bluuebunny/crossref_metadata_2025_split huggingface dataset:
Population genomics of introduced Nile tilapiaOreochromis niloticus(Linnaeus, 1758) in the Democratic Republic of the Congo: Repeated introductions since colonial times with multiple sources
Authors: Geraerts Mare , Vangestel Carl , Artois Tom , Fernandes Jorge Manuel de Oliveira , Jorissen Michiel W. P. , Chocha Manda Auguste , Danadu Mizani Célestin , Smeets Karen , Snoeks Jos , Sonet Gontran , Tingbao Yang , Van Steenberge Maarten , Vreven Emmanuel , Lunkayilakio Wamuini Soleil , Vanhove Maarten P. M. , Huyse Tine 
Published: April 2022

AbstractDuring colonial times, Nile tilapiaOreochromis niloticus(Linnaeus, 1758) was introduced into non‐native parts of the Congo Basin (Democratic Republic of the Congo, DRC) for the first time. Currently, it is the most farmed cichlid in the DRC, and is present throughout the Congo Basin. Although Nile tilapia has been reported as an invasive species, documentation of historical introductions into this basin and its consequences are scant. Here, we study the genetic consequences of these introductions by genotyping 213 Nile tilapia from native and introduced regions, focusing on the Congo Basin. Additionally, 48 specimens from 16 other tilapia species were included to test for hybridization. Using RAD sequencing (27,611 single nucleotide polymorphisms), we discovered genetic admixture with other tilapia species in several morphologically identified Nile tilapia from the Congo Basin, reflecting their ability to interbreed and the potential threat they pose to the genetic integrity of native tilapias. Nile tilapia populations from the Upper Congo and those from the Middle–Lower Congo are strongly differentiated. The former show genetic similarity to Nile tilapia from the White Nile, while specimens from the Benue Basin and Lake Kariba are similar to Nile tilapia from the Middle–Lower Congo, suggesting independent introductions using different sources. We conclude that the presence of Nile tilapia in the Congo Basin results from independent introductions, reflecting the dynamic aquaculture history, and that their introduction probably leads to genetic interactions with native tilapias, which could lower their fitness. We therefore urge avoiding further introductions of Nile tilapia in non‐native regions and to use native tilapias in future aquaculture efforts.
The phytopathogen Dickeya dadantii 3937 cpxR locus gene participates in the regulation of virulence and the global c‐di‐GMP network
Authors: Jiang Daqing , Zeng Quan , Banerjee Biswarup , Lin Haiping , Srok John , Yu Manda , Yang Ching‐Hong 
Published: April 2022

AbstractBacteria use signal transduction systems to sense and respond to their external environment. The two‐component system CpxA/CpxR senses misfolded envelope protein stress and responds by up‐regulating envelope protein factors and down‐regulating virulence factors in several animal pathogens. Dickeya dadantii is a phytopathogen equipped with a type III secretion system (T3SS) for manipulating the host immune response. We found that deletion of cpxR enhanced the expression of the T3SS marker gene hrpA in a designated T3SS‐inducing minimal medium (MM). In the ∆cpxR mutant, multiple T3SS and c‐di‐GMP regulators were also up‐regulated. Subsequent analysis revealed that deletion of the phosphodiesterase gene egcpB in ∆cpxR abolished the enhanced T3SS expression. This suggested that CpxR suppresses EGcpB levels, causing low T3SS expression in MM. Furthermore, we found that the ∆cpxR mutant displayed low c‐di‐GMP phenotypes in biofilm formation and swimming. Increased production of cellular c‐di‐GMP by in trans expression of the diguanylate cyclase gene gcpA was negated in the ∆cpxR mutant. Here, we propose that CpxA/CpxR regulates T3SS expression by manipulating the c‐di‐GMP network, in turn modifying the multiple physiological activities involved in the response to environmental stresses in D. dadantii.
Education on the Sustainable Development Goals for nursing students: Is Freire the answer?
Authors: Fields Lorraine , Dean Bonnie A. , Perkiss Stephanie , Moroney Tracey 
Published: April 2022

AbstractSignificant global events in recent years have had a substantial impact on the nursing profession. The COVID‐19 pandemic, climate change, and systemic racism are a few of the many complex issues that create a landscape of disruption and uncertainty in healthcare. With the aims of protecting both people and the planet, the United Nations’ Sustainable Development Goals offer a road map to combat these global concerns, yet require more widespread consideration as a way forward. Education on the Sustainable Development Goals is recognised as a key aspect for healthcare professionals to take action towards achieving the targets of the goals. For student nurses, the undergraduate curriculum offers an opportunity to enculturate future nurses on the important role they play in the global agenda to transform our world. Brazilian pedagogue Paulo Freire's theoretical approach to education, critical pedagogy, espouses transformation with conscientization, dialogue and liberation, which may create a paradigm shift toward global action. This discussion paper seeks to provide an argument for embedding the Sustainable Development Goals into nursing curricula using the philosophies of Freire's critical pedagogy. It will argue that a critical approach to education is required to create the transformation needed for student nurses to be educated on the Sustainable Development Goals.
Rice diterpenoid phytoalexins are involved in defence against parasitic nematodes and shape rhizosphere nematode communities
Authors: Desmedt Willem , Kudjordjie Enoch Narh , Chavan Satish Namdeo , Zhang Juan , Li Riqing , Yang Bing , Nicolaisen Mogens , Mori Masaki , Peters Reuben J. , Vanholme Bartel , Vestergård Mette , Kyndt Tina 
Published: April 2022

Summary

Rice diterpenoid phytoalexins (DPs) are secondary metabolites with a well known role in resistance to foliar pathogens. As DPs are also known to be produced and exuded by rice roots, we hypothesised that they might play an important role in plant–nematode interactions, and particularly in defence against phytoparasitic nematodes.

We used transcriptome analysis on rice roots to analyse the effect of infection by the root‐knot nematode Meloidogyne graminicola or treatment with resistance‐inducing chemical stimuli on DP biosynthesis genes, and assessed the susceptibility of mutant rice lines impaired in DP biosynthesis to M. graminicola. Moreover, we grew these mutants and their wild‐type in field soil and used metabarcoding to assess the effect of impairment in DP biosynthesis on rhizosphere and root nematode communities.

We show that M. graminicola suppresses DP biosynthesis genes early in its invasion process and, conversely, that resistance‐inducing stimuli transiently induce the biosynthesis of DPs. Moreover, we show that loss of DPs increases susceptibility to M. graminicola. Metabarcoding on wild‐type and DP‐deficient plants grown in field soil reveals that DPs significantly alter the composition of rhizosphere and root nematode communities.

Diterpenoid phytoalexins are important players in basal and inducible defence against nematode pathogens of rice and help shape rice‐associated nematode communities.
Intact ribosomal DNA arrays of Potentilla origin detected in Erythronium nucleus suggest recent eudicot‐to‐monocot horizontal transfer
Authors: Bartha László , Mandáková Terezie , Kovařík Aleš , Bulzu Paul‐Adrian , Rodde Nathalie , Mahelka Václav , Lysak Martin A. , Fustier Margaux‐Alison , Šafář Jan , Cápal Petr , Keresztes Lujza , Banciu Horia L. 
Published: April 2022

Summary

During our initial phylogenetic study of the monocot genus Erythronium (Liliaceae), we observed peculiar eudicot‐type internal transcribed spacer (ITS) sequences in a dataset derived from genomic DNA of Erythronium dens‐canis. This raised the possibility of horizontal transfer of a eudicot alien ribosomal DNA (rDNA) into the Erythronium genome. In this work we aimed to support this hypothesis by carrying out genomic, molecular, and cytogenetic analyses.

Genome skimming coupled by PacBio HiFi sequencing of a bacterial artificial chromosome clone derived from flow‐sorted nuclei was used to characterise the alien 45S rDNA. Integration of alien rDNA in the recipient genome was further proved by Southern blotting and fluorescence in situ hybridization using specific probes.

Alien rDNA, nested among Potentilla species in phylogenetic analysis, likely entered the Erythronium lineage in the common ancestor of E. dens‐canis and E. caucasicum. Transferred eudicot‐type rDNA preserved its tandemly arrayed feature on a single chromosome and was found to be transcribed in the monocot host, albeit much less efficiently than the native counterpart.

This study adds a new example to the rarely documented nuclear‐to‐nuclear jumps of DNA between eudicots and monocots while holding the scientific community continually in suspense about the mode of DNA transfer.
Eco‐evolutionary causes and consequences of rarity in plants: a meta‐analysis
Authors: Boyd Jennifer Nagel , Anderson Jill T. , Brzyski Jessica , Baskauf Carol , Cruse‐Sanders Jennifer 
Published: April 2022

Summary

Species differ dramatically in their prevalence in the natural world, with many species characterized as rare due to restricted geographic distribution, low local abundance and/or habitat specialization.

We investigated the ecoevolutionary causes and consequences of rarity with phylogenetically controlled metaanalyses of population genetic diversity, fitness and functional traits in rare and common congeneric plant species. Our syntheses included 252 rare species and 267 common congeners reported in 153 peer‐reviewed articles published from 1978 to 2020 and one manuscript in press.

Rare species have reduced population genetic diversity, depressed fitness and smaller reproductive structures than common congeners. Rare species also could suffer from inbreeding depression and reduced fertilization efficiency.

By limiting their capacity to adapt and migrate, these characteristics could influence contemporary patterns of rarity and increase the susceptibility of rare species to rapid environmental change. We recommend that future studies present more nuanced data on the extent of rarity in focal species, expose rare and common species to ecologically relevant treatments, including reciprocal transplants, and conduct quantitative genetic and population genomic analyses across a greater array of systems. This research could elucidate the processes that contribute to rarity and generate robust predictions of extinction risks under global change.
SubPhaser: a robust allopolyploid subgenome phasing method based on subgenome‐specific k‐mers
Authors: Jia Kai‐Hua , Wang Zhao‐Xuan , Wang Longxin , Li Guang‐Yuan , Zhang Wei , Wang Xiao‐Ling , Xu Fang‐Ji , Jiao Si‐Qian , Zhou Shan‐Shan , Liu Hui , Ma Yongpeng , Bi Guiqi , Zhao Wei , El‐Kassaby Yousry A. , Porth Ilga , Li Guowei , Zhang Ren‐Gang , Mao Jian‐Feng 
Published: April 2022

Summary

With advanced sequencing technology, dozens of complex polyploid plant genomes have been characterized. However, for many polyploid species, their diploid ancestors are unknown or extinct, making it impossible to unravel the subgenomes and genome evolution directly.

We developed a novel subgenome‐phasing algorithm, SubPhaser, specifically designed for a neoallopolyploid or a homoploid hybrid. SubPhaser first searches for the subgenome‐specific sequence (k‐mer), then assigns homoeologous chromosomes into subgenomes, and further provides tools to annotate and investigate specific sequences.

SubPhaser works well on neoallopolyploids and homoploid hybrids containing subgenome‐specific sequences like wheat, but fails on autopolyploids lacking subgenome‐specific sequences like alfalfa, indicating that SubPhaser can phase neoallopolyploid/homoploid hybrids with high accuracy, sensitivity and performance.

This highly accurate, highly sensitive, ancestral data free chromosome phasing algorithm, SubPhaser, offers significant application value for subgenome phasing in neoallopolyploids and homoploid hybrids, and for the subsequent exploration of genome evolution and related genetic/epigenetic mechanisms.
PICKLE associates with histone deacetylase 9 to mediate vegetative phase change in Arabidopsis
Authors: Hu Tieqiang , Manuela Darren , Hinsch Valerie , Xu Mingli 
Published: April 2022

Summary

The juvenile‐to‐adult vegetative phase change in flowering plants is mediated by a decrease in miR156 levels. Downregulation of MIR156A/MIR156C, the two major sources of miR156, is accompanied by a decrease in acetylation of histone 3 lysine 27 (H3K27ac) and an increase in trimethylation of H3K27 (H3K27me3) at MIR156A/MIR156C in Arabidopsis.

Here, we show that histone deacetylase 9 (HDA9) is recruited to MIR156A/MIR156C during the juvenile phase and associates with the CHD3 chromatin remodeler PICKLE (PKL) to erase H3K27ac at MIR156A/MIR156C.

H2Aub and H3K27me3 become enriched at MIR156A/MIR156C, and the recruitment of Polycomb Repressive Complex 2 (PRC2) to MIR156A/MIR156C is partially dependent on the activities of PKL and HDA9.

Our results suggest that PKL associates with histone deacetylases to erase H3K27ac and promote PRC1 and PRC2 activities to mediate vegetative phase change and maintain plants in the adult phase after the phase transition.
Too many teams? Examining the impact of multiple team memberships and permanent team identification on employees’ identity strain, cognitive depletion, and turnover
Authors: Mistry Sal , Kirkman Bradley L. , Moore Ozias A. , Hanna Andrew A. , Rapp Tammy L. 
Published: April 2022

AbstractAs the prevalence of multiple team membership (MTM) arrangements continues to grow, researchers have argued that shifting between teams and work roles induces MTM identity strain and other harmful outcomes. Drawing from work role transitions research on role identity and integrating it with social identity theory, we investigate this line of reasoning by conducting two studies, one field and one online panel study, focusing on blended MTMs, in which employees are concurrently assigned to a permanent team and several temporary project teams. Specifically, we examine the theoretical mechanisms explaining a positive relationship between number of temporary teams and turnover decisions. In Study 1, we surprisingly found that number of temporary teams negatively related to turnover decisions through MTM identity strain with permanent team identification strengthening this effect. In contrast, in Study 2, we found support for the hypothesized relationships: number of teams indirectly positively related to turnover intentions, mediated by MTM identity strain and cognitive depletion, and permanent team identification weakened the indirect effect. We provide explanations for these mixed findings and suggest theoretical and practical implications for MTM research.
Thinking and being sure*
Authors: Goodman Jeremy , Holguín Ben 
Published: April 2022

AbstractHow is what we believe related to how we act? That depends on what we mean by ‘believe’. On the one hand, there is what we're sure of: what our names are, where we were born, whether we are sitting in front of a screen. Surety, in this sense, is not uncommon — it does not imply Cartesian absolute certainty, from which no possible course of experience could dislodge us. But there are many things that we think that we are not sure of. For example, you might think that it will rain sometime this month, but not be sure that it will. Both what we're sure of and what we think have important normative connections to action. But the connections are quite different. This paper explores these issues with respect to assertion, inquiry, and decision making. We conclude by arguing that there is no theoretically significant notion of ‘full belief’ intermediate in strength between thinking and being sure.
Association between high levels of body‐esteem and increased degree of midcingulate cortex global connectivity: A resting‐state fMRI study
Authors: Chen Ximei , Xiao Mingyue , Qin Jingmin , Bian Ziming , Qiu Jiang , Feng Tingyong , He Qinghua , Lei Xu , Chen Hong 
Published: April 2022

AbstractMultiple neuroimaging studies have examined the neural underpinnings of body image disturbances in patients with eating disorders. However, key brain regions related to body image, such as body‐esteem (BE), among healthy individuals are understudied. Given the extremely crucial role of BE in eating behaviors and physical and mental health, the current study conducted data‐driven analysis and characterized the neurobiological correlates of BE with the network properties of the resting brain using the voxel‐wise degree centrality (DC) measures of resting‐state functional magnetic resonance imaging (rs‐fMRI) data and seed‐based resting‐state functional connectivity (RSFC). A total of 694 healthy young adults (females = 474, mean age = 18.38 years, range = 17–22) underwent rs‐fMRI, and completed the Body‐Esteem Scale for Adolescents and Adults, the Eating Disorder Diagnosis Scale, and the Restraint Scale. After correcting for differences in age, gender, body mass index, and head motion, whole‐brain correlation analyses revealed that a high level of BE was associated with increased DC within the right midcingulate cortex (MCC) and subsequent high levels of MCC‐based RSFC strengths. Furthermore, MCC connectivity patterns related to BE were inversely associated with disordered eating behaviors. These findings suggest that adaptive cognitive and emotional regulation (i.e., self‐evaluation and emotion based on body image) may explain the potential relationship between MCC connectivity patterns and BE to a certain extent. As such, future studies should investigate these interesting possibilities.
Father–child physiological concordance on two timescales is differentially associated with paternal characteristics
Authors: Zhang Xutong , Gatzke‐Kopp Lisa M. , Chen Meng , Cole Pamela M. , Ram Nilam 
Published: April 2022

AbstractConceptual work on interpersonal physiology suggests that the dynamic concordance between two person's physiological arousal may transpire on multiple timescales, and the timescale on which it unfolds may determine its psychological significance. The current study tested this hypothesis in the context of parent–child interaction by examining whether the concordance in their cardiac arousal on two timescales was differentially associated with parental characteristics. Using data from 98 fathers and their 3‐ to 5‐year‐old children during a task designed to frustrate young children, results indicated that the associations between cardiac concordance and fathers' self‐reported parenting hassles emerged for the slower timescale (concordant increasing trends in arousal), whereas concordance on the faster timescale (concordant second‐by‐second reactivity) was associated with fathers' emotional clarity. Findings suggest that there may be multiple layers of concordant patterns in the dynamic associations between fathers' and children's cardiac arousal, which unfold on different timescales and bear different psychological significance.
Community centered public safety resilience under public emergencies: A case study of COVID‐19
Authors: Zhang Jiaxin , Zha Guoqing , Pan Xing , Zuo Dujun , Xu Qianxin , Wang Huixiong 
Published: April 2022

AbstractDuring public emergencies, the level of public safety will be resilient and follow a process from decline to rise. Regarding the concept and influencing factors of public safety resilience, a three‐level public safety resilience framework that includes personal, community, and government levels was proposed in this study. It provided the overall metrics that used the resistance and recovery ability to describe the dynamic characteristics of public safety resilience as well as the resilience assessment indexes on three levels. In the context of the Coronavirus Disease 2019 (COVID‐19) pandemic, this study applied the proposed framework in a case study on public safety resilience at the Beihang community, Beijing, China through descriptive statistics, structural equation model, and principal component regression analysis of questionnaire data. The data analysis results showed that community resilience was the most important of the three levels of public safety resilience. In addition, community resilience could improve personal resilience, and government resilience had a positive effect on community and personal resilience. Compared with the resistance ability, the recovery ability was influenced more by the operation and improvement of the community. This study is conducive to understanding and improving public safety resilience on the personal, community, and government levels and can help relevant parties improve their ability to respond to the COVID‐19 pandemic. Furthermore, the methods used in this study can be extended to other studies on public emergencies.
Bayesian Imputation of COVID-19 Positive Test Counts for Nowcasting Under Reporting Lag
Authors: Jersakova Radka , Lomax James , Hetherington James , Lehmann Brieuc , Nicholson George , Briers Mark , Holmes Chris 
Published: April 2022

AbstractObtaining up to date information on the number of UK COVID-19 regional infections is hampered by the reporting lag in positive test results for people with COVID-19 symptoms. In the UK, for ‘Pillar 2’ swab tests for those showing symptoms, it can take up to five days for results to be collated. We make use of the stability of the under reporting process over time to motivate a statistical temporal model that infers the final total count given the partial count information as it arrives. We adopt a Bayesian approach that provides for subjective priors on parameters and a hierarchical structure for an underlying latent intensity process for the infection counts. This results in a smoothed time-series representation nowcasting the expected number of daily counts of positive tests with uncertainty bands that can be used to aid decision making. Inference is performed using sequential Monte Carlo.
Reversal of hepatorenal syndrome and kidney recovery: When renal has more to offer
Authors: Hu Shou‐ci , Xia Hong , Ye Qing‐qing , Xia Cong , Xu Yu‐lin , Xiang Xiao‐jun , Ma Hong‐zhen , Gao Xiang‐fu , Chen Hong‐bo 
Published: April 2022

AbstractHepatorenal syndrome (HRS) is one of the most severe complications in advanced cirrhosis. Type‐1 HRS is relatively uncommon, yet carries considerably higher mortality rate. Effective treatment for HRS, especially therapy towards survival benefits, is still limited. However, the role for dialysis in HRS has been questioned over the years. The initiation of dialysis remains controversial for those who aren't transplant candidates. Meanwhile, there's a growing attention towards the successful use of peritoneal dialysis (PD) in cirrhotic patients. Herein, we report a case of HRS‐1 in a 76‐year‐old male patient with decompensated cirrhosis. Through a series of adjustments of hemodialysis regimens and pharmacological prescriptions, patient stabilized and the opportunity for transjugular intrahepatic portosystemic shunt (TIPS) insertion was gained. PD was initiated after TIPS placement. With a gradual decrease of dialysis dose, patient successfully weaned off PD and achieved both reversal of HRS and kidney recovery. Markedly improved nutritional status and quality of life were reported. The potential role of dialysis and TIPS in HRS may be worth revisiting. Further studies regarding the optimal timing of dialysis initiation, choices of dialysis modality, and efficacy of dialysis therapy in combination with TIPS in HRS patients are warranted.