bluuebunny/crossref_metadata_2025_split huggingface dataset:
A cryptic plastid and a novel mitochondrial plasmid inLeucomyxa plasmidiferagen. and sp. nov. (Ochrophyta) push the frontiers of organellar biology
Authors: Barcytė Dovilė , Jaške Karin , Pánek Tomáš , Yurchenko Tatiana , Ševčíková Tereza , Eliášová Anežka , Eliáš Marek 
Published: April 2022

AbstractComplete plastid loss seems to be very rare among secondarily non-photosynthetic eukaryotes.Leukarachnionsp. PRA-24, an amoeboid colourless protist related to the photosynthetic algal class Synchromophyceae (Ochrophyta), is a candidate for such a case based on a previous investigation by transmission electron microscopy. Here we characterise this organism in further detail and describe it asLeucomyxa plasmidifera, gen. et sp. nov., additionally demonstrating it is the first known representative of a broader clade of non- photosynthetic ochrophytes. We recovered its complete plastid genome, exhibiting a reduced gene set similar to plastomes of other non-photosynthetic ochrophytes yet being even more extreme in sequence divergence. Identification of components of the plastid protein import machinery in theLeuc. plasmidiferatranscriptome assembly corroborated the organism possesses a cryptic plastid organelle. According to our bioinformatic reconstruction the plastid contains a unique combination of biosynthetic pathways producing haem, a folate precursor, and tocotrienols. As another twist to its organellar biology,Leuc. plasmidiferaturned out to contain an unusual long insertion in its mitogenome related to a newly discovered mitochondrial plasmid exhibiting unprecedented features in terms of its size and coding capacity. Combined, our work uncovered further striking outcomes of the evolutionary course of semiautonomous organelles in protists.
Parental histone distribution at nascent strands controls homologous recombination during DNA damage tolerance
Authors: González-Garrido Cristina , Prado Félix 
Published: April 2022

AbstractThe advance and stability of replication forks rely on a tight co-regulation of the processes of DNA synthesis and nucleosome assembly. We have addressed the relevance of parental histone recycling in the mechanisms of DNA damage tolerance (DDT) – homologous recombination (HR) and translesion synthesis (TLS) – that assist replication forks under conditions that block their advance. We show that mutants affected in the deposition of parental histones are impaired in the recombinational repair of the single-strand DNA gaps generated during DDT, with the defects being more severe in mutants impaired in the lagging strand-specific deposition pathway. These recombinational defects are not due to a deficit of parental histones at the nascent strands but to an excess of parental nucleosomes at the invaded strand that destabilizes the sister chromatid junction formed after strand invasion. In conclusion, parental histone distribution at stressed forks regulates HR and provides a potential mechanism for the choice between HR and TLS that would depend on whether DNA synthesis is blocked at the lagging or the leading strand.
Comparative genomics of Minnesotan barley-infecting Xanthomonas translucens shows overall genomic similarity but virulence factor diversity
Authors: Heiden Nathaniel , Roman-Reyna Verónica , Curland Rebecca , Dill-Macky Ruth , Jacobs Jonathan M. 
Published: April 2022

AbstractXanthomonas translucens pv. translucens (Xtt) is a global barley pathogen and a concern for resistance breeding and regulation. Long-read whole genome sequences allow in-depth understanding of pathogen diversity. We have completed long-read PacBio sequencing of two Minnesotan Xtt strains and an in-depth analysis of available Xtt genomes. We found that average nucleotide identity(ANI)-based approaches organize Xtt strains differently than the previously standard MLSA approach. According to ANI, Xtt forms a separate clade from Xanthomonas translucens pv. undulosa and consists of three main groups which are represented on multiple continents. The global distribution of Xtt groups suggests that regulation of seed is not important for prevention of Xtt spread. Some virulence factors, such as 17 Type III-secreted effectors, are highly conserved and offer potential targets for the elicitation of broad resistance. However, there is a high degree of variation in virulence factors meaning that germplasm should be screened for resistance with a diverse panel of Xtt.
Effects of experiencing CS-US pairings on instructed fear reversal
Authors: Wisniewski David , Braem Senne , González-García Carlos , De Houwer Jan , Brass Marcel 
Published: April 2022

AbstractFear learning allows us to identify and anticipate aversive events, and adapt our behavior accordingly. This is often thought to rely on associative learning mechanisms where an initially neutral conditioned stimulus (CS) is repeatedly paired with an aversive unconditioned stimulus (US), eventually leading to the CS also being perceived as aversive and threatening. Importantly, however, humans also show verbal fear learning. Namely, they have the ability to change their responses to stimuli rapidly through verbal instructions about CS-US pairings. Past research on the link between experience-based and verbal fear learning indicated that verbal instructions about a reversal of CS-US pairings can fully override the effects of previously experienced CS-US pairings, as measured through fear ratings, skin conductance, and fear-potentiated startle. However, it remains an open question whether such instructions can also annul memory traces in the brain. Here, we used a fear reversal paradigm in conjunction with representational similarity analysis of fMRI data to test whether verbal instructions fully override the effects of experienced CS-US pairings in fear-related brain regions or not. Previous research suggests that only the right amygdala should show lingering representations of previously experienced threat (a so-called “Pavlovian trace”). Unexpectedly, we found evidence for the residual effect of prior CS-US experience to be much more widespread than anticipated, in the amygdala but also cortical regions like the dorsal anterior cingulate or dorso-lateral prefrontal cortex. This finding shines a new light on the interaction of different fear learning mechanisms, at times with unexpected consequences.
Blood oxygenation-level dependent cerebrovascular reactivity imaging as strategy to monitor CSF-hemoglobin toxicity
Authors: Thomson Bart R. , Richter Henning , Akeret Kevin , Buzzi Raphael M. , Anagnostakou Vania , van Niftrik Christiaan H. B. , Schwendinger Nina , Kulcsar Zsolt , Kronen Peter W. , Regli Luca , Fierstra Jorn , Schaer Dominik J. , Hugelshofer Michael 
Published: April 2022

ABSTRACTPurposeCell-free hemoglobin in the cerebrospinal fluid (CSF-Hb) may be one of the main drivers of secondary brain injury after aneurysmal subarachnoid hemorrhage. Haptoglobin scavenging of CSF-Hb has been shown to mitigate cerebrovascular disruption. Using digital subtraction angiography (DSA) and blood oxygenation-level dependent cerebrovascular reactivity imaging (BOLD-CVR) the aim was to assess the acute toxic effect of CSF-Hb on cerebral blood flow and autoregulation, as well as to test the protective effects of haptoglobin.MethodsDSA imaging was performed in eight anesthetized and ventilated sheep (mean weight: 80.4 kg) at baseline, 15, 30, 45 and 60 minutes after infusion of hemoglobin (Hb) or co-infusion with haptoglobin (Hb:Haptoglobin) into the left lateral ventricle. Additionally, 10 ventilated sheep (mean weight: 79.8 kg) underwent BOLD-CVR imaging to assess the cerebrovascular reserve capacity.ResultsDSA imaging did not show a difference in mean transit time or cerebral blood flow. Wholebrain BOLD-CVR compared to baseline decreased more in the Hb group after 15 minutes (Hb vs Hb:Haptoglobin: −0.03 ±0.01 vs −0.01 ±0.02) and remained diminished compared to Hb:Haptoglobin group after 30 minutes (Hb vs Hb:Haptoglobin: −0.03 ±0.01 vs 0.0 ±0.01), 45 minutes (Hb vs Hb:Haptoglobin: −0.03 ±0.01 vs 0.01 ±0.02) and 60 minutes (Hb vs Hb:Haptoglobin: −0.03 ±0.02 vs 0.01 ±0.01).ConclusionIt is demonstrated that CSF-Hb toxicity leads to rapid cerebrovascular reactivity impairment, which is blunted by haptoglobin co-infusion. BOLD-CVR may therefore be further evaluated as a monitoring strategy for CSF-Hb toxicity after aSAH.
How to select the best model from AlphaFold2 structures?
Authors: Takei Yuma , Ishida Takashi 
Published: April 2022

AbstractAmong the methods for protein structure prediction, which is important in biological research, AlphaFold2 has demonstrated astonishing accuracy in the 14th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP14). The accuracy is close to the level of experimental structure determination. Furthermore, AlphaFold2 predicts three-dimensional structures and estimates the accuracy of the predicted structures. AlphaFold2 outputs two model accuracy estimation scores, pLDDT, and pTM, enabling the user to judge the reliability of the predicted structures. Original research of AlphaFold2 showed that those scores had good correlations to actual prediction accuracy. However, it was unclear whether we could select a structure close to the native structure when multiple structures are predicted for a single protein. In this study, we generated several hundred structures with different combinations of parameters for 500 proteins and verified the performance of the accuracy estimation scores of AlphaFold2. In addition, we compared those scores with existing accuracy estimation methods. As a result, pLDDT and pTM showed better performance than the existing accuracy estimation methods for AlphaFold2 structures. However, the estimation performance of relative accuracy of the scores was still insufficient, and the improvement would be needed for further utilization of AlphaFold2.
Does pre-infection stress increase the risk of long COVID? Longitudinal associations between adversity worries and experiences in the month prior to COVID-19 infection and the development of long COVID and specific long COVID symptoms
Authors: Paul Elise , Fancourt Daisy 
Published: April 2022

SummaryBackgroundLong COVID is increasingly recognised as public health burden. Demographic and infection-related characteristics have been identified as risk factors, but less research has focused on psychosocial predictors such as stress immediately preceding the index infection. Research on whether stressors predict the development of specific long COVID symptoms is also lacking.MethodsData from 1,966 UK adults who had previously been infected with COVID-19 and who took part in the UCL COVID-19 Social Study were analysed. The number of adversity experiences (e.g., job loss) and the number of worries about adversity experiences within the month prior to COVID-19 infection were used to predict the development of self-reported long COVID and the presence of three specific long COVID symptoms (difficulty with mobility, cognition, and self-care). The interaction between a three-level index of socio-economic position (SEP; with higher values indicating lower SEP) and the exposure variables in relation to long COVID status was also examined. Analyses controlled for a range of COVID-19 infection characteristics, socio-demographics, and health-related factors.FindingsOdds of self-reported long COVID increased by 1.25 (95% confidence interval [CI]: 1.04 to 1.51) for each additional worry about adversity in the month prior to COVID-19 infection. Although there was no evidence for an interaction between SEP and either exposure variable, individuals in the lowest SEP group were nearly twice as likely to have developed long COVID as those in the highest SEP group (OR: 1.95; 95% CI: 1.19 to 3.19) and worries about adversity experiences remained a predictor of long COVID (OR: 1.43; 95% CI: 1.04 to 1.98). The number of worries about adversity experiences also corresponded with increased odds of certain long COVID symptoms such as difficulty with cognition (e.g., difficulty remembering or concentrating) by 1.46 (95% CI: 1.02 to 2.09) but not with mobility (e.g., walking or climbing steps) or self-care (e.g., washing all over or dressing).InterpretationResults suggest a key role of stress in the time preceding the acute COVID-19 infection for the development of long COVID and for difficulty with cognition specifically. These findings point to the importance of mitigating worries and experiences of adversities during pandemics both to reduce their psychological impact but also help reduce the societal burden of longer-term illness.FundingThe Nuffield Foundation [WEL/FR-000022583], the MARCH Mental Health Network funded by the Cross-Disciplinary Mental Health Network Plus initiative supported by UK Research and Innovation [ES/S002588/1], and the Wellcome Trust [221400/Z/20/Z and 205407/Z/16/Z].
Earnings quality determinants in pre-corona crisis: another insight from bank core capital categories
Authors: Valdiansyah Riyan Harbi , Murwaningsari Etty 
Published: April 2022

PurposeDiscretionary accruals are earnings quality proxies that illustrate that the greater the value of discretionary accruals, the greater the practice of earnings management and vice versa. High-quality financial reports (especially earnings quality) are expected to help investors and potential investors to make decisions. This study analyses the factors that affect earnings quality, such as pre-managed earnings, liquidity and efficiency. Furthermore, the authors identify the moderating effect of the governance mechanisms proxied by the proportion of independent commissioners in conventional commercial banks listed on the Indonesia Stock Exchange.Design/methodology/approachThis study uses 226 banking data in the pre-corona crisis period 2013 until 2019. The data were analyzed using EViews 10 for hypothesis and MS Excel for a differential test.FindingsThe results show that pre-managed earnings, liquidity and efficiency affect earnings quality. The governance mechanisms can moderate liquidity and efficiency on earnings quality, while pre-managed earnings cannot be moderated. The different bank categories (BUKU) of earnings management mechanisms are shown for each BUKU (BUKU 1, 3 and 4 perform earnings management by increasing earnings, BUKU 2 lowering earnings). Another thing is information on the earnings quality between BUKU 2 with BUKU 3 and BUKU 4 because of differences in capital and bank operating coverage regulations.Research limitations/implicationsFurther research expects to analyze the factors affecting banking earnings quality concerning applying IFRS 9 (PSAK 71) in Indonesia. Future researchers expect to apply mixed methods to verify the financial statement data and provide comprehensive discussion and genuine insight from their study. Future research requires more samples from companies or an international scale (cross country) to obtain maximum results and be generally accepted.Practical implicationsThis study implies that managers should have more control over pre-managed earnings and bank liquidity as manager's incentive to do earnings smoothing. Managers should also pay attention to cost-efficiency and effective implementation of governance mechanisms to maximize earnings quality. This study also implies that policymakers can encourage commercial banks to apply more prudential principles in terms of a reserve for failed loans to minimize earnings management in banking.Originality/valueThe significance of this study revealed in the discussion of the difference test between bank core capital categories (BUKU) and its relation to earnings quality.
College of Business Administration: change and growth
Authors: Enkuzena Signe , Supe Janis , Roze Jana 
Published: April 2022

Learning outcomes
Learning outcomes are as follows: Students will understand the main characteristics of Agile leader and importance of these characteristics in successful change management. Students will understand how Agile leader works to manage changes in organizations and what steps the leader must take to make successful changes in the organization. Students will know in details the Kotter change management model, will recognize and will be able to apply this model in real-life situations.

Case overview/synopsis
The case study is about the College of Business Administration (CBA). The CBA is a private higher education institution located in Riga, Latvia, Eastern Europe. The CBA provides professional higher education programs. The case study tells the story how Susan was at first hired as free-lancer for specific tasks at the College in 2017. After successful competition of these tasks, Susan was hired as the new director in 2018. The management at the College was almost non-existent at that moment, and Susan had to face the question how to develop the CBA and make it profitable. Susan had to build her management team, had to review and describe all processes and had to build the internal culture of the organization. Susan implemented change management plan, and in four years, the number of students and lecturers at the College had doubled, and the turnover of the CBA had reached more than one million euros. The case study shows Agile leader characteristics and change management process in details.

Complexity academic level
Undergraduate studies.

Supplementary materials
Teaching notes are available for educators only.

Subject code
CSS 7: Management Science
Defining critical aspects in interaction: examples from a learning study on welding based on CAVTA
Authors: Kilbrink Nina , Axelsson Jan , Asplund Stig-Börje 
Published: April 2022

PurposeThe purpose of this study is to explore how critical aspects can be defined in a learning study on welding without conducting any pre-tests.Design/methodology/approachIn this study, the authors focus on empirical examples from a learning study on welding conducted in six iterative cycles, with conversation analysis and variation theory approach (CAVTA) as a theoretical basis. The welding lessons have been video-recorded, and in the study, the authors analyze examples where the teachers try to identify critical aspects of a vocational practical object of learning in interaction. CAVTA permeates the complete process, where the analysis has been part of the iterative cycles and further developed when the six cycles were completed.FindingsThe results show how critical aspects can be made visible in the interaction between teacher(s) and student(s) in the enacted learning situation. In the process, the authors work with the three concepts expected critical aspects, displayed critical aspects and targeted critical features in relation to a vocational practical object of learning where conducting a pre-test to define critical aspects is not educationally possible.Originality/valueTeaching vocational practical objects of learning could be seen as something different from teaching other kinds of objects of learning and the use of the traditional pre-tests in learning studies may be problematic. From that follows, that other ways of finding the critical aspects for the students regarding a vocational practical object of learning might be needed. In this study, such a way is presented.
COVID-19 and mandatory teleworking from home in Japan: taking stock to improve satisfaction and job performance
Authors: Magnier-Watanabe Remy , Benton Caroline , Orsini Philippe , Uchida Toru , Magnier-Watanabe Kaoruko 
Published: April 2022

Purpose
This exploratory paper aims to examine attitudes and practices with regard to the COVID-19 pandemic, as well as the effects of mandatory teleworking from home in the wake of the first state of emergency orders in Japan in 2020.

Design/methodology/approach
An online survey of married employees retrospectively assessed changes in work style, subjective well-being, work–family conflict and job performance before and during forced teleworking from home in Tokyo and three of the surrounding prefectures.

Findings
Regular employees reported high levels of anxiety and to have thoroughly implemented government-recommended hygiene and safety practices. A majority of respondents were satisfied with mandatory telework from home and desired to continue partial telework after the end of the pandemic. The strongest predictor of satisfaction with mandatory telework from home turned out to be adequate workspace at home for both men and women. However, the antecedents of the desire to continue working from home differed by gender.

Practical implications
These findings can help individuals, firms and governments better understand the effects of mandatory teleworking from home and devise countermeasures to maximize employee well-being and job performance. This is all the more crucial, as Japan has had successive waves of the virus and has declared numerous states of emergency since the beginning of the pandemic, forcing office workers to continue social distancing and remote working for the time being.

Originality/value
To the best of the authors’ knowledge, this research is one of the first to provide insights on how imposed teleworking from home in the context of COVID-19 in Japan affected regular employees’ personal and professional lives and to identify predictors of satisfaction with teleworking and the desire to continue doing so.
Research on recognition method of wear debris based on YOLO V5S network
Authors: Shi Xinfa , Cui Ce , He Shizhong , Xie Xiaopeng , Sun Yuhang , Qin Chudong 
Published: April 2022

Purpose
The purpose of this paper is to identify smaller wear particles and improve the calculation speed, identify more abrasive particles and promote industrial applications.

Design/methodology/approach
This paper studies a new intelligent recognition method for equipment wear debris based on the YOLO V5S model released in June 2020. Nearly 800 ferrography pictures, 23 types of wear debris, about 5,000 wear debris were used to train and test the model. The new lightweight approach of wear debris recognition can be implemented in rapidly and automatically and also provide for the recognition of wear debris in the field of online wear monitoring.

Findings
An intelligent recognition method of wear debris in ferrography image based on the YOLO V5S model was designed. After the training, the GIoU values of the model converged steadily at about 0.02. The overall precision rate and recall rate reached 0.4 and 0.5, respectively. The overall MAP value of each type of wear debris was 40.5, which was close to the official recognition level of YOLO V5S in the MS COCO competition. The practicality of the model was approved. The intelligent recognition method of wear debris based on the YOLO V5S model can effectively reduce the sensitivity of wear debris size. It also has a good recognition effect on wear debris in different sizes and different scales. Compared with YOLOV. YOLOV, Mask R-CNN and other algorithms%2C, the intelligent recognition method based on the YOLO V5S model, have shown their own advantages in terms of the recognition effect of wear debris%2C the operation speed and the size of weight files. It also provides a new function for implementing accurate recognition of wear debris images collected by online and independent ferrography analysis devices.

Originality/value
To the best of the authors’ knowledge, the intelligent identification of wear debris based on the YOLO V5S network is proposed for the first time, and a large number of wear debris images are verified and applied.