bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sequence type diversity amongst antibiotic-resistant bacterial strains is lower than amongst antibiotic-susceptible strains
Authors: Pradhananga Anjani , Benitez-Rivera Lorena , Clark Candace , Tisthammer Kaho , Pennings Pleuni Simone 
Published: November 2022

AbstractThe increasing number of antibiotic resistant bacterial infections is a global threat to human health. Antibiotic resistant bacterial strains generally evolve from susceptible strains by either horizontal gene transfer or chromosomal mutations. After evolving within a host, such resistant strains can be transmitted to other hosts and increase in frequency in the population at large. Population genetic theory postulates that the increase in frequency of an adaptive trait can lead to signatures of selective sweeps. One would thus expect to observe reduced genetic diversity amongst that part of the population that carries the adaptive trait. Specifically, if the evolution of new resistant strains is rare, it is expected that resistant strains represent only a subset of the diversity of susceptible strains. It is currently unknown if diversity of resistant strains is indeed lower than diversity of susceptible strains when considering antibiotic resistance. Here we show that in several bacterial species in several different datasets, sequence-type diversity amongst antibiotic-resistant bacterial strains is indeed lower than amongst antibiotic-susceptible strains in most cases. We re-analysed eight existing clinical datasets withEscherichia coli, Staphylococcus aureusandEnterococcus faeciumsamples. These datasets consisted of 53 - 1094 patient samples, with multi-locus sequence types and antibiotic resistance phenotypes for 3 - 19 different antibiotics. Out of 59 comparisons, we found that resistant strains were significantly less diverse than susceptible strains in 51 cases (86%). In addition, we show that sequence-type diversity of antibiotic-resistant strains is lower if resistance is rare, compared to when resistance is common, which is consistent with rare resistance being due to fewer evolutionary origins. Our results show that for several different bacterial species, we observe reduced diversity of resistant strains, which is consistent with the evolution of resistance driven by selective sweeps stemming from a limited number of evolutionary origins. In future studies, more detailed analysis of such sweep signatures is warranted.
MSdb: an integrated expression atlas of human musculoskeletal system
Authors: Lin Junxin , Tian Ruonan , Xue Ziwei , Ruan Dengfeng , Chen Pengwei , Xu Yiwen , Dai Chao , Shen Weiliang , Ouyang Hongwei , Liu Wanlu 
Published: November 2022

AbstractWe introduce MSdb (https://www.msdb.org.cn), a database for visualization and integrated analysis of next-generation sequencing data from human musculoskeletal system, along with manually curated patient phenotype data. Systematic categorizing, standardized processing and freely accessible knowledge enables the reuse of public data. MSdb provides various types of analysis, including sample-level browsing of metadata information, gene/miRNA expression, and single-cell RNA-seq dataset. In addition, MSdb also allows integrated analysis for cross-samples and cross-omics analysis, including customized differentially-expressed gene/microRNA analysis, microRNA-gene network, scRNA-seq cross-sample/disease integration, and gene regulatory network analysis.
Histo-blood Group Antigen status of Australian Aboriginal children and seropositivity following oral rotavirus vaccination
Authors: Middleton Bianca F. , Danchin Margie , Cunliffe Nigel A. , Jones Mark A. , Boniface Karen , Kirkwood Carl D. , Gallagher Sarah , Kirkham Lea-Ann , Granland Caitlyn , McNeal Monica , Donato Celeste , Bogdanovic-Sakran Nada , Handley Amanda , Bines Julie E. , Snelling Thomas L. 
Published: November 2022

ABSTRACTBackgroundHigh rates of breakthrough rotavirus gastroenteritis have been reported among Aboriginal children living in rural and remote Australia despite receipt of two doses of oral rotavirus vaccine. Histo-blood group antigens (HBGAs) may mediate rotavirus genotype-dependent differences in susceptibility to rotavirus infection and immune responses to rotavirus vaccination.MethodsHBGA phenotype – Lewis and secretor status - was determined by enzyme immunoassay of saliva samples obtained from Australian Aboriginal children who were enrolled at age 6 to <12 months in a randomised clinical trial of an additional (booster) dose of oral rotavirus vaccine. Participants had received the routine two-dose schedule of oral rotavirus vaccine administered at age 6 weeks and 4 months. Non-secretor phenotype was confirmed by DNA extraction to identifyFUT2‘G428A’ mutation. Rotavirus seropositivity was defined as serum anti-rotavirus IgA ≥ 20 AU/mL measured by ELISA on enrolment.ResultsOf 156 children, 119 (76%) were secretors, 129 (83%) were Lewis antigen positive, and 105 (67%) were rotavirus IgA seropositive. Eighty-seven of 119 (73%) secretors were rotavirus seropositive, versus 4/9 (44%) weak secretors and 13/27 (48%) non-secretors. Eighty-nine of 129 (69%) Lewis antigen positive children were rotavirus seropositive versus 10 of 19 (53%) of those who were Lewis antigen negative.ConclusionsMost Australian Aboriginal children were secretor and Lewis antigen positive. Non-secretor children were less likely to be seropositive for rotavirus following vaccination, but this phenotype was less common. HBGA status is unlikely to fully explain the underperformance of rotavirus vaccine at a population level among Australian Aboriginal children.
NasopharyngealStaphylococcus aureuscolonization among HIV-infected children in Addis Ababa, Ethiopia: Antimicrobial susceptibility pattern and association withStreptococcus pneumoniaecolonization
Authors: Gebre Henok Alemu , Wami Ashenafi Alemu , Kebede Eyerusalem Solomon , Yidnekachew Melaku , Gebre Meseret , Negash Abel Abera 
Published: November 2022

AbstractBackgroundStaphylococcus aureusandStreptococcus pneumoniaeare common inhabitants of the nasopharynx of children. HIV-infected children have higher risk of invasive diseases caused by these pathogens. With widespread use of pneumococcal conjugate vaccines and the emergence of methicillin-resistantS aureus, the interaction between S.aureusandS. pneumoniaeis of a particular significance. We sought to determine the magnitude of colonization by methicillin-sensitive and -resistant S.aureusand colonization byS. pneumoniae; associated risk factors and antimicrobial susceptibility pattern among HIV-Infected children in Addis Ababa, Ethiopia.MethodA prospective observational study was conducted in 183 HIV-infected children at ALERT hospital Addis Ababa, Ethiopia from September 2016 to August 2018. S.aureusandS. pneumoniaewere identified using standard bacteriological techniques, antimicrobial susceptibility testing was performed on S.aureusand screening for methicillin resistance was carried out by amplifying themecAgene. Risk factors were analyzed by using binary logistic regression.ResultsThe prevalence of nasopharyngealS. aureus, MRSA andS. pneumoniaecolonization were 27.3%, 2.7% and 43.2% respectively. Multivariable analysis indicated an inverse association betweenS. aureusand S.pneumoniaenasopharyngeal colonization (aOR, 0.49; CI, (0.24, 0.99);p= 0.046). The highest level of resistance in both methicillin sensitiveS. aureus(MSSA) and MRSA was observed against tetracycline.ConclusionsWe found an inverse association betweenS. aureusandS. pneumoniaecolonization among HIV-infected children. Continued assessment of the impact of pneumococcal conjugate vaccines and anti-retroviral therapy on nasopharyngeal bacterial ecology is warranted.
Ensuring learner-centred pedagogy in an open and distance learning environment by applying scaffolding and positive reinforcement
Authors: Ahmed Md. Meraz , Rahman Anika , Hossain Md. Kamal , Tambi Fatimah Binti 
Published: November 2022

PurposeThis study was intended to ensure learner-centred pedagogy in an open and distance learning environment by applying scaffolding and positive reinforcement techniques.Design/methodology/approachThis study critically analysed the context and current instructional practice of Bangladesh Open University (BOU) via document analysis and literature review. The conceptual framework of this study was adapted from the ADDIE model, i.e. the analysis, design, development, implementation and evaluation model.FindingsThe study explored that the instructional practice of BOU was dominated by teacher-centred pedagogy. Hence, to ensure learner-centred pedagogy, the researchers developed three model lesson plans. These lesson plans infused the theoretical directives of scaffolding and positive reinforcement as well as several assessment tasks which can assess the learners’ lower-order and higher-order thinking skills. The researchers also presented possible challenges for the sound implementation of these model lesson plans and suggested pragmatic solutions accordingly.Originality/valueThis study recommended that the combined application of scaffolding and positive reinforcement would effectively ensure learner-centred pedagogy.
Food inflation and geopolitical risks: analyzing European regions amid the Russia-Ukraine war
Authors: Sohag Kazi , Islam Md Monirul , Tomas Žiković Ivana , Mansour Hoda 
Published: November 2022

PurposeThe study's objective is to measure the response of the food prices to the aggregate and disaggregate geopolitical risk events, Russia's geopolitical risks and global energy prices in the context of two European regions, i.e. Eastern and Western Europe covering the monthly data from January 2001 to March 2022.Design/methodology/approachThe authors apply a novel and sophisticated econometric method, the cross-quantilogram (CQ) approach, to analyse the authors’ monthly data properties. This method detects the causal relationship between the variables under the bi-variate modelling approach. More importantly, the CQ procedure divulges the bearish and bullish states of the causal association between the variables under short, medium and long memories.FindingsThe authors find that aggregate measures of geopolitical risk reduce food prices in the short term in the Eastern Europe but increases food prices in the Western Europe. Besides, the decomposed measures of geopolitical risk “threats” and “acts” have heterogeneous effects on the food prices. More importantly, Russia's geopolitical risk events and global energy prices enhance the food inflation under long memory.Research limitations/implicationsThe authors provide diverse policy implications for Eastern and Western Europe based on the authors’ findings. First, the European policymakers should take concrete and joint policy measures to tackle the detrimental effects of geopolitical risks to bring stability to the food markets. Second, this region should emphasize utilizing their unused agricultural lands to grow more crops to avoid external dependence on food. Third, the European Union and its partners should begin global initiatives to help smallholder farmers because of their contribution to the resilience of disadvantaged, predominantly rural communities. Fourth, geopolitically affected European countries like Ukraine should deal with a crippled supply chain to safeguard their production infrastructure. Fifth, fuel (oil) scarcity in the European region due to the Russia-Ukraine war should be mitigated by searching for alternative sources (countries) for smooth food transportation for trade. Finally, as Europe and its Allies impose new sanctions in response to the Russia-Ukraine war, it can have immediate and long-run disastrous consequences on the European and the global total food systems. In this case, all European blocks mandate cultivating stratagems to safeguard food security and evade a long-run cataclysm with multitudinous geopolitical magnitudes for European countries and the rest of the world.Originality/valueThis is the maiden study that considers the aggregated and disaggregated measures of the geopolitical risk events, Russia's geopolitical risks and global energy prices and delves into these dynamics' effects on food prices. Notably, linking the context of the Russia-Ukraine war is a significant value addition to the existing piece of food literature.
Intelligent construction: unlocking opportunities for the digital transformation of China's construction industry
Authors: You Zhijia 
Published: November 2022

PurposeThe existing literature has been mainly focused on local problems but without an overall framework for studying the top-level planning of intelligent construction from a systematic perspective. The purpose of this paper is to fill this gap.Design/methodology/approachThis research adopts a deductive research approach.FindingsThis research proposes a reference architecture and related business scenario framework for intelligent construction based on the existing theory and industrial practice.Originality/valueThe main contribution of this research is to provide a useful reference to the Chinese government and industry for formulating digital transformation strategies, as well as suggests meaningful future research directions in the construction industry.
Co-workership: development of an assessment tool
Authors: Larsson Gerry , Zander Ann Elisabet , Lönngren Marianne 
Published: November 2022

Purpose
The purpose of this study was to develop an easy-to-use, theoretically well-founded and psychometrically sound assessment tool of the concept co-workership.

Design/methodology/approach
Firstly, inductively generated examples of favourable and unfavourable co-worker behaviours were collected, clustered and then expressed as frequency-based Likert-type scale items. Data were obtained from 825 Swedish white collar workers and military personnel. A factor analysis (principal axis factoring with oblique rotation) resulted in a seven-factor solution built up by 30 items and forming the instrument Co-Worker Questionnaire (Co-Worker Q).

Findings
The factors have a strong resemblance to the content of dominating models of leadership, followership, organizational citizenship behaviour and leader–member exchange. The factor scales had relatively high reliability (high Cronbach’s alpha coefficients and low standard errors of measurement). Regarding discriminability, women scored more favourably on five of the factors, men on one factor and age differences were noted on two factors.

Research limitations/implications
Shortcomings include the lack of data on possibly related aspects including person factors, such as personality and socio-economic status, and contextual factors such as more detailed data on the type of work environment and organizational culture.

Practical implications
The instrument has an easy-to-use format and can be used in organization development interventions with a co-workership focus and in individualized coaching or mentoring programmes.

Originality/value
The co-workership concept has so far mainly been used in the Nordic countries. The development of the Co-Worker Q opens up for broader applications.
Antecedents of IoT adoption in food supply chain quality management: an integrative model
Authors: Opasvitayarux Pakorn , Setamanit Siri-on , Assarut Nuttapol , Visamitanan Krisana 
Published: November 2022

PurposeThe introduction of quality management Internet of things (QM IoT) can help food supply chain members to enhance real-time visibility, quality, safety and efficiency of products and processes. Current literature indicates three main research gaps, including a lack of studies in QM IoT in the food supply chain, the vagueness of integrative adoption of new technology framework and deficient research covering both adoption attitude and intention in the same model. This study aims to propose an analysis model based on the technological–organizational–environmental (TOE) framework and reinforced by the collaborative structure to capture the importance of the supply chain network.Design/methodology/approachThe partial least square-structural equation modeling (PLS-SEM) was applied to test the impacts of the adoption factors on QM IoT adoption attitude and intention among 197 respondents in food manufacturing in Thailand.FindingsThe results indicated that compatibility, trialability, adaptive capacity, innovative capability, executive support, value chain partner pressure, presence of service provider and information sharing significantly impacted the attitude toward QM IoT adoption, while adaptive capability, innovative capability and information sharing directly influenced the QM IoT adoption intention. Furthermore, the attitude toward QM IoT adoption positively impacted the QM IoT adoption intention.Practical implicationsThis study contributed to academicians by proposing a more solid adoption framework for QM IoT area. In addition, the business practitioners could actively prepare themselves for the QM IoT adoption, whereas the service providers could provide better and suitable service.Originality/valueThis research contributes to the building of a more solid framework and indicates significant factors that impact the attitude toward QM IoT adoption and adoption intention.
Functional diversity of experimental annual plant assemblages drives plant responses to biological soil crusts in gypsum systems
Authors: Ortiz Laura , Luzuriaga Arantzazu L. , Ferrandis Pablo 
Published: November 2022

Abstract

Biological soil crusts (BSC) are complex biotic aggregates comprised of lichens, cyanobacteria, algae and other micro‐organism that are known to differently affect plant development along life cycle by selecting plant functional traits based on species‐specific effects. In addition, functional differences between interacting species should modulate their response ability to other environmental factors. Thus, it should be expected that the effects of the BSC on plants will be significantly determined by the own functional diversity in the community.

To understand the multiple effects of BSC and the extent to which the functional diversity of interacting plant species can modulate their effects on the development of coexisting species, we applied an experimental approach by manipulating the initial functional diversity of the entire annual plant community and BSC conditions in a common garden trial. We crossed three sorts of assemblages built on the basis of plant stature (combinations of only large, or only small, or diverse sized plant species in pots) with three lichen‐dominated BSC disturbance scenarios (intact, or tiny mechanically disaggregated, or absent portions of BSC).

BSC strongly affected the establishment and development of gypsophilous annual plants in a complex, multifaceted manner, which shifted throughout the plant life cycle. We demonstrated that lichen‐dominated BSC could act as a major physical barrier to the establishment of annual plants at a heterogeneous fine spatial scale. Such a restrictive effect was particularly marked in the presence of intact BSC. However, after annual plants overcame the restrictions imposed by BSC, the same biotic layer facilitated plant growth and fitness, regardless of its physical integrity, resulting in larger plants producing more fruits.

Importantly, our results suggest that the functional diversity structure of the community may also drive growth and fitness of coexisting species by activating alternative coexistence mechanisms such as niche partitioning or competition symmetry. This study highlights the importance of plant neighbourhood features for the performance of interacting species, and confirms a novel, experimental way to explore the effects of community diversity on plants for the interpretation of assembly mechanisms.

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Barriers to seedling establishment in grasslands: Implications forNothofagusforest restoration and migration
Authors: van Galen Laura G. , Lord Janice M. , Orlovich David A. , Jowett Tim , Larcombe Matthew J. 
Published: November 2022

AbstractTree seedling establishment outside forest boundaries is controlled by many interacting factors. Understanding the relative importance of different pressures is essential for improving techniques for forest restoration and for understanding the potential of forest boundaries to shift and adapt to changing climate conditions.We investigated constraints on the spread of a key southern hemisphere forest type into grasslands by undertaking a multifactorial experiment sowingNothofagus cliffortioides(Nothofagaceae) in a historically deforested retired pasture. We manipulated factors to determine the relative effects of sheltered microsites, competition with pasture species, availability of ectomycorrhizal fungi, soil nutrients and rabbit herbivory, on seedling emergence and survival.Overall survival was low (11.7% after 6 months and 1.5% after 10 months), but there were strong treatment effects on both seedling establishment and survival. The availability of shelter and competition with pasture species had strongest effects, with the presence of pasture species initially aiding seedling emergence due to a sheltering effect, but negatively affecting survival at later stages. Most remaining seedlings at the conclusion of the experiment had formed ectomycorrhizae regardless of whether inoculum was supplied, and seedling survival and health was positively related to ectomycorrhizal colonization. Fertilizing had less of an effect than other factors, and results regarding rabbit herbivory were inconclusive.Synthesis and applications. This study provides new insights into how factors interact to limit tree seedling establishment in grasslands and forest expansion into neighbouring ecosystems. This improves understanding of the ability of an ectomycorrhizal keystone forest species to migrate and adapt to climate change. This study also assists restoration practitioners in selecting techniques that will enhance seedling establishment, and highlights that direct seeding approaches in open grasslands are unlikely to result in high rates ofNothofagusestablishment.
Inter‐Firm Coopetition and Credit Ratings: How the Debt Market Reacts to Inter‐Firm Coopetition
Authors: Droege Cara , Greven Andrea , Fischer‐Kreer Denise , Brettel Malte 
Published: November 2022

AbstractDue to the high importance and severe consequences of credit ratings, we investigate the effect inter‐firm coopetition—simultaneous cooperation and competition—has on credit ratings. So far, coopetition research has disregarded its effect on the debt market and research on credit ratings has not considered this evermore occurring mode of alliance. Given the combination of debtholders’ high risk sensitivity and coopetition's paradoxical characteristics entailing high risks and potentially high returns, we hypothesize: First, firms who engage in coopetition enjoy higher credit ratings in general. Second, nevertheless, coopetition increases the likeliness of a credit rating downgrade in the short term. Third, firms can weaken the initial, negative reaction through partner selection. Empirical testing with a large‐scale, cross‐industry sample containing 2569 public firms over a time span of 20 years supports our first two hypotheses. A deeper analysis also validates our third hypothesis. Our research contributes to both literature streams by building on paradox theory and thereby revealing a dark side of coopetition.