bluuebunny/crossref_metadata_2025 huggingface dataset:
Multi-scale temporal variation in bird-window collisions in the central United States
Authors: Riding Corey S. , O’Connell Timothy J. , Loss Scott R.
Published: May 2021

Expansion of urbanization and infrastructure associated with human activities has numerous impacts on wildlife including causing wildlife-structure collisions. Collisions with building windows represent a top bird mortality source, but a lack of research into timing of these collisions hampers efforts to predict them and mitigate effects on avian populations. In Stillwater, Oklahoma, USA, we investigated patterns of bird-window collisions at multiple temporal scales, from within-day to monthly and seasonal variation. We found that collisions peaked during overnight and early morning hours, a pattern that was consistent across seasons. Further, temporal variation in fatal collisions was explained by an interaction between season and avian residency status. This interaction illustrated the expected pattern that more migrant individuals than residents collided in fall, but we also documented unexpected patterns. For example, the highest monthly total of collisions occurred in spring migration during May. We also found similarly high numbers of resident and migrant collisions in spring, and a roughly similar amount of migrant mortality in spring and fall migration. These findings, which provide unprecedented quantitative information regarding temporal variation in bird-window collisions, have important implications for understanding mechanisms by which birds collide and improving timing of measures to reduce this major bird mortality source.
The climatic and genetic heritage of Italian goat breeds with genomic SNP data
Authors: Cortellari Matteo , Barbato Mario , Talenti Andrea , Bionda Arianna , Carta Antonello , Ciampolini Roberta , Ciani Elena , Crisà Alessandra , Frattini Stefano , Lasagna Emiliano , Marletta Donata , Mastrangelo Salvatore , Negro Alessio , Randi Ettore , Sarti Francesca M. , Sartore Stefano , Soglia Dominga , Liotta Luigi , Stella Alessandra , Ajmone-Marsan Paolo , Pilla Fabio , Colli Licia , Crepaldi Paola
Published: May 2021

Local adaptation of animals to the environment can abruptly become a burden when faced with rapid climatic changes such as those foreseen for the Italian peninsula over the next 70 years. Our study investigates the genetic structure of the Italian goat populations and links it with the environment and how genetics might evolve over the next 50 years. We used one of the largest national datasets including > 1000 goats from 33 populations across the Italian peninsula collected by the Italian Goat Consortium and genotyped with over 50 k markers. Our results showed that Italian goats can be discriminated in three groups reflective of the Italian geography and its geo-political situation preceding the country unification around two centuries ago. We leveraged the remarkable genetic and geographical diversity of the Italian goat populations and performed landscape genomics analysis to disentangle the relationship between genotype and environment, finding 64 SNPs intercepting genomic regions linked to growth, circadian rhythm, fertility, and inflammatory response. Lastly, we calculated the hypothetical future genotypic frequencies of the most relevant SNPs identified through landscape genomics to evaluate their long-term effect on the genetic structure of the Italian goat populations. Our results provide an insight into the past and the future of the Italian local goat populations, helping the institutions in defining new conservation strategy plans that could preserve their diversity and their link to local realities challenged by climate change.
The gut microbiome in pancreatogenic diabetes differs from that of Type 1 and Type 2 diabetes
Authors: Talukdar Rupjyoti , Sarkar Priyanka , Jakkampudi Aparna , Sarkar Subhaleena , Aslam Mohsin , Jandhyala Manasa , Deepika G. , Unnisa Misbah , Reddy D. Nageshwar
Published: May 2021

We hypothesized that the gut microbiome in patients with diabetes secondary to chronic pancreatitis (Type 3c) is different from those with Type 1 and Type 2 diabetes. This was a cross-sectional preliminary study that included 8 patients with Type 1, 10 with Type 2, 17 with Type 3c diabetes and 9 healthy controls. Demographic, clinical, biochemical, imaging and treatment data were recorded and sequencing of the V3–V4 region of the bacterial 16SrRNA was done on fecal samples. Bioinformatics and statistical analyses was performed to evaluate the differences in the diversity indices, distance matrices, relative abundances and uniqueness of organisms between the types of diabetes. There was significant difference in the species richness. Beta diversity was significantly different between patients with Type 3c diabetes and the other groups. 31 genera were common to all the three types of diabetes. There was significant differences in the species level taxa between Type 3c diabetes and the other groups. The unique bacterial species signature in Type 3c diabetes compared to Type 1 and Type 2 diabetes included Nesterenkonia sp. AN1, Clostridium magnum, Acinetobacter lwoffii, Clostridium septicum, Porphyromonas somerae, Terrabacter tumescens, and Synechococus sp.
First record of a new microsporidium pathogenic to Gonipterus platensis in Brazil
Authors: Jordan Carolina , de Carvalho Vanessa Rafaela , Mascarin Gabriel Moura , dos Santos Oliveira Leiliane Rodrigues , Dunlap Christopher A. , Wilcken Carlos Frederico
Published: May 2021

Microsporidia are naturally occurring fungal-related parasites that can infect nearly all animal hosts, but their biocontrol potential of insect pests is routinely overlooked in agriculture and forestry. This research brings the first report describing the natural occurrence of a microsporidium causing disease in field-collected populations of the invasive eucalyptus snout beetle, Gonipterus platensis (Coleoptera: Curculionidae), a major destructive pest of eucalyptus plantations in Brazil. Adult beetles were collected during field surveys in commercial eucalyptus plantations in southern Brazil to be examined and dissected with typical symptoms to verify presence of microsporidian spores in haemolymph. From 14 plantations in different sites, the natural infection occurrence in these populations ranged from 0 to 65%, while a lab colony exhibited an infection incidence of 70%. Spore density in haemolymph of symptomatic insects averaged 2.1 (± 0.4) × 107 spores/beetle. Symptoms in infected adults were identified by an abnormal abdomen with malformation of the second pair of wings, impairing their flight activity. Electron transmission microscopy of the pathogen showed morphological features similar to species belonging to the genus Nosema or Vairimorpha. Phylogenetic analysis of the full-length small subunit ribosomal RNA gene suggests this pathogen’s placement in the genus Vairimorpha, but with a sequence identity of ~ 94% with the nearest neighbours. The low level of sequence identity suggests this pathogen may represent a novel taxon in the genus and further requires whole genome sequencing for definitive taxonomic resolution. These findings provide insights on the natural occurrence of this novel pathogen of this invasive pest in Eucalyptus plantations in Brazil. Further studies are needed to determine potential of this microsporidium in the design of conservative or augmentative biological control programs for this invasive pest.
Visualization of elastin using cardiac magnetic resonance imaging after myocardial infarction as inflammatory response
Authors: Elkenhans Britta , Protti Andrea , Shah Ajay , Onthank David , Botnar René
Published: May 2021

The aim of this study was to investigate the merits of magnetic resonance imaging (MRI) using an elastin-binding contrast agent after myocardial infarction in mouse models with deletions of monocyte populations. Permanent ligation of the left anterior descending (LAD) artery was conducted in 10 wild-type mice and 10 each of three knockout models: CX3CR−/−, CCR2−/−, and MCP-1−/−. At 7 days and 30 days after permanent ligation, cardiac MRI was performed with a 7 T-Bruker horizontal scanner for in vivo detection of elastin with an elastin/tropoelastin-specific contrast agent (ESMA). Histology was performed with staining for elastin, collagen I and III, and F4/80. Real-time PCR was conducted to quantify the expression of genes for collagen I and III, F4/80, and tumor necrosis factor alpha (TNFα). Histological and ESMA-indicated elastin areas were strongly correlated (r = 0.8). 30 days after permanent ligation, CCR2-deficient mice demonstrated higher elastin levels in the scar relative to MCP-1−/− (p < 0.04) and wild-type mice (p < 0.02). The ejection fraction was lower in CCR2-deficient mice. In vivo MRI in mouse models of MI can detect elastin deposition after myocardial infarction, highlighting the pivotal role of elastin in myocardial remodeling in mouse models with deletions of monocyte populations.
Fast genetic mapping using insertion-deletion polymorphisms in Caenorhabditis elegans
Authors: Hwang Ho-Yon , Wang Jiou
Published: May 2021

Genetic mapping is used in forward genetics to narrow the list of candidate mutations and genes corresponding to the mutant phenotype of interest. Even with modern advances in biology such as efficient identification of candidate mutations by whole-genome sequencing, mapping remains critical in pinpointing the responsible mutation. Here we describe a simple, fast, and affordable mapping toolkit that is particularly suitable for mapping in Caenorhabditis elegans. This mapping method uses insertion-deletion polymorphisms or indels that could be easily detected instead of single nucleotide polymorphisms in commonly used Hawaiian CB4856 mapping strain. The materials and methods were optimized so that mapping could be performed using tiny amount of genetic material without growing many large populations of mutants for DNA purification. We performed mapping of previously known and unknown mutations to show strengths and weaknesses of this method and to present examples of completed mapping. For situations where Hawaiian CB4856 is unsuitable, we provide an annotated list of indels as a basis for fast and easy mapping using other wild isolates. Finally, we provide rationale for using this mapping method over other alternatives as a part of a comprehensive strategy also involving whole-genome sequencing and other methods.
Minimally invasive versus open intersphincteric resection of low rectal cancer regardless of neoadjuvant chemoradiotherapy: long-term oncologic outcomes
Authors: Shin Jung kyong , Kim Hee Cheol , Lee Woo Yong , Yun Seong Hyeon , Cho Yong Beom , Huh Jung Wook , Park Yoon Ah
Published: May 2021

Intersphincteric resection (ISR) is a surgical technique intended to avoid abdominoperineal resection (APR) in patients diagnosed with low-lying rectal cancer. However, the oncologic outcomes of minimally invasive ISR are still controversial. We analyzed the long-term oncologic outcomes of open and minimally invasive ISR. A total of 313 rectal cancer patients who underwent ISR between 2000 and 2014 were analyzed, including 147 in the open surgery group and 166 in the minimally invasive surgery (MIS) group. This study also analyzed 113 patients who received neoadjuvant chemoradiotherapy (nCRT) for advanced lower rectal cancer. Propensity score matching (PSM) was used to correct for differences between the two groups. 5-year disease-free survival (DFS) rate was the primary end point. The length of hospital stay was significantly shorter in the MIS group (9.6 vs. 11.8 days, p < 0.001). Differences in overall postoperative morbidity rates between the groups were not significant; however, the rate of surgical site infection was significantly lower in the MIS group (1.2 vs. 10.9%, p < 0.001). The 5-year DFS associated with all stages combined in the matched patients were not significantly different: 75.2% in the open group vs. 64.2% in the MIS group (p = 0.214). Similar results were found in matched patients treated with nCRT, with 72.0% in the open group and 61.3% in the MIS group (p = 0.078) showing DFS. Both minimally-invasive and open ISR for rectal cancer yielded similar 5-year oncologic outcomes. MIS showed statistically significant advantages in some postoperative outcomes such as reduced surgical site infection and shorter hospital stay, and similar long-term outcomes compared with open ISR. This study also suggests that MIS after nCRT for advanced rectal cancer represents a surgical option with similar oncological results.
Origami-inspired thin-film shape memory alloy devices
Authors: Velvaluri Prasanth , Soor Arun , Plucinsky Paul , de Miranda Rodrigo Lima , James Richard D. , Quandt Eckhard
Published: May 2021

We describe the design and fabrication of miniaturized origami structures based on thin-film shape memory alloys. These devices are attractive for medical implants, as they overcome the opposing requirements of crimping the implant for insertion into an artery while keeping sensitive parts of the implant nearly stress-free. The designs are based on a group theory approach in which compatibility at a few creases implies the foldability of the whole structure. Importantly, this approach is versatile and thus provides a pathway for patient-specific treatment of brain aneurysms of differing shapes and sizes. The wafer-based monolithic fabrication method demonstrated here, which comprises thin-film deposition, lithography, and etching using sacrificial layers, is a prerequisite for any integrated self-folding mechanism or sensors and will revolutionize the availability of miniaturized implants, allowing for new and safer medical treatments.
A machine-learning-based alloy design platform that enables both forward and inverse predictions for thermo-mechanically controlled processed (TMCP) steel alloys
Authors: Lee Jin-Woong , Park Chaewon , Do Lee Byung , Park Joonseo , Goo Nam Hoon , Sohn Kee-Sun
Published: May 2021

Predicting mechanical properties such as yield strength (YS) and ultimate tensile strength (UTS) is an intricate undertaking in practice, notwithstanding a plethora of well-established theoretical and empirical models. A data-driven approach should be a fundamental exercise when making YS/UTS predictions. For this study, we collected 16 descriptors (attributes) that implicate the compositional and processing information and the corresponding YS/UTS values for 5473 thermo-mechanically controlled processed (TMCP) steel alloys. We set up an integrated machine-learning (ML) platform consisting of 16 ML algorithms to predict the YS/UTS based on the descriptors. The integrated ML platform involved regularization-based linear regression algorithms, ensemble ML algorithms, and some non-linear ML algorithms. Despite the dirty nature of most real-world industry data, we obtained acceptable holdout dataset test results such as R2 > 0.6 and MSE < 0.01 for seven non-linear ML algorithms. The seven fully trained non-linear ML models were used for the ensuing ‘inverse design (prediction)’ based on an elitist-reinforced, non-dominated sorting genetic algorithm (NSGA-II). The NSGA-II enabled us to predict solutions that exhibit desirable YS/UTS values for each ML algorithm. In addition, the NSGA-II-driven solutions in the 16-dimensional input feature space were visualized using holographic research strategy (HRS) in order to systematically compare and analyze the inverse-predicted solutions for each ML algorithm.
Author Correction: Novel methods to establish whole‑body primary cell cultures for the cnidarians Nematostella vectensis and Pocillopora damicornis
Authors: Nowotny James D. , Connelly Michael T. , Traylor‑Knowles Nikki
Published: May 2021

An amendment to this paper has been published and can be accessed via a link at the top of the paper.
A top-down measure of gene-to-gene coordination for analyzing cell-to-cell variability
Authors: Vaknin Dana , Amit Guy , Bashan Amir
Published: May 2021

Recent technological advances, such as single-cell RNA sequencing (scRNA-seq), allow the measurement of gene expression profiles of individual cells. These expression profiles typically exhibit substantial variations even across seemingly homogeneous populations of cells. Two main different sources contribute to this measured variability: actual differences between the biological activity of the cells and technical measurement errors. Analysis of the biological variability may provide information about the underlying gene regulation of the cells, yet distinguishing it from the technical variability is a challenge. Here, we apply a recently developed computational method for measuring the global gene coordination level (GCL) to systematically study the cell-to-cell variability in numerical models of gene regulation. We simulate ‘biological variability’ by introducing heterogeneity in the underlying regulatory dynamic of different cells, while ‘technical variability’ is represented by stochastic measurement noise. We show that the GCL decreases for cohorts of cells with increased ‘biological variability’ only when it is originated from the interactions between the genes. Moreover, we find that the GCL can evaluate and compare—for cohorts with the same cell-to-cell variability—the ratio between the introduced biological and technical variability. Finally, we show that the GCL is robust against spurious correlations that originate from a small sample size or from the compositionality of the data. The presented methodology can be useful for future analysis of high-dimensional ecological and biochemical dynamics.
A covered eye fails to follow an object moving in depth
Authors: Chandna Arvind , Badler Jeremy , Singh Devashish , Watamaniuk Scott , Heinen Stephen
Published: May 2021

To clearly view approaching objects, the eyes rotate inward (vergence), and the intraocular lenses focus (accommodation). Current ocular control models assume both eyes are driven by unitary vergence and unitary accommodation commands that causally interact. The models typically describe discrete gaze shifts to non-accommodative targets performed under laboratory conditions. We probe these unitary signals using a physical stimulus moving in depth on the midline while recording vergence and accommodation simultaneously from both eyes in normal observers. Using monocular viewing, retinal disparity is removed, leaving only monocular cues for interpreting the object’s motion in depth. The viewing eye always followed the target’s motion. However, the occluded eye did not follow the target, and surprisingly, rotated out of phase with it. In contrast, accommodation in both eyes was synchronized with the target under monocular viewing. The results challenge existing unitary vergence command theories, and causal accommodation-vergence linkage.
Congenital anomalies among newborn babies in Felege-Hiwot Comprehensive Specialized Referral Hospital, Bahir Dar, Ethiopia
Authors: Mekonnen Daniel , MollaTaye  , Worku Walelegn
Published: May 2021

Congenital anomaly is a structural or functional defect which could occur in any organ system. The aim of this study was to determine the prevalence and associated factors of congenital anomalies among newborn babies delivered at Felege-Hiwot Comprehensive Specialized Referral Hospital, Bahir Dar, Ethiopia. A cross-sectional study design was used to review medical records/charts of 11,177 new born babies born at the delivery ward of Felege-Hiwot Comprehensive Specialized Referral Hospital, Ethiopia. The data were collected using an abstraction form. A bivariate analysis was done to assess factors associated with congenital anomalies. Variables whose p-value < 0.2 were included in the multivariable analysis to identify the effects of confounders. P-values < 0.05 were considered statistically significant. A total of 11,177 newborn babies and their mothers were included in the study and the proportion of congenital anomalies was found to be 0.62%. The most (46.4%) prevalent congenital anomaly was neural tube defects. Newborn birth weight < 1.25 kg [AOR, 32.6, 95% CI 11.9–89.0], and newborn weight < 2.5 kg [AOR, 2.67, 95% CI 1.54–4.65], antenatal visits [AOR, 4.0, 95% CI 2.39–6.69] and urban residence [AOR, 2.1, 95% CI 1.28–3.55] were statistically significant factors. In conclusion, neural tube defects were anomalies prevalent in this study. Antenatal visits, birth weight and residence were factors associated with congenital anomalies.
Oxaloacetate treatment preserves motor function in SOD1G93A mice and normalizes select neuroinflammation-related parameters in the spinal cord
Authors: Tungtur Sudheer K. , Wilkins Heather M. , Rogers Robert S. , Badawi Yomna , Sage Jessica M. , Agbas Abdulbaki , Jawdat Omar , Barohn Richard J. , Swerdlow Russell H. , Nishimune Hiroshi
Published: May 2021

Amyotrophic lateral sclerosis (ALS) remains a devastating motor neuron disease with limited treatment options. Oxaloacetate treatment has a neuroprotective effect in rodent models of seizure and neurodegeneration. Therefore, we treated the ALS model superoxide dismutase 1 (SOD1) G93A mice with oxaloacetate and evaluated their neuromuscular function and lifespan. Treatment with oxaloacetate beginning in the presymptomatic stage significantly improved neuromuscular strength measured during the symptomatic stage in the injected mice compared to the non-treated group. Oxaloacetate treatment starting in the symptomatic stage significantly delayed limb paralysis compared with the non-treated group. For lifespan analysis, oxaloacetate treatment did not show a statistically significant positive effect, but the treatment did not shorten the lifespan. Mechanistically, SOD1G93A mice showed increased levels of tumor necrosis factor-α (TNFα) and peroxisome proliferative activated receptor gamma coactivator 1α (PGC-1α) mRNAs in the spinal cord. However, oxaloacetate treatment reverted these abnormal levels to that of wild-type mice. Similarly, the altered expression level of total NF-κB protein returned to that of wild-type mice with oxaloacetate treatment. These results suggest that the beneficial effects of oxaloacetate treatment in SOD1G93A mice may reflect the effects on neuroinflammation or bioenergetic stress.
Phylogenetic analysis of mutational robustness based on codon usage supports that the standard genetic code does not prefer extreme environments
Authors: Radványi Ádám , Kun Ádám
Published: May 2021

The mutational robustness of the genetic code is rarely discussed in the context of biological diversity, such as codon usage and related factors, often considered as independent of the actual organism’s proteome. Here we put the living beings back to picture and use distortion as a metric of mutational robustness. Distortion estimates the expected severities of non-synonymous mutations measuring it by amino acid physicochemical properties and weighting for codon usage. Using the biological variance of codon frequencies, we interpret the mutational robustness of the standard genetic code with regards to their corresponding environments and genomic compositions (GC-content). Employing phylogenetic analyses, we show that coding fidelity in physicochemical properties can deteriorate with codon usages adapted to extreme environments and these putative effects are not the artefacts of phylogenetic bias. High temperature environments select for codon usages with decreased mutational robustness of hydrophobic, volumetric, and isoelectric properties. Selection at high saline concentrations also leads to reduced fidelity in polar and isoelectric patterns. These show that the genetic code performs best with mesophilic codon usages, strengthening the view that LUCA or its ancestors preferred lower temperature environments. Taxonomic implications, such as rooting the tree of life, are also discussed.
Biological impacts on the lungs in rats internally exposed to radioactive 56MnO2 particle
Authors: Fujimoto Nariaki , Ruslanova Bakhyt , Abishev Zhaslan , Chaizhunussova Nailya , Shabdarbayeva Dariya , Amantayeva Gaukhar , Farida Rakhimzhanova , Sandybayev Marat , Nagano Kasuke , Zhumadilov Kassym , Kaprin Andrey , Ivanov Sergey , Stepanenko Valeriy , Hoshi Masaharu
Published: May 2021

To understand the radiation effects of the atomic bombing of Hiroshima and Nagasaki among the survivors, radiation from neutron-induced radioisotopes in soil should be considered in addition to the initial radiation directly received from the bombs. 56Mn, which emits both β particles and γ-rays, is one of the dominant radioisotopes created in soil by neutrons from the bomb. Thus we investigated the biological effects of internal exposure to 56MnO2 particle in the lung of male Wistar rats comparing to the effects of external 60Co-γ irradiation. Absorbed doses of internal irradiation of lungs were between 25 and 65 mGy in 56MnO2-exposed animals, while the whole body doses were between 41 and 100 mGy. Animals were examined on days 3 and 61 after the exposure. There were no remarkable pathological changes related to 56MnO2 particle exposure. However, mRNA and protein expressions of aquaporin 5 increased significantly in the lung tissue on day 3 postexposure in 56MnO2 groups (by 1.6 and 2.9 times, respectively, in the highest dose group). Smad7 mRNA expression was also significantly elevated by 30% in the highest dose group of 56MnO2. Our data demonstrated that internal exposure to 56MnO2 induced significant biological responses including gene expression changes in the lungs, while external 60Co-γ irradiation of 2 Gy did not show any changes.
Attention mediates the influence of numerical magnitude on temporal processing
Authors: Shukla Anuj , Bapi Raju S.
Published: May 2021

The processing of time and numbers has been fundamental to human cognition. One of the prominent theories of magnitude processing, a theory of magnitude (ATOM), suggests that a generalized magnitude system processes space, time, and numbers; thereby, the magnitude dimensions could potentially interact with one another. However, more recent studies have found support for domain-specific magnitude processing and argued that the magnitudes related to time and number are processed through distinct mechanisms. Such mixed findings have raised questions about whether these magnitudes are processed independently or share a common processing mechanism. In the present study, we examine the influence of numerical magnitude on temporal processing. To investigate, we conducted two experiments using a temporal comparison task, wherein we presented positive and negative numerical magnitudes (large and small) in a blocked (Experiment-1) and intermixed manner (Experiment-2). Results from experiment-1 suggest that numerical magnitude affects temporal processing only in positive numbers but not for negative numbers. Further, results from experiment-2 indicate that the polarity (positive and negative) of the numbers influences temporal processing instead of the numerical magnitude itself. Overall, the current study seems to suggest that cross-domain interaction of magnitudes arises from attentional mechanisms and may not need to posit a common magnitude processing system.
Large red cell-derived membrane particles are major contributors to hypercoagulability in sickle cell disease
Authors: Smith Rachel A. , Mankelow Tosti J. , Drizou Despoina , Bullock Thomas , Latham Tom , Trompeter Sara , Blair Allison , Anstee David J.
Published: May 2021

Sickle cell disease (SCD) is one of the most common inherited single gene disorders. Polymerisation of sickle hemoglobin results in erythrocytes that are inflexible and adherent, leading to coagulation, vascular and cellular activation and resultant blood vessel blockage. Previous studies have observed elevated numbers of red cell-derived particles (RCDP), also denoted extracellular vesicles, in SCD plasma. Here, imaging flow cytometry was used to quantify all RCDP in SCD plasma. A more heterogenous population of RCDP was observed than previously reported. Significantly, large right side-out red cell macrovesicles (MaV), 7 µm in diameter, were identified. Most RCDP were right side-out but a minor population of inside-out vesicles was also present. Electron micrographs confirmed the heterogenous nature of the RCDP detected. All MaV are decorated with prothrombotic phosphatidylserine (PS) and their removal from plasma lengthened clotting times by more than three-fold. Removal of all right side-out RCDP from SCD patient plasma samples resulted in a seven-fold increase in clotting time. These results indicate that MaV comprise a large area of prothrombotic membrane and are thus major contributors to hypercoagulation in SCD. Consequently, controlled removal of MaV and PS exposed RCDP from plasma could provide a novel therapy for managing this disease.
Application of vigor indexes to evaluate the cold tolerance in rice seeds germination conditioned in plant extract
Authors: Teixeira Sheila Bigolin , Pires Stefânia Nunes , Ávila Gabriele Espinel , Silva Bruna Evelyn Paschoal , Schmitz Victoria Novo , Deuner Cristiane , da Silva Armesto Rodrigo , da Silva Moura Diogo , Deuner Sidnei
Published: May 2021

Rice is a crop that presents sensitivity to cold, especially in the germination phase, which leads to high economic losses. Alternative management forms are essential to increase tolerance to low temperatures, and seed priming represents a promising tool. The objective of this study was to investigate the priming effect of the aqueous extract of carrot roots on rice seeds to increase tolerance to low temperatures during germination. Seeds from cultivars BRS Querência (cold-susceptible) and Brilhante (cold-tolerant) were soaked for 24 h in concentrations of 0, 25, 50, and 100% carrot extract, sown on germitest paper and conditioned in BOD for 21 days at 15 °C. As a control, the seeds soaked in water were also germinated at 25 °C. They were evaluated for germination, first germination count, and germination speed index to calculate the stress indices: tolerance index, susceptibility index, and harmonic mean. They were also evaluated for the length and dry mass of shoot and root. The results showed that the rice seeds conditioning in carrot extract effectively reduces the damage caused by cold, significantly increasing the germination speed and the percentage of final germination and the growth evaluations, more expressive at 100% concentration. The stress indexes are efficient in estimating the tolerance of the cultivars and the effect of the different conditions in low-temperature conditions, highlighting the superiority of the Brilhante cultivar.
A novel fungal metal-dependent α-l-arabinofuranosidase of family 54 glycoside hydrolase shows expanded substrate specificity
Authors: Motta Maria Lorenza Leal , Filho Jaire Alves Ferreira , de Melo Ricardo Rodrigues , Zanphorlin Leticia Maria , dos Santos Clelton Aparecido , de Souza Anete Pereira
Published: May 2021

Trichoderma genus fungi present great potential for the production of carbohydrate-active enzymes (CAZYmes), including glycoside hydrolase (GH) family members. From a renewability perspective, CAZYmes can be biotechnologically exploited to convert plant biomass into free sugars for the production of advanced biofuels and other high-value chemicals. GH54 is an attractive enzyme family for biotechnological applications because many GH54 enzymes are bifunctional. Thus, GH54 enzymes are interesting targets in the search for new enzymes for use in industrial processes such as plant biomass conversion. Herein, a novel metal-dependent GH54 arabinofuranosidase (ThABF) from the cellulolytic fungus Trichoderma harzianum was identified and biochemically characterized. Initial in silico searches were performed to identify the GH54 sequence. Next, the gene was cloned and heterologously overexpressed in Escherichia coli. The recombinant protein was purified, and the enzyme’s biochemical and biophysical properties were assessed. GH54 members show wide functional diversity and specifically remove plant cell substitutions including arabinose and galactose in the presence of a metallic cofactor. Plant cell wall substitution has a major impact on lignocellulosic substrate conversion into high-value chemicals. These results expand the known functional diversity of the GH54 family, showing the potential of a novel arabinofuranosidase for plant biomass degradation.
The mathematical expression of damage law of museum lighting on dyed artworks
Authors: Dang Rui , Wang Baoping , Song Xiangyang , Zhang Fenghui , Liu Gang
Published: May 2021

Dyed artworks are highly sensitive to light and are easily affected by museum lighting, resulting in irreversible permanent color damage such as fading and discoloration. Exposure, light source spectrum and material properties are the three indicators causing damage to artworks. Therefore, it is the basis for effective lighting protection to reveal the quantitative influence of exposure and light source spectrum composition on the damage degree of different pigments and establish a mathematical model that can accurately express the above rules. At present, the color damage calculation model of dyed artworks under three parameters’ coupling action is missing. This research established a visual three-dimensional change surface of the color difference values of 23 pigments varying with the spectral wavelength and exposure through experimental methods. The relative responsivity function ΔEn = fn(λ, Q), where n = 1 ~ 23, was obtained for 23 pigments under the coupling effects of exposure and light source spectra. Furthermore, a mathematical model $$D_{n} = \mathop \smallint \limits_{380}^{780} S\left( \lambda \right) \cdot f_{n} \left( {\lambda ,Q} \right)d\lambda$$

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n

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calculating the color damage of pigments in the range of visible light was proposed. The proposed model was verified by the experimental method, which realizes the mathematical expression of the damage law of museum lighting on dyed artworks.
Effectiveness of an exercise-based prehabilitation program for patients awaiting surgery for lumbar spinal stenosis: a randomized clinical trial
Authors: Marchand Andrée-Anne , Houle Mariève , O’Shaughnessy Julie , Châtillon Claude-Édouard , Cantin Vincent , Descarreaux Martin
Published: May 2021

Lumbar spinal stenosis is the most common reason for spine surgery in older adults, but the effects of prehabilitation on perioperative outcomes among these patients have not been investigated. This study aims to evaluate the effectiveness of a preoperative exercise-based intervention program compared with usual care on the improvement of clinical status, physical capacities and postoperative recovery of patients awaiting surgery for lumbar spinal stenosis. Sixty-eight participants were randomised to receive either a 6-week supervised exercise-based prehabilitation program or hospital usual care. The outcomes included both clinical and physical measures. Data collection occurred at post-intervention, and 6 weeks, 3- and 6-months post-surgery. Significant but small improvements were found in favour of the experimental group at the post-intervention assessment for pain intensity, lumbar spinal stenosis-related disability, lumbar strength in flexion, low back extensor muscles endurance, total ambulation time, and sit to stand performance. A significant difference in favor of the intervention group was found starting at the 3-month postoperative follow-up for low back-related disability. No adverse events were reported. Exercise-based prehabilitation did not improve short-term postoperative recovery in patients with lumbar spinal stenosis.
Double-balloon endoscopic retrograde cholangiography can make a reliable diagnosis and good prognosis for postoperative complications of congenital biliary dilatation
Authors: Shirota Chiyoe , Kawashima Hiroki , Tainaka Takahisa , Sumida Wataru , Yokota Kazuki , Makita Satoshi , Amano Hizuru , Takimoto Aitaro , Hinoki Akinari , Uchida Hiroo
Published: May 2021

Bile duct and anastomotic strictures and intrahepatic stones are common postoperative complications of congenital biliary dilatation (CBD). We performed double-balloon endoscopic retrograde cholangiography (DBERC) for diagnostic and therapeutic purposes after radical surgery. We focused on the effectiveness of DBERC for the treatment of postoperative complications of CBD patients. Bile duct and anastomotic strictures and intrahepatic stones are common postoperative complications of congenital biliary dilatation (CBD). We performed double-balloon endoscopic retrograde cholangiography (DBERC) for diagnostic and therapeutic purposes after radical surgery. We focused on the effectiveness of DBERC for the treatment of postoperative complications of CBD patients. This retrospective study included 28 patients who underwent DBERC (44 procedures) after radical surgery for CBD between January 2011 and December 2019. Strictures were diagnosed as “bile duct strictures” if endoscopy confirmed the presence of bile duct mucosa between the stenotic and anastomotic regions, and as “anastomotic strictures” if the mucosa was absent. The median patient age was 4 (range 0–67) years at the time of primary surgery for CBD and 27.5 (range 8–76) years at the time of DBERC. All anastomotic strictures could be treated with only by 1–2 courses of balloon dilatation of DBERC, while many bile duct strictures (41.2%) needed ≥ 3 treatments, especially those who underwent operative bile duct plasty as the first treatment (83.3%). Although the study was limited by the short follow-up period after DBERC treatment, DBERC is recommended as the first-line treatment for hepatolithiasis associated with biliary and anastomotic strictures in CBD patients, and it can be safely performed multiple times.
A potential role for somatostatin signaling in regulating retinal neurogenesis
Authors: Weir Kurt , Kim Dong Won , Blackshaw Seth
Published: May 2021

Neuropeptides have been reported to regulate progenitor proliferation and neurogenesis in the central nervous system. However, these studies have typically been conducted using pharmacological agents in ex vivo preparations, and in vivo evidence for their developmental function is generally lacking. Recent scRNA-Seq studies have identified multiple neuropeptides and their receptors as being selectively expressed in neurogenic progenitors of the embryonic mouse and human retina. This includes Sstr2, whose ligand somatostatin is transiently expressed by immature retinal ganglion cells. By analyzing retinal explants treated with selective ligands that target these receptors, we found that Sstr2-dependent somatostatin signaling induces a modest, dose-dependent inhibition of photoreceptor generation, while correspondingly increasing the relative fraction of primary progenitor cells. These effects were confirmed by scRNA-Seq analysis of retinal explants but abolished in Sstr2-deficient retinas. Although no changes in the relative fraction of primary progenitors or photoreceptor precursors were observed in Sstr2-deficient retinas in vivo, scRNA-Seq analysis demonstrated accelerated differentiation of neurogenic progenitors. We conclude that, while Sstr2 signaling may act to negatively regulate retinal neurogenesis in combination with other retinal ganglion cell-derived secreted factors such as Shh, it is dispensable for normal retinal development.
People serve themselves larger portions before a social meal
Authors: Ruddock Helen K. , Long Emma V. , Brunstrom Jeffrey M. , Vartanian Lenny R. , Higgs Suzanne
Published: May 2021

One of the most powerful influences on food intake yet identified is the presence of familiar others at an eating occasion: people eat much more when they eat with friends/family than when they eat alone. But why this is the case is unclear. Across two studies (Study 1: N = 98; Study 2: N = 120), we found that the mere anticipation of social interaction is all that is needed to promote the selection of larger meals, and that this occurs even when a person is alone when they make their decision. Adult women served themselves larger portions when they knew they were going to eat socially versus when they knew they were going to eat alone. These data suggest that how other people influence our food intake reaches beyond the specific eating context to affect pre-meal portion size decisions, suggesting that a fundamental shift is required in our thinking about social influences on eating.
Development of a yeast cell surface display method using the SpyTag/SpyCatcher system
Authors: Kajiwara Kaho , Aoki Wataru , Koike Naoki , Ueda Mitsuyoshi
Published: May 2021

Yeast cell surface display (YSD) has been used to engineer various proteins, including antibodies. Directed evolution, which subjects a gene to iterative rounds of mutagenesis, selection and amplification, is useful for protein engineering. In vivo continuous mutagenesis, which continuously diversifies target genes in the host cell, is a promising tool for accelerating directed evolution. However, combining in vivo continuous evolution and YSD is difficult because mutations in the gene encoding the anchor proteins may inhibit the display of target proteins on the cell surface. In this study, we have developed a modified YSD method that utilises SpyTag/SpyCatcher-based in vivo protein ligation. A nanobody fused with a SpyTag of 16 amino acids and an anchor protein fused with a SpyCatcher of 113 amino acids are encoded by separate gene cassettes and then assembled via isopeptide bond formation. This system achieved a high display efficiency of more than 90%, no intercellular protein ligation events, and the enrichment of target cells by cell sorting. These results suggested that our system demonstrates comparable performance with conventional YSD methods; therefore, it can be an appropriate platform to be integrated with in vivo continuous evolution.
Comparison between multi-walled carbon nanotubes and titanium dioxide nanoparticles as additives on performance of turbine meter oil nano lubricant
Authors: Pourpasha Hadi , Zeinali Heris Saeed , Mohammadfam Yaghob
Published: May 2021

This research aims of compare the impact of the mass fraction of multi-walled carbon nanotubes (MWCNTs) and titanium dioxide (TiO2) nano additive on the tribological and thermophysical attributes of turbine meter oil. These attributes include the average friction coefficient, pressure drop, wear, flash point, pour point, relative viscosity, kinematics viscosity, and viscosity index. The pressure drops and the average friction coefficient inside the copper tube were simulated and compared with experimental results. In this study, for the synthesis of nano lubricants from turbine meter oil as a pure fluid and from MWCNTs and TiO2 as nano additives in the mass fraction of 0.05, 0.1, 0.2, 0.3, and 0.4 wt.% and from oleic acid and Triton x100 as surfactants were utilized. The results illustrated that the wear depth of copper pins in the presence of nano lubricant with 0.4 wt.% of MWCNTs and 0.1 wt.% TiO2 was improved by 88.26% and 71.43%, respectively. Increasing 0.3 wt.% of TiO2 and MWCNTs into the oil caused to improvement in viscosity index. The simulation data and experimental data for the pressure drop were closer together and indicated a minor error that the maximum error is less than 10%.
IR GRIN lenses prepared by ionic exchange in chalcohalide glasses
Authors: Fourmentin Claire , Zhang Xiang-Hua , Lavanant Enora , Pain Thierry , Rozé Mathieu , Guimond Yann , Gouttefangeas Francis , Calvez Laurent
Published: May 2021

In order to decrease the number of lenses and the weight of thermal imaging devices, specific optical design are required by using gradient refractive index (GRIN) elements transparent in the infrared waveband. While widely used for making visible GRIN lenses with silicate glasses, the ion exchange process is very limited when applied to chalcogenide glasses due to their low Tg and relatively weak mechanical properties. In this paper, we develop chalco-halide glasses based on alkali halide (NaI) addition in a highly covalent GeSe2–Ga2Se3 matrix, efficient for tailoring a significant and permanent change of refractive by ion exchange process between K+ and Na+. Optical and structural properties of the glass samples were measured showing a diffusion length reaching more than 2 mm and a Gaussian gradient of refractive index Δn of 4.5.10–2. The obtained GRIN lenses maintain an excellent transmission in the second (3–5 µm) and third (8–12 µm) atmospheric windows.
Functional characterization of a loss-of-function mutant I324M of arginine vasopressin receptor 2 in X-linked nephrogenic diabetes insipidus
Authors: Wang Lixia , Guo Weihong , Fang Chunyun , Feng Wenli , Huang Yumeng , Zhang Xiaona , Liu Ming , Cui Jingqiu
Published: May 2021

X-linked nephrogenic diabetes insipidus (X-linked NDI) is a rare inherited disease mainly caused by lost-of-function mutations in human AVPR2 gene encoding arginine vasopressin receptor 2 (V2R). Our focus of the current study is on exploration of the functional and biochemical properties of Ile324Met (I324M) mutation identified in a pedigree showing as typical recessive X-linked NDI. We demonstrated that I324M mutation interfered with the conformation of complex glycosylation of V2R. Moreover, almost all of the I324M-V2R failed to express on the cell surface due to being captured by the endoplasmic reticulum control system. We further examined the signaling activity of DDAVP-medicated cAMP and ERK1/2 pathways and the results revealed that the mutant receptor lost the ability in response to DDAVP stimulation contributed to the failure of accumulation of cAMP and phosphorylated ERK1/2. Based on the characteristics of molecular defects of I324M mutant, we selected two reagents (SR49059 and alvespimycin) to determine whether the functions of I324M-V2R can be restored and we found that both compounds can significantly “rescue” I324M mutation. Our findings may provide further insights for understanding the pathogenic mechanism of AVPR2 gene mutations and may offer some implications on development of promising treatments for patients with X-linked NDI.
Comparison of short-term surgical outcomes using da Vinci S, Si and Xi Surgical System for robotic gastric cancer surgery
Authors: Ojima Toshiyasu , Nakamura Masaki , Hayata Keiji , Kitadani Junya , Takeuchi Akihiro , Yamaue Hiroki
Published: May 2021

When compared with the second/third generation da Vinci S/Si, the fourth generation Xi surgical system may allow for greater efficiency and result in shorter operation times during robotic gastrectomy (RG) for gastric cancer (GC). We directly compare surgical outcomes between the conventional S/Si and the newer Xi robotic platform for the treatment of GC. This is a single-center retrospective study of 148 consecutive patients with GC who underwent RG. Of these patients, 20 patients were treated with the S, 30 patients with the Si, and 98 patients with the Xi. The overall operation time was significantly longer in the S group (386.5 min) than in the other groups (Si group: 292 min; Xi group: 297 min) (S vs. Si: P = 0.010; S vs. Xi: P = 0.001). We observed no difference, however, between the newer Xi and Si systems in operation time. Intraoperative blood loss was similar across the three groups. The overall postoperative complication rate in the Xi group (8.2%) was lower than that of the S group (10%) and the Si group (13.3%), but the difference was not significant. The newer Xi system did not provide significant intraoperative or early postoperative advantages over the Si system.