bluuebunny/crossref_metadata_2025 huggingface dataset:
Trans-kingdom interactions in mixed biofilm communities
Authors: Sadiq Faizan Ahmed , Hansen Mads Frederik , Burmølle Mette , Heyndrickx Marc , Flint Steve , Lu Wenwei , Chen Wei , Zhang Hao
Published: June 2022

The microbial world represents a phenomenal diversity of microorganisms from different kingdoms of life, which occupy an impressive set of ecological niches. Most, if not all, microorganisms once colonize a surface develop architecturally complex surface-adhered communities, which we refer to as biofilms. They are embedded in polymeric structural scaffolds and serve as a dynamic milieu for intercellular communication through physical and chemical signalling. Deciphering microbial ecology of biofilms in various natural or engineered settings has revealed coexistence of microorganisms from all domains of life, including Bacteria, Archaea, and Eukarya. The coexistence of these dynamic microbes is not arbitrary, as a highly coordinated architectural setup and physiological complexity show ecological interdependence and myriads of underlying interactions. In this review, we describe how species from different kingdoms interact in biofilms and discuss the functional consequences of such interactions. We highlight metabolic advances of collaboration among species from different kingdoms, and advocate that these interactions are of great importance and need to be addressed in future research. Since trans-kingdom biofilms impact diverse contexts, ranging from complicated infections to efficient growth of plants, future knowledge within this field will be beneficial for medical microbiology, biotechnology, and our general understanding of microbial life in nature.
Prisoners of the World Unite: The Internationalism of the 2 June Movement from Berlin Moabit Prison
Authors: Corke Catriona
Published: June 2022

When, in February 1975, the 2 June Movement kidnapped Peter Lorenz, the CDU candidate for mayor of West Berlin, it framed the act in terms of global solidarity. Lorenz was held in a ‘people’s prison’ (Volksgefängnis) on account of his symbolic responsibility for injustices taking place not only in West Berlin but also across the world, including Pinochet’s Chile and the Israel-Palestine conflict. Once in pretrial detention for the kidnapping, members of the group in Moabit prison continued to draw on this internationalist rhetoric, albeit as a means of connecting their own struggles in prison with those of liberation movements abroad. This article explores why this group—associated far more with local West Berlin initiatives than the Red Army Faction ever was—nevertheless deployed globalized rhetoric. It provides a new perspective on the 2 June Movement through targeted analysis of its written sources, which were central to how the group’s actions were perceived by outsiders. Clearly inflected by Marcuse’s theory of marginalized groups, the 2 June Movement narrated the ‘imprisonment’ of Peter Lorenz and its own prison experiences in later years in similar terms. In both cases, local experiences and actions on the ground in West Berlin were envisaged as having the potential to counter injustices taking place abroad. While there were limitations to this world-view, the 2 June Movement is representative of a form of revolutionary optimism capable of connecting the global with the local which was specific to West Berlin’s unique geohistorical circumstances.
The Association Between the Kyphosis Angle and Physical Performance in Community-Dwelling Older Adults
Authors: Koelé Marije C , Willems Hanna C , Harmsen Iris M , Swart Karin M A , van Dijk Suzanne C , Lips Paul , de Groot Lisette C P G M , van der Cammen Tischa J M , Zillikens M Carola , van Schoor Natasja M , van der Velde Nathalie
Published: June 2022

Background

We investigated prospectively among community-dwelling older adults aged 65 years and older whether a larger kyphosis angle is associated with poorer physical performance (balance, muscle strength, or both), and whether this association is unidirectional.

Methods

Male and female participants performed a multicomponent physical performance test with subscores for gait, muscle strength, and balance at baseline and after 2 years. Hand grip strength was also measured at baseline and at follow-up. The Cobb angle was measured on DXA-based Vertebral Fracture Assessments, made at the baseline and follow-up visit. Through linear and logistic regression analysis, we investigated the association between the kyphosis angle and physical performance and vice versa. We stratified for sex, and tested for effect modification by age and study center.

Results

The mean kyphosis angle was 37° and 15% of the participants (n = 1 220, mean age 72.9 ± 5.7 years) had hyperkyphosis (Cobb angle ≥50°). A larger kyphosis angle at baseline was independently associated with a poorer total physical performance score in women of the oldest quartile (≥77 years) in both the cross-sectional and longitudinal analyses (baseline B −0.32, 95% confidence interval [CI] −0.56–0.08; follow-up B 0.32, 95% CI −0.55–0.10). There was no association between physical performance at baseline and kyphosis progression.

Conclusion

A larger kyphosis angle is independently associated with a poorer physical performance at baseline and over time, and the direction of this association is unidirectional. These results emphasize the importance of early detection and treatment of hyperkyphosis to prevent further worsening of the kyphosis angle, thereby potentially preserving physical performance.
Crustal structure along the Wanzai–Yongchun profile in the Cathaysia Block, Southeast China, constrained by a joint active- and passive-source seismic experiment
Authors: Huang Minfu , Xu Tao , Lü Qingtian , Lin Jiyan , Bai Zhiming , Deng Yangfan , Zhang Yongqian , Badal José
Published: June 2022

Since the Mesozoic, the South China Block (SCB) has experienced multiple episodes of tectonic magmatism accompanied by metallogenesis. To explore the seismic velocity structure of the crust and its connection with mineralization, we constructed a wide-angle reflection and refraction (WARR) profile by deploying 435 short-period seismometers across the Cathaysia Block in Southeast China. Receiver functions and the H–κ stacking method were applied using a reference 2-D velocity model obtained from the analysis of WARR data. Integration of active- and passive-source seismic data enabled us to obtain an image of the crust and the average Vp/Vs ratio value of the SCB and produce several results: (1) The crustal thickness varies west-to-east from 28 km below the Qinhang metallogenic belt to 32 km below the Wuyishan metallogenic belt, and the average value of the Vp/Vs ratio for the crust is 1.71. Both the thickness of the crust and the average Vp/Vs ratio are lower than the average global values for the continental crust. (2) The relatively low Vp/Vs ratio and thin crust along the profile could be generated by thinning of the lower crust in the SCB as a result of the backarc extension related to westward subduction of the Paleo-Pacific plate below East Asia. (3) The Moho depth estimated from H–κ stacking with the help of the background P-wave velocity model modified by the WARR model fits better than using a global seismic velocity model with its common conversion point image, which supports a potential seismic data analysis technique provided with a joint deployment of both active- and passive-source seismic observation system with a shorter period.
Wild and domestic animals variably display Neu5Ac and Neu5Gc sialic acids
Authors: Nemanichvili Nikoloz , Spruit Cindy M , Berends Alinda J , Gröne Andrea , Rijks Jolianne M , Verheije Monique H , de Vries Robert P
Published: June 2022

Sialic acids are used as a receptor by several viruses and variations in the linkage type or C-5 modifications affect the binding properties. A species barrier for multiple viruses is present due to α2,3- or α2,6-linked sialic acids. The C-5 position of the sialic acid can be modified to form N-acetylneuraminic acid (Neu5Ac) or N-glycolylneuraminic acid (Neu5Gc), which acts as a determinant for host susceptibility for pathogens such as influenza A virus, rotavirus, and transmissible gastroenteritis coronavirus. Neu5Gc is present in most mammals such as pigs and horses but is absent in humans, ferrets, and dogs. However, little is known about C-5 content in wildlife species or how many C-5 modified sialic acids are present on N-linked glycans or glycolipids. Using our previously developed tissue microarray system, we investigated how 2 different lectins specific for Neu5Gc can result in varying detection levels of Neu5Gc glycans. We used these lectins to map Neu5Gc content in wild Suidae, Cervidae, tigers, and European hedgehogs. We show that Neu5Gc content is highly variable among different species. Furthermore, the removal of N-linked glycans reduces the binding of both Neu5Gc lectins while retention of glycolipids by omitting methanol treatment of tissues increases lectin binding. These findings highlight the importance of using multiple Neu5Gc lectins as the rich variety in which Neu5Gc is displayed can hardly be detected by a single lectin.
Chromenone derivatives as novel pharmacological chaperones for retinitis pigmentosa-linked rod opsin mutants
Authors: Ortega Joseph T , McKee Andrew G , Roushar Francis J , Penn Wesley D , Schlebach Jonathan P , Jastrzebska Beata
Published: June 2022

The correct expression of folded, functional rhodopsin (Rho) is critical for visual perception. However, this seven-transmembrane helical G protein-coupled receptor is prone to mutations with pathological consequences of retinal degeneration in retinitis pigmentosa (RP) due to Rho misfolding. Pharmacological chaperones that stabilize the inherited Rho variants by assisting their folding and membrane targeting could slow the progression of RP. In this study, we employed virtual screening of synthetic compounds with a natural product scaffold in conjunction with in vitro and in vivo evaluations to discover a novel chromenone-containing small molecule with favorable pharmacological properties that stabilize rod opsin. This compound reversibly binds to unliganded bovine rod opsin with an EC50 value comparable to the 9-cis-retinal chromophore analog and partially rescued membrane trafficking of multiple RP-related rod opsin variants in vitro. Importantly, this novel ligand of rod opsin was effective in vivo in murine models, protecting photoreceptors from deterioration caused by either bright light or genetic insult. Together, our current study suggests potential broad therapeutic implications of the new chromenone-containing non-retinoid small molecule against retinal diseases associated with photoreceptor degeneration.
BCL6, a key oncogene, in the placenta, pre-eclampsia and endometriosis
Authors: Louwen Frank , Kreis Nina-Naomi , Ritter Andreas , Friemel Alexandra , Solbach Christine , Yuan Juping
Published: June 2022

BACKGROUND

The key oncogene B-cell lymphoma 6 (BCL6) drives malignant progression by promoting proliferation, overriding DNA damage checkpoints and blocking cell terminal differentiation. However, its functions in the placenta and the endometrium remain to be defined.

OBJECTIVE AND RATIONALE

Recent studies provide evidence that BCL6 may play various roles in the human placenta and the endometrium. Deregulated BCL6 might be related to the pathogenesis of pre-eclampsia (PE) as well as endometriosis. In this narrative review, we aimed to summarize the current knowledge regarding the pathophysiological role of BCL6 in these two reproductive organs, discuss related molecular mechanisms, and underline associated research perspectives.

SEARCH METHODS

We conducted a comprehensive literature search using PubMed for human, animal and cellular studies published until October 2021 in the following areas: BCL6 in the placenta, in PE and in endometriosis, in combination with its functions in proliferation, fusion, migration, invasion, differentiation, stem/progenitor cell maintenance and lineage commitment.

OUTCOMES

The data demonstrate that BCL6 is important in cell proliferation, survival, differentiation, migration and invasion of trophoblastic cells. BCL6 may have critical roles in stem/progenitor cell survival and differentiation in the placenta and the endometrium. BCL6 is aberrantly upregulated in pre-eclamptic placentas and endometriotic lesions through various mechanisms, including changes in gene transcription and mRNA translation as well as post-transcriptional/translational modifications. Importantly, increased endometrial BCL6 is considered to be a non-invasive diagnostic marker for endometriosis and a predictor for poor outcomes of IVF. These data highlight that BCL6 is crucial for placental development and endometrium homeostasis, and its upregulation is associated with the pathogenesis of PE, endometriosis and infertility.

WIDER IMPLICATIONS

The lesson learned from studies of the key oncogene BCL6 reinforces the notion that numerous signaling pathways and regulators are shared by tumors and reproductive organs. Their alteration may promote the progression of malignancies as well as the development of gestational and reproductive disorders.
Use of the LunAero Open-Source Hardware Platform to Enhance the Accuracy and Precision of Traditional Nocturnal Migration Bird Counts
Authors: Honeycutt Wesley T , Bridge Eli S
Published: June 2022

Quantification of nocturnal migration of birds through moon watching is a technique ripe for modernization with superior computational power. In this paper, collected by a motorized telescope mount was data analyzed using both video observations by trained observers and modernized approaches using computer vision. The more advanced data extraction used the OpenCV library of computer vision tools to identify bird silhouettes by means of image stabilization and background subtraction. The silhouettes were sanitized and analyzed in sequence to produce stacked relationships between temporally close contours, discriminating birds from noise based on the assumption that birds migrate in stable paths. The flight ceiling of the birds was determined by extracting relevant correlation coefficient data from doppler radar co-located with the LunAero instrument in Norman, OK, USA using a method with low-computational overhead. The bird paths and flight ceiling were combined with lunar ephemera to provide input for the original method used for nocturnal migration quantification as well as an enhanced version of the same method with more advanced computational tools. We found that the manual quantification of migration activity detected 16,300 birds/km•h heading northwest from 110°, whereas the automated analysis reported a density of 43,794 birds/km•h heading northwest from 106.67°. Hence, there was agreement with regard to flight direction, but the automated method overestimated migration density by approximately three times. The reasons for the discrepancy between flight path detection appeared to be due to a substantial amount of noise in the video data as well as a tendency for the computer vision analysis to split single flight paths into two or more segments. The authors discuss ongoing innovations aimed at addressing these methodological challenges.
Recognizing Salinity Threats in the Climate Crisis
Authors: Lee Carol Eunmi , Downey Kala , Colby Rebecca Smith , Freire Carolina A , Nichols Sarah , Burgess Michael N , Judy Kathryn J
Published: June 2022

Climate change is causing habitat salinity to transform at unprecedented rates across the globe. While much of the research on climate change has focused on rapid shifts in temperature, far less attention has focused on the effects of changes in environmental salinity. Consequently, predictive studies on the physiological, evolutionary, and migratory responses of organisms and populations to the threats of salinity change are relatively lacking. This omission represents a major oversight, given that salinity is among the most important factors that define biogeographic boundaries in aquatic habitats. In this perspective, we briefly touch on responses of organisms and populations to rapid changes in salinity occurring on contemporary time scales. We then discuss factors that might confer resilience to certain taxa, enabling them to survive rapid salinity shifts. Next, we consider approaches for predicting how geographic distributions will shift in response to salinity change. Finally, we identify additional data that are needed to make better predictions in the future. Future studies on climate change should account for the multiple environmental factors that are rapidly changing, especially habitat salinity.
Learning to search collaboratively: how dyads overcome complexity and misaligned incentives in imperfect modular decompositions
Authors: Billinger Stephan , Benincasa Stefano , Baumann Oliver , Kretschmer Tobias , Schumacher Terry R
Published: June 2022

We investigate the search processes that dyads engage in when each human agent is responsible for one module of a complex task. Our laboratory experiment manipulates global vs. local incentives and low vs. high cross-modular interdependence. We find that dyads endogenously learn to coordinate their joint search efforts by engaging in parallel and sequential searches that, over time, give rise to coordinated repeated actions. Such collaborative search emerges despite complexity and misaligned incentives, and without a coordinating hierarchy.
Epidermal clearance ofCandida albicansis mediated by IL-17 but independent of fungal innate immune receptors
Authors: Iwasawa Mari T , Miyachi Hideaki , Wakabayashi Seiichiro , Sugihira Takashi , Aoyama Reika , Nakagawa Seitaro , Katayama Yuki , Yoneyama Mitsutoshi , Hara Hiromitsu , Iwakura Yoichiro , Matsumoto Masanori , Inohara Naohiro , Koguchi-Yoshioka Hanako , Fujimoto Manabu , Núñez Gabriel , Matsue Hiroyuki , Nakamura Yuumi , Saijo Shinobu
Published: June 2022

Abstract

IL-17 plays important roles in host defense against Candida albicans at barrier surfaces and during invasive infection. However, the role of IL-17 in host defense after colonization of the epidermis, a main site of C. albicans infection, remains poorly understood. Using a murine model of epicutaneous candidiasis without skin abrasion, we found that skin inflammation triggered by epidermal C. albicans colonization was self-limiting with fungal clearance completed by day 7 after inoculation in wild-type mice or animals deficient in IL-17A or IL-17F. In contrast, marked neutrophilic inflammation in the epidermis and impaired fungal clearance were observed in mice lacking both IL-17A and IL-17F. Clearance of C. albicans was independent of Dectin-1, Dectin-2, CARD9 (caspase-recruitment domain family, member 9), TLR2 (Toll-like receptor 2) and MyD88 in the epidermal colonization model. We found that group 3 innate lymphoid cells (ILC3s) and γδT cells were the major IL-17 producers in the epicutaneous candidiasis model. Analyses of Rag2−/− mice and Rag2−/−Il2rg−/− mice revealed that production of IL-17A and IL-17F by ILC3s was sufficient for C. albicans clearance. Finally, we found that depletion of neutrophils impaired C. albicans clearance in the epidermal colonization model. Taken together, these findings indicate a critical and redundant function of IL-17A and IL-17F produced by ILC3s in host defense against C. albicans in the epidermis. The results also suggest that epidermal C. albicans clearance is independent of innate immune receptors or that these receptors act redundantly in fungal recognition and clearance.
Disaggregating Repression: Identifying Physical Integrity Rights Allegations in Human Rights Reports
Authors: Cordell Rebecca , Clay K Chad , Fariss Christopher J , Wood Reed M , Wright Thorin M
Published: June 2022

Most cross-national human rights datasets rely on human coding to produce yearly, country-level indicators of state human rights practices. Hand-coding the documents that contain the information on which these scores are based is tedious and time-consuming, but has been viewed as necessary given the complexity and detail of the information contained in the text. However, advances in automated text analysis have the potential to streamline this process without sacrificing accuracy. In this research note, we take the first step in creating this streamlined process by employing a supervised machine learning automated coding method that extracts specific allegations of physical integrity rights violations from the original text of country reports on human rights. This method produces a dataset including 163,512 unique abuse allegations in 196 countries between 1999 and 2016. This dataset and method will assist researchers of physical integrity rights abuse because it will allow them to produce allegation-level human rights measures that have previously not existed and provide a jumping-off point for future projects aimed at using supervised machine learning to create global human rights metrics.
Using CDS Hooks to increase SMART on FHIR app utilization: a cluster-randomized trial
Authors: Morgan Keaton L , Kukhareva Polina V , Warner Phillip B , Wilkof Jonah , Snyder Meir , Horton Devin , Madsen Troy , Habboushe Joseph , Kawamoto Kensaku
Published: June 2022

Objective

HL7 SMART on FHIR apps have the potential to improve healthcare delivery and EHR usability, but providers must be aware of the apps and use them for these potential benefits to be realized. The HL7 CDS Hooks standard was developed in part for this purpose. The objective of this study was to determine if contextually relevant CDS Hooks prompts can increase utilization of a SMART on FHIR medical reference app (MDCalc for EHR).

Materials and Methods

We conducted a 7-month, provider-randomized trial with 70 providers in a single emergency department. The intervention was a collection of CDS Hooks prompts suggesting the use of 6 medical calculators in a SMART on FHIR medical reference app. The primary outcome was the percentage of provider–patient interactions in which the app was used to view a recommended calculator. Secondary outcomes were app usage stratified by individual calculators.

Results

Intervention group providers viewed a study calculator in the app in 6.0% of interactions compared to 2.6% in the control group (odds ratio = 2.45, 95% CI, 1.2–5.2, P value .02), an increase of 130%. App use was significantly greater for 2 of 6 calculators.

Discussion and Conclusion

Contextually relevant CDS Hooks prompts led to a significant increase in SMART on FHIR app utilization. This demonstrates the potential of using CDS Hooks to guide appropriate use of SMART on FHIR apps and was a primary motivation for the development of the standard. Future research may evaluate potential impacts on clinical care decisions and outcomes.
Oral microbiota populations of adult dogs consuming wet or dry foods
Authors: Oba Patrícia M , Sieja Kelly M , Keating Stephanie C J , Hristova Teodora , Somrak Amy J , Swanson Kelly S
Published: June 2022

Oral microbiota play a prominent role in canine periodontal disease and wet foods are often blamed for poor oral health, but canine oral microbial communities have been poorly studied. We aimed to determine differences in oral health measures, breath odor, and oral microbiota populations of dogs fed wet or dry food. Twelve adult dogs fed either a commercial dry (extruded) or commercial wet (canned) food for 6 wk were studied. Breath samples were measured for sulfur compounds, teeth were scored for plaque, calculus, and gingivitis by a blinded veterinary dentist, salivary pH was measured, and supragingival (SUP) and subgingival (SUB) plaque samples were collected for microbiota analysis. Plaque DNA was extracted and Illumina sequencing was conducted. Phylogenetic data were analyzed using the CosmosID bioinformatics platform and SAS 9.4, with P <0.05 being significant and P <0.10 being trends. Plaque coverage tended to be higher (P < 0.10) in dogs fed wet vs. dry food, but other oral health scores were not different. Dogs fed dry food had higher (P < 0.05) salivary pH and lower (P < 0.05) breath sulfur concentrations than those consuming wet food. Bacterial alpha diversity was higher in SUP than SUB samples, and a clear separation in beta diversity was observed between sample sites on principal coordinates analysis (PCoA) plots. In SUP samples, dogs fed wet food had a higher alpha diversity than dogs fed dry food, with PCoA plots showing a separation between wet and dry food. Relative abundances of Firmicutes, Synergistetes, and 10 bacterial genera were different (P < 0.05) in SUB samples of dogs fed wet vs. dry food. Relative abundances of Fusobacteria and over 20 bacterial genera were different (P < 0.05) in SUP samples of dogs fed wet vs. dry food. In general, oral health-associated bacterial taxa (Pasteurella, Capnocytophaga, Corynebacterium) were higher, while bacteria associated with poor oral health (Fretibacterium fastidiosum, Filifactor alocis, Treponema medium, Tannerella forsythia, Porphyromonas canoris, Porphyromonas gingivalis) were lower in dogs fed dry food. Such shifts in the oral microbiota may impact periodontal disease risk, but longer dietary intervention studies are required to confirm their role in the disease process. Our results suggest that dogs fed dry extruded foods have lower breath odor and tooth plaque buildup and an oral microbiota population more closely associated with oral health than dogs fed wet canned foods.
Ultrafast Measurement of Metformin in the Clinical Setting Using Probe Electrospray Ionization Mass Spectrometry
Authors: Griffeuille Pauline , El Balkhi Souleiman , Bodeau Sandra , Lamoureux Fabien , Marquet Pierre , Dulaurent Sylvain , Saint-Marcoux Franck
Published: June 2022

Metformin (MtF) is a treatment used for type 2 diabetes. Lactic acidosis (LA) is a frequent complication that can be either induced by or associated with elevated MtF plasma concentrations. When coupled with a mass spectrometry (MS) system, the probe electrospray ionization (PESI) method allows direct and rapid analysis of different types of matrices without pretreatment. In this study, we developed a PESI–MS method for the determination of MtF in plasma. We used a tandem mass spectrometer equipped with a PESI source in the reaction monitoring mode for the quantitation of MtF. MtF-d6 was chosen as the internal standard (IS), following an isotope dilution (ID) approach. The method was fully validated with six concentration levels (0.5–50 mg/L). The matrix effect was evaluated for each level, and the specificity was tested with a mix of potential co-medications. Using patient samples, the performance was compared with two classical LC–MS-MS and LC–diode array detector (DAD) methods used in external labs. Sample preparation consisted in mixing 10 µL plasma in 1,000 µL ethanol/ammonium formate buffer including MtF-d6 at a fixed concentration of 5 mg/L. The total run time was 0.31 min. ID gave satisfactory results of accuracy and precision (min–max: −12.1 to 15.8% and 1.0–17.1%, respectively). The matrix effect was fully corrected by the internal standard (bias < 1%). The specificity study also reported satisfactory results. Finally, in a representative group of 29 patients (55% with a concentration <5 mg/L, 38% with a concentration >5 mg/L and 7% not detected), we observed almost identical results when comparing LC–DAD and LC–MS-MS to PESI–MS (r2 > 0.99). We propose a specific, sensitive, accurate and ultrafast solution for the measurement of MtF in patient plasma, with no sample preparation or calibration curve building. This could be helpful in a core lab when rapid diagnosis of LA is needed.
Estimating Aedes aegypti (Diptera: Culicidae) Flight Distance: Meta-Data Analysis
Authors: Moore Thomas C , Brown Heidi E
Published: June 2022

The yellow fever mosquito, Aedes aegypti, is a growing global concern. An ecological parameter necessary for vector control is the dispersal, or flight range, of mosquito vectors. Information on mosquito dispersal supports identifying optimal sampling and control strategies to limit the invasion of adult mosquitoes. Attempts around the world to understand the movement and flight range of Ae. aegypti have used a variety of techniques, but there has been little agreement regarding flight distances of Ae. aegypti, specifically the average linear distance Ae. aegypti travel in their natural environment. To generate a more robust estimate of Ae. aegypti flight distance, we conducted a meta-data analysis with the aims 1) to provide a flight distance measurement and 2) investigate how mosquito flight range can be affected by study design and climatic factors. Published studies were retrieved from public databases and reviewed for mean distance traveled (MDT) or maximum distance traveled measurements of Ae. aegypti. Linear regression was used to assess potential relationships between Ae. aegypti flight distance and factors pertaining to climate, degrees of urbanization, and study design. MDT estimates were pooled from 27 experiments to calculate a weighted MDT of 105.69 m. This study addresses the average flight distance of Ae. aegypti with the intention of informing vector control programs in Ae. aegypti prevalent regions of the world.
Performance of Cervical Screening a Decade Following HPV Vaccination: The Costa Rica Vaccine Trial
Authors: Hu Shang-Ying , Kreimer Aimée R , Porras Carolina , Guillén Diego , Alfaro Mario , Darragh Teresa M , Stoler Mark H , Villegas Luis F , Ocampo Rebecca , Rodriguez Ana Cecilia , Schiffman Mark , Tsang Sabrina H , Lowy Douglas R , Schiller John T , Schussler John , Quint Wim , Gail Mitchell H , Sampson Joshua N , Hildesheim Allan , Herrero Rolando ,   the Costa Rica HPV Vaccine Trial (CVT) Group
Published: June 2022

Background

We investigated the impact of human papillomavirus (HPV) vaccination on the performance of cytology-based and HPV-based screening for detection of cervical precancer among women vaccinated as young adults and reaching screening age.

Methods

A total of 4632 women aged 25-36 years from the Costa Rica HPV Vaccine Trial were included (2418 HPV-vaccinated as young adults and 2214 unvaccinated). We assessed the performance of cytology- and HPV-based cervical screening modalities in vaccinated and unvaccinated women to detect high-grade cervical precancers diagnosed over 4 years and the absolute risk of cumulative cervical precancers by screening results at entry.

Results

We detected 95 cervical intraepithelial neoplasia grade 3 or worse (52 in unvaccinated and 43 in vaccinated women). HPV16/18/31/33/45 was predominant (69%) among unvaccinated participants, and HPV35/52/58/39/51/56/59/66/68 predominated (65%) among vaccinated participants. Sensitivity and specificity of cervical screening approaches were comparable between women vaccinated as young adults and unvaccinated women. Colposcopy referral rates were lower in the vaccinated group for HPV-based screening modalities, but the positive predictive value was comparable between the 2 groups.

Conclusions

Among women approaching screening ages, vaccinated as young adults, and with a history of intensive screening, the expected reduction in the positive predictive value of HPV testing, associated with dropping prevalence of HPV-associated lesions, was not observed. This is likely due to the presence of high-grade lesions associated with nonvaccine HPV types, which may be less likely to progress to cancer.
High-throughput unmanned aerial vehicle-based phenotyping provides insights into the dynamic process and genetic basis of rapeseed waterlogging response in the field
Authors: Li Jijun , Xie Tianjin , Chen Yahui , Zhang Yuting , Wang Chufeng , Jiang Zhao , Yang Wanneng , Zhou Guangsheng , Guo Liang , Zhang Jian
Published: June 2022

Waterlogging severely affects the growth, development, and yield of crops. Accurate high-throughput phenotyping is important for exploring the dynamic crop waterlogging response in the field, and the genetic basis of waterlogging tolerance. In this study, a multi-model remote sensing phenotyping platform based on an unmanned aerial vehicle (UAV) was used to assess the genetic response of rapeseed (Brassica napus) to waterlogging, by measuring morphological traits and spectral indices over 2 years. The dynamic responses of the morphological and spectral traits indicated that the rapeseed waterlogging response was severe before the middle stage within 18 d after recovery, but it subsequently decreased partly. Genome-wide association studies identified 289 and 333 loci associated with waterlogging tolerance in 2 years. Next, 25 loci with at least nine associations with waterlogging-related traits were defined as highly reliable loci, and 13 loci were simultaneously identified by waterlogging tolerance coefficients of morphological traits, spectral indices, and common factors. Forty candidate genes were predicted in the regions of 13 overlapping loci. Our study provides insights into the understanding of the dynamic process and genetic basis of rapeseed waterlogging response in the field by a high-throughput UAV phenotyping platform. The highly reliable loci identified in this study are valuable for breeding waterlogging-tolerant rapeseed cultivars.
Phenotyping for waterlogging tolerance in crops: current trends and future prospects
Authors: Langan Patrick , Bernád Villő , Walsh Jason , Henchy Joey , Khodaeiaminjan Mortaza , Mangina Eleni , Negrão Sónia
Published: June 2022

Yield losses to waterlogging are expected to become an increasingly costly and frequent issue in some regions of the world. Despite the extensive work that has been carried out examining the molecular and physiological responses to waterlogging, phenotyping for waterlogging tolerance has proven difficult. This difficulty is largely due to the high variability of waterlogging conditions such as duration, temperature, soil type, and growth stage of the crop. In this review, we highlight use of phenotyping to assess and improve waterlogging tolerance in temperate crop species. We start by outlining the experimental methods that have been utilized to impose waterlogging stress, ranging from highly controlled conditions of hydroponic systems to large-scale screenings in the field. We also describe the phenotyping traits used to assess tolerance ranging from survival rates and visual scoring to precise photosynthetic measurements. Finally, we present an overview of the challenges faced in attempting to improve waterlogging tolerance, the trade-offs associated with phenotyping in controlled conditions, limitations of classic phenotyping methods, and future trends using plant-imaging methods. If effectively utilized to increase crop resilience to changing climates, crop phenotyping has a major role to play in global food security.
Significance of differential expression profiles of ABC transporters in azole susceptibility between Cryptococcus gattii VGI and VGII strains
Authors: Xue Xinying , Zang Xuelei , Xiao Meng , Wang Lifeng , Wu Hua , Ma Xidong , Wu Ningxin , Deng Hengyu , Zhou Meng , Pan Lei , Shen Dingxia , Wang Jianxin
Published: June 2022

Azoles were used as the primary antifungal agents to treat the Cryptococcus gattii infection. Evidence showed that subtypes of C. gattii respond differently to azoles, but the mechanism is largely elusive. In this study, we aimed to find the mechanisms of differences in azole drug susceptibility in different subtypes of C. gattii. Eight clinical strains of C. gattii were collected for molecular typing, multilocus sequence typing (MLST) analysis, and antifungal susceptibility testing. Based on drug susceptibility differences, the RNA sequencing data were analyzed to find candidate azole drug susceptibility genes, and qPCR validation was performed. Five VGI subtypes and three VGII subtypes were identified among the eight strains of C. gattii. The clinical isolates showed high genetic diversity, and seven sequence types (STs) were identified. The geometric mean (GM) of minimum inhibitory concentration (MIC) for fluconazole, voriconazole, and itraconazole of VGI subtype was significantly lower than that of VGII subtype, and genes related to transporter activities were differentially expressed between VGI and VGII strains. The results of the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that the DEGs (differential expressed genes) were found to be enriched in multiple ABC transporters. We further performed qPCR to quantify the expression level of seven ABC transporters. We found that ABC transporters ATM1, MDR1, PDR5, PDR5-3, and PXA2 were expressed significantly higher in VGII strains than in VGI strains. Our work revealed four novel ABC transporters, ATM1, PDR5, PDR5-3, and PXA2, promising candidate targets regulating azole susceptibility in C. gattii strains.

Lay Summary

Azoles were used as the primary antifungal agents for treating Cryptococuss gattii infection. Since subtypes of C. gattii respond differently to azoles. We analyzed mRNA expression profiles of different subtypes and identified four ABC transporters that could be potential genes regulating azole sensitivity.
A cosmological distance measure using radio-loud quasars
Authors: Huang L , Chang Z X
Published: June 2022

We use the X-ray luminosity relation of radio-loud quasars (RLQs) to measure these luminosity distances as well as estimate cosmological parameters. We adopt four parametric models of X-ray luminosity to test luminosity correlation for RLQs and radio-intermediate quasars (RIQs) and give these cosmological distances. By Bayesian information criterion (BIC), the data suggest that the luminosity relation ${L_X} \propto L_{\rm UV}^{{\gamma _{\rm uv}}}L_{\rm Radio}^{\gamma _{\rm radio}^{\prime }}$ for RLQs has a better goodness of fit, relative to other models, which can be interpreted as this relation being preferred for RLQs. Meanwhile, we compare the results from flat-spectrum radio-loud quasars (FSRLQs) and steep-spectrum radio-loud quasars (SSRLQs), which indicate that their luminosity correlations are not exactly the same. We also consider dividing the RLQ sample into various redshift bins, which can be used to check if the X-ray luminosity relation depends on the redshift. Finally, we apply a combination of RLQs and SN Ia Pantheon to verify the nature of dark energy concerning whether or not its density deviates from the constant, and give the statistical results.
How well do local relations predict gas-phase metallicity gradients? Results from SDSS-IV MaNGA
Authors: Boardman N , Zasowski G , Newman J A , Sanchez S F , Andrews B , Barrera-Ballesteros J K , Lian J , Riffel R , Riffel R A , Schaefer A , Bundy K
Published: June 2022

Gas-phase metallicity gradients in galaxies provide important clues to those galaxies’ formation histories. Using SDSS-IV MaNGA data, we previously demonstrated that gas metallicity gradients vary systematically and significantly across the galaxy mass–size plane: at stellar masses beyond approximately $10^{10}\, \mathrm{M_\odot }$, more extended galaxies display steeper gradients (in units of dex/Re) at a given stellar mass. Here, we set out to develop a physical interpretation of these findings by examining the ability of local ∼kpc-scale relations to predict the gradient behaviour along the mass–size plane. We find that local stellar mass surface density, when combined with total stellar mass, is sufficient to reproduce the overall mass–size trend in a qualitative sense. We further find that we can improve the predictions by correcting for residual trends relating to the recent star formation histories of star-forming regions. However, we find as well that the most extended galaxies display steeper average gradients than predicted, even after correcting for residual metallicity trends with other local parameters. From these results, we argue that gas-phase metallicity gradients can largely be understood in terms of known local relations, but we also discuss some possible physical causes of discrepant gradients.
Uniform modelling of the stellar density of thirteen tidal streams within the Galactic halo
Authors: Patrick Jeffrey M , Koposov Sergey E , Walker Matthew G
Published: June 2022

We present the results of fitting a flexible stellar stream density model to a collection of thirteen streams around the Milky Way, using photometric data from DES, DECaLS, and Pan-STARRS. We construct density maps for each stream and characterize their tracks on the sky, width, and distance modulus curves along the length of each stream. We use these measurements to compute lengths and total luminosities of streams and identify substructures. Several streams show prominent substructures, such as stream broadening, gaps, large deviations of stream tracks, and sharp changes in stream densities. Examining the group of streams as a population, as expected we find that streams with globular cluster progenitors are typically narrower than those with dwarf galaxy progenitors, with streams around 100 pc wide showing overlap between the two populations. We also note the average luminosity of globular cluster streams is significantly lower than the typical luminosity of intact globular clusters. The likely explanation is that observed globular cluster streams preferentially come from lower luminosity and lower density clusters. The stream measurements done in a uniform manner presented here will be helpful for more detailed stream studies such as identifying candidate stream members for spectroscopic follow up and stellar stream dynamical modelling.
The luminosity of cluster galaxies in the Cluster-EAGLE simulations
Authors: Negri Andrea , Dalla Vecchia Claudio , Aguerri J Alfonso L , Bahé Yannick
Published: June 2022

We computed the luminosity of simulated galaxies of the c-eagle project, a suite of 30 high-resolution zoom-in simulations of galaxy clusters based on the eagle simulation. The AB magnitudes are derived for different spectral bands, from ultraviolet to infrared, using the simple stellar population modelling based on the E-MILES stellar spectra library. We take into account obscuration due to dust in star forming regions and diffuse interstellar medium. The g − r colour–stellar mass diagram, at z = 0.1, presents a defined red sequence, reaching g − r ≃ 0.8, 0.05 dex redder than eagle at high masses, and a well populated blue cloud, when field galaxies are included. The clusters’ inner regions are dominated by red-sequence galaxies at all masses, although a non-negligible amount of blue galaxies are still present. We adopt Bayesian inference to compute the clusters LFs, testing for statistical significance of both single and double Schechter functions. The multicolour LFs at z = 0 show a knee luminosity that peaks in the infrared and increases with the cluster’s mass. The faint-end is weakly dependent on colour and mass and shows an upturn in the optical, bounded between −1.25 and −1.39, just moderately steeper than the field. The simulations reproduce, within the observational errors, the spectroscopic LFs of the Hercules and Abell 85 clusters, including their faint end upturn. c-eagle LFs are in broad agreement with observed LFs taken from SDSS and XXL surveys, up to z = 0.67, showing a rather flat faint end when the observational constrains are taken into account.
Genetic Variation in Reproductive Investment Across an Ephemerality Gradient inDaphnia pulex
Authors: Barnard-Kubow Karen B , Becker Dörthe , Murray Connor S , Porter Robert , Gutierrez Grace , Erickson Priscilla , Nunez Joaquin C B , Voss Erin , Suryamohan Kushal , Ratan Aakrosh , Beckerman Andrew , Bergland Alan O
Published: June 2022

Species across the tree of life can switch between asexual and sexual reproduction. In facultatively sexual species, the ability to switch between reproductive modes is often environmentally dependent and subject to local adaptation. However, the ecological and evolutionary factors that influence the maintenance and turnover of polymorphism associated with facultative sex remain unclear. We studied the ecological and evolutionary dynamics of reproductive investment in the facultatively sexual model species, Daphnia pulex. We found that patterns of clonal diversity, but not genetic diversity varied among ponds consistent with the predicted relationship between ephemerality and clonal structure. Reconstruction of a multi-year pedigree demonstrated the coexistence of clones that differ in their investment into male production. Mapping of quantitative variation in male production using lab-generated and field-collected individuals identified multiple putative quantitative trait loci (QTL) underlying this trait, and we identified a plausible candidate gene. The evolutionary history of these QTL suggests that they are relatively young, and male limitation in this system is a rapidly evolving trait. Our work highlights the dynamic nature of the genetic structure and composition of facultative sex across space and time and suggests that quantitative genetic variation in reproductive strategy can undergo rapid evolutionary turnover.
Recent advances in the application of metallomics in diagnosis and prognosis of human cancer
Authors: Zhang Yan , He Jie , Jin Jiao , Ren Cihan
Published: June 2022

Metals play a critical role in human health and diseases. In recent years, metallomics has been introduced and extensively applied to investigate the distribution, regulation, function, and crosstalk of metal(loid) ions in various physiological and pathological processes. Based on high-throughput multielemental analytical techniques and bioinformatics methods, it is possible to elucidate the correlation between the metabolism and homeostasis of diverse metals and complex diseases, in particular for cancer. This review aims to provide an overview of recent progress made in the application of metallomics in cancer research. We mainly focuses on the studies about metallomic profiling of different human biological samples for several major types of cancer, which reveal distinct and dynamic patterns of metal ion contents and the potential benefits of using such information in the detection and prognosis of these malignancies. Elevated levels of copper appear to be a significant risk factor for various cancers, and each type of cancer has a unique distribution of metals in biofluids, hair/nails, and tumor-affected tissues. Furthermore, associations between genetic variations in representative metalloprotein genes and cancer susceptibility have also been demonstrated. Overall, metallomics not only offers a better understanding of the relationship between metal dyshomeostasis and the development of cancer but also facilitates the discovery of new diagnostic and prognostic markers for cancer translational medicine.
Probing small ribosomal subunit RNA helix 45 acetylation across eukaryotic evolution
Authors: Bortolin-Cavaillé Marie-Line , Quillien Aurélie , Thalalla Gamage Supuni , Thomas Justin M , Sas-Chen Aldema , Sharma Sunny , Plisson-Chastang Célia , Vandel Laurence , Blader Patrick , Lafontaine Denis L J , Schwartz Schraga , Meier Jordan L , Cavaillé Jérôme
Published: June 2022

NAT10 is an essential enzyme that catalyzes N4-acetylcytidine (ac4C) in eukaryotic transfer RNA and 18S ribosomal RNA. Recent studies suggested that rRNA acetylation is dependent on SNORD13, a box C/D small nucleolar RNA predicted to base-pair with 18S rRNA via two antisense elements. However, the selectivity of SNORD13-dependent cytidine acetylation and its relationship to NAT10’s essential function remain to be defined. Here, we demonstrate that SNORD13 is required for acetylation of a single cytidine of human and zebrafish 18S rRNA. In-depth characterization revealed that SNORD13-dependent ac4C is dispensable for human cell growth, ribosome biogenesis, translation and development. This loss of function analysis inspired a cross-evolutionary survey of the eukaryotic rRNA acetylation ‘machinery’ that led to the characterization of many novel metazoan SNORD13 genes. This includes an atypical SNORD13-like RNA in Drosophila melanogaster which guides ac4C to 18S rRNA helix 45 despite lacking one of the two rRNA antisense elements. Finally, we discover that Caenorhabditis elegans 18S rRNA is not acetylated despite the presence of an essential NAT10 homolog. Our findings shed light on the molecular mechanisms underlying SNORD13-mediated rRNA acetylation across eukaryotic evolution and raise new questions regarding the biological and evolutionary relevance of this highly conserved rRNA modification.