bluuebunny/crossref_metadata_2025 huggingface dataset:
Warmer Winters Increase the Biomass of Phytoplankton in a Large Floodplain River
Authors: Jankowski Kathi Jo , Houser Jeffrey N. , Scheuerell Mark D. , Smits Adrianne P.
Published: August 2021

Winters are changing rapidly across the globe but the implications for aquatic productivity and food webs are not well understood. In addition, the degree to which winter dynamics in aquatic systems respond to large‐scale climate versus ecosystem‐level factors is unclear but important for understanding and managing potential changes. We used a unique winter data set from the Upper Mississippi River System to explore spatial and temporal patterns in phytoplankton biomass (chlorophyll a, CHL) and associated environmental covariates across 25 years and ∼1,500 river km. To assess the role of regional climate versus site‐specific drivers of winter CHL, we evaluated whether there were coherent long‐term CHL dynamics from north to south and across lotic‐lentic areas. We then estimated the degree to which these patterns were associated with climate variability (i.e., the Multivariate El Nino‐Southern Oscillation Index), winter severity (freezing degree days), river discharge, or site‐specific environmental variables (ice depth, snow depth, and nutrient concentrations). We found that winter CHL was typically highest in ice‐free reaches and backwater lakes, occasionally exceeding summer values. We did not find highly synchronous CHL dynamics across the basin, but instead show that temporal trends were independent among river reaches and lotic‐lentic areas of the river. Moreover, after accounting for these spatial dynamics, we found that CHL was most responsive to winter air temperature, being consistently higher in years with warmer winters across the basin. These results indicate that although productivity dynamics are highly dynamic within large river ecosystems, changes in the duration and severity of winter may uniformly increase wintertime productivity.
Ejecta Discovered Near Site of Ancient Meteorite Impact
Authors: Kornei Katherine
Published: August 2021

South Africa’s Vredefort impact structure is the largest on the planet, and researchers have now discovered the first proximal ejecta possibly deriving from the cataclysmic impact.
Terrestrial Material Input to the Northwest Shelf of Australia Through the Pliocene‐Pleistocene Period and Its Implications on Continental Climates
Authors: He Yuxin , Wang Huanye
Published: August 2021

Based on biomarkers and bulk organic carbon isotope, we reconstructed a 5‐million‐year history of terrestrial material input to the northwest shelf of Australia. Vegetational organic input continuously decreased through the Pliocene‐Pleistocene period due to decreased vegetation coverage and discharge under general aridification process. Triggered by lowered sea level and drier climates, soil input increased after ∼2.5–2.2 million years ago (Ma). Bulk terrestrial organic input demonstrates stronger variability after ∼1.7 Ma, as influenced by large‐amplitude hydrological swings on the Australian continent. Source of soils shifted between ∼1.5 and 1.2 Ma, along with presence of active dune fields. All lines of evidence together indicate a general wet climate in northwestern Australia during the early Pliocene, a continuously drying trend to the mid‐Pleistocene, and a drier phase with less vegetation coverage and expanded desert during the late Pleistocene, which is modulated by ongoing Indonesian Throughflow constriction and global atmospheric circulations.
A New 1‐Hourly ERA5‐Based Atmosphere De‐Aliasing Product for GRACE, GRACE‐FO, and Future Gravity Missions
Authors: Yang Fan , Forootan Ehsan , Wang ChangQing , Kusche Jürgen , Luo ZhiCai
Published: August 2021

The current state‐of‐the‐art of satellite gravity data processing makes use of de‐aliasing products to reduce high‐frequency mass anomalies. For example, the most recent official Atmosphere and Ocean De‐aliasing products (AOD1B‐RL06) are applied for the Gravity Recovery and Climate Experiment (GRACE) and GRACE‐Follow On (GRACE‐FO) missions. The temporal resolution of AOD1B‐RL06 is 3 h, and spectrally, they are computed up to degree and order 180. In this study, we explore a refined, e.g., geometrically, physically, and numerically improved, mass integration approach that is important for computing the atmosphere part of these products. Besides, the newly available ERA5 climate data are used to produce a new set of non‐tidal atmosphere de‐aliasing product (HUST‐ERA5) that is computed hourly up to degree and order 100, covering 2002 onwards. Despite an overall agreement with AOD1B‐RL06 (correlation0.99), considerable discrepancies still exist between HUST‐ERA5 and AOD1B‐RL06. The possible reasons are therefore analyzed, and we find the input climate data, sampling rate and integration method may result in a product difference of ∼0.3, ∼0.15 and ∼0.05 millimeter geoid height, respectively. The total differences between HUST‐ERA5 and AOD1B‐RL06 can lead to a mean variation of ∼7.34 on the laser ranging interferometry (LRI) range‐rate residuals, for example, during January 2019, which is already close to the LRI precision. This impact is invisible for the GRACE (‐FO) gravity inversion because of the less accurate on‐board KBR (K‐band ranging) instrument, however, it will be non‐negligible and should be considered when the LRI completely replaces the KBR in the future gravity missions.
COVID‐19 Induced Fingerprints of a New Normal Urban Air Quality in the United States
Authors: Kondragunta S. , Wei Z. , McDonald B. C. , Goldberg D. L. , Tong D. Q.
Published: August 2021

Most countries around the world, including the United States, took actions to control COVID‐19 spread that led to an abrupt shift in human activity. On‐road NOx emissions from light and heavy‐duty vehicles decreased by 9%–19% between February and March at the onset of the lockdown period in the middle of March in most of the US; between March and April, the on‐road NOx emissions dropped further by 8%–31% when lockdown measures were most stringent. These precipitous drops in NOx emissions correlated well (r = 0.75) with tropospheric NO2 column amount observed by the Sentinel 5 Precursor TROPOspheric Monitoring Instrument (S5P TROPOMI). Furthermore, the changes in TROPOMI tropospheric NO2 column amount across continental US between 2020 and 2019 correlated well with the changes in on‐road NOx emissions (r = 0.68) but correlated weakly with changes in emissions from the power plants (r = 0.35). At the height of lockdown‐related unemployment in the second quarter of 2020, the tropospheric NO2 column values decreased at the rate of 0.8 µmoles/m2 per unit percentage increase in the unemployment rate. Despite the lifting of lockdown measures, parts of the US continued to have ∼20% below normal on‐road NOx emissions. To achieve this new normal urban air quality in the US, continuing remote work policies that do not impede economic growth may become one of the many options.
Environmental stress leads to genome streamlining in a widely distributed species of soil bacteria
Authors: Simonsen Anna K
Published: August 2021

Bacteria have highly flexible pangenomes, which are thought to facilitate evolutionary responses to environmental change, but the impacts of environmental stress on pangenome evolution remain unclear. Using a landscape pangenomics approach, I demonstrate that environmental stress leads to consistent, continuous reduction in genome content along four environmental stress gradients (acidity, aridity, heat, salinity) in naturally occurring populations of Bradyrhizobium diazoefficiens (widespread soil-dwelling plant mutualists). Using gene-level network and duplication functional traits to predict accessory gene distributions across environments, genes predicted to be superfluous are more likely lost in high stress, while genes with multi-functional roles are more likely retained. Genes with higher probabilities of being lost with stress contain significantly higher proportions of codons under strong purifying and positive selection. Gene loss is widespread across the entire genome, with high gene-retention hotspots in close spatial proximity to core genes, suggesting Bradyrhizobium has evolved to cluster essential-function genes (accessory genes with multifunctional roles and core genes) in discrete genomic regions, which may stabilise viability during genomic decay. In conclusion, pangenome evolution through genome streamlining are important evolutionary responses to environmental change. This raises questions about impacts of genome streamlining on the adaptive capacity of bacterial populations facing rapid environmental change.
Queensland Genomics: an adaptive approach for integrating genomics into a public healthcare system
Authors: Vidgen Miranda E. , Williamson Dayna , Cutler Katrina , McCafferty Claire , Ward Robyn L. , McNeil Keith , Waddell Nicola , Bunker David
Published: August 2021

The establishment of genomics in health care systems has been occurring for the past decade. It is recognised that implementing genomics within a health service is challenging without a system-wide approach. Globally, as clinical genomics implementation programs have matured there is a growing body of information around program design and outcomes. Program structures vary depending on local ecosystems including the health system, politics and funding availability, however, lessons from other programs are important to the design of programs in different jurisdictions. Here we describe an adaptive approach to the implementation of genomics into a publicly funded health care system servicing a population of 5.1 million people. The adaptive approach enabled flexibility to facilitate substantial changes during the program in response to learnings and external factors. We report the benefits and challenges experienced by the program, particularly in relation to the engagement of people and services, and the design of both individual projects and the program as a whole.
A non-invasive olfactory bulb measure dissociates Parkinson’s patients from healthy controls and discloses disease duration
Authors: Iravani Behzad , Arshamian Artin , Schaefer Martin , Svenningsson Per , Lundström Johan N.
Published: August 2021

Olfactory dysfunction is a prevalent non-motor symptom of Parkinson’s disease (PD). This dysfunction is a result of neurodegeneration within the olfactory bulb (OB), the first processing area of the central olfactory system, and commonly precedes the characteristic motor symptoms in PD by several years. Functional measurements of the OB could therefore potentially be used as an early biomarker for PD. Here, we used a non-invasive method, so-called electrobulbogram (EBG), to measure OB function in PD and age-matched healthy controls to assess whether EBG measures can dissociate PDs from controls. We estimated the spectrogram of the EBG signal during exposure to odor in PD (n = 20) and age-matched controls (n = 18) as well as identified differentiating patterns of odor-related synchronization in the gamma, beta, and theta frequency bands. Moreover, we assessed if these PD-EBG components could dissociate PD from control as well as their relationship with PD characteristics. We identified six EBG components during the initial and later stages of odor processing which dissociated PD from controls with 90% sensitivity and 100% specificity with links to PD characteristics. These PD-EBG components were related to medication, disease duration, and severity, as well as clinical odor identification performance. These findings support using EBG as a tool to experimentally assess PD interventions, potentially aid diagnosis, and the potential development of EBG into an early biomarker for PD.
Proposal for space-borne quantum memories for global quantum networking
Authors: Gündoğan Mustafa , Sidhu Jasminder S. , Henderson Victoria , Mazzarella Luca , Wolters Janik , Oi Daniel K. L. , Krutzik Markus
Published: August 2021

Global-scale quantum communication links will form the backbone of the quantum internet. However, exponential loss in optical fibres precludes any realistic application beyond few hundred kilometres. Quantum repeaters and space-based systems offer solutions to overcome this limitation. Here, we analyse the use of quantum memory (QM)-equipped satellites for quantum communication focussing on global range repeaters and memory-assisted (MA-) QKD, where QMs help increase the key rate by synchronising otherwise probabilistic detection events. We demonstrate that satellites equipped with QMs provide three orders of magnitude faster entanglement distribution rates than existing protocols based on fibre-based repeaters or space systems without QMs. We analyse how entanglement distribution performance depends on memory characteristics, determine benchmarks to assess the performance of different tasks and propose various architectures for light-matter interfaces. Our work provides a roadmap to realise unconditionally secure quantum communications over global distances with near-term technologies.
A tissue-engineered urinary conduit in a porcine urinary diversion model
Authors: Jundziłł Arkadiusz , Kwieciński Piotr , Balcerczyk Daria , Kloskowski Tomasz , Grzanka Dariusz , Antosik Paulina , Meger Katarzyna , Pokrywczyńska Marta , Drewa Tomasz
Published: August 2021

The use of an ileal segment is a standard method for urinary diversion after radical cystectomy. Unfortunately, utilization of this method can lead to numerous surgical and metabolic complications. This study aimed to assess the tissue-engineered artificial conduit for urinary diversion in a porcine model. Tissue-engineered tubular polypropylene mesh scaffolds were used for the right ureter incontinent urostomy model. Eighteen male pigs were divided into three equal groups: Group 1 (control ureterocutaneostomy), Group 2 (the right ureter-artificial conduit-skin anastomoses), and Group 3 (4 weeks before urostomy reconstruction, the artificial conduit was implanted between abdomen muscles). Follow-up was 6 months. Computed tomography, ultrasound examination, and pyelogram were used to confirm the patency of created diversions. Morphological and histological analyses were used to evaluate the tissue-engineered urinary diversion. All animals survived the experimental procedures and follow-up. The longest average patency was observed in the 3rd Group (15.8 weeks) compared to the 2nd Group (10 weeks) and the 1st Group (5.8 weeks). The implant’s remnants created a retroperitoneal post-inflammation tunnel confirmed by computed tomography and histological evaluation, which constitutes urostomy. The simultaneous urinary diversion using a tissue-engineered scaffold connected directly with the skin is inappropriate for clinical application.
Effect of salinity on the zinc(II) binding efficiency of siderophore functional groups and implications for salinity tolerance mechanisms in barley
Authors: Northover George H. R. , Mao Yiru , Ahmed Haris , Blasco Salvador , Vilar Ramon , Garcia-España Enrique , Weiss Dominik J.
Published: August 2021

Bacteria, fungi and grasses use siderophores to access micronutrients. Hence, the metal binding efficiency of siderophores is directly related to ecosystem productivity. Salinization of natural solutions, linked to climate change induced sea level rise and changing precipitation patterns, is a serious ecological threat. In this study, we investigate the impact of salinization on the zinc(II) binding efficiency of the major siderophore functional groups, namely the catecholate (for bacterial siderophores), α-hydroxycarboxylate (for plant siderophores; phytosiderophores) and hydroxamate (for fungal siderophores) bidentate motifs. Our analysis suggests that the order of increasing susceptibility of siderophore classes to salinity in terms of their zinc(II) chelating ability is: hydroxamate < catecholate < α-hydroxycarboxylate. Based on this ordering, we predict that plant productivity is more sensitive to salinization than either bacterial or fungal productivity. Finally, we show that previously observed increases in phytosiderophore release by barley plants grown under salt stress in a medium without initial micronutrient deficiencies, are in line with the reduced zinc(II) binding efficiency of the α-hydroxycarboxylate ligand and hence important for the salinity tolerance of whole-plant zinc(II) status.
Speakers exhibit a multimodal Lombard effect in noise
Authors: Trujillo James , Özyürek Asli , Holler Judith , Drijvers Linda
Published: August 2021

In everyday conversation, we are often challenged with communicating in non-ideal settings, such as in noise. Increased speech intensity and larger mouth movements are used to overcome noise in constrained settings (the Lombard effect). How we adapt to noise in face-to-face interaction, the natural environment of human language use, where manual gestures are ubiquitous, is currently unknown. We asked Dutch adults to wear headphones with varying levels of multi-talker babble while attempting to communicate action verbs to one another. Using quantitative motion capture and acoustic analyses, we found that (1) noise is associated with increased speech intensity and enhanced gesture kinematics and mouth movements, and (2) acoustic modulation only occurs when gestures are not present, while kinematic modulation occurs regardless of co-occurring speech. Thus, in face-to-face encounters the Lombard effect is not constrained to speech but is a multimodal phenomenon where the visual channel carries most of the communicative burden.
Dissociation of structural and functional connectomic coherence in glioma patients
Authors: Jütten Kerstin , Weninger Leon , Mainz Verena , Gauggel Siegfried , Binkofski Ferdinand , Wiesmann Martin , Merhof Dorit , Clusmann Hans , Na Chuh-Hyoun
Published: August 2021

With diffuse infiltrative glioma being increasingly recognized as a systemic brain disorder, the macroscopically apparent tumor lesion is suggested to impact on cerebral functional and structural integrity beyond the apparent lesion site. We investigated resting-state functional connectivity (FC) and diffusion-MRI-based structural connectivity (SC) (comprising edge-weight (EW) and fractional anisotropy (FA)) in isodehydrogenase mutated (IDHmut) and wildtype (IDHwt) patients and healthy controls. SC and FC were determined for whole-brain and the Default-Mode Network (DMN), mean intra- and interhemispheric SC and FC were compared across groups, and partial correlations were analyzed intra- and intermodally. With interhemispheric EW being reduced in both patient groups, IDHwt patients showed FA decreases in the ipsi- and contralesional hemisphere, whereas IDHmut patients revealed FA increases in the contralesional hemisphere. Healthy controls showed strong intramodal connectivity, each within the structural and functional connectome. Patients however showed a loss in structural and reductions in functional connectomic coherence, which appeared to be more pronounced in IDHwt glioma patients. Findings suggest a relative dissociation of structural and functional connectomic coherence in glioma patients at the time of diagnosis, with more structural connectomic aberrations being encountered in IDHwt glioma patients. Connectomic profiling may aid in phenotyping and monitoring prognostically differing tumor types.
Signaling pathway perturbation analysis for assessment of biological impact of cigarette smoke on lung cells
Authors: Chen Hongyu , Chen Xi , Shen Yifei , Yin Xinxin , Liu Fangjie , Liu Lu , Yao Jie , Chu Qinjie , Wang Yaqin , Qi Hongyan , Timko Michael P. , Fang Weijia , Fan Longjiang
Published: August 2021

Exposure to cigarette smoke (CS) results in injury to the epithelial cells of the human respiratory tract and has been implicated as a causative factor in the development of chronic obstructive pulmonary disease and lung cancers. The application of omics-scale methodologies has improved the capacity to understand cellular signaling processes underlying response to CS exposure. We report here the development of an algorithm based on quantitative assessment of transcriptomic profiles and signaling pathway perturbation analysis (SPPA) of human bronchial epithelial cells (HBEC) exposed to the toxic components present in CS. HBEC were exposed to CS of different compositions and for different durations using an ISO3308 smoking regime and the impact of exposure was monitored in 2263 signaling pathways in the cell to generate a total effect score that reflects the quantitative degree of impact of external stimuli on the cells. These findings support the conclusion that the SPPA algorithm provides an objective, systematic, sensitive means to evaluate the biological impact of exposures to CS of different compositions making a powerful comparative tool for commercial product evaluation and potentially for other known or potentially toxic environmental smoke substances.
Predator cue-induced plasticity of morphology and behavior in planthoppers facilitate the survival from predation
Authors: Wen Jian , Ueno Takatoshi
Published: August 2021

Predators can induce phenotypic plasticity in prey through selection driven by predation risk. However, defense plasticity is rarely reported in insects, let alone trans-generational plasticity, meaning the mechanisms underlying plasticity, how it impacts ecosystem evolution and how it might be exploited in pest control are poorly understood. Here we examine the morphological plasticity of small brown planthoppers (SBPHs), Laodelphax striatellus, elicited by caged predators, Paederus fuscipes in the parent or F1 generation and reveal the risk cues mediating these effects. We also uncover the survival outcomes in SBPHs with predator-induced defensive morphological traits by examining their survival probability and behavioral plasticity. Results showed that caged predators or predator odor cue gave rise to a higher proportion of long-winged, female SBPHs in the parent and F1 generations, but the proportion of males and their wing length were unaffected. The visual cue from predators elicited weaker effects. Surprisingly, we discovered these long-winged forms suffered a lower predation rate when attacked by P. fuscipes, owing to an enhanced agility level. Our results suggest the within- and trans-generational plasticity of induced defenses may cause profound effects on SBPH population dynamics and prey-predator interaction. Understanding this interaction and its underlying mechanisms illuminates important aspects of ecosystem evolution and helps predict pest dispersal or migration, which in turn may be exploited for pest control.
Comparison of RT-PCR, RT-nested PCRs, and real-time PCR for diagnosis of severe fever with thrombocytopenia syndrome: a prospective study
Authors: Jalal Sehrish , Hwang Seong Yeon , Kim Choon-Mee , Kim Dong-Min , Yun Na Ra , Seo Jun-Won , Young Kim Da , Jung Sook In , Kim Uh Jin , Kim Seong Eun , Kim Hyun ah , Kim Eu Suk , Hur Jian , Kim Young Keun , Jeong Hye Won , Heo Jung Yeon , Jung Dong Sik , Kim Jieun , Park Sun Hee , Kwak Yee Gyung , Lee Sujin , Lim Seungjin , Lee Sun Hee
Published: August 2021

We designed a highly sensitive reverse transcription nested polymerase chain reaction targeting the M-segment (NPCR-M) of severe fever with thrombocytopenia syndrome (SFTS) virus. NPCR-M was performed in parallel with three other referenced PCR assays QPCR-S, PCR-M, and NPCR-S to assess their clinical usefulness as routine diagnostic techniques for SFTS. In this multi-centered prospective study, 122 blood samples from 38 laboratory-confirmed SFTS patients and 85 control samples were used. The results demonstrated that QPCR-S and NPCR-S had better sensitivity rate up to 21 days after symptom onset however, the PCR-M showed poor sensitivity after 7 days of symptom onset. Our designed NPCR-M had a higher detection rate up to 40 days from symptom onset and revealed the persistence of SFTSV RNA in the early convalescent phase. No false-positive results were seen for the control samples. Additionally, NPCR-M showed positive results for a sample that initially showed negative results from other PCRs and for many other samples collected in the convalescent phase of SFTS. Our designed nested PCR is suitable for SFTSV detection in patients’ blood collected in the acute and early convalescent phase of SFTS, and shows better sensitivity and high specificity even up to 40 days after symptom onset.
Key features of the environment promoting liver cancer in the absence of cirrhosis
Authors: Zaki Marco Youssef William , Mahdi Ahmed Khairallah , Patman Gillian Lucinda , Whitehead Anna , Maurício João Pais , McCain Misti Vanette , Televantou Despina , Abou-Beih Sameh , Ramon-Gil Erik , Watson Robyn , Cox Charlotte , Leslie Jack , Wilson Caroline , Govaere Olivier , Lunec John , Mann Derek Austin , Nakjang Sirintra , Oakley Fiona , Shukla Ruchi , Anstee Quentin Mark , Tiniakos Dina , Reeves Helen Louise
Published: August 2021

The prevalence of obesity and non-alcoholic fatty liver disease (NAFLD) associated hepatocellular carcinoma (HCC) is rising, even in the absence of cirrhosis. We aimed to develop a murine model that would facilitate further understanding of NAFLD-HCC pathogenesis. A total of 144 C3H/He mice were fed either control or American lifestyle (ALIOS) diet, with or without interventions, for up to 48 weeks of age. Gross, liver histology, immunohistochemistry (IHC) and RNA-sequencing data were interpreted alongside human datasets. The ALIOS diet promoted obesity, elevated liver weight, impaired glucose tolerance, non-alcoholic fatty liver disease (NAFLD) and spontaneous HCC. Liver weight, fasting blood glucose, steatosis, lobular inflammation and lipogranulomas were associated with development of HCC, as were markers of hepatocyte proliferation and DNA damage. An antioxidant diminished cellular injury, fibrosis and DNA damage, but not lobular inflammation, lipogranulomas, proliferation and HCC development. An acquired CD44 phenotype in macrophages was associated with type 2 diabetes and NAFLD-HCC. In this diet induced NASH and HCC (DINAH) model, key features of obesity associated NAFLD-HCC have been reproduced, highlighting roles for hepatic steatosis and proliferation, with the acquisition of lobular inflammation and CD44 positive macrophages in the development of HCC—even in the absence of progressive injury and fibrosis.
Chronic antidepressant treatment rescues abnormally reduced REM sleep theta power in socially defeated rats
Authors: Matsuda Yoshiki , Ozawa Nobuyuki , Shinozaki Takiko , Aoki Kazuhisa , Nihonmatsu-Kikuchi Naomi , Shinba Toshikazu , Tatebayashi Yoshitaka
Published: August 2021

The effects of chronic antidepressant (AD) treatment on sleep disturbances in rodent chronic stress models have not been thoroughly investigated. Here, we show that chronic social defeat stress (SDS) in rats induces prolonged social avoidance, alterations in sleep architecture (increased total rapid eye movement [REM] sleep duration, bout, and shortened REM latency), and contextual but not cued fear memory deficits, even 1 month after the last SDS. These abnormalities were associated with changes in electroencephalography (EEG) spectral powers, including reduced REM sleep theta power during the light phase. Chronic treatment with two different classes of antidepressants (ADs), imipramine and fluoxetine, significantly ameliorated these behavioral, sleep, and EEG abnormalities. Interestingly, REM theta power was normalized by chronic (1 month) but not 1 week AD administration and solely correlated with the ratio (an objective indicator) of social interaction 1 month after the last SDS. These data suggest that reductions in REM sleep theta power, an EEG parameter that has never been directly investigated in humans, is a core sleep symptom in socially defeated rats, and, potentially, also in patients with stress-related psychiatric disorders, including major depressive and posttraumatic stress disorders.
CRNDE enhances the expression of MCM5 and proliferation in acute myeloid leukemia KG-1a cells by sponging miR-136-5p
Authors: Liu Chen , Zhong Liang , Shen Chenlan , Chu Xuan , Luo Xu , Yu Lihua , Ye Jiao , Xiong Ling , Dan Wenran , Li Jian , Liu Beizhong
Published: August 2021

The long-noncoding RNA colorectal neoplasia differentially expressed (CRNDE) gene has been considered to be crucial in tumor malignancy. Although CRNDE is highly expressed in acute myeloid leukemia (AML), its mechanism of action remains unknown. In this study, GEPIA and qRT-PCR were performed to confirm the expression of CRNDE in AML samples and cell lines, respectively. CRNDE shRNA vectors were transfected to explore the biological functions of CRNDE. The cell proliferation was assessed by the CCK8 assay, while apoptosis and cell cycle distribution were measured by flow cytometry and Western blotting. The results showed that CRNDE was overexpressed in both AML samples and cell lines. CRNDE silencing inhibited proliferation and increased apoptotic rate and cell cycle arrest of KG-1a cells. The luciferase reporter assay coupled with RIP assay revealed that CRNDE act as a ceRNA. Rescue assays demonstrated that the effects of CRNDE silencing could be reversed by miR-136-5p inhibitors. In conclusion, our results expound that the CRNDE/miR-136-5p/MCM5 axis modulates cell progression and provide a new regulatory network of CRNDE in KG-1a cells.
Gene expression profile analysis of gallic acid-induced cell death process
Authors: Tang Ho Man , Cheung Peter Chi Keung
Published: August 2021

Gallic acid is a natural phenolic compound that displays anti-cancer properties in clinically relevant cell culture and rodent models. To date, the molecular mechanism governing the gallic acid-induced cancer cell death process is largely unclear, thus hindering development of novel therapeutics. Therefore, we performed time-course RNA-sequencing to reveal the gene expression profiles at the early (2nd hour), middle (4th and 6th hour), and late (9th hour) stages of the gallic acid-induced cell death process in HeLa cells. By Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses, we found significant changes in transcription of the genes in different types of cell death pathways. This involved the ferroptotic cell death pathway at the early stage, apoptotic pathway at the middle stage, and necroptotic pathway at the late stage. Metabolic pathways were identified at all the stages, indicating that this is an active cell death process. Interestingly, the initiation and execution of gallic acid-induced cell death were mediated by multiple biological processes, including iron and amino acid metabolism, and the biosynthesis of glutathione, as targeting on these pathways suppressed cell death. In summary, our work provides a dataset with differentially expressed genes across different stages of cell death process during the gallic acid induction, which is important for further study on the control of this cell death mechanism.
Characterization of alginate extracted from Sargassum latifolium and its use in Chlorella vulgaris growth promotion and riboflavin drug delivery
Authors: Dalal Shimaa R. , Hussein Mervat H. , El-Naggar Noura El-Ahmady , Mostafa Sahar I. , Shaaban-Dessuuki Sami A.
Published: August 2021

Alginates derived from macroalgae have been widely used in a variety of applications due to their stability, biodegradability and biocompatibility. Alginate was extracted from Egyptian Sargassum latifolium thallus yielding 17.5% w/w. The chemical composition of S. latifolium is rich in total sugars (41.08%) and uronic acids (47.4%); while, proteins, lipids and sulfates contents are 4.61, 1.13 and 0.09%, respectively. NMR, FTIR and TGA analyses were also performed. Crystallinity index (0.334) indicates alginate semicrystalline nature. Sodium alginate hydrolysate was evaluated as Chlorella vulgaris growth promoter. The highest stimulation (0.7 g/L biomass) was achieved by using 0.3 g/L alginate hydrolysate supplementation. The highest total soluble proteins and total carbohydrates were 179.22 mg/g dry wt and 620.33 mg/g dry wt, respectively. The highest total phenolics content (27.697 mg/g dry wt.), guaiacol peroxidase activity (2.899 µmol min−1 g−1) were recorded also to 0.3 g/L alginate hydrolysate supplementation. Riboflavin-entrapped barium alginate-Arabic gum polymeric matrix (beads) was formulated to achieve 89.15% optimum drug entrapment efficiency (EE%). All formulations exhibited prolonged riboflavin release over 120 min in simulated gastric fluid, followed Higuchi model (R2 = 0.962–0.887) and Korsmeyer–Peppas model with Fickian release (n ranges from 0.204 to 0.3885).
Tunnel failure mechanism during loading and unloading processes through physical model testing and DEM simulation
Authors: Xiang Yuzhou , Zeng Zhikai , Xiang Yangjun , Abi Erdi , Zheng Yingren , Yuan Hechuan
Published: August 2021

Geo-materials may present varying mechanical properties under different stress paths, especially for tunnel excavation, which is typically characterized by the decreased radial stress and increased axial stress during the complex loading and unloading process. This study carried out a comparative analysis between the loading and unloading model testing, which was then combined with PFC2D simulation, aiming to reveal the fracture propagation pattern, microscopic stress and force chain distribution of the rock mass surrounding the tunnel. Comparisons of extents and development of tensile strain between loading and unloading testing results were made. The overall stability, the integrity of rock mass, and the failure pattern transition under loading and unloading processes were systematically examined. In addition, for the two unloading cases with different vertical stresses imposed, the failure patterns were both identified as the collapse of the V − shaped extruded sidewall, due to the coupling of the shear failure and the vertical tensile failure in the sidewall wedge.
Light intensity dependence of organic solar cell operation and dominance switching between Shockley–Read–Hall and bimolecular recombination losses
Authors: Ryu Shinyoung , Ha Na Young , Ahn Y. H. , Park Ji-Yong , Lee Soonil
Published: August 2021

We investigated the variation of current density–voltage (J–V) characteristics of an organic solar cell (OSC) in the dark and at 9 different light intensities ranging from 0.01 to 1 sun of the AM1.5G spectrum. All three conventional parameters, short-circuit currents (Jsc), open-circuit voltage (Voc), and Fill factor (FF), representing OSC performance evolved systematically in response to light intensity increase. Unlike Jsc that showed quasi-linear monotonic increase, Voc and FF showed distinctive non-monotonic variations. To elucidate the origin of such variations, we performed extensive simulation studies including Shockley–Read–Hall (SRH) recombination losses. Simulation results were sensitive to defect densities, and simultaneous agreement to 10 measured J–V curves was possible only with the defect density of $$5 \times 10^{12} {\text{ cm}}^{ - 3}$$

5
×

10
12

cm

-
3

. Based on analyses of simulation results, we were able to separate current losses into SRH- and bimolecular-recombination components and, moreover, identify that the competition between SRH- and bimolecular-loss currents were responsible for the aforementioned variations in Jsc, Voc, and FF. In particular, we verified that apparent demarcation in Voc, and FF variations, which seemed to appear at different light intensities, originated from the same mechanism of dominance switching between recombination losses.
Heat dissipation in Sm3+ and Zn2+ co-substituted magnetite (Zn0.1SmxFe2.9-xO4) nanoparticles coated with citric acid and pluronic F127 for hyperthermia application
Authors: Shatooti S. , Mozaffari M. , Reiter G. , Zahn D. , Dutz S.
Published: August 2021

In this work, Sm3+ and Zn2+ co-substituted magnetite Zn0.1SmxFe2.9-xO4 (x = 0.0, 0.01, 0.02, 0.03, 0.04 and 0.05) nanoparticles, have been prepared via co-precipitation method and were electrostatically and sterically stabilized by citric acid and pluronic F127 coatings. The coated nanoparticles were well dispersed in an aqueous solution (pH 5.5). Magnetic and structural properties of the nanoparticles and their ferrofluids were studied by different methods. XRD studies illustrated that all as-prepared nanoparticles have a single phase spinel structure, with lattice constants affected by samarium cations substitution. The temperature dependence of the magnetization showed that Curie temperatures of the uncoated samples monotonically increased from 430 to 480 °C as Sm3+ content increased, due to increase in A-B super-exchange interactions. Room temperature magnetic measurements exhibited a decrease in saturation magnetization of the uncoated samples from 98.8 to 71.9 emu/g as the Sm3+ content increased, which is attributed to substitution of Sm3+ (1.5 µB) ions for Fe3+ (5 µB) ones in B sublattices. FTIR spectra confirmed that Sm3+ substituted Zn0.1SmxFe2.9-xO4 nanoparticles were coated with both citric acid and pluronic F127 properly. The mean particle size of the coated nanoparticles was 40 nm. Calorimetric measurements showed that the maximum SLP and ILP values obtained for Sm3+ substituted nanoparticles were 259 W/g and 3.49 nHm2/kg (1.08 mg/ml, measured at f = 290 kHz and H = 16kA/m), respectively, that are related to the sample with x = 0.01. Magnetic measurements revealed coercivity, which indicated that hysteresis loss may represent a substantial portion in heat generation. Our results show that these ferrofluids are potential candidates for magnetic hyperthermia applications.
Evidence of both foetal inflammation and hypoxia–ischaemia is associated with meconium aspiration syndrome
Authors: Yokoi Kyoko , Iwata Osuke , Kobayashi Satoru , Kobayashi Mizuho , Saitoh Shinji , Goto Haruo
Published: August 2021

Foetal hypoxia–ischaemia is a key trigger of meconium aspiration syndrome (MAS). However, many neonates develop MAS without evidence of hypoxia–ischaemia, suggesting the presence of covert but important risk variables. We evaluated the association of MAS with clinical variables, placental histopathologic findings, and inflammatory biomarkers at birth. Of 1336 symptomatic and asymptomatic term singleton neonates with meconium-stained amniotic fluid, 88 neonates (6.6%) developed MAS. Univariate analysis showed that MAS development was associated with low 1- and 5-min Apgar scores, low cord blood pH, funisitis, higher α1-acid glycoprotein levels, and higher haptoglobin levels (all p < 0.001 except for p = 0.001 for haptoglobin). Associations of MAS with caesarean delivery (p = 0.004), premature rupture of the membranes (p = 0.006), chorioamnionitis (p = 0.007), and higher C-reactive protein levels (p = 0.008) were lost when adjusted for multiple comparisons. The final multivariate model to explain MAS development comprised lower cord blood pH (odds ratio [OR] 0.58; 95% confidence interval [CI] 0.47–0.73; p < 0.001), funisitis (OR 2.45; 95% Cl 1.41–4.26; p = 0.002), and higher α1-acid glycoprotein levels (OR 1.02; 95% Cl 1.01–1.03; p = 0.001). Our data from a large cohort of neonates suggested that intrauterine inflammation is one of the key independent variables of MAS development, together with foetal hypoxia–ischaemia.
Cancer-associated fibroblasts are associated with poor prognosis in solid type of lung adenocarcinoma in a machine learning analysis
Authors: Min Kyueng-Whan , Kim Dong-Hoon , Noh Yung-Kyun , Son Byoung Kwan , Kwon Mi Jung , Moon Ji-Yong
Published: August 2021

Cancer-associated fibroblasts (CAFs) participate in critical processes in the tumor microenvironment, such as extracellular matrix remodeling, reciprocal signaling interactions with cancer cells and crosstalk with infiltrating inflammatory cells. However, the relationships between CAFs and survival are not well known in lung cancer. The aim of this study was to reveal the correlations of CAFs with survival rates, genetic alterations and immune activities. This study reviewed the histological features of 517 patients with lung adenocarcinoma from The Cancer Genome Atlas (TCGA) database. We performed gene set enrichment analysis (GSEA), network-based analysis and survival analysis based on CAFs in four histological types of lung adenocarcinoma: acinar, papillary, micropapillary and solid. We found four hallmark gene sets, the epithelial-mesenchymal transition, angiogenesis, hypoxia, and inflammatory response gene sets, that were associated with the presence of CAFs. CAFs were associated with tumor proliferation, elevated memory CD4+T cells and high CD274 (encoding PD-L1) expression. In the pathway analyses, CAFs were related to blood vessel remodeling, matrix organization, negative regulation of apoptosis and transforming growth factor-β signaling. In the survival analysis of each histological type, CAFs were associated with poor prognosis in the solid type. These results may contribute to the development of therapeutic strategies against lung adenocarcinoma cases in which CAFs are present.
Association between skeletal muscle mass and mammographic breast density
Authors: Lee Kwan Ho , Chae Seoung Wan , Yun Ji Sup , Park Yong Lai , Park Chan Heun
Published: August 2021

Mammographic density (MD) of the breast and body mass index (BMI) are inversely associated with each other, but have inconsistent associations with respect to the risk of breast cancer. Skeletal muscle mass index (SMI) has been considered to reflect a relatively accurate fat and muscle percentage in the body. So, we evaluated the relation between SMI and MD. A cross-sectional study was performed in 143,456 women who underwent comprehensive examinations from 2012 to 2016. BMI was adjusted to analyze whether SMI is an independent factor predicting dense breast. After adjustment for confounding factors including BMI, the odds ratios for MD for the dense breasts was between the highest and lowest quartiles of SMI at 2.65 for premenopausal women and at 2.39 for postmenopausal women. SMI was a significant predictor for MD, which could be due to the similar growth mechanism of the skeletal muscle and breast parenchymal tissue. Further studies are needed to understand the causal link between muscularity, MD and breast cancer risk.
Handwashing knowledge, attitudes, and practices during the COVID-19 pandemic in Saudi Arabia: A non-representative cross-sectional study
Authors: Al-Wutayd Osama , Mansour Ali E. , Aldosary Ahmad Hamad , Hamdan Hamdan Z. , Al-Batanony Manal A.
Published: August 2021

Handwashing (HW) with water and soap is one of the cheapest and most effective ways of protecting oneself and others against the coronavirus. Here, the HW knowledge, attitudes, and practices of Saudi adults were assessed during the COVID-19 pandemic using a cross-sectional study conducted between May 8 and June 8, 2020, during a partial lockdown period. A web-based validated questionnaire was distributed through different social media platforms, and the sociodemographic characteristics of the participants, seven items related to knowledge, four items related to attitudes, and thirteen items related to the practice of HW were assessed. A total of 1323 (51% male and 49% female) adults from all regions of Saudi Arabia responded to the questionnaire. The overall mean (± SD) was 5.13 (± 1.18) for knowledge of HW and COVID-19, 2.79 (± 0.77) for attitude toward HW, and 7.8 (± 2.56) for HW practice. A multiple linear regression analysis revealed factors associated with knowledge to be age and family income. Sex, educational level, family income, and HW knowledge were associated with negative and neutral attitude, whereas age, sex, family income, and HW knowledge were associated with practice. These results suggest that HW knowledge was strongly associated with positive attitudes toward HW and correct HW practice in Saudi adults during the COVID-19 lockdown.
Synergistic stabilization of a double mutant in chymotrypsin inhibitor 2 from a library screen in E. coli
Authors: Hamborg Louise , Granata Daniele , Olsen Johan G. , Roche Jennifer Virginia , Pedersen Lasse Ebdrup , Nielsen Alex Toftgaard , Lindorff-Larsen Kresten , Teilum Kaare
Published: August 2021

Most single point mutations destabilize folded proteins. Mutations that stabilize a protein typically only have a small effect and multiple mutations are often needed to substantially increase the stability. Multiple point mutations may act synergistically on the stability, and it is often not straightforward to predict their combined effect from the individual contributions. Here, we have applied an efficient in-cell assay in E. coli to select variants of the barley chymotrypsin inhibitor 2 with increased stability. We find two variants that are more than 3.8 kJ mol−1 more stable than the wild-type. In one case, the increased stability is the effect of the single substitution D55G. The other case is a double mutant, L49I/I57V, which is 5.1 kJ mol−1 more stable than the sum of the effects of the individual mutations. In addition to demonstrating the strength of our selection system for finding stabilizing mutations, our work also demonstrate how subtle conformational effects may modulate stability.
Significant variability of structure and predictability of Arctic Ocean surface pathways affects basin-wide connectivity
Authors: Wilson Chris , Aksenov Yevgeny , Rynders Stefanie , Kelly Stephen J. , Krumpen Thomas , Coward Andrew C.
Published: August 2021

The Arctic Ocean is of central importance for the global climate and ecosystem. It is a region undergoing rapid climate change, with a dramatic decrease in sea ice cover over recent decades. Surface advective pathways connect the transport of nutrients, freshwater, carbon and contaminants with their sources and sinks. Pathways of drifting material are deformed under velocity strain, due to atmosphere-ocean-ice coupling. Deformation is largest at fine space- and time-scales and is associated with a loss of potential predictability, analogous to weather often becoming unpredictable as synoptic-scale eddies interact and deform. However, neither satellite observations nor climate model projections resolve fine-scale ocean velocity structure. Here, we use a high-resolution ocean model hindcast and coarser satellite-derived ice velocities, to show: that ensemble-mean pathways within the Transpolar Drift during 2004–14 have large interannual variability and that both saddle-like flow structures and the presence of fine-scale velocity gradients are important for basin-wide connectivity and crossing time, pathway bifurcation, predictability and dispersion.
Enhanced vertical mixing in the glacial ocean inferred from sedimentary carbon isotopes
Authors: Wilmes Sophie-Berenice , Green J. A. Mattias , Schmittner Andreas
Published: August 2021

Reconstructing the circulation, mixing and carbon content of the Last Glacial Maximum ocean remains challenging. Recent hypotheses suggest that a shoaled Atlantic meridional overturning circulation or increased stratification would have reduced vertical mixing, isolated the abyssal ocean and increased carbon storage, thus contributing to lower atmospheric CO2 concentrations. Here, using an ensemble of ocean simulations, we evaluate impacts of changes in tidal energy dissipation due to lower sea levels on ocean mixing, circulation, and carbon isotope distributions. We find that increased tidal mixing strengthens deep ocean flow rates and decreases vertical gradients of radiocarbon and δ13C in the deep Atlantic. Simulations with a shallower overturning circulation and more vigorous mixing fit sediment isotope data best. Our results, which are conservative, provide observational support that vertical mixing in the glacial Atlantic may have been enhanced due to more vigorous tidal dissipation, despite shoaling of the overturning circulation and increases in stratification.
Building ordered nanoparticle assemblies inspired by atomic epitaxy
Authors: Liu Jiaming , Wei Jingjing , Yang Zhijie
Published: August 2021

This Perspective reviews recent advances in ordered nanoparticle assemblies that are produced on selected substrates, akin to the atomic epitaxy.
2D ferroelectric devices: working principles and research progress
Authors: Liu Minghao , Liao Ting , Sun Ziqi , Gu Yuantong , Kou Liangzhi
Published: August 2021

Due to their unique reversible polarization, 2D ferroelectrics are promising for nanodevice applications in ferroelectric field effect transistors, diodes and tunnel junctions.