and must be efficiently repaired. Non-homologous end joining (NHEJ) is the dominant pathway for DSB repair in G1-phase. The first step of NHEJ is to bring the two DSB ends back into proximity (synapsis). However, although synapsis is generally assumed to occur through passive diffusion, we show here that passive diffusion is unlikely to be consistent with the speed and efficiency of NHEJ observed in cells. Instead, we hypothesize that DNA loop extrusion facilitates synapsis. By combining experimentally constrained simulations and theory, we show that the simplest loop extrusion model only modestly facilitates synapsis. Instead, a loop extrusion model with targeted loading of loop extruding factors (LEFs), a small portion of long-lived LEFs as well as LEF stabilization by boundary elements and DSB ends achieves fast synapsis with near 100% efficiency. We propose that loop extrusion plays an underappreciated role in DSB repair.
C/EBPα acts as an RNA binding protein essential for its chromatin recruitment and promotes Macrophage differentiation
Authors: Zhang Yanzhou , Bassal Mahmoud , Friedrich Daniel , Ummarino Simone , Verbiest Tom , Zhang Junyan , Tenen Danielle , Haribabu Arthanari , Tenen Daniel G
Published: October 2021

C/EBPα has known to be a transcription factor that involved in Neutrophil differentiation for decades. However, exploring the Chromatin RNA Immunoprecipitation Sequencing (RIP), we discover that C/EBPα is a RNA binding protein mainly interacts with RNA introns. Structure study and RNA electrophoretic mobility shift assay (REMSA) show that C/EBPα interacts with RNA through two novel RNA binding domains distinct from its DNA binding domain. Mouse bone marrow transplantation and in vitro cytokine assay reveal that C/EBPα RNA binding is critical for Macrophage differentiation but not Neutrophil differentiation. Mechanically, RNA binding domains control specific gene transcription. In particular, PU.1 intron 4 RNA interacts with C/EBPα and recruit C/EBPα to its enhancer site, which facilitate PU.1 expression. Taken together, C/EBPα is demonstrated to be a RNA binding protein with unique function distinct from its DNA binding activity. Our finding transforms our knowledge of transcriptional regulation by transcription factor.

One-Sentence Summary

C/EBPα interacts with RNA through novel RNA binding domains and regulates PU.1 expression during Macrophage differentiation.
Genome-wide distribution of Rad26 and Rad1-Rad10 reveals their relationship with Mediator and RNA polymerase II
Authors: Gopaul Diyavarshini , Wilkes Cyril Denby , Goldar Arach , Aiach Nathalie Giordanengo , Barrault Marie-Bénédicte , Novikova Elizaveta , Soutourina Julie
Published: October 2021

Transcription is coupled with DNA repair, especially within nucleotide excision repair (NER). Mediator is a conserved coregulator playing a key role in RNA polymerase (Pol) II transcription. Mediator also links transcription and NER via a direct contact with Rad2/XPG endonuclease. In this work, we analyzed the genome-wide distribution of Rad26/CSB and that of Rad1-Rad10/XPF-ERCC1, addressing the question on a potential interplay of these proteins with Mediator and Pol II in yeast Saccharomyces cerevisiae. Our genome-wide analyses show that Rad1-Rad10 and Rad26 are present on the yeast genome in the absence of genotoxic stress, especially on highly transcribed regions, with Rad26 binding strongly correlating with that of Pol II. Moreover, we revealed that Rad1-Rad10 and Rad26 colocalize with Mediator on intergenic regions and physically interact with this complex. Using kin28 TFIIH mutant, we showed that Mediator stabilization on core promoters lead to an increase in Rad1-Rad10 chromatin binding, whereas Rad26 occupancy is less impacted by Mediator and follows mainly a decrease in Pol II transcription. Combined with multivariate analyses, our results reveal the interplay between Rad1-Rad10, Rad26, Mediator and Pol II, modulated by the binding dynamics of Mediator and Pol II transcription. In conclusion, we extend the Mediator link to Rad1-Rad10 and Rad26 NER proteins and reveal important differences in Mediator relationships with Rad2, Rad1-Rad10 and Rad26. Our work thus contributes to new concepts of the functional interplay between transcription and DNA repair, relevant for human diseases including cancer and XP/CS syndromes.
Abstract representations emerge naturally in neural networks trained to perform multiple tasks
Authors: Johnston W. Jeffrey , Fusi Stefano
Published: October 2021

Humans and other animals demonstrate a remarkable ability to generalize knowledge across distinct contexts and objects during natural behavior. We posit that this ability to generalize arises from a specific representational geometry, that we call abstract and that is referred to as disentangled in machine learning. These abstract representations have been observed in recent neurophysiological studies. However, it is unknown how they emerge. Here, using feedforward neural networks, we demonstrate that the learning of multiple tasks causes abstract representations to emerge, using both supervised and reinforcement learning. We show that these abstract representations enable few-sample learning and reliable generalization on novel tasks. We conclude that abstract representations of sensory and cognitive variables may emerge from the multiple behaviors that animals exhibit in the natural world, and, as a consequence, could be pervasive in high-level brain regions. We also make several specific predictions about which variables will be represented abstractly.
MS2 RNA aptamer enhances prime editing in rice
Authors: Chai Yiping , Jiang Yuanyuan , Wang Junya , Qiao Dexin , Zhang Yu , Xin Cuiping , Zhou Yun , Wang Xue-Chen , Chen Qi-Jun
Published: October 2021

Prime editing is a universal and very promising precise genome editing technology. However, optimization of prime editor (PE) from different aspects remains vital for its use as a routine tool in plant basic research and crop molecular breeding. In this report, we tested MS2-based prime editor (MS2PE). We fused the M-MLV reverse transcriptase (RT) gene variant to the MS2 RNA binding protein gene, MCP, and allowed the MCP-RT fusion gene to co-express with the SpCas9 nickase gene, SpCas9H840A, and various engineered pegRNAs harboring MS2 RNA (MS2pegR). Compared with control PEs, MS2PEs significantly enhanced editing efficiency at four of six targets in rice protoplasts, and achieved 1.2∼10.1-fold increase in editing efficiency at five of six targets in transgenic rice lines. Furthermore, we tested total 22 different MS2pegR scaffolds, 3 RT variants or genes, 2 MCP variants, and various combinations of the Cas9 nickase, RT, and MCP modules. Our results demonstrated an alternative strategy for enhancing prime editing.
The Resting-State Causal Human Connectome is Characterized by Hub Connectivity of Executive and Attentional Networks
Authors: Rawls Eric , Kummerfeld Erich , Mueller Bryon A. , Ma Sisi , Zilverstand Anna
Published: October 2021

We demonstrate a data-driven approach for calculating a “causal connectome” of directed connectivity from resting-state fMRI data using a greedy adjacency search and pairwise non-Gaussian edge orientations. We used this approach to construct n=442 causal connectomes. These connectomes were very sparse in comparison to typical Pearson correlation-based graphs (roughly 2.25% edge density) yet were fully connected in nearly all cases. Prominent highly connected hubs of the causal connectome were situated in attentional (dorsal attention) and executive (frontoparietal and cingulo-opercular) networks. These hub networks had distinctly different connectivity profiles: attentional networks shared incoming connections with sensory regions and outgoing connections with higher cognitive networks, while executive networks primarily connected to other higher cognitive networks and had a high degree of bidirected connectivity. Virtual lesion analyses accentuated these findings, demonstrating that attentional and executive hub networks are points of critical vulnerability in the human causal connectome. These data highlight the central role of attention and executive control networks in the human cortical connectome and set the stage for future applications of data-driven causal connectivity analysis in psychiatry.
Identification of two cancer stem cell-like populations in triple-negative breast cancer xenografts
Authors: Nakayama Jun , Matsunaga Hiroko , Arikawa Koji , Yoda Takuya , Hosokawa Masahito , Takeyama Haruko , Yamamoto Yusuke , Semba Kentaro
Published: October 2021

Gene expression analysis at the single-cell level by next generation sequencing has revealed the existence of clonal dissemination and microheterogeneity in cancer metastasis. The current spatial analysis technologies can elucidate the heterogeneity of cell–cell interactions in situ. To reveal the regional and expressional heterogeneity in primary tumors and metastases, we performed transcriptomic analysis of microtissues dissected from a triple-negative breast cancer (TNBC) cell line MDA-MB-231 xenograft model with our automated tissue microdissection punching technology. This multiple-microtissue transcriptome analysis revealed three cancer cell-type clusters in the primary tumor and axillary lymph node metastasis, two of which were cancer stem cell (CSC)-like clusters (CD44/MYC-high, HMGA1-high). Reanalysis of public single-cell RNA-seq (scRNA-seq) datasets confirmed that the two CSC-like populations existed both in TNBC xenograft models and TNBC patients. In addition, the gene signature of the HMGA1-high CSC-like cluster has the potential to serve as a novel biomarker for diagnosis. The diversity of these multiple CSC-like populations may cause differential anticancer drug resistance, increasing the difficulty of curing this cancer.
Massively parallel identification of zipcodes in primary cortical neurons
Authors: von Kügelgen Nicolai , Mendonsa Samantha , Dantsuji Sayaka , Ron Maya , Kirchner Marieluise , Zerna Nadja , Bujanic Lucija , Mertins Philipp , Ulitsky Igor , Chekulaeva Marina
Published: October 2021

Cells adopt highly polarized shapes and form distinct subcellular compartments largely due to the localization of many mRNAs to specific areas, where they are translated into proteins with local functions. This mRNA localization is mediated by specific cis-regulatory elements in mRNAs, commonly called “zipcodes.” Their recognition by RNA-binding proteins (RBPs) leads to the integration of the mRNAs into macromolecular complexes and their localization. While there are hundreds of localized mRNAs, only a few zipcodes have been characterized. Here, we describe a novel neuronal zipcode identification protocol (N-zip) that can identify zipcodes across hundreds of 3’UTRs. This approach combines a method of separating the principal subcellular compartments of neurons – cell bodies and neurites - with a massively parallel reporter assay. Our analysis identifies the let-7 binding site and (AU)n motif as de novo zipcodes in mouse primary cortical neurons and suggests a strategy for detecting many more.
Is the Success of Adaptive Therapy in Metastatic Castrate-Resistant Prostate Cancer Influenced by Cell-Type-Dependent Production of Prostate-Specific Antigen?
Authors: Salvioli Monica , Vandelaer Len , Schneider Katharina , Cavill Rachel , Staňková Kateřina
Published: October 2021

Prostate-specific antigen (PSA) is the most common serum marker for prostate cancer. It is used to detect prostate cancer, to assess responses to treatment and recently even to determine when to switch treatment on and off in adaptive therapy protocols. However, the correlation between PSA and tumor volume is poorly understood. There is empirical evidence that some cancer cell types produce more PSA than others. Still, recent mathematical cancer models assume either that all cell types contribute equally to PSA levels, or that only specific subpopulations produce PSA at a fixed rate.

Here, we compare time to competitive release of the PSA-based adaptive therapy protocol by Zhang et al. with that of the standard of care based on continuous maximum tolerable dose under different assumptions on PSA production. In particular, we assume that androgen dependent, androgen producing, and androgen independent cells may contribute to the PSA production to different extents.

Our results show that, regardless the assumption on how much each type contributes to PSA production, the time to competitive release is always longer under adaptive therapy than under the standard of care. However, in some cases, e.g., if the androgen-independent cells are the only PSA producers, adaptive therapy protocol by Zhang et al. cannot be applied, because the PSA value never reaches half of its initial size and therefore therapy is never discontinued.

Furthermore, we observe that in the adaptive therapy protocol, the number of treatment cycles and their length strongly depend on the assumptions about the PSA contribution of the three types. Our results support the belief that a better understanding of patient-specific PSA dynamics will lead to more successful adaptive therapies.
Efficient hemogenic endothelial cell specification by RUNX1 is dependent on baseline chromatin accessibility of RUNX1-regulated TGFβ target genes
Authors: Howell Elizabeth D. , Yzaguirre Amanda D. , Gao Peng , Lis Raphael , He Bing , Lakadamyali Melike , Rafii Shahin , Tan Kai , Speck Nancy A.
Published: October 2021

Hematopoietic stem and progenitor cells (HSPCs) are generated de novo in the embryo from hemogenic endothelial cells (HECs) via an endothelial-to-hematopoietic transition (EHT) that requires the transcription factor RUNX1. Ectopic expression of RUNX1 alone can efficiently promote EHT and HSPC formation from embryonic endothelial cells (ECs), but less efficiently from fetal or adult ECs. Efficiency correlated with baseline accessibility of TGFβ-related genes associated with endothelial-to-mesenchymal transition (EndoMT) and participation of AP-1 and SMAD2/3 to initiate further chromatin remodeling along with RUNX1 at these sites. Activation of TGFβ signaling improved the efficiency with which RUNX1 specified fetal ECs as HECs. Thus, the ability of RUNX1 to promote EHT depends on its ability to recruit the TGFβ signaling effectors AP-1 and SMAD2/3, which in turn is determined by the changing chromatin landscape in embryonic versus fetal ECs. This work provides insight into regulation of EndoMT and EHT that will guide reprogramming efforts for clinical applications.
Embryonic LTR retrotransposons supply promoter modules to somatic tissues
Authors: Hashimoto Kosuke , Jouhilahti Eeva-Mari , Töhönen Virpi , Carninci Piero , Kere Juha , Katayama Shintaro
Published: October 2021

Long terminal repeat (LTR) retrotransposons are widely distributed across the human genome. They have accumulated through retroviral integration into germline DNA and are latent genetic modules. Active LTR promoters are observed in germline cells; however, little is known about the mechanisms underlying their active transcription in somatic tissues. Here, by integrating our previous transcriptome data set with publicly available data sets, we show that the LTR families MLT2A1 and MLT2A2 are primarily expressed in human four-cell and eight-cell embryos and are also activated in some adult somatic tissues, particularly pineal gland. Three MLT2A elements function as the promoters and first exons of the protein-coding genesABCE1,COL5A1, andGALNT13specifically in the pineal gland of humans but not in that of macaques, suggesting that the exaptation of these LTRs as promoters occurred during recent primate evolution. This analysis provides insight into the possible transition from germline insertion to somatic expression of LTR retrotransposons.
Shared evolutionary trajectories of three independent neo-sex chromosomes in Drosophila
Authors: Nozawa Masafumi , Minakuchi Yohei , Satomura Kazuhiro , Kondo Shu , Toyoda Atsushi , Tamura Koichiro
Published: October 2021

Dosage compensation (DC) on the X Chromosome counteracts the deleterious effects of gene loss on the Y Chromosome. However, DC is not efficient if the X Chromosome also degenerates. This indeed occurs in Drosophila miranda, in which both the neo-Y and the neo-X are under accelerated pseudogenization. To examine the generality of this pattern, we investigated the evolution of two additional neo-sex chromosomes that emerged independently in D. albomicans and D. americana and reanalyzed neo-sex chromosome evolution in D. miranda. Comparative genomic and transcriptomic analyses revealed that the pseudogenization rate on the neo-X is also accelerated in D. albomicans and D. americana although to a lesser extent than in D. miranda. In males, neo-X-linked genes whose neo-Y-linked homologs are pseudogenized tended to be up-regulated more than those whose neo-Y-linked homologs remain functional. Moreover, genes under strong functional constraint and genes highly expressed in the testis tended to remain functional on the neo-X and neo-Y, respectively. Focusing on the D. miranda and D. albomicans neo-sex chromosomes that emerged independently from the same autosome, we further found that the same genes tend to become pseudogenized in parallel on the neo-Y. These genes include Idgf6 and JhI-26, which may be unnecessary or even harmful in males. Our results indicate that neo-sex chromosomes in Drosophila share a common evolutionary trajectory after their emergence, which may prevent sex chromosomes from being an evolutionary dead end.
Spectral monitoring at SwissFEL using a high-resolution on-line hard X-ray single-shot spectrometer
Authors: David Christian , Seniutinas Gediminas , Makita Mikako , Rösner Benedikt , Rehanek Jens , Karvinen Petri , Löhl Florian , Abela Rafael , Patthey Luc , Juranić Pavle
Published: October 2021

The performance and parameters of the online photon single-shot spectrometer (PSSS) at the Aramis beamline of the SwissFEL free-electron laser are presented. The device operates between the photon energies 4 and 13 keV and uses diamond transmission gratings and bent Si crystals for spectral measurements on the first diffraction order of the beam. The device has an energy window of 0.7% of the median photon energy of the free-electron laser pulses and a spectral resolution (full width at half-maximum) ΔE/E on the order of 10−5. The device was characterized by comparing its performance with reference data from synchrotron sources, and a parametric study investigated other effects that could affect the reliability of the spectral information.
Shape optimization in acoustic–structure interaction
Authors: Kliewe Philipp , Laurain Antoine , Schmidt Kersten
Published: October 2021

Purpose

Motivated by the acoustics of motor vehicles, a coupled fluid–solid system is considered. The air pressure is modeled by the Helmholtz equation, and the structure displacement is described by elastodynamic equations. The acoustic–structure interaction is modeled by coupling conditions on the common interface. First, the existence and uniqueness of solutions are investigated, and then, after recalling fundamental notions of shape optimization, the tensor form of the distributed shape derivative is obtained for the coupled problem. It is then applied to the minimization of the sound pressure by variation of the structure shape through the positioning of beads.

Design/methodology/approach

The existence and uniqueness of solutions up to eigenfrequencies are shown by the Fredholm–Riesz–Schauder theory using a novel decomposition into an isomorphism and a compact operator. For the design optimization, the distributed shape derivative is obtained using the averaged adjoint method. It is then used in a closed 3D optimization process of the position of a bead for noise reduction. In this process, the C++ library concepts are used to solve the differential equations on hexahedral meshes with the finite element method of higher order.

Findings

The existence and uniqueness of solutions have been shown for the case without absorption, where the given proof allows for extension to the case with absorption in the domain or via boundary conditions. The theoretical results show that the averaged adjoint can be applied to compute distributed shape derivatives in the context of acoustic–structure interaction. The numerical results show that the distributed shape derivative can be used to reduce the sound pressure at a chosen frequency via rigid motions of a nonsmooth shape.

Originality/value

The proof of shape differentiability and the calculation of the distributed shape derivative in tensor form allows to consider nonsmooth shapes for the optimization, which is particularly relevant for the optimal placement of beads or stampings in a structural-acoustic system.
An empirical investigation of the role of lean six sigma practices on quality performance in medical device manufacturing industry
Authors: Sim Choon Ling , Li Zeyun , Chuah Francis , Lim Yi Jin , Sin Kit Yeng
Published: October 2021

Purpose

With the growing pressure to gain optimum level of quality and speed, Lean Six Sigma (LSS) practices have drawn considerable attention as a viable alternative for process improvement. However, previous studies revealed that there is very little systematic and rigorous research to validate the claims. In this regard, this paper aims to empirically examine the effect of LSS practices on quality performance in the medical device manufacturing industry.

Design/methodology/approach

For this study, partial least square–based structural equation modeling (PLS-SEM) was used to empirically examine the effect of LSS practices on quality performance in Malaysian medical device manufacturing industry.

Findings

The findings of this paper revealed that LSS practices have a significant and positive effect on quality performance in the medical device manufacturing industry.

Practical implications

This paper will serve as a valuable implication for industry practitioners in providing them with a clearer managerial direction to exploit the strength of LSS practices to achieve company’s quality goals. Moreover, this study will serve as a basis for future LSS scholars, providing them with valuable insights and directions for future research.

Originality/value

This paper develops a conceptual LSS framework that captures the integrated nature of two methodologies and provides empirical evidence that supports the positive influence of LSS practices on quality performance; hence, it contributes to the growing body of LSS literature in both theoretical and empirical sense.
Useful paths for identifying Lean Six Sigma improvement opportunities
Authors: Kane Victor E.
Published: October 2021

Purpose

The goal of this work is to clarify seven useful DMAIC Analyze phase options for developing process improvement opportunities required for successful projects.

Design/methodology/approach

Using a scientific method problem solving structure, IO possibilities are shown to be predicted by rejecting a conceptual testable hypothesis.

Findings

Seven analysis paths are identified that enable learners to develop multiple IO discovery strategies and to narrow tool selection options. Four benefit areas for identifying analysis paths are given: improved training, continuous improvement foundation, leadership support and framework clarification.

Research limitations/implications

Any starting list of analysis paths for developing IOs would be incomplete. The diversity of application experiences and tools will add to the current list.

Practical implications

Learners participating in LSS activities are aware of management's expectation that they will develop IOs to justify the LSS investment. Tool-focused training may leave some learners unclear about the multiple possible sources for IOs. Identifying useful analysis paths with associated tools for IO discovery will address any learner's Analyze phase uncertainty and facilitate expanded opportunities.

Originality/value

Any successful LSS project must discover IOs to develop improvement actions. Clarifying IO discovery alternatives will encourage team brainstorming on Analyze phase investigative options. This framework identifying LSS improvement paths will assist practitioners in training and communicating with leadership and learners the range of approaches for developing improvement actions.
Territorial efficiency of social spending in Spain
Authors: García-Luque Olga , Lafuente-Lechuga Matilde , Faura-Martínez Úrsula
Published: October 2021

Purpose

Regional disparities in social risk levels threaten social cohesion in Spain, which cannot be justified by the territorial differences in social spending per capita. These divergences may encourage and spread nationalist positions and populist discourses. The objective of this paper is to examine the efficiency of social policies (health, education and social protection) aimed at reducing the risk of exclusion across Spanish autonomous communities.

Design/methodology/approach

The authors use data envelopment analysis (DEA) to compare each autonomous community. The analysis will determine whether the autonomies' resources (inputs or social spending in this case) are appropriately translated into goods and/or services (outputs or social cohesion), and which regions are more efficient in doing so.

Findings

This work contributes to sustaining DEA analysis in the study of social policy efficiency, as it reveals the regions that have better adjustments between social investment and social results from a global perspective, as well as from the different intervention areas. The authors also provide a ranking of regions based on their relative efficiency, estimating a possible margin of improvement in the results.

Originality/value

It is unusual to include the disaggregated analysis of social spending in efficiency studies using DEA at regional level. Therefore, this is an innovative analysis compared to most extended models that are mainly concerned with health or education expenditure, which are also considered in this study.
Exploring environmental sustainability of academia as a working space
Authors: Stavrianakis Kostas , Ramos William
Published: October 2021

Purpose

This study aims to examine the organizational citizenship behaviors toward the environment among US-based faculty members, in social sciences, natural sciences, the humanities and engineering. Potential barriers that may stop academia from being more sustainable are examined but also the opportunities for academics to be involved in environmental sustainability are explored.

Design/methodology/approach

The authors followed a sequential explanatory mixed methods approach using online surveys (n = 633) followed by open-ended phone interviews (n = 28).

Findings

Results suggest that there are certain power dynamics that force young faculty members in anti-environmental behaviors, although they are cognizant of the negative impacts on the environment. Many faculty members engage in environmental-related actions outside their service requirements, but this is mostly the case for tenured faculty members.

Originality/value

The originality of this study lies in the fact that it explores environmental behaviors from an academic ranking perspective and expands on pertinent barriers to promote sustainable behaviors in academia.
Analyzing TripAdvisor reviews of wine tours: an approach based on text mining and sentiment analysis
Authors: Barbierato Elena , Bernetti Iacopo , Capecchi Irene
Published: October 2021

Purpose

Wine packaged tours as a specific aspect of wine tourism have so far been neglected in research, for this reason, the purpose of this study is to study the key elements for the success of the wine tour in Tuscany (Italy), evaluating the points of strength and weakness.

Design/methodology/approach

The study combines approaches of text mining, sentiment analysis and natural language processing, drawing on data from the TripAdvisor platform, obtaining through an automatic procedure 9,616 reviews from 600 tours in the years 2010–2020.

Findings

The authors identified six elements of successful wine tours expressed by research subjects: tour guide; logistical aspects; the quality of the wine; the quality of the food; complementary tourist and recreational activities; the landscape and historic villages. The key strength associated with success was the integration of the leading wine product with food, landscape and historic villages, while the main criticisms were concerned with the organization and planning of the tour. Furthermore, the tour guide also plays a fundamental role in consumer satisfaction.

Research limitations/implications

The limitations of the method were linked to the origin of the data used. The main one is that TripAdvisor does not allow you to have social and personal information about the tourist who wrote the review; therefore, the methods are substantially complementary to the traditional survey through questionnaires.

Practical implications

The proposed model can be used both by professionals to improve the quality of their products and by policymakers to promote the territorial development of quality wine-growing areas.

Social implications

The proposed model can be useful for policymakers to promote the territorial development of quality wine-growing areas.

Originality/value

The methodology we tested is easily transferable to many countries and to the authors’ knowledge, for the first time attempts to combine multidimensional scaling, sentiment analysis and natural language processing approaches.
Quantifying the effects of online review content structures on hotel review helpfulness
Authors: Fan Wenjie , Liu Yong , Li Hongxiu , Tuunainen Virpi Kristiina , Lin Yanqing
Published: October 2021

Purpose

Drawing on attribution theory, the current paper aims to examine the effects of review content structures on online review helpfulness, focusing on three pertinent variables: review sidedness, information factuality, and emotional intensity at the beginning of a review. Moreover, the moderating roles of reviewer reputation and review sentiment are investigated.

Design/methodology/approach

The review sentiment of 144,982 online hotel reviews was computed at the sentence level by considering the presence of adverbs and negative terms. Then, the authors quantified the impact of variables that were pertinent to review content structures on online review helpfulness in terms of review sidedness, information factuality and emotional intensity at the beginning of a review. Zero-inflated negative binomial regression was employed to test the model.

Findings

The results reveal that review sidedness negatively affects online review helpfulness, and reviewer reputation moderates this effect. Information factuality positively affects online review helpfulness, and positive sentiment moderates this impact. A review that begins with a highly emotional statement is more likely to be perceived as less helpful.

Originality/value

Using attribution theory as a theoretical lens, this study contributes to the online customer review literature by investigating the impact of review content structures on online review helpfulness and by demonstrating the important moderating effects of reviewer reputation and review sentiment. The findings can help practitioners develop effective review appraisal mechanisms and guide consumers in producing helpful reviews.
Establishing an island group comprehensive development prospect index: the case of the Changdao Island Group
Authors: Zhang Kun-cheng , Guo Xin-chang , Tian Shi-zheng , Cui Qi , Shi Mao-chong , Guo Pei-fang
Published: October 2021

Purpose

Many experts suggest that the human being explore marine resources and marine new energy sources to alleviate the shortage of land resources and the ecological degradation. However, island coastal zones are considered to be fragile ecosystems; their geographical location and natural characteristics, their biodiversity and associated ecosystems, and their exposure to diverse land and sea conditions all make them highly vulnerable to environmental changes and human activities. Therefore, it is necessary to achieve the goals of environmental protection and sustainable development on the basis of a comprehensive evaluation and understanding of islands.

Design/methodology/approach

Due to the importance of island groups, this paper conducts evaluation studies on them. Using the Delphi, AHP and TOPSIS methods, this study evaluated quantitatively the comprehensive development level and comprehensive development potential of island groups in terms of resources, natural environment, economy and society. Innovatively using them as two subsystems, the present study combined the coupling coordination model and the obstacle factor calculation method.

Findings

The prospective index of comprehensive development was applied to the Changdao Island Group in Yantai, Shandong Province as an example, and the final evaluation revealed that the comprehensive development prospect of this island group had an upward trend from 2010 to 2017. Future efforts should be made to improve its economic and social conditions and economic development status, apart from promoting its comprehensive development by improving human resources management, increasing the GDP growth rate, and improving fresh water and electricity supply.

Originality/value

This study takes the integrated development level of the island and the integrated development potential of the island as two subsystems, and the innovative application of the coupling coordination degree model is used to calculate the integrated development index of the island to understand the development status of the island area. On the basis of this model, the obstacle factor identification method is designed to identify the main obstacle factors, and on the basis of evaluation and identification, specific measures to ensure the sustainable development of the island area are effectively proposed.
Differential response to prey quorum signals indicates predatory specialization of myxobacteria and ability to predate Pseudomonas aeruginosa
Authors: Akbar Shukria , Phillips Kayleigh E. , Misra Sandeep K. , Sharp Joshua S. , Stevens D. Cole
Published: October 2021

Multiomic analysis of transcriptional and metabolic responses from the predatory myxobacteria Myxococcus xanthus and Cystobacter ferrugineus exposed to prey signalling molecules of the acylhomoserine lactone and quinolone quorum signalling classes provided insight into predatory specialization. Acylhomoserine lactone quorum signals elicited a general response from both myxobacteria. We suggest that this is likely due to the generalist predator lifestyles of myxobacteria and ubiquity of acylhomoserine lactone signals. We also provide data that indicates the core homoserine lactone moiety included in all acylhomoserine lactone scaffolds to be sufficient to induce this general response. Comparing both myxobacteria, unique transcriptional and metabolic responses were observed from Cystobacter ferrugineus exposed to the quinolone signal 2‐heptylquinolin‐4(1H)‐one (HHQ) natively produced by Pseudomonas aeruginosa. We suggest that this unique response and ability to metabolize quinolone signals contribute to the superior predation of P. aeruginosa observed from C. ferrugineus. These results further demonstrate myxobacterial eavesdropping on prey signalling molecules and provide insight into how responses to exogenous signals might correlate with prey range of myxobacteria.
Enrichment of nosZ‐type denitrifiers by arbuscular mycorrhizal fungi mitigates N2O emissions from soybean stubbles
Authors: Zhao Ruotong , Li Xia , Bei Shuikuan , Li Dandan , Li Haigang , Christie Peter , Bender S Franz , Zhang Junling
Published: October 2021

Hotspots of N2O emissions are generated from legume residues during decomposition. Arbuscular mycorrhizal fungi (AMF) from co‐cultivated intercropped plants may proliferate into the microsites and interact with soil microbes to reduce N2O emissions. Yet, the mechanisms by which or how mycorrhizal hyphae affect nitrifiers and denitrifiers in the legume residues remain ambiguous. Here, a split‐microcosm experiment was conducted to assess hyphae of Rhizophagus aggregatus from neighbouring maize on overall N2O emissions from stubbles of nodulated or non‐nodulated soybean. Soil microbes from fields intercropped with maize/soybean amended with fertilizer nitrogen (SS‐N1) or unamended (SS‐N0) were added to the soybean chamber only. AMF hyphae consistently reduced N2O emissions by 20.8%–61.5%. Generally, AMF hyphae promoted the abundance of N2O‐consuming (nosZ‐type) denitrifiers and altered their community composition. The effects were partly associated with increasing MBC and DOC. By contrast, AMF reduced the abundance of nirK‐type denitrifiers in the nodulated SS‐N0 treatment only and that of AOB in the non‐nodulated SS‐N1 treatment. Taken together, our results show that AMF reduced N2O emissions from soybean stubbles, mainly through the promotion of N2O‐consuming denitrifiers. This holds promise for mitigating N2O emissions by manipulating the efficacious AMF and their associated microbes in cereal/legume intercropping systems.
The Electrical Contractors Case: Irish Supreme Court Illuminates Collective Bargaining and Delegated Legislation
Authors: Eustace Alan
Published: October 2021

As Europe begins to emerge from the Covid‐19 pandemic, two trends are clear: one, labour market reform is urgently needed, to cope with new economic and technological realities; and two, big government is back. The recent decision of the Irish Supreme Court in Náisiúnta Leichtreach Contraitheoir Éireann v Labour Court illuminates the relationship between collective bargaining and the regulatory state. In potentially one of the most important decisions in Irish labour law in decades, the Court rejected a constitutional challenge to legislation aimed at empowering social partners to regulate economic sectors through collective bargaining. This article situates that decision within recent scholarship on the ‘labour constitution’ model of labour law, under which the social partners should participate in economic governance. It also highlights the relevance of the decision for the ‘Social Europe’ agenda and the political economy of both national constitutional law and the EU internal market.
Depression and anxiety screening in emergency department patients with recurrent abdominal pain: An evidence synthesis for a clinical practice guideline
Authors: Oliveira J. e Silva Lucas , Prakken Steven D. , Meltzer Andrew C. , Broder Joshua S. , Gerberi Danielle J. , Upadhye Suneel , Carpenter Christopher R. , Bellolio Fernanda
Published: October 2021

Background

Recurrent abdominal pain in the emergency department (ED) might represent an opportunity for screening of depression and/or anxiety.

Methods

We systematically searched five databases for studies evaluating the effect of screening for depression and/or anxiety in ED patients with recurrent and undifferentiated abdominal pain. Given paucity of direct evidence, we also searched for indirect evidence including studies that assessed prevalence of depression and/or anxiety in EDs (not necessarily recurrent abdominal pain), diagnostic accuracy of screening tools, effectiveness of screening in other settings, and outcomes such as repeat ED visits of patients with abdominal pain who were screened in the ED. Two methodologists evaluated certainty in the evidence using the GRADE approach.

Results

A total of 4,337 citations were reviewed, and zero studies were found on the effect of screening in patients with recurrent and undifferentiated abdominal pain in the ED. A total of 35 studies were included as relevant indirect evidence. In studies of ED patients with abdominal pain, depression ranged from 10% to 29%, while anxiety ranged from 18% to 50%. False positives appear to be an issue given relatively low specificity of screening tools. One randomized trial including ED patients with vague symptoms evaluated the effect of depression screening on a composite outcome of depression recognition, psychiatric consultation, or referral by the emergency physician (risk ratio = 1.49, 95% confidence interval [CI] = 0.49 to 4.53, very low certainty). One study reported that patients with undifferentiated abdominal pain who screened positive for depression have had increased ED recidivism (odds ratio = 3.17, 95% CI = 1.14 to 8.85, very low certainty).

Conclusions

We were unable to identify any evidence that confirms that depression or anxiety screening in ED patients with recurrent and undifferentiated abdominal pain improves outcomes or changes management downstream.