bluuebunny/crossref_metadata_2025 huggingface dataset:
Positioning Van Leeuwenhoek's microscopes in 17th-century microscopic practice
Authors: Cocquyt Tiemen
Published: March 2022

The self-made nature of Antoni van Leeuwenhoek's discoveries and microscopes tends to obscure the rich and dynamic 17th-century culture of microscopy that preceded his work. Rather than being limited by available magnifications, 17th-century microscopy was shaped by philosophical paradigms, visual and preparation techniques, and observation conditions. Taking into account new insights into his lens making methods, a comparison of Van Leeuwenhoek's methodology with 17th-century predecessors reveals, on the one hand, how his work was rooted in existing traditions, while on the other hand it makes us appreciate his innovations better. Van Leeuwenhoek elegantly turned the viewing practice associated with high-magnification microscopy into a convincing narrative. In doing so, he reaffirmed the central role of the microscope in the 17th-century inquiry of nature. This allowed him to open up new vistas and become the founder of microbiology.
Applying the AFRAID and FRIGHT Clocks to Novel Preclinical Mouse Models of Polypharmacy
Authors: Mach John , Kane Alice E , Howlett Susan E , Sinclair David A , Hilmer Sarah N
Published: March 2022

The Frailty Inferred Geriatric Health Timeline (FRIGHT) and Analysis of Frailty and Death (AFRAID) clocks were developed to predict biological age and lifespan, respectively, in mice. Their utility within the context of polypharmacy (≥5 medications), which is very common in older adults, is unknown. In male C57BL/6J(B6) mice administered chronic polypharmacy, monotherapy, and undergoing treatment cessation (deprescribing), we aimed to compare these clocks between treatment groups; investigate whether treatment affected correlation of these clocks with mortality; and explore factors that may explain variation in predictive performance. Treatment (control, polypharmacy, or monotherapy) commenced from age 12 months. At age 21 months, each treatment group was subdivided to continue treatment or have it deprescribed. Frailty index was assessed and informed calculation of the clocks. AFRAID, FRIGHT, frailty index, and mortality age did not differ between continued treatment groups and control. Compared to continued treatment, deprescribing some treatments had inconsistent negative impacts on some clocks and mortality. FRIGHT and frailty index, but not AFRAID, were associated with mortality. The bias and precision of AFRAID as a predictor of mortality varied between treatment groups. Effects of deprescribing some drugs on elements of the clocks, particularly on weight loss, contributed to bias. Overall, in this cohort, FRIGHT and AFRAID measures identified no treatment effects and limited deprescribing effects (unsurprising as very few effects on frailty or mortality), with variable prediction of mortality. These clocks have utility, but context is important. Future work should refine them for intervention studies to reduce bias from specific intervention effects.
Association Between Free-Living Sit-to-Stand Transition Characteristics, and Lower-Extremity Performance, Fear of Falling, and Stair Negotiation Difficulties Among Community-Dwelling 75 to 85-Year-Old Adults
Authors: Löppönen Antti , Karavirta Laura , Koivunen Kaisa , Portegijs Erja , Rantanen Taina , Finni Taija , Delecluse Christophe , Van Roie Evelien , Rantalainen Timo
Published: March 2022

Background

Good sit-to-stand (STS) performance is an important factor in maintaining functional independence. This study investigated whether free-living STS transition volume and intensity, assessed by a thigh-worn accelerometer, is associated with characteristics related to functional independence.

Methods

Free-living thigh-worn accelerometry was recorded continuously for 3–7 days in a population-based sample of 75-, 80-, and 85-year-old community-dwelling people (479 participants; women n = 287, men n = 192). The records were used to evaluate the number and intensity (angular velocity of the STS phase) of STS transitions. Associations with short physical performance battery (SPPB), 5-times-sit-to-stand test (5×STS), isometric knee extension force, self-reported fear of falls, and self-reported difficulty in negotiating stairs were also assessed.

Results

The number of STS transitions, mean and maximal angular velocity were lower in older age groups (p < .05). All variables were higher in men than in women (p < .001) and were positively associated with SPPB total points, knee extension force (r ranged from 0.18 to 0.39, all p < .001) and negatively associated with 5×STS (r = −0.13 – −0.24, all p < .05), lower extremity functional limitations (p < .01), fear of falls (p < .01), and stair negotiation difficulties (p < .01).

Conclusions

Free-living STS characteristics were related to lower-extremity performance, lower extremity functional limitations, self-reported fear of falls, and stair negotiation difficulties, which can be a sensitive indicator of impending functional decline. Moreover, STS transitions may provide an indicator of adequacy of lower-limb muscle strength among older individuals.
Addressing Suicide Risk in Patients Living With Dementia During the COVID-19 Pandemic and Beyond
Authors: Portacolone Elena , Byers Amy L , Halpern Jodi , Barnes Deborah E
Published: March 2022

Alzheimer’s disease and related dementias (ADRD) are progressive illnesses characterized by decline in cognitive function that impairs performing daily activities. People with ADRD are at an increased risk of suicide, especially those who have comorbid mental health conditions, have specific types of ADRD, or have been recently diagnosed. The coronavirus disease 2019 (COVID-19) pandemic has increased the distress of people with ADRD, a population also at increased risk of contracting the COVID-19 virus. In this article, we draw on a case study and use the Interpersonal Theory of Suicide to help describe the association between ADRD and suicide risk. Secondly, we call for new strategies to mitigate suicide risk in people living with ADRD during and beyond the current pandemic by using lessons learned from cancer care. Our goal is not to dictate solutions but rather to start the conversation by outlining a framework for future research aimed at preventing death by suicide in people with ADRD. Specifically, we draw on the updated Framework for Developing and Evaluating Complex Interventions to reflect on the complexity of the issue and to break it down into achievable parts to reduce the risk of suicidal behavior (ideation, plans, attempts) in those living with ADRD.
Interrupting pathways to health inequities in citizen science health research
Authors: Pierce Robin L
Published: March 2022

Participatory research in multiple forms is rapidly gaining ground and stands to provide valuable benefits in the area of health research. Citizen science, an increasingly popular form of participatory research, aims to involve laypersons in knowledge production and, as such, can offer new insights that may not be readily accessible by the traditional scientific research enterprise. Heralded as an advance in the democratization of science, citizen science stands as a potential player in evidence generation. Yet, while citizen science offers advantages through its emphasis on lay participation in uncovering information likely to be pertinent to improving health outcomes, without deliberate attention to pathways to inequity and oversight, some aspects can operate to perpetuate or exacerbate health inequities. Drawing on health disparities literature to assist in identifying possible pathways, this work aims to provide support for greater attention to ‘process’, which would include active engagement with intersecting inequities as a way of interrupting pathways to health inequity. If citizen science is to be true to its moniker, it cannot be ‘equity-neutral’ in a society where structural or systemic inequities are present. It must be equity-promoting. In the health context, the concerns of justice evolve into concerns of differential health impacts. To accomplish this, equity and justice, as well as representation and fair process, become critically important. Accordingly, this paper foregrounds proactive commitment to equity by confronting the reality of social inequalities present in a given society and adapting the project accordingly to minimize downstream health inequities.
Novel dominant and recessive variants in human ROBO1 cause distinct neurodevelopmental defects through different mechanisms
Authors: Huang Yan , Ma Mengqi , Mao Xiao , Pehlivan Davut , Kanca Oguz , Un-Candan Feride , Shu Li , Akay Gulsen , Mitani Tadahiro , Lu Shenzhao , Candan Sukru , Wang Hua , Xiao Bo , Lupski James R , Bellen Hugo J
Published: March 2022

The Roundabout (Robo) receptors, located on growth cones of neurons, induce axon repulsion in response to the extracellular ligand Slit. The Robo family of proteins controls midline crossing of commissural neurons during development in flies. Mono- and bi-allelic variants in human ROBO1 (HGNC: 10249) have been associated with incomplete penetrance and variable expressivity for a breath of phenotypes, including neurodevelopmental defects such as strabismus, pituitary defects, intellectual impairment, as well as defects in heart and kidney. Here, we report two novel ROBO1 variants associated with very distinct phenotypes. A homozygous missense p.S1522L variant in three affected siblings with nystagmus; and a monoallelic de novo p.D422G variant in a proband who presented with early-onset epileptic encephalopathy. We modeled these variants in Drosophila and first generated a null allele by inserting a CRIMIC T2A-GAL4 in an intron. Flies that lack robo1 exhibit reduced viability but have very severe midline crossing defects in the central nervous system. The fly wild-type cDNA driven by T2A-Gal4 partially rescues both defects. Overexpression of the human reference ROBO1 with T2A-GAL4 is toxic and reduces viability, whereas the recessive p.S1522L variant is less toxic, suggesting that it is a partial loss-of-function allele. In contrast, the dominant variant in fly robo1 (p.D413G) affects protein localization, impairs axonal guidance activity and induces mild phototransduction defects, suggesting that it is a neomorphic allele. In summary, our studies expand the phenotypic spectrum associated with ROBO1 variant alleles.
Device-measured sedentary time in Norwegian children and adolescents in the era of ubiquitous internet access: secular changes between 2005, 2011 and 2018
Authors: Dalene Knut Eirik , Kolle Elin , Steene-Johannessen Jostein , Hansen Bjørge H , Ekelund Ulf , Grydeland May , Anderssen Sigmund Alfred , Tarp Jakob
Published: March 2022

Background

Access to screen-based media has been revolutionized during the past two decades. How this has affected sedentary time (ST) accumulation in children is poorly understood.

Methods

This study, based on the Physical Activity among Norwegian Children Study (PANCS), uses accelerometer data from population-based samples of 9- and 15-year-olds, collected in 2005 (n = 1722), 2011 (n = 1587) and 2018 (n = 1859). Secular changes between surveys were analysed using random-effects linear regression models adjusted for survey-specific factors. Data on ST were collected using hip-worn ActiGraphs and ST was defined using a threshold equivalent to <100 counts/min. Sedentary bouts were grouped by duration: <1, 1–5, 5–15, 15–30 and ≥30 min.

Results

Between 2005 and 2018, ST increased by 29 min/day in 9-year-old boys (95% CI: 19, 39; P <0.001), by 21 min/day in 15-year-old boys (95% CI: 8, 34; P = 0.002) and by 22 min/day in 15-year-old girls (95% CI: 10, 35; P <0.001), but not in 9-year-old girls at 6 min/day (95% CI: -3, 16; P = 0.191). All age-sex groups accumulated less ST in bouts lasting <5 min and more ST in longer bouts, particularly in 5–15-min bouts. Adolescent girls also increased ST accumulation in 15–30-min and ≥30-min bouts. Changes were largely mirrored before, during and after school on weekdays and during weekend days.

Conclusions

Coinciding with the introduction of smartphones, tablets and near-universal internet access, total daily ST and ST accumulated in prolonged sedentary bouts increased between 2005 and 2018 in children and adolescents.
Measuring Religious Non-Affiliation in China: A Comparison of Major National Surveys in China
Authors: Zhang Chan , Brenner Philip S , He Lirui
Published: March 2022

Measuring the rate of religious non-affiliation is a difficult task in China, one of the least religious countries in the world, and elsewhere. This study evaluates the trend of religious non-affiliation in China using 22 surveys spanning three decades. We found that two surveys asking beliefs in a mix of gods and religions yielded dramatically lower estimates of non-affiliation compared to the others that measured affiliation explicitly. Among the latter, using a filter question (a yes/no question for religious affiliation) increased the reports of non-affiliation but allowing multiple choices and putting “no religion” toward the end of the lists of response options moderately decreased the reports of non-affiliation. After accounting for question design and demographic differences across the surveys, the decline in religious non-affiliation is reduced and becomes not significant during more recent years.
On the Degree of Curves with Prescribed Multiplicities and Bounded Negativity
Authors: Galindo Carlos , Monserrat Francisco , Moreno-Ávila Carlos-Jesús , Pérez-Callejo Elvira
Published: March 2022

We provide a lower bound on the degree of curves of the projective plane $\mathbb {P}^2$ passing through the centers of a divisorial valuation $\nu $ of $\mathbb {P}^2$ with prescribed multiplicities, and an upper bound for the Seshadri-type constant of $\nu $, $\hat {\mu }(\nu )$, constant that is crucial in the Nagata-type valuative conjecture. We also give some results related to the bounded negativity conjecture concerning those rational surfaces having the projective plane as a relatively minimal model.
Effectiveness of Pneumococcal Conjugate Vaccination Against Virus-Associated Lower Respiratory Tract Infection Among Adults: A Case-Control Study
Authors: Lewnard Joseph A , Bruxvoort Katia J , Hong Vennis X , Grant Lindsay R , Jódar Luis , Cané Alejandro , Gessner Bradford D , Tartof Sara Y
Published: March 2022

Background

Interactions of Streptococcus pneumoniae with viruses feature in the pathogenesis of numerous respiratory illnesses.

Methods

We undertook a case-control study among adults at Kaiser Permanente Southern California between 2015 and 2019. Case patients had diagnoses of lower respiratory tract infection (LRTI; including pneumonia or nonpneumonia LRTI diagnoses), with viral infections detected by multiplex polymerase chain reaction testing. Controls without LRTI diagnoses were matched to case patients by demographic and clinical attributes. We measured vaccine effectiveness (VE) for 13-valent (PCV13) against virus-associated LRTI by determining the adjusted odds ratio for PCV13 receipt, comparing case patients and controls.

Results

Primary analyses included 13 856 case patients with virus-associated LRTI and 227 887 matched controls. Receipt of PCV13 was associated with a VE of 24.9% (95% confidence interval, 18.4%–30.9%) against virus-associated pneumonia and 21.5% (10.9%–30.9%) against other (nonpneumonia) virus-associated LRTIs. We estimated VEs of 26.8% (95% confidence interval, 19.9%–33.1%) and 18.6% (9.3%–27.0%) against all virus-associated LRTI episodes diagnosed in inpatient and outpatient settings, respectively. We identified statistically significant protection against LRTI episodes associated with influenza A and B viruses, endemic human coronaviruses, parainfluenza viruses, human metapneumovirus, and enteroviruses but not respiratory syncytial virus or adenoviruses.

Conclusions

Among adults, PCV13 conferred moderate protection against virus-associated LRTI. The impacts of pneumococcal conjugate vaccines may be mediated, in part, by effects on polymicrobial interactions between pneumococci and respiratory viruses.
Differential Severe Acute Respiratory Syndrome Coronavirus 2 Antibody Profiles After Allergic Reactions to Messenger RNA Coronavirus Disease 2019 Vaccine
Authors: Maron Jenny S , Conroy Michelle , Naranbai Vivek , Samarakoon Upeka , Motazedi Tina , Farmer Jocelyn R , Freeman Esther , Banerji Aleena , Bartsch Yannic C , Gregory David J , Poznansky Mark C , Alter Galit , Blumenthal Kimberly G
Published: March 2022

Allergic symptoms after messenger RNA (mRNA) coronavirus disease 2019 (COVID-19) vaccines occur in up to 2% of recipients. Compared to nonallergic controls (n = 18), individuals with immediate allergic reactions to mRNA COVID-19 vaccines (n = 8) mounted lower immunoglobulin G1 (IgG1) to multiple antigenic targets in severe acute respiratory syndrome coronavirus 2 spike following vaccination, with significantly lower IgG1 to full-length spike (P = .04). Individuals with immediate allergic reactions to mRNA COVID-19 vaccines bound Fcγ receptors similarly to nonallergic controls. Although there was a trend toward an overall reduction in opsonophagocytic function in individuals with immediate allergic reactions compared to nonallergic controls, allergic patients produced functional antibodies exhibiting a high ratio of opsonophagocytic function to IgG1 titer.
A qualitative study exploring patient shadowing as a method to improve patient-centred care: 10 principles for a new gold standard
Authors: Goodrich Joanna , Ridge Damien , Cartwright Tina
Published: March 2022

Background

In recent years, there has been an increased emphasis on patient experience as a dimension of quality in healthcare and subsequently a drive to understand care from the patient’s perspective. Patient shadowing is an approach that has been used in service improvement projects, but its potential as a quality improvement (QI) method has not been studied in practical and replicable detail.

Objective

This new research aimed to produce clear guidance on patient shadowing for future Quality Improvement projects.

Methods

Qualitative interviews were conducted with 20 clinical and non-clinical participants of a national QI programme in UK, which focused on improving the experience of patients at the end of life. All participants had shadowed patients. Data were analysed using a thematic analysis.

Results

There were two broad themes: (i) The process of shadowing: how participants went about shadowing, adopting different approaches and making judgements about the care they observed and any challenges they had encountered. (ii) The impact of shadowing: on the engagement and motivation of those who shadowed and in terms of service changes to benefit patients and their families.

Conclusion

The findings led to a new set of ‘gold standard’ principles to benefit both staff and patients where shadowing is used as a QI method. These, together with new guidance, will ensure that shadowing is conducted as a team exercise, that all those involved are more robustly prepared and supported and that its purpose as a method to improve patient experience will be better understood.
vp1524, a Vibrio parahaemolyticus NAD
+-dependent deacetylase, regulates host response during infection by induction of host histone deacetylation
Authors: Mishra Pragyan , Beura Shibangini , Sikder Sweta , Dhal Ajit Kumar , Vasudevan Madavan , Roy Manjima , Rakshit Joydeep , Budhwar Roli , Kundu Tapas K , Modak Rahul
Published: March 2022

Gram-negative intracellular pathogen Vibrio parahaemolyticus manifests its infection through a series of effector proteins released into the host via the type III secretion system. Most of these effector proteins alter signalling pathways of the host to facilitate survival and proliferation of bacteria inside host cells. Here, we report V. parahaemolyticus (serotype O3:K6) infection-induced histone deacetylation in host intestinal epithelial cells, particularly deacetylation of H3K9, H3K56, H3K18 and H4K16 residues. We found a putative NAD+-dependent deacetylase, vp1524 (vpCobB) of V. parahaemolyticus, was overexpressed during infection. Biochemical assays revealed that Vp1524 is a functional NAD+-dependent Sir2 family deacetylase in vitro, which was capable of deacetylating acetylated histones. Furthermore, we observed that vp1524 is expressed and localized to the nuclear periphery of the host cells during infection. Consequently, Vp1524 translocated to nuclear compartments of transfected cells, deacetylated histones, specifically causing deacetylation of those residues (K56, K16, K18) associated with V. parahaemolyticus infection. This infection induced deacetylation resulted in transcriptional repression of several host genes involved in epigenetic regulation, immune response, autophagy etc. Thus, our study shows that a V. parahaemolyticus lysine deacetylase Vp1524 is secreted inside the host cells during infection, modulating host gene expression through histone deacetylation.
Stereotactic ablative radiotherapy for pulmonary oligometastases from primary hepatocellular carcinoma: a multicenter and retrospective analysis (KROG 17-08)
Authors: Jo In Young , Park Hee Chul , Kim Eun Seog , Yeo Seung-Gu , Kim Myungsoo , Seong Jinsil , Kim Jun Won , Kim Tae Hyun , Yoon Won Sup , Jeong Bae Kwon , Kim Sung Hwan , Lee Jong Hoon
Published: March 2022

Objective

Hypofractionated radiotherapy has recently been applied to treat pulmonary metastases of hepatocellular carcinoma. However, there is no definite evidence on its safety and efficacy. We evaluate the clinical outcomes of hypofractionated radiotherapy for oligo pulmonary metastases of hepatocellular carcinoma in the multicenter and retrospective study.

Methods

From March 2011 to February 2018, 58 patients with fewer than five pulmonary metastases of hepatocellular carcinoma who underwent hypofractionated radiotherapy in nine tertiary university hospitals were analyzed retrospectively. The primary endpoint was the local control rate. The secondary endpoints were overall survival, progression-free survival, prognostic factors affecting the treatment outcomes and treatment-related side effects.

Results

The local tumor response rate including complete and partial response was 77.6% at 3 months after hypofractionated radiotherapy. The median survival and progression-free survival times were 20.9 and 5.3 months, respectively. The 1-year overall survival and progression-free survival rates were 65.5 and 22.4%, respectively. The good treatment response after hypofractionated radiotherapy (P = 0.001), the absence of intrahepatic tumor (P = 0.004) and Child-Pugh class A (P = 0.010) were revealed as significant prognostic factors for overall survival in the multivariate analysis. A progression-free interval of <6 months (P = 0.009) was a negative prognostic factor for overall survival in the multivariate analysis. Of 58 patients, five (8.6%) had grade 2 or higher radiation pneumonitis after hypofractionated radiotherapy.

Conclusions

The favorable local control rate and acceptable toxicity indicate the clinical usefulness of hypofractionated radiotherapy for hepatocellular carcinoma patients who have less than five pulmonary metastases.
Application of the Principle of Unity in the Legal Settlement of Sovereignty Disputes over Islands and Other Maritime Features
Authors: Kong Lingjie , Liu Congcong
Published: March 2022

The legal principle of ‘unity’ has been frequently invoked by States to claim sovereignty of islands and other insular features. It has been used by the adjudicators in diverse ways and with differing results. With a view to clarifying the legal paradigm of the principle of ‘unity’, this article undertakes an analysis of the relevant jurisprudence in this field. This leads to the identification of three typologies of ‘unity’ claims—‘dependency’, ‘natural unity’ and ‘collective approach’. Each of these is examined in further detail, with some key findings and observations. Importantly, the principle of unity can never be the root of title to contested territories where existing titles can be established. Instead, the unity principle operates in specific ways, with a series of conditions: absence of established title, presumed existence of identical title and broad agreement between the parties. The article concludes by observing the need for continued research on this topic.
Galactic chemical evolution of the solar neighbourhood, solar twins, and exoplanet indicators
Authors: Cowley Charles R , Yüce Kutluay
Published: March 2022

Galactic chemical evolution (GCE), solar analogues or twins, and peculiarities of the solar composition with respect to the twins are inextricably related. We examine GCE parameters from the literature and present newly derived values using a quadratic fit that gives zero for a Solar age (i.e. 4.6 Gyr). We show how the GCE parameters may be used not only to ‘correct’ abundances to the solar age, but to predict average relative elemental abundances as a function of age. We address the question of whether the solar abundances are depleted in refractories and enhanced in volatiles and find that the answer is sensitive to the selection of a representative standard. The best quality data sets do not support the notion that the Sun is depleted in refractories or enhanced in volatiles. A simple model allows us to estimate the amount of refractory-rich material missing from the Sun or alternately added to the average solar twin. The model gives between zero and 1.4 earth masses.
Local variations of the stellar velocity ellipsoid – II. The effect of the bar in the inner regions of Auriga galaxies
Authors: Walo-Martín Daniel , Pinna Francesca , Grand Robert J J , Pérez Isabel , Falcón-Barroso Jesús , Fragkoudi Francesca , Martig Marie
Published: March 2022

Theoretical works have shown that off-plane motions of bars can heat stars in the vertical direction during buckling but is not clear how do they affect the rest of components of the stellar velocity ellipsoid (SVE). We study the 2D spatial distribution of the vertical, σz, azimuthal, σϕ, and radial, σr velocity dispersions in the inner regions of Auriga galaxies, a set of high-resolution magneto-hydrodynamical cosmological zoom-in simulations, to unveil the influence of the bar on the stellar kinematics. σz and σϕ maps exhibit non-axisymmetric features that closely match the bar light distribution with low-σ regions along the bar major axis and high values in the perpendicular direction. On the other hand, σr velocity dispersion maps present more axisymmetric distributions. We show that isophotal profile differences best capture the impact of the bar on the three SVE components providing strong correlations with bar morphology proxies although there is no relation with individual σ. Time evolution analysis shows that these differences are a consequence of the bar formation and that they tightly coevolve with the strength of the bar. We discuss the presence of different behaviours of σz and its connection with observations. This work helps us understand the intrinsic σ distribution and motivates the use of isophotal profiles as a mean to quantify the effect of bars.
Extracting photometric redshift from galaxy flux and image data using neural networks in the CSST survey
Authors: Zhou Xingchen , Gong Yan , Meng Xian-Min , Cao Ye , Chen Xuelei , Chen Zhu , Du Wei , Fu Liping , Luo Zhijian
Published: March 2022

The accuracy of galaxy photometric redshift (photo-z) can significantly affect the analysis of weak gravitational lensing measurements, especially for future high-precision surveys. In this work, we try to extract photo-z information from both galaxy flux and image data expected to be obtained by China Space Station Telescope (CSST) using neural networks. We generate mock galaxy images based on the observational images from the Advanced Camera for Surveys of Hubble Space Telescope (HST-ACS) and COSMOS catalogues, considering the CSST instrumental effects. Galaxy flux data are then measured directly from these images by aperture photometry. The multilayer perceptron (MLP) and convolutional neural network (CNN) are constructed to predict photo-z from fluxes and images, respectively. We also propose to use an efficient hybrid network, which combines the MLP and CNN, by employing the transfer learning techniques to investigate the improvement of the result with both flux and image data included. We find that the photo-z accuracy and outlier fraction can achieve σNMAD = 0.023 and $\eta = 1.43{{\ \rm per\ cent}}$ for the MLP using flux data only, and σNMAD = 0.025 and $\eta = 1.21{{\ \rm per\ cent}}$ for the CNN using image data only. The result can be further improved in high efficiency as σNMAD = 0.020 and $\eta = 0.90{{\ \rm per\ cent}}$ for the hybrid transfer network. These approaches result in similar galaxy median and mean redshifts 0.8 and 0.9, respectively, for the redshift range from 0 to 4. This indicates that our networks can effectively and properly extract photo-z information from the CSST galaxy flux and image data.
The satchel pipeline: a general tool for data classified through citizen science
Authors: Safron E J , Boyajian T S , Eisner N
Published: March 2022

Citizen science is a powerful analysis tool, capable of processing large amounts of data in a very short time. To bridge the gap between classification data products from web-based citizen science platforms to statistically robust signal significance scores, we present the Search Algorithm for Transits in the Citizen science Hunt for Exoplanets in Light curves (satchel) pipeline. This open source, customizable pipeline was constructed to identify and assign significance estimates to one-dimensional features marked by volunteers. We describe the functional capabilities of the satchel pipeline through application to features in photometric time-series data from the Kepler Space Telescope, classified by volunteers as part of the Planet Hunters citizen science project hosted on the Zooniverse platform. We evaluate the satchel pipeline’s overall performance based on recovery of known signals (both simulations and signals corresponding to official Kepler Objects of Interest) and relative contamination by spurious features. We find that, for a range of pipeline hyperparameters and with a reasonable score cutoff, satchel is able to recover volunteer identifications of over 98 per cent of signals from simulations corresponding to exoplanets >2 R⊕ in radius and about 85 per cent of signals corresponding to the same size range of KOIs. satchel is transparently adaptable to other citizen science classification data sets and available on GitHub.
Production efficiencies of sound waves in the intracluster medium driven by AGN jets
Authors: Wang Shiang-Chih , Yang H-Y Karen
Published: March 2022

Feedback from active galactic nuclei (AGNs) is believed to be the most promising solution to the cooling flow problem in cool-core clusters. Dissipation of sound waves is considered as one of the possible heating mechanisms; however, its relative contribution to heating remains unclear. To estimate the energy budget for heating, we perform 3D hydrodynamic simulations of AGN jet injections in a Perseus-like cluster and quantify the amount of energy stored in the forms of weak shocks and waves. We find that, for a single jet injection with typical parameters in cool-core clusters, ${\sim}9{{\ \rm per\ cent}}$ of the total jet energy is stored in compressional waves (including both shocks and waves). However, due to the destructive effects among randomly phased waves as well as the dissipation of shock energies, in our simulations including self-regulated AGN feedback, no more than $3{{\ \rm per\ cent}}$ of the total injected energy goes into compressional waves. We further separate the energy contribution from shocks and waves and find that, for a single outburst, the shocks can only contribute to ${\sim}20{-}30{{\ \rm per\ cent}}$ of the total compressional energy in the inner radii and quickly dissipate away. In the self-regulated case where shocks are repeatedly generated, shocks completely dominate over sound waves in the inner region and can still provide ${\sim}40{-}50{{\ \rm per\ cent}}$ of the total compressional energy at outer radii. Our results suggest that the production of sound waves is not as efficient as what was previously found, and thus sound wave dissipation may be a subdominant source of heating in cool-core clusters.
Cosmology with the Roman Space Telescope – Synergies with CMB lensing
Authors: Wenzl Lukas , Doux Cyrille , Heinrich Chen , Bean Rachel , Jain Bhuvnesh , Doré Olivier , Eifler Tim , Fang Xiao
Published: March 2022

We explore synergies between the Nancy Grace Roman Space Telescope and CMB lensing data to constrain dark energy and modified gravity scenarios. A simulated likelihood analysis of the galaxy clustering and weak lensing data from the Roman Space Telescope High Latitude Survey combined with CMB lensing data from the Simons Observatory is undertaken, marginalizing over important astrophysical effects and calibration uncertainties. Included in the modelling are the effects of baryons on small-scale clustering, scale-dependent growth suppression by neutrinos, as well as uncertainties in the galaxy clustering biases, in the intrinsic alignment contributions to the lensing signal, in the redshift distributions, and in the galaxy shape calibration. The addition of CMB lensing roughly doubles the dark energy figure-of-merit from Roman photometric survey data alone, varying from a factor of 1.7 to 2.4 improvement depending on the particular Roman survey configuration. Alternatively, the inclusion of CMB lensing information can compensate for uncertainties in the Roman galaxy shape calibration if it falls below the design goals. Furthermore, we report the first forecast of Roman constraints on a model-independent structure growth, parametrized by σ8(z), and on the Hu-Sawicki f(R) gravity as well as an improved forecast of the phenomenological (Σ0, μ0) model. We find that CMB lensing plays a crucial role in constraining σ8(z) at z > 2, with percent-level constraints forecasted out to z = 4. CMB lensing information does not improve constraints on the f(R) model substantially. It does, however, increase the (Σ0, μ0) figure-of-merit by a factor of about 1.5.
TIC-320687387 B: a long-period eclipsing M-dwarf close to the hydrogen burning limit
Authors: Gill Samuel , Ulmer-Moll Solène , Wheatley Peter J , Bayliss Daniel , Burleigh Matthew R , Acton Jack S , Casewell Sarah L , Watson Christopher A , Lendl Monika , Worters Hannah L , Sefako Ramotholo R , Anderson David R , Alves Douglas R , Bouchy François , Bryant Edward M , Eigmüller Philipp , Gillen Edward , Goad Michael R , Grieves Nolan , Günther Maximilian N , Henderson Beth A , Jenkins James S , Mishra Lokesh , Moyano Maximiliano , Osborn Hugh P , Tilbrook Rosanna H , Udry Stéphane , Vines Jose I , West Richard G
Published: March 2022

We are using precise radial velocities from CORALIE together with precision photometry from the Next Generation Transit Survey (NGTS) to follow-up stars with single-transit events detected with the Transiting Exoplanet Survey Satellite (TESS). As part of this survey, we identified a single transit on the star TIC-320687387, a bright (T = 11.6) G-dwarf observed by TESS in Sectors 13 and 27. From subsequent monitoring of TIC-320687387 with CORALIE, NGTS, and Lesedi we determined that the companion, TIC-320687387 B, is a very low-mass star with a mass of $96.2 \pm _{2.0}^{1.9}$ MJ and radius of $1.14 \pm _{0.02}^{0.02}$ RJ placing it close to the hydrogen burning limit (∼80 MJ). TIC-320687387 B is tidally decoupled and has an eccentric orbit, with a period of 29.77381 d and an eccentricity of 0.366 ± 0.003. Eclipsing systems such as TIC-320687387 AB allow us to test stellar evolution models for low-mass stars, which in turn are needed to calculate accurate masses and radii for exoplanets orbiting single low-mass stars. The sizeable orbital period of TIC-320687387 B makes it particularly valuable as its evolution can be assumed to be free from perturbations caused by tidal interactions with its G-type host star.
Imperfect guide-RNA (igRNA) enables CRISPR single-base editing with ABE and CBE
Authors: Zhao Dongdong , Jiang Guo , Li Ju , Chen Xuxu , Li Siwei , Wang Jie , Zhou Zuping , Pu Shiming , Dai Zhubo , Ma Yanhe , Bi Changhao , Zhang Xueli
Published: March 2022

CRISPR base editing techniques tend to edit multiple bases in the targeted region, which is a limitation for precisely reverting disease-associated single-nucleotide polymorphisms (SNPs). We designed an imperfect gRNA (igRNA) editing methodology, which utilized a gRNA with one or more bases that were not complementary to the target locus to direct base editing toward the generation of a single-base edited product. Base editing experiments illustrated that igRNA editing with CBEs greatly increased the single-base editing fraction relative to normal gRNA editing with increased editing efficiencies. Similar results were obtained with an adenine base editor (ABE). At loci such as DNMT3B, NSD1, PSMB2, VIATA hs267 and ANO5, near-perfect single-base editing was achieved. Normally an igRNA with good single-base editing efficiency could be selected from a set of a few igRNAs, with a simple protocol. As a proof-of-concept, igRNAs were used in the research to construct cell lines of disease-associated SNP causing primary hyperoxaluria construction research. This work provides a simple strategy to achieve single-base base editing with both ABEs and CBEs and overcomes a key obstacle that limits the use of base editors in treating SNP-associated diseases or creating disease-associated SNP-harboring cell lines and animal models.
The dimerization interface of initiator RctB governs chaperone and enhancer dependence of Vibrio cholerae chromosome 2 replication
Authors: Kothapalli Roopa , Ghirlando Rodolfo , Khan Zaki Ali , Chatterjee Soniya , Kedei Noemi , Chattoraj Dhruba K
Published: March 2022

Protein function often requires remodeling of protein structure. In the well-studied iteron-containing plasmids, the initiator of replication has a dimerization interface that undergoes chaperone-mediated remodeling. This remodeling reduces dimerization and promotes DNA replication, since only monomers bind origin DNA. A structurally homologs interface exists in RctB, the replication initiator of Vibrio cholerae chromosome 2 (Chr2). Chaperones also promote Chr2 replication, although both monomers and dimers of RctB bind to origin, and chaperones increase the binding of both. Here we report how five changes in the dimerization interface of RctB affect the protein. The mutants are variously defective in dimerization, more active as initiator, and except in one case, unresponsive to chaperone (DnaJ). The results indicate that chaperones also reduce RctB dimerization and support the proposal that the paradoxical chaperone-promoted dimer binding likely represents sequential binding of monomers on DNA. RctB is also activated for replication initiation upon binding to a DNA site, crtS, and three of the mutants are also unresponsive to crtS. This suggests that crtS, like chaperones, reduces dimerization, but additional evidence suggests that the remodelling activities function independently. Involvement of two remodelers in reducing dimerization signifies the importance of dimerization in limiting Chr2 replication.
Nonmodular oscillator and switch based on RNA decay drive regeneration of multimodal gene expression
Authors: Nordick Benjamin , Yu Polly Y , Liao Guangyuan , Hong Tian
Published: March 2022

Periodic gene expression dynamics are key to cell and organism physiology. Studies of oscillatory expression have focused on networks with intuitive regulatory negative feedback loops, leaving unknown whether other common biochemical reactions can produce oscillations. Oscillation and noise have been proposed to support mammalian progenitor cells’ capacity to restore heterogenous, multimodal expression from extreme subpopulations, but underlying networks and specific roles of noise remained elusive. We use mass-action-based models to show that regulated RNA degradation involving as few as two RNA species—applicable to nearly half of human protein-coding genes—can generate sustained oscillations without explicit feedback. Diverging oscillation periods synergize with noise to robustly restore cell populations’ bimodal expression on timescales of days. The global bifurcation organizing this divergence relies on an oscillator and bistable switch which cannot be decomposed into two structural modules. Our work reveals surprisingly rich dynamics of post-transcriptional reactions and a potentially widespread mechanism underlying development, tissue regeneration, and cancer cell heterogeneity.
Promoting good and sustainable work in occupational health education
Authors: Siegrist Johannes , Bollmann Ulrike
Published: March 2022

Background

The world of work is facing severe challenges due to rapid technological change, globalization, climate change and, more recently, the Covid-19 pandemic. Occupational health professionals must deal with these challenges, but it is unclear how well they have been prepared for this task by their academic training programmes.

Aims

To explore content and learning objectives related to these challenges in the curricula of Occupational Medicine (OM) and Occupational Safety, Industrial Hygiene and Ergonomics (OSH), we conducted an online survey among academic leaders of these programmes in universities of several European countries. In addition, related programmes in Human Resource Management (HRM) training were included.

Methods

Selected study programmes were explored in terms of the main topics and learning objectives related to the challenges for promoting good and sustainable work in universities in Europe. The study programmes were identified through contacts with professional associations and a website search. Given the exploratory, non-representative study design, data analysis was limited to description.

Results

OM and OSH programmes addressed the above challenges to a very limited extent, except for their disciplinary approach to work-related diseases and injuries. In contrast, HRM programmes were dealing more extensively with globalization, climate change and digitisation.

Conclusions

Significant limitations of knowledge and competences in dealing with the key challenges of the modern world of work were identified. More relational, ethical and interdisciplinary learning is needed in these programmes, addressing core issues of today’s world of work.
Molecular Evolution of Plant 14-3-3 Proteins and Function of Hv14-3-3A in Stomatal Regulation and Drought Tolerance
Authors: Jiang Wei , Tong Tao , Li Wen , Huang Zhenghong , Chen Guang , Zeng Fanrong , Riaz Adeel , Amoanimaa-Dede Hanna , Pan Rui , Zhang Wenying , Deng Fenglin , Chen Zhong-Hua
Published: March 2022

Drought significantly affects stomatal regulation, leading to the reduced growth and productivity of plants. Plant 14-3-3 proteins were reported to participate in drought response by regulating the activities of a wide array of target proteins. However, the molecular evolution, expression pattern and physiological functions of 14-3-3s under drought stress remain unclear. In this study, a comparative genomic analysis and the tissue-specific expression of 14-3-3s revealed the highly conserved and early evolution of 14-3-3s in green plants and duplication and expansion of the 14-3-3s family members in angiosperms. Using barley (Hordeum vulgare) for the functional characterization of 14-3-3 proteins, the transcripts of five members out of six Hv14-3-3s were highly induced by drought in the drought-tolerant line, XZ141. Suppression of the expression of Hv14-3-3A through barley stripe mosaic virus-virus induced gene silencing resulted in significantly increased drought sensitivity and stomatal density as well as significantly reduced net CO2 assimilation (A) and stomatal conductance (gs) in barley. Moreover, we showed the functional interactions between Hv14-3-3s and key proteins in drought and stomatal responses in plants—such as Open Stomata 1 (HvOST1), Slow Anion Channel 1 (HvSLAC1), three Heat Shock Proteins (HvHSP90-1/2/5) and Dehydration-Responsive Element-Binding 3 (HvDREB3). Taken together, we propose that 14-3-3s are highly evolutionarily conserved proteins and that Hv14-3-3s represent a group of the core regulatory components for the rapid stomatal response to drought in barley. This study will provide important evolutionary and molecular evidence for future applications of 14-3-3 proteins in breeding drought-tolerant crops in a changing global climate.
Sorghum Ionomics Reveals the Functional SbHMA3a Allele that Limits Excess Cadmium Accumulation in Grains
Authors: Wahinya Fiona Wacera , Yamazaki Kiyoshi , Jing Zihuan , Takami Tsuneaki , Kamiya Takehiro , Kajiya-Kanegae Hiromi , Takanashi Hideki , Iwata Hiroyoshi , Tsutsumi Nobuhiro , Fujiwara Toru , Sakamoto Wataru
Published: March 2022

Understanding uptake and redistribution of essential minerals or sequestering of toxic elements is important for optimized crop production. Although the mechanisms controlling mineral transport have been elucidated in rice and other species, little is understood in sorghum—an important C4 cereal crop. Here, we assessed the genetic factors that govern grain ionome profiles in sorghum using recombinant inbred lines (RILs) derived from a cross between BTx623 and NOG (Takakibi). Pairwise correlation and clustering analysis of 22 elements, measured in sorghum grains harvested under greenhouse conditions, indicated that the parental lines, as well as the RILs, show different ionomes. In particular, BTx623 accumulated significantly higher levels of cadmium (Cd) than NOG, because of differential root-to-shoot translocation factors between the two lines. Quantitative trait locus (QTL) analysis revealed a prominent QTL for grain Cd concentration on chromosome 2. Detailed analysis identified SbHMA3a, encoding a P1B-type ATPase heavy metal transporter, as responsible for low Cd accumulation in grains; the NOG allele encoded a functional HMA3 transporter (SbHMA3a-NOG) whose Cd-transporting activity was confirmed by heterologous expression in yeast. BTx623 possessed a truncated, loss-of-function SbHMA3a allele. The functionality of SbHMA3a in NOG was confirmed by Cd concentrations of F2 grains derived from the reciprocal cross, in which the NOG allele behaved in a dominant manner. We concluded that SbHMA3a-NOG is a Cd transporter that sequesters excess Cd in root tissues, as shown in other HMA3s. Our findings will facilitate the isolation of breeding cultivars with low Cd in grains or in exploiting high-Cd cultivars for phytoremediation.
Large differences in bacterial community composition of nearby shallow lakes surrounded by Nothofagus pumilio forest in Patagonia (Argentina)
Authors: Bastidas Navarro Marcela
Published: March 2022

Freshwater ecosystems are integrated in a terrestrial landscape, receiving continuously soil and plant-derived material. In Patagonia, the deciduous beech Nothofagus pumilio constitutes an important source of organic matter for aquatic environments. Here, I attempted to analyze bacterial communities, including genetic diversity and metabolic functioning, in four nearby lakes located under a N. pumilio forest (Chall-Huaco Mountain, Argentina). I combined fieldwork and experiments to assess physicochemical characteristics, bacterial community composition (BCC) and Carbon (C)-consumption. Physicochemical variables analyzed with NMDS showed a clear segregation of all the studied lakes. Similarly, BCC differed among lakes, maintaining its differences regardless of the seasons. Variables that significantly affected bacterial community structuring were dissolved P concentration and protein-like DOM component. The number of specialist operational taxonomic units was higher than that of generalists, but the latter doubled specialists in number of sequences. The last suggests that generalists may be responsible for the differences in BCC among lakes, and species sorting appears to be the main mechanism structuring the metacommunity. These results showed that even at a small geographic scale distinctive bacterial communities can be developed in lakes under the influence of N. pumilio forest.