bluuebunny/crossref_metadata_2025_split huggingface dataset:
Coming of age for COI metabarcoding of whole organism community DNA: Towards bioinformatic harmonisation
Authors: Creedy Thomas J. , Andújar Carmelo , Meramveliotakis Emmanouil , Noguerales Victor , Overcast Isaac , Papadopoulou Anna , Morlon Hélène , Vogler Alfried P. , Emerson Brent C. , Arribas Paula 
Published: September 2021

AbstractMetabarcoding of DNA extracted from community samples of whole organisms (whole organism community DNA, wocDNA) is increasingly being applied to terrestrial, marine and freshwater metazoan communities to provide rapid, accurate and high resolution data for novel molecular ecology research. The growth of this field has been accompanied by considerable development that builds on microbial metabarcoding methods to develop appropriate and efficient sampling and laboratory protocols for whole organism metazoan communities. However, considerably less attention has focused on ensuring bioinformatic methods are adapted and applied comprehensively in wocDNA metabarcoding. In this study we examined over 600 papers and identified 111 studies that performed COI metabarcoding of wocDNA. We then systematically reviewed the bioinformatic methods employed by these papers to identify the state‐of‐the‐art. Our results show that the increasing use of wocDNA COI metabarcoding for metazoan diversity is characterised by a clear absence of bioinformatic harmonisation, and the temporal trends show little change in this situation. The reviewed literature showed (i) high heterogeneity across pipelines, tasks and tools used, (ii) limited or no adaptation of bioinformatic procedures to the nature of the COI fragment, and (iii) a worrying underreporting of tasks, software and parameters. Based upon these findings we propose a set of recommendations that we think the metabarcoding community should consider to ensure that bioinformatic methods are appropriate, comprehensive and comparable. We believe that adhering to these recommendations will improve the long‐term integrative potential of wocDNA COI metabarcoding for biodiversity science.
Assessing the Development–Foreign Policy Nexus of the Asian Rising Powers: South Korea, China, Japan and Indonesia
Authors: Parlar Dal Emel , Dipama Samiratou , Çaytaş Şaban , Sezgin Ayda 
Published: September 2021

AbstractThis article adopts a holistic view of the theoretical and empirical interconnection between the development and foreign policies of four Asian rising powers: South Korea (hereafter Korea), Japan, Indonesia and China during three consecutive periods; the Washington Consensus (WC) era (1980–1990), the Post‐Washington Consensus (PWC) era (1990–2008) and the Hybrid/Mix (H/M) era (2008–onwards). This study aims to elucidate and compare the level of coherence between the development agenda and foreign policy tools of these four Asian rising powers. First, the article provides an overview of the existing literature on the developmental state and developmental foreign policy. Second, it presents a development‐foreign policy nexus (DFN) framework that takes into account five layers: (1) economics; (2) diplomacy; (3) security and peace; (4) civil society; and (5) state‐market, and their related lines of action and instruments. The last part applies this DFN framework to our selected cases and provides comparative insights based on our newly created DFN Index scores, calculated separately for the four countries in each of the eras under review. In the final analysis, the results of our DFN Index and comparative case studies indicate that since the 1980s, in the selected four countries development has almost become subordinated to foreign policy and this coherence has continued to increase since the end of the 1990s.
Longitudinal prediction of periconception alcohol use: a 20‐year prospective cohort study across adolescence, young adulthood and pregnancy
Authors: Hutchinson Delyse , Spry Elizabeth A. , Mohamad Husin Hanafi , Middleton Melissa , Hearps Stephen , Moreno‐Betancur Margarita , Elliott Elizabeth J. , Ryan Joanne , Olsson Craig A. , Patton George C. 
Published: September 2021

AbstractBackground and AimsAlcohol consumption is common in adolescence and young adulthood and may continue into pregnancy, posing serious risk to early fetal development. We examine the frequency of periconception alcohol use (prior to pregnancy awareness) and the extent to which adolescent and young adult alcohol use prospectively predict periconception use.DesignA longitudinal, population‐based study.SettingVictoria, Australia.ParticipantsA total of 289 women in trimester three of pregnancy (age 29–35 years; 388 pregnancies).MeasuresThe main exposures were binge [≥ 4.0 standard drinks (SDs)/day] and frequent (≥ 3 days/week) drinking in adolescence (mean age = 14.9–17.4 years) and young adulthood (mean age 20.7–29.1 years). Outcomes were frequency (≥ 3 days/week, ≥ monthly, never) and quantity (≥ 4.0 SDs, ≥ 0.5 and < 4.0 SDs, none) of periconception drinking.FindingsAlcohol use was common in young adulthood prior to pregnancy (72%) and in the early weeks of pregnancy (76%). The proportions drinking on most days and binge drinking were similar at both points. Reflecting a high degree of continuity in alcohol use behaviours, most women who drank periconceptionally had an earlier history of frequent (77%) and/or binge (85%) drinking throughout the adolescent or young adult years. Young adult binge drinking prospectively predicted periconception drinking quantity [odds ratio (OR) = 3.7, 95% confidence interval (CI) = 1.9–7.4], compared with women with no prior history. Similarly, frequent young adult drinking prospectively predicted frequent periconception drinking (OR = 30.7, 95% CI = 12.3–76.7).ConclusionsWomen who engage in risky (i.e. frequent and binge) drinking in their adolescent and young adult years are more likely to report risky drinking in early pregnancy prior to pregnancy recognition than women with no prior history of risky drinking.
Opportunity to improve livestock traits using 3D genomics
Authors: MacPhillamy C. , Pitchford W. S. , Alinejad‐Rokny H. , Low W. Y. 
Published: September 2021

SummaryThe advent of high‐throughput chromosome conformation capture and sequencing (Hi‐C) has enabled researchers to probe the 3D architecture of the mammalian genome in a genome‐wide manner. Simultaneously, advances in epigenomic assays, such as chromatin immunoprecipitation and sequencing (ChIP‐seq) and DNase‐seq, have enabled researchers to study cis‐regulatory interactions and chromatin accessibility across the same genome‐wide scale. The use of these data has revealed many unique insights into gene regulation and disease pathomechanisms in several model organisms. With the advent of these high‐throughput sequencing technologies, there has been an ever‐increasing number of datasets available for study; however, this is often limited to model organisms. Livestock species play critical roles in the economies of developing and developed nations alike. Despite this, they are greatly underrepresented in the 3D genomics space; Hi‐C and related technologies have the potential to revolutionise livestock breeding by enabling a more comprehensive understanding of how production traits are controlled. The growth in human and model organism Hi‐C data has seen a surge in the availability of computational tools for use in 3D genomics, with some tools using machine learning techniques to predict features and improve dataset quality. In this review, we provide an overview of the 3D genome and discuss the status of 3D genomics in livestock before delving into advancing the field by drawing inspiration from research in human and mouse. We end by offering future directions for livestock research in the field of 3D genomics.
Retention of General Practitioners in remote areas of Canada and Australia: A meta‐aggregation of qualitative research
Authors: Wieland Lara , Ayton Jennifer , Abernethy Gail 
Published: September 2021

AbstractObjectiveOur aim was to systematically review qualitative evidence regarding the experiences and perceptions of General Practitioners and the factors influencing retention in remote areas of Canada and Australia. The objectives were to identify gaps and inform policy to improve retention of remote doctors, which should in turn reduce health inequalities for remote communities.DesignMeta‐aggregation of qualitative studies of General Practitioners and general practice registrars who had worked in a remote area of Australia or Canada for a minimum of 1 year and/or were intending to stay remote long term in their current placement.ResultsSix synthesised findings were identified: peer and professional support, organisational support, uniqueness of remote lifestyle and work, burnout and time off, personal family issues and cultural and gender issues.ConclusionsLong‐term retention of doctors in remote areas of Australia and Canada is influenced by a range of negative and positive perceptions, and experiences with key factors being professional, organisational and personal. All 6 synthesised findings span a spectrum of policy domains and service responsibilities, and therefore, a central coordinating body could be well placed to implement a multifactorial retention strategy.
Province of Thieves: On Violence, Reflexivity and The Cross‐Cultural Encounter
Authors: Arensen Lisa 
Published: September 2021

SummaryTo understand another human being, sometimes vividly imagining another person’s lifeworld is better than analysis. I seek a kind of writing that allows both modes of understanding. This mostly nonfiction essay is based on events of nearly two decades ago, when I lived in Cambodia as a young white female development worker, before I formally studied anthropology. I describe several months of work and travel in a rural village by myself and my Khmer colleagues, and explore the various ways in which I and others experienced and understood several violent incidents. I attempt to reflexively reflect upon my own cultural positioning versus that of my Buddhist colleagues. This piece moves from narrative non‐fiction to several sequences trying to envision the past of someone living in an entirely different cultural milieu than my own. These pieces are wholly imagined, so this piece of writing is a hybrid between creative non‐fiction and fiction.
The causal effect of being born extremely preterm or extremely low birthweight on neurodevelopment and social‐emotional development at 2 years
Authors: Olsen Joy E. , Lee Katherine J. , Spittle Alicia J. , Anderson Peter J. , Doyle Lex W. , Cheong Jeanie L. Y. ,   the members of the Victorian Infant Collaborative Study Group
Published: September 2021

AbstractAimTo assess the causal effect of being born extremely preterm (EP; <28 weeks’ gestation) or extremely low birthweight (ELBW; <1000 g), compared with being born at term, on neurodevelopment and social‐emotional development at 2 years’ corrected age.MethodsProspective geographical cohort study of children born EP/ELBW over 12 months in 2016 from Victoria, Australia, and term‐born controls. Children were assessed at 2 years’ corrected age with the Bayley Scales of Infant and Toddler Development–3rd edition and the Infant‐Toddler Social and Emotional Assessment. Delay was defined as <−1 standard deviation relative to the mean of controls. The estimand of interest was the mean difference/odds ratio (OR) between the EP/ELBW and control groups estimated using linear/logistic regression, adjusted for multiple pregnancy and social risk.ResultsA total of 205 EP/ELBW and 201 controls were assessed at 2 years. Delay/concerns were more common in the EP/ELBW group compared with controls, for cognitive (OR 3.7 [95% confidence interval 2.3, 6.0]), language (5.3 [3.1, 9.0]) and motor (3.9 [2.3, 6.3]) development, and social‐emotional competence (4.1 [1.6, 10.2]).ConclusionBeing born EP/ELBW has an adverse effect on cognitive, language and motor development, and social‐emotional competence at 2 years’ corrected age. Close developmental surveillance, including social‐emotional development, is recommended.
An increased asthma risk continued until young adulthood after early‐childhood hospitalisation for wheezing
Authors: Ruotsalainen Marja , Heikkilä Paula , Backman Katri , Korppi Matti 
Published: September 2021

AbstractAimThe aim of this cohort study was to evaluate doctor‐diagnosed and self‐reported asthma in young adults after early‐childhood hospitalisation for wheezing.MethodsIn this prospective‐controlled follow‐up, questionnaires were sent to 95 subjects aged 24–28 years, who had been hospitalised for their first episodes of wheezing under 24 months of age. Fifty‐eight cases and 100 controls returned the questionnaires.ResultsThe risk of doctor‐diagnosed asthma was 2.14‐fold (95% confidence interval 0.61–7.41), and the risk of self‐reported asthma 2.39‐fold (1.14–4.99) in cases compared to controls. The increased risk of self‐reported asthma remained as statistically significant in analyses adjusted for current smoking, overweight and allergic rhinitis. Study subjects presented with wheezing symptoms, use of bronchodilators and inhaled corticosteroids, and with seasonal symptoms presumptive for allergic rhinitis during the last 12 months, more often than controls. The identification of a respiratory syncytial virus or rhinovirus during hospitalisation in early childhood was not anymore associated with asthma risk in adulthood. As expected, previous asthma during early childhood was a strong risk factor for asthma in young adulthood.ConclusionIn this controlled questionnaire study, early‐childhood hospitalisation for lower respiratory infection with wheezing was an independently significant risk factor of asthma in young adults.
Clinical classification and long‐term outcomes of seronegative coeliac disease: a 20‐year multicentre follow‐up study
Authors: Schiepatti Annalisa , Rej Anupam , Maimaris Stiliano , Cross Simon S. , Porta Petra , Aziz Imran , Key Tim , Goodwin John , Therrien Amelie , Yoosuf Shakira , Leffler Daniel A. , Silvester Jocelyn A. , Klersy Catherine , Biagi Federico , Sanders David S. 
Published: September 2021

SummaryBackgroundSeronegative coeliac disease is poorly defined.AimsTo study clinical phenotypes and long‐term outcomes of seronegative coeliac disease in a multicentre cohort over 20 years.MethodsSeronegative coeliac disease was diagnosed in HLA‐DQ2/DQ8‐positive patients with villous atrophy (VA), negative IgA endomysial (EmA), tissue transglutaminase (tTG) and deamidated‐gliadin antibodies (DGP), clinical and histological response to a gluten‐free diet (GFD), and no alternative causes for VA. In patients with IgA deficiency, coeliac disease was diagnosed through VA, positive IgG EmA/tTG/DGP and clinical/histological response to a GFD (coeliac disease+IgAd). Patients with seropositive coeliac disease served as controls.ResultsOf 227 patients previously diagnosed with seronegative coeliac disease, true seronegative coeliac disease was confirmed in 84, coeliac disease+IgAd in 48, and excluded in 55. Lack of follow‐up duodenal biopsy precluded diagnosing seronegative coeliac disease in 40 patients. 2084 patients with seropositive coeliac disease served as controls. True seronegative coeliac disease had more severe symptoms at diagnosis and a higher risk of complications (HR 10.87, 95% CI 6.11‐19.33, P < 0.001) and mortality (HR 2.18, 95% CI 1.12‐4.26, P < 0.01) than seropositive coeliac disease. There were no differences between true seronegative coeliac disease and coeliac disease+IgAd. On multivariate analysis, age at diagnosis, lack of clinical response to a GFD, true seronegative coeliac disease, coeliac disease+IgAd, and classical presentation predicted complications. Age at diagnosis, complications and absence of clinical response to a GFD predicted mortality.ConclusionsSeronegative coeliac disease has a more aggressive disease phenotype than seropositive coeliac disease. These data argue against over‐reliance on serology for the diagnosis of coeliac disease and support a strict clinical and histologic follow‐up in seronegative coeliac disease.
Creativity in mathematics performance: The role of divergent and convergent thinking
Authors: de Vink Isabelle C. , Willemsen Robin H. , Lazonder Ard. W. , Kroesbergen Evelyn H. 
Published: September 2021

BackgroundCreativity requires both divergent and convergent thinking. Previous research established that divergent thinking relates to mathematics performance, but generally ignored the role of convergent thinking and, hence, leaves it unclear how both might interact when children work on mathematical tasks. This study addressed this paucity in the research literature, with the goal of improving our understanding of the role of creative thinking in primary school mathematics.AimsThis study examined how divergent and convergent thinking contribute to mathematics performance, both directly and jointly, on single‐ and multiple‐solution tasks.SampleThe study was conducted with 229 Dutch fifth graders of 12 primary schools.MethodDivergent and convergent thinking were measured with a visual and verbal task. Path analysis was used including verbal and visual divergent and convergent thinking tasks in relation to single‐ and multiple‐solution mathematics task performance. Working memory was included as a covariate.ResultsVerbal convergent thinking positively predicted single‐ and multiple‐solution task performance. Verbal divergent and convergent thinking interacted in relation to single‐solution task performance, while visual divergent and convergent thinking interacted in relation to multiple‐solution task performance.ConclusionsChildren’s mathematics performance mainly relies on convergent thinking. The role of divergent thinking is twofold: it complements convergent thinking on multiple‐solution tasks and compensates convergent thinking on single‐solution tasks.
Exploring a Vygotskian Theory of Education and Its Evolutionary Foundations
Authors: Nardo Aline 
Published: September 2021

AbstractDespite his popularity in educational discourses, Lev S. Vygotsky tends to be read mainly as an educational psychologist or learning theorist. His potential contribution to a theory of education remains largely undiscussed. The Zone of Proximal Development (ZPD) is often misunderstood as a sort of “educational tool,” which severely reduces the richness of the concept emerging from Vygotsky's works. In this essay, Aline Nardo argues that acknowledging the evolutionary underpinnings in Vygotsky's thinking would enrich an educational discussion of Vygotsky. This substrate in Vygotsky's educational works, she argues, has been strikingly underappreciated, and her analysis seeks to address this gap by building upon the analogy between Vygotsky's Marxist negation of a Darwinian adaptation paradigm and his conceptual differentiation between learning and development in order to draw out the pedagogical dimension of the ZPD. Pedagogical interaction, in an evolutionary reading of Vygotsky, is qualitatively different from peer interactions, as it is connected to development rather than learning. This perspective, Nardo concludes, has important implications for the role of the teacher and a definition of “the pedagogical.”
Improvements in metacognition mediate the effect of metacognitive remediation therapy: A non‐randomized controlled study among individuals with first‐episode psychosis
Authors: Pine Jacob G. , Moe Aubrey M. , Wastler Heather M. , Breitborde Nicholas J. K. 
Published: September 2021

AbstractAimMetacognitive remediation therapy (MCR) has been shown to help individuals with first‐episode psychosis experience improvements in cognition, social functioning, vocational/educational functioning and quality of life. The theoretical model underlying MCR has yet to be empirically validated.MethodsSeventy‐three individuals with first‐episode psychosis completed measures of metacognition and cognition at enrollment and after 6‐months of care at a specialized clinical program for individuals with first‐episode psychosis. Among this group, we compared changes in these variables between the 21 individuals who opted to participate in MCR and the 52 individuals who did not participate in MCR.ResultsImprovements in metacognition were moderated by MCR treatment participation. Consistent with the MCR theoretical model of change, increases in metacognition mediated the relationship between treatment and longitudinal changes in cognition.ConclusionsOur findings suggest that the benefits of MCR on cognitive functioning may stem, in part, from the ability of MCR to produce improvements in metacognitive functioning.
Pomalidomide, bortezomib, and dexamethasone at first relapse in lenalidomide‐pretreated myeloma: A subanalysis of OPTIMISMM by clinical characteristics
Authors: Richardson Paul G. , Schjesvold Fredrik , Weisel Katja , Moreau Philippe , Anderson Larry D. , White Darrell , Rodriguez‐Otero Paula , Sonneveld Pieter , Engelhardt Monika , Jenner Matthew , Corso Alessandro , Dürig Jan , Pavic Michel , Salomo Morten , Beksac Meral , Oriol Albert , Lindsay Jindriska , Liberati Anna Marina , Galli Monica , Robak Pawel , Larocca Alessandra , Yagci Munci , Vural Filiz , Kanate Abraham S. , Jiang Ruiyun , Grote Lara , Peluso Teresa , Dimopoulos Meletios 
Published: September 2021

AbstractObjectiveWe evaluated the efficacy and safety of pomalidomide, bortezomib, and dexamethasone (PVd) vs bortezomib and dexamethasone (Vd) by age, renal function, and high‐risk cytogenetic abnormalities in lenalidomide‐pretreated patients with multiple myeloma at first relapse.MethodsOPTIMISMM was a phase 3, multicenter, open‐label, randomized study (NCT01734928; N = 559). The primary endpoint was progression‐free survival (PFS).ResultsOverall, 226 patients had received one prior line of therapy. PVd significantly prolonged PFS vs Vd in patients aged ≤65 years (median, 22.0 vs 13.1 months; P = .0258) and >65 years (median, 17.6 vs 9.9 months; P = .0369). Median PFS in patients with renal impairment (RI; creatinine clearance <60 mL/min) was 15.1 months with PVd vs 9.5 months with Vd (hazard ratio [HR], 0.67 [95% CI, 0.34‐1.34]). In patients without RI, median PFS was 22.0 vs 13.1 months (HR, 0.45 [95% CI, 0.27‐0.76]). In patients with high‐risk cytogenetics, median PFS was 14.7 vs 9.9 months (HR, 0.39 [95% CI, 0.13‐1.17]). PVd significantly improved overall response rate vs Vd in all subgroups. The safety profile of PVd was consistent with previous reports.ConclusionsThese findings confirmed the benefits of PVd at first relapse, including in patients with poor prognostic factors.