bluuebunny/crossref_metadata_2025 huggingface dataset:
Shared body plans of lycophytes inferred from root formation of Lycopodium clavatum
Authors: Ito Yuki , Fujinami Rieko , Imaichi Ryoko , Yamada Toshihiro
Published: October 2022

Late Silurian to early Devonian lycophytes had prostrate aerial axes, while subordinate organs or subterranean axes were formed around the dichotomies of the axes. The subterranean axes are hypothesized to have evolved into root-bearing axes (rhizophores) and roots in extant Selaginellaceae and Lycopodiaceae, respectively. Consistent with this hypothesis, rhizophores are formed on the dichotomies of shoots in Selaginellaceae. However, it has remained unclear whether roots are borne in the same position in Lycopodiaceae. In addition, roots form endogenously in the stem, but no data are available regarding the tissues in stem from which they arise. In this study, we tracked the root development in the clubmoss, Lycopodium clavatum, based on anatomical sections and 3D reconstructed images. The vascular tissue of the stem is encircled by ground meristem, which supplies cortical cells outwardly by periclinal divisions. A linear parenchymatous tissue is present on the ventral side of vascular cylinder, which we call “ventral tissue” in this study. We found that root primordia are formed endogenously on the ventral side of stem, possibly from the ventral tissue. In addition, roots always initiate at positions close to dichotomies of stem. The root-initiating position supports the suggestion that Lycopodium roots share a body plan with the subterranean organs of the hypothesized ancestry.
Improving trajectories of amphibians in wildlife passages
Authors: Testud Guillaume , Canonne Coline , Le Petitcorps Quentin , Picard Damien , Lengagne Thierry , Labarraque Dorothée , Miaud Claude
Published: October 2022

Linear transport infrastructure can alter the viability of populations and wildlife passages are used to mitigate their impacts. The assessment of their outcomes is often limited to recording the use of the tunnels by a focal species. For amphibians, the effectiveness of tunnels is poorly evaluated with little information about whether certain features encourage individuals that may be reluctant to pass through tunnels. One study showed that acoustic enrichment with anuran calls can increase the crossing of tunnels by newts. This study recorded the behavior of three European amphibian species in three tunnels, tracking them with PIT tags and detection with four RFID antennas installed on the floor of the tunnels. We tested (1) the effectiveness of the antennas in detecting the species, (2) the effect of the length of the tunnels, and (3) the effect of acoustic enrichment. Using a multi-state capture–recapture model, we evaluated the probability of an individual advancing between the tunnel sections. The effectiveness of the antennas varied according to species, higher for Urodela species than for Anuran species. Several types of paths were detected (constant and varying speeds, halt, and back-and-forth movements). The fire salamander and the great crested newt individuals exhibited a similar variety of movements in the tunnels (21 and 40 m length). Triturus cristatus made similar movements in the tunnels with and without acoustic enrichment. In water frogs, all the individuals (n = 16) made a complete crossing in the tunnel with enrichment vs. 75% (n = 71) in the tunnel without enrichment. In T. cristatus, the probability of going forward at the entrance of the tunnel was 18% higher with enrichment in one tunnel. No significant effect of acoustic enrichment was observed in two others tunnels for this species. In Pelophylax esculentus, this probability was 78% higher in the tunnel with enrichment. This multi-antenna RFID system was able to provide valuable information on the behavior of these small animals when traversing the tunnels, as well as to test the effectiveness of tunnel features. The findings indicate that acoustic enrichment to attract animals to specific locations holds promise as a new conservation tool.
Accuracy of dental microwear impressions by physical properties of silicone materials
Authors: Sawaura Ryohei , Kimura Yuri , Kubo Mugino O.
Published: October 2022

Dental microwear analysis is an oft-used paleodietary estimation method, and the impression molds or resin casts are often analyzed rather than the original tooth surfaces. A choice of silicone products for dental impressions is crucial because the quality of microwear data is affected by the impression accuracy of the molds. For this reason, microwear researchers have heavily depended on a few commercial products such as “President” (Coltène/Whaledent AG, Switzerland) to avoid analytical errors caused using different silicone materials. Considering that the production business might be terminated, however, heavy reliance on specific products could be a potential weakness in the field. In this study, we aimed at identifying specific indexes of physical properties of silicone materials with satisfactory accuracy. For this purpose, we measured dynamic viscoelasticity and shrinkage rates of various silicone compounds, including the standard impression material President and other eight affordable dental silicones. We scanned both original tooth surface and dental impression molds with a confocal laser microscope and conducted dental microwear texture analysis (DMTA) to quantitatively compare the scanned surfaces. The results showed relationships between the material properties of silicones and impression accuracy, indicating that the materials that cured slowly and began to shrink relatively early in the hardening process were less accurate. Some of these dental impression molds showed blurred surfaces, implying that molds were peeled off from the tooth surface at the microscopic level, as the shrinkage speed might exceed the curing speed. The following indices provided in the product information were found to be helpful in the search for substitutes: (1) medium viscosity, (2) short curing time after mixing (5–6 min), and (3) delayed change in shrinkage.
Establishment and validation of a polygene prognostic model for clear cell renal cell carcinoma
Authors: Gan Kai , Zhang Keying , Li Yu , Zhao Xiaolong , Li Hongji , Xu Chao , Liu Shaojie , Zhang Chao , Han Donghui , Wen Weihong , Qin Weijun
Published: October 2022

Purpose: To establish an effective prognostic model for patients with clear cell renal cell carcinoma (ccRCC).

Methods: We identified four hub differentially expressed genes (DEGs) in Gene Expression Omnibus (GEO) database and verified them in the Cancer Gene Atlas (TCGA), STRING, UALCAN, TIMER, and Gene Expression Profiling Interactive Analysis (GEPIA) databases. We then used TCGA and International Cancer Genome Consortium (ICGC) to identify tumor pathway molecules highly correlated with hub DEGs. And by further LASSO and Cox regression analysis, we successfully identified five genes as prognostic factors.

Results: We successfully identified a risk prediction model consisting of five genes: IGF2BP3, CDKN1A, GSDMB, FABP5, RBMX. We next distributed patients into low-risk and high-risk groups using the median as a cutoff. The low-risk group obviously had better survival than those in the predicted high-risk group. The results showed discrepancies in tumor-associated immune cell infiltration between risk groups. We also combined the risk model with clinical variables to create a nomogram.

Conclusion: Our model has a satisfactory predictive effect on the prognosis of ccRCC patients and may provide new ideas for future immune therapy.
Identification of DAPK1 as an autophagy-related biomarker for myotonic dystrophy type 1
Authors: Hu Min , Ge Meng-Ru , Li Hong-Xia , Zhang Bei , Li Gang
Published: October 2022

Myotonic dystrophy type I (DM1), a CTG repeat expansion hereditary disorder, is primarily characterized by myotonia. Several studies have reported that abnormal autophagy pathway has a close relationship with DM1. However, the underlying key regulatory molecules dictating autophagy disturbance still remains elusive. Previous studies mainly focused on finding targeted therapies for DM1, but the clinical heterogeneity of the DM1 is rarely addressed. Herein, to identify potential regulator genes related to autophagy and cross-correlation among clinical symptoms, we performed weighted gene co-expression network analysis (WGCNA) to construct the co-expression network and screened out 7 core autophagy-related genes (DAPK1, KLHL4, ERBB3, SESN3, ATF4, MEG3, and COL1A1) by overlapping within differentially expressed genes (DEG), cytoHubba, gene significance (GS) and module membership (MM) score. Meanwhile, we here analyzed autophagy-related molecular subtypes of DM1 in relation to the clinical phenotype. Our results show that three genes (DAPK1, SESN3, and MEG3) contribute to distinguish these two molecular subtypes of DM1. We then develop an analysis of RNA-seq data from six human skin fibroblasts (3 DM1, 3 healthy donors). Intriguingly, of the 7 hallmark genes obtained, DAPK1 is the only confirmed gene, and finally identified in vitro by RT-PCR. Furthermore, we assessed the DAPK1 accuracy diagnosis of DM1 by plotting a receiver operating characteristic curve (ROC) (AUC = 0.965). In this study, we first validated autophagy status of DM1 individuals exhibits a clearly heterogeneity. Our study identified and validated DAPK1 serve as a novel autophagy-related biomarker that correlate with the progression of DM1.
Prognostic value of hematologic parameters in advanced non-small cell lung cancer patients receiving anti-PD-1 inhibitors
Authors: Zhao Xinmin , Wu Xianghua , Yu Hui , Wang Huijie , Sun Si , Hu Zhihuang , Liu Cuicui , Zhang Junli , Shao Yang , Wang Jialei
Published: October 2022

Background

The association between hematologic parameters and anti-programmed death-1 (PD-1) inhibitors was generally examined without considering therapy lines and medicine types. The study was aimed to identify potential hematologic biomarkers associated with clinical outcome in patients with non-small cell lung cancer (NSCLC) treated with first-line pembrolizumab and subsequent-line nivolumab.

Materials and methods

161 NSCLC patients were categorized into first-line pembrolizumab group (pembrolizumab group) and subsequent-line nivolumab group (nivolumab group). Univariate and multivariate Cox regression analyses were used to evaluate the prognostic value of hematologic parameters for clinical outcomes.

Results

The median progression-free survival (mPFS) was 9.6 months in the pembrolizumab group and 4.1 months in the nivolumab group (HR =1.61; P = 0.012); the median overall survival (mOS) was not reached in the pembrolizumab group and 17.7 months in the nivolumab group (HR =1.37; P = 0.23). Of the 79 patients in the pembrolizumab group, baseline PD-L1 tumor proportion score (TPS)≥1% was an independent factor of longer PFS and OS. Age≥60 years, absolute platelet count (APC)≥220×109/L and platelet-to-lymphocyte ratio (PLR)≥120 were associated with inferior PFS. Of the 82 patients in the nivolumab group, absolute neutrophil count (ANC)≥3×109/L was associated with longer PFS, while LDH (lactate dehydrogenase)≥160 U/L was associated with inferior PFS and derived neutrophil-to-lymphocyte ratio (dNLR)≥1.2 was associated with longer OS.

Conclusion

Our study identified multiple clinically accessible prognostic biomarkers in the peripheral blood in both the pembrolizumab and nivolumab subgroups.
Hsp90β inhibition upregulates interferon response and enhances immune checkpoint blockade therapy in murine tumors
Authors: Rahmy Sharif , Mishra Sanket J. , Murphy Sean , Blagg Brian S. J. , Lu Xin
Published: October 2022

Response resistance to the immune checkpoint blockade (ICB) immunotherapy remains a major clinical challenge that may be overcome through the rational combination of ICB and specific targeted therapeutics. One emerging combination strategy is based on sensitizing ICB-refractory tumors with antagonists of 90kD heat shock protein (Hsp90) that target all four isoforms. However, pan-Hsp90 inhibitors are limited by the modest efficacy, on-target and off-tumor toxicities, and induction of the heat shock response (HSR) that overrides the effect of Hsp90 inhibition. Recently, we developed Hsp90β-selective inhibitors that were cytotoxic to cancer cells but did not induce HSR in vitro. Here, we report that the Hsp90β inhibitor NDNB1182 downregulated CDK4 (an Hsp90β-dependent client protein) and induced the expression of endogenous retroviral elements and interferon-stimulated genes. In syngeneic mouse models of prostate cancer and breast cancer, NDNB1182 significantly augmented the efficacy of ICB therapy. Furthermore, NDNB1182 showed superior tolerability to the pan-Hsp90 inhibitor Ganetespib in mice. Our findings provide evidence that Hsp90β inhibition is a potentially effective and safe regimen to combine with ICB to treat immunotherapy-refractory solid tumors.
Amino acid metabolism-based molecular classification of colon adenocarcinomavia in silico analysis
Authors: Xie Yile , Chen Huimin , Fang Jing-Yuan
Published: October 2022

Amino acid metabolism is closely related to the occurrence and development of colon adenocarcinoma (COAD). Studies on the relationship between COAD and the expression of amino acid metabolism are still rare. Based on in silico analysis, we used 358 amino acid metabolism-related genes (AAMRGs) to determine the amino acid metabolism characteristics and then classified COAD into two distinct subtypes, namely AA1 and AA2. Then we analyzed the clinical characteristics, somatic mutation landscape, transcriptome profile, metabolism signatures, immune infiltration, and therapy sensitivity of these two subtypes. The AA1 subtype had inferior overall survival and was characterized by lower amino acid metabolic activity, higher tumor mutation burden, and higher immune cell infiltration, while AA2 displayed higher metabolic activity and relatively better survival. Furthermore, the AA1 subtype was likely to benefit from irinotecan in chemotherapy and immune checkpoint blockade therapy including programmed cell death protein-1 (PD-1) and cytotoxic T-lymphocyte-associated protein-4 (CTLA-4) immune checkpoint inhibitor but was resistant to targeted therapy cetuximab. The AA2 subtype showed higher sensitivity to 5-fluorouracil and oxaliplatin. To provide perspectives on cell-specific metabolism for further investigation, we explored metabolic activity in different cell types including lymphocytes, mast cells, myeloid cells stromal cells, and epithelial cells via colorectal cancer single-cell data. Additionally, to assist in clinical decision-making and prognosis prediction, a 60-AAMRG-based classifier was generated and validated in an independent cohort.
Immune cells transcriptome-based drug repositioning for multiple sclerosis
Authors: Yin Xinyue , Rang Xinming , Hong Xiangxiang , Zhou Yinglian , Xu Chaohan , Fu Jin
Published: October 2022

Objective

Finding target genes and target pathways of existing drugs for drug repositioning in multiple sclerosis (MS) based on transcriptomic changes in MS immune cells.

Materials and Methods

Based on transcriptome data from Gene Expression Omnibus (GEO) database, differentially expressed genes (DEGs) in MS patients without treatment were identified by bioinformatics analysis according to the type of immune cells, as well as DEGs in MS patients before and after drug administration. Hub target genes of the drug for MS were analyzed by constructing the protein-protein interaction network, and candidate drugs targeting 2 or more hub target genes were obtained through the connectivity map (CMap) database and Drugbank database. Then, the enriched pathways of MS patients without treatment and the enriched pathways of MS patients before and after drug administration were intersected to obtain the target pathways of the drug for MS, and the candidate drugs targeting 2 or more target pathways were obtained through Kyoto Encyclopedia of Genes and Genomes (KEGG) database.

Results

We obtained 50 hub target genes for CD4+ T cells in Fingolimod for MS, 15 hub target genes for Plasmacytoid dendritic cells (pDCs) and 7 hub target genes for Peripheral blood mononuclear cells (PBMC) in interferon-β (IFN-β) for MS. 6 candidate drugs targeting two or more hub targets (Fostamatinib, Copper, Artenimol, Phenethyl isothiocyanate, Aspirin and Zinc) were obtained. In addition, we obtained 4 target pathways for CD19+ B cells and 15 target pathways for CD4+ T cells in Fingolimod for MS, 7 target pathways for pDCs and 6 target pathways for PBMC in IFN-β for MS, most of which belong to the immune system and viral infectious disease pathways. We obtained 69 candidate drugs targeting two target pathways.

Conclusion

We found that applying candidate drugs that target both the “PI3K-Akt signaling pathway” and “Chemokine signaling pathway” (e.g., Nemiralisib and Umbralisib) or applying tyrosine kinase inhibitors (e.g., Fostamatinib) may be potential therapies for the treatment of MS.
Gain-of-function of TRPM4 predisposes mice to psoriasiform dermatitis
Authors: Yamada Daisuke , Vu Simon , Wu Xuesong , Shi Zhenrui , Morris Desiree , Bloomstein Joshua D. , Huynh Mindy , Zheng Jie , Hwang Samuel T.
Published: October 2022

Transient receptor potential melastatin 4 (TRPM4) is a Ca2+-activated, monovalent cation channel that is expressed in a wide range of cells. We previously reported two gain-of-function (GoF) mutations of TRPM4 as the cause of progressive symmetric erythrokeratodermia (PSEK), which shares similar clinical and histopathological features with psoriasis. Using CRISPR/Cas9 technology, we generated TRPM4I1029M mice that have the equivalent mutation to one of the two genetic mutations found in human PSEK (equivalent to human TRPM4I1033M). Using this mutant mice, we examined the effects of TRPM4 GoF at the cellular and phenotypic levels to elucidate the pathological mechanisms underlying PSEK. In the absence of experimental stimulation, TRPM4I1029M mice did not show a phenotype. When treated with imiquimod (IMQ), however, TRPM4I1029M mice were predisposed to more severe psoriasiform dermatitis (PsD) than wild-type (WT), which was characterized by greater accumulation of CCR6-expressing γδ T cells and higher mRNA levels of Il17a. In TRPM4I1029M mice, dendritic cells showed enhanced migration and keratinocytes exhibited increased proliferation. Moreover, a TRPM4 inhibitor, glibenclamide, ameliorated PsD in WT and TRPM4I1029M mice. Our results indicate elevated TRPM4 activities boosted susceptibility to cutaneous stimuli, likely through elevation of membrane potential and alteration of downstream cellular signaling, resulting in enhanced inflammation. Our results further suggest a possible therapeutic application of TRPM4 inhibitors in psoriasis.
Therapeutic implications of the tumor microenvironment in ovarian cancer patients receiving PD-1/PD-L1 therapy
Authors: Wang Yusha , Zhang Lei , Bai Yun , Wang Li , Ma Xuelei
Published: October 2022

Epithelial ovarian cancer (EOC) ranks as the second most common cause of gynecologic cancer death. The conventional treatment for patients with EOC is postoperative therapy along with platinum chemotherapy. However, a more efficient treatment regimen is of great need for these patients diagnosed with advanced disease (FIGO stages III–IV), whose survival is approximately 29%. Immunotherapy seems to be an encouraging therapeutic strategy for EOC. Given the crucial role in the complicated interactions between tumor cells and other cells, the tumor microenvironment (TME) influences the response to immunotherapy. In this review, we discuss feasible strategies for EOC immunotherapy by exploiting the reciprocity of cancer cells and the constituents of the TME.
Microbial dysbiosis in the gut drives systemic autoimmune diseases
Authors: Mousa Walaa K. , Chehadeh Fadia , Husband Shannon
Published: October 2022

Trillions of microbes survive and thrive inside the human body. These tiny creatures are crucial to the development and maturation of our immune system and to maintain gut immune homeostasis. Microbial dysbiosis is the main driver of local inflammatory and autoimmune diseases such as colitis and inflammatory bowel diseases. Dysbiosis in the gut can also drive systemic autoimmune diseases such as type 1 diabetes, rheumatic arthritis, and multiple sclerosis. Gut microbes directly interact with the immune system by multiple mechanisms including modulation of the host microRNAs affecting gene expression at the post-transcriptional level or production of microbial metabolites that interact with cellular receptors such as TLRs and GPCRs. This interaction modulates crucial immune functions such as differentiation of lymphocytes, production of interleukins, or controlling the leakage of inflammatory molecules from the gut to the systemic circulation. In this review, we compile and analyze data to gain insights into the underpinning mechanisms mediating systemic autoimmune diseases. Understanding how gut microbes can trigger or protect from systemic autoimmune diseases is crucial to (1) tackle these diseases through diet or lifestyle modification, (2) develop new microbiome-based therapeutics such as prebiotics or probiotics, (3) identify diagnostic biomarkers to predict disease risk, and (4) observe and intervene with microbial population change with the flare-up of autoimmune responses. Considering the microbiome signature as a crucial player in systemic autoimmune diseases might hold a promise to turn these untreatable diseases into manageable or preventable ones.
Role of periostin in inflammatory bowel disease development and synergistic effects mediated by the CCL5–CCR5 axis
Authors: Mukanova Saida , Borissenko Anton , Kim Alexey , Bolatbek Aigerim , Abdrakhmanova Ainur , Vangelista Luca , Sonnenberg-Riethmacher Eva , Riethmacher Dieter
Published: October 2022

Inflammatory bowel disease (IBD), comprising mainly Crohn’s disease (CD) and ulcerative colitis (UC), is a chronic inflammatory disease of the gastrointestinal tract. In recent years, a wealth of data has been accumulated demonstrating the complex interplay of many different factors in the pathogenesis of IBD. Among these are factors impacting the epithelial barrier function, including vessel and extracellular matrix (ECM) formation, the gut microbiome (e.g., bacterial antigens), and, most importantly, the production of cytokines (pro- and anti-inflammatory) directly shaping the immune response. Patients failing to resolve the acute intestinal inflammation develop chronic inflammation. It has been shown that the expression of the matricellular protein periostin is enhanced during IBD and is one of the drivers of this disease. The C-C chemokine receptor 5 (CCR5) is engaged by the chemotactic mediators CCL3/MIP-1α, CCL4/MIP-1β, and CCL5/RANTES. CCR5 blockade has been reported to ameliorate inflammation in a murine IBD model. Thus, both periostin and CCR5 are involved in the development of IBD. In this study, we investigated the potential crosstalk between the two signaling systems and tested a highly potent CCL5 derivative acting as a CCR5 antagonist in a murine model of IBD. We observed that the absence of periostin influences the CCR5-expressing cell population of the gut. Our data further support the notion that targeted modulation of the periostin and CCR5 signaling systems bears therapeutic potential for IBD.
Integrated time-series transcriptomic and metabolomic analyses reveal different inflammatory and adaptive immune responses contributing to host resistance to PRRSV
Authors: Wu Qingqing , Han Yu , Wu Xianmeng , Wang Yuan , Su Qiuju , Shen Yang , Guan Kaifeng , Michal Jennifer J. , Jiang Zhihua , Liu Bang , Zhou Xiang
Published: October 2022

Porcine reproductive and respiratory syndrome virus (PRRSV) is a highly contagious disease that affects the global pig industry. To understand mechanisms of susceptibility/resistance to PRRSV, this study profiled the time-serial white blood cells transcriptomic and serum metabolomic responses to PRRSV in piglets from a crossbred population of PRRSV-resistant Tongcheng pigs and PRRSV-susceptible Large White pigs. Gene set enrichment analysis (GSEA) illustrated that PRRSV infection up-regulated the expression levels of marker genes of dendritic cells, monocytes and neutrophils and inflammatory response, but down-regulated T cells, B cells and NK cells markers. CIBERSORT analysis confirmed the higher T cells proportion in resistant pigs during PRRSV infection. Resistant pigs showed a significantly higher level of T cell activation and lower expression levels of monocyte surface signatures post infection than susceptible pigs, corresponding to more severe suppression of T cell immunity and inflammatory response in susceptible pigs. Differentially expressed genes between resistant/susceptible pigs during the course of infection were significantly enriched in oxidative stress, innate immunity and humoral immunity, cell cycle, biotic stimulated cellular response, wounding response and behavior related pathways. Fourteen of these genes were distributed in 5 different QTL regions associated with PRRSV-related traits. Chemokine CXCL10 levels post PRRSV infection were differentially expressed between resistant pigs and susceptible pigs and can be a promising marker for susceptibility/resistance to PRRSV. Furthermore, the metabolomics dataset indicated differences in amino acid pathways and lipid metabolism between pre-infection/post-infection and resistant/susceptible pigs. The majority of metabolites levels were also down-regulated after PRRSV infection and were significantly positively correlated to the expression levels of marker genes in adaptive immune response. The integration of transcriptome and metabolome revealed concerted molecular events triggered by the infection, notably involving inflammatory response, adaptive immunity and G protein-coupled receptor downstream signaling. This study has increased our knowledge of the immune response differences induced by PRRSV infection and susceptibility differences at the transcriptomic and metabolomic levels, providing the basis for the PRRSV resistance mechanism and effective PRRS control.
Effects of feeding injury from Popillia japonica (Coleoptera: Scarabaeidae) on soybean spectral reflectance and yield
Authors: Ribeiro Arthur V. , Cira Theresa M. , MacRae Ian V. , Koch Robert L.
Published: October 2022

Remote sensing has been shown to be a promising technology for the detection and monitoring of plant stresses including insect feeding. Popillia japonica Newman, is an invasive insect species in the United States, and a pest of concern to soybean, Glycine max (L.) Merr., in the upper Midwest. To investigate the effects of P. japonica feeding injury (i.e., defoliation) on soybean canopy spectral reflectance and yield, field trials with plots of caged soybean plants were established during the summers of 2020 and 2021. In each year, field-collected P. japonica adults were released into some of the caged plots, creating a gradient of infestation levels and resulting injury. Estimates of injury caused by P. japonica, ground-based hyperspectral readings, total yield, and yield components were obtained from the caged plots. Injury was greatest in the upper canopy of soybean in plots infested with P. japonica. Overall mean canopy injury (i.e., across lower, middle, and upper canopy) ranged from 0.23 to 6.26%, which is representative of injury levels observed in soybean fields in the Midwest United States. Feeding injury from P. japonica tended to reduce measures of soybean canopy reflectance in near infra-red wavelengths (~700 to 1000 nm). These results indicate that remote sensing has potential for detection of injury from P. japonica and could facilitate scouting for this pest. Effects of P. japonica injury on total yield were not observed, but a reduction in seed size was detected in one of the two years. The threat to soybean yield posed by P. japonica alone appears minimal, but this pest adds to the guild of other defoliating insects in soybean whose combined effects could threaten yield. The results of this research will guide refinement of management recommendations for this pest in soybean and hold relevance for other cropping systems.
Movements and diving behavior of Risso’s dolphins in the Southern California Bight
Authors: Rone Brenda K. , Sweeney David A. , Falcone Erin A. , Watwood Stephanie L. , Schorr Gregory S.
Published: October 2022

Risso’s dolphins (Grampus griseus), uncommon prior to the 1970’s, are now regularly observed within the Southern California Bight. During long-term cetacean monitoring programs on United States Navy range areas in the Southern California Bight from 2009–2019, we deployed 16 Argos-linked satellite tags on Risso’s to acquire objective, detailed depictions of their movements and behaviors. Individuals were tracked for a median of 10.7 days (range = 0.8 – 19.7). Kernel density estimation suggested individuals utilized the entire Southern California Bight with the 50% core use area centered around San Clemente and Santa Catalina Islands where most of the tag deployments occurred. Grand median dive depth was 101 m (max = 528) and dive duration was 5.6 min (max = 11.1). We used generalized mixed models to assess seasonal and environmental effects on distribution and diving behavior including month, distance to shore, time of day, lunar phase, sea surface temperature, and chlorophyll-aresiduals. Animals were further from shore (including islands) during a full versus new moon and from the mainland during the last versus first quarter moon. Animals also tended to be closer to land in the fall and early winter months. Dives were deeper yet shorter during the night, during a full moon, and when animals were further offshore. Animals conducted nearly twice as many dives at night compared to day, though deep dives (> 500 m) occurred at all times of day. This study provides insights into Risso’s distribution and behavioral trends while identifying priorities for future research.
Was that my meal? Uncertainty from source sampling period in diet reconstruction based on stable isotopes in a syngnathid fish
Authors: Planas Miquel
Published: October 2022

Stable isotopes can be used to reconstruct diet in fishes, an approach that is particularly useful in threatened or endangered species where lethal sampling needs to be avoided To apply this method stable isotopes need to be measured both in the consumers and dietary sources As turnover rates may largely differ across tissues, the reconstruction should consider the uncertainty associated with sampling timing for both consumers and dietary sources. The present study investigated for the first time the application of a time lag for the estimation of the trophic position and the dietary regime in the greater pipefish Syngnathus acus (Family Syngnathidae). For that, two isotopic (δ13C and δ15N) data sets from dorsal fin-clipped tissues were used, including values in potential sources sampled (a) concomitantly with consumers (Unshifted approach) or (b) in the season sampled preceding consumer sampling (Shifted approach). The results attained indicate that the trophic position of the species was not affected (< 0.6% change) by shifting when analyzed for the annual dataset (global assessment). However, the trophic level estimated in the shifted treatment was ca. 6% higher than in the unshifted approach when the analysis was performed using a seasonal dataset (seasonal assessment including exclusively specimens collected in summer). Regarding the reconstruction of the dietary regime and in comparison to the unshifted approach, the results attained with shifted sampling revealed a higher preference for amphipods (43.7%), isopods (19.5%) and mysidaceans (12.1%), and a reduction in the reconstructed abundance for harpacticoid copepods (5.1%). These findings were similar to those attained for specimens and food web components collected in the same sampling period (seasonal dataset), both in females and males. This study demonstrates (1) the variability of estimates in the reconstruction of diet regimes depending on the data time shifting applied, and (2) the importance of considering adequate time lags in the assessment for syngnathid fishes.
Eco-friendly concrete using by-products as partial replacement of cement
Authors: El-Nadoury Wegdan W.
Published: October 2022

The current challenge facing the construction industry is to produce sustainable concrete at the lowest feasible cost. One obstacle to that is the demand for an excessive amount of cement. The reduction of cement content can be achieved by its partial replacement with by-product materials that attain an appropriate pozzolanic index. Two by-products namely; Ceramic waste powder (CWP) and rice husk ash (RHA) are remarkably formed throughout tiles and rice production. Using these by-products as a partial substitution for cement reduces landfills, the cost of concrete, and climate change due to cement production. This paper investigates the effect of replacing 5%, 15%, 20%, 25%, and 30% of cement with CWP. Varied proportions of RHA; 5%, 10%, 15%, and 25% were added to the mix with the optimum CWP. The concrete mixture was proportioned to produce M35-grade concrete. Properties of concrete were assessed concerning workability, compressive, splitting tensile, and flexural strength. The results are compared to conventional concrete with 0% replacement. Results identified that 20% substitution of cement by CWP is the optimum percentage. It increases the compressive, splitting tensile, and flexural strength by 11%, 20%, and 12.5% respectively. Increasing the percentage up to 30% has minor effect on tensile and flexural strength but has destructive effect on compressive strength. Blending cement with CWP and RHA additionally improves the mechanical properties. The combination of 20% CWP/10% RHA propose superior strength, it increases the compressive, tensile, and flexural strength by 14%, 28%, and 19% compared to the control concrete.
Case report: Detection of anti-bullous pemphigoid antigen 180 antibodies in a patient with Behçet’s disease
Authors: Didona Dario , Sequeira Santos Antonio Manuel , Cunha Tomas , Hinterseher Julia , Kussini Jacqueline , Hertl Michael
Published: October 2022

Behçet’s disease (BD) is a systemic inflammatory disease of unknown etiology. BD is characterized by relapsing oral and genital ulcers, several different cutaneous features, relapsing bilateral uveitis, and involvement of internal organs, showing vascular, gastrointestinal, and neurological manifestations. Serologically, BD is not characterized by disease-specific autoantibodies. In fact, only laboratory markers of inflammation, such as C-reactive protein, may be increased in association with increased disease activity. Bullous pemphigoid (BP) is an autoimmune disease characterized mainly by tense blisters and urticaria-like plaques on the skin. In addition, BP can involve oral mucosa in up to 20% of patients. Patients with BP show serum IgG autoantibodies against BP antigen 180 (BP180) and/or BP antigen 230 (BP230). Tissue-bound autoantibodies can be visualized as linear IgG staining along the basement membrane by direct immunofluorescence microscopy. In this report, we first described a young patient with BD who showed IgG autoantibodies against BP180 without developing blisters or urticaria-like plaques.
Optical coherence tomography angiography as a surrogate marker for end-organ resuscitation in sepsis: A review
Authors: Courtie Ella , Gilani Ahmed , Veenith Tonny , Blanch Richard J.
Published: October 2022

Sepsis is a severe illness which results in alterations in the end organ microvascular haemodynamics and is associated with a high risk of mortality. There is currently no real-time method of monitoring microcirculatory perfusion during sepsis. Retinal microcirculation is closely linked to cerebral perfusion and may reflect systemic vascular alterations. Retinal perfusion can be assessed using the non-invasive imaging technique of optical coherence tomography angiography (OCTA). This narrative review aims to discuss the utility of using retinal imaging and OCTA in systemic illness and sepsis. OCTA can be used as a functional, non-invasive and real-time biomarker along with other haemodynamic parameters for assessing and managing patients with sepsis.
Spontaneous hepatic rupture during late pregnancy in a patient with solitary necrotic nodule of the liver: A case report
Authors: Wang Jilong , Yi Qilin , Guo Ya , Peng Tao
Published: October 2022

Background

Spontaneous hepatic rupture (SHR) during pregnancy is a rare and life-threatening event, which usually occurs together with preeclampsia, eclampsia, HELLP syndrome, or liver tumors. However, SHR resulting from solitary necrotic nodule of the liver (SNNL) is extremely rare.

Case presentation

We report the case of a 32-year-old pregnant woman who presented at 33 weeks of gestation with abdominal pain and emesis. Transabdominal ultrasound and magnetic resonance imaging revealed massive hemoperitoneum and lesions in the left lobe of the liver. An emergency cesarean section was performed and the hepatic rupture was managed surgically via left lateral lobectomy. The postprocedural course was uneventful. The premature baby successfully survived, and the patient was discharged 8 days after admission without complications. Histological examination revealed a diagnosis of SNNL, which resulted in the hepatic hematoma and SHR.

Conclusion

To our knowledge, this is the first case of SHR resulting from SNNL during late pregnancy. Multidisciplinary collaboration and surgical management are important cornerstones for improving the perinatal outcomes when SHR is suspected in a pregnant patient.
The early stage of COVID-19 pandemic: Gastrointestinal manifestations and liver injury in COVID-19 patients in Wuhan, China
Authors: Chen Dafan , Ning Min , Feng Yun , Liu Jun
Published: October 2022

There are few and inconsistent data focusing on gastrointestinal (GI) manifestations and liver injury in China's early stage of COVID-19 pandemic. In this study, we research the prevalence and role of GI symptoms and liver injury in COVID-19 patients in Wuhan during the disease's first outbreak. We conducted a cross-sectional observational study in a non-ICU unit in Wuhan, China. COVID-19 patients were consecutively admitted from 23 February 2020 to 5 April 2020. Demographic and clinical data were retrieved and analyzed throughout the disease course. A total of 93 patients were enrolled, including 45.2% moderate, 54.8% severe, and 2.2% critical type patients. 69.9% of patients had at least one GI symptom; if excluding hyporexia/anorexia, 49.5% of patients showed at least one GI symptom. The incidence rate of hyporexia/anorexia, diarrhea, nausea/vomiting, abdominal discomfort/pain, and elevated liver enzymes were 67.7, 29.0, 28.0, 21.5, and 23.7%, respectively. Patients with GI symptoms or elevated liver enzymes have a higher risk of severe type disease than patients without GI symptoms or elevated liver enzymes (67.7 vs. 25.0%, p < 0.001; 77.3 vs. 47.9%, p = 0.016, respectively), and experienced longer disease duration. In multivariate analysis, hyporexia/anorexia was confirmed as an independent predictive factor of severe type disease (odds ratio: 5.912; 95% confidence interval: 2.247–15.559; p < 0.001). In conclusion, in the early stage of the COVID-19 pandemic, GI symptoms and elevated liver enzymes are common throughout the disease course, and associated with severer disease and longer disease duration.
Florfenicol and oxazolidone resistance status in livestock farms revealed by short- and long-read metagenomic sequencing
Authors: Yang Xue , Zhang Tiejun , Lei Chang-Wei , Wang Qin , Huang Zheren , Chen Xuan , Wang Hong-Ning
Published: October 2022

Antibiotic resistance genes (ARGs) as a novel type of environmental pollutant pose a health risk to humans. Oxazolidinones are one of the most important antibiotics for the treatment of Gram-positive bacterial infections in humans. Although oxazolidinones are not utilized in the livestock industry, florfenicol is commonly used on farms to treat bacterial infections, which may contribute to the spread of the cfr, optrA, and poxtA genes on farms. Using metagenomics sequencing, we looked into the antibiotic resistome context of florfenicol and oxazolidinone in 10 large-scale commercial farms in China. We identified 490 different resistance genes and 1,515 bacterial genera in the fecal samples obtained from 10 farms. Florfenicol-resistant Kurthia, Escherichia, and Proteus were widely present in these samples. The situation of florfenicol and oxazolidone resistance in pig farms is even more severe. The total number of genes and the abundance of drug resistance genes were higher in pigs than in chickens, including optrA and poxtA. All the samples we collected had a high abundance of fexA and floR. Through nanopore metagenomic analysis of the genetic environment, we found that plasmids, integrative and conjugative element (ICE), and transposons (Tn7-like and Tn558) may play an important role in the spread of floR, cfr, and optrA. Our findings suggest that florfenicol and oxazolidinone resistance genes have diverse genetic environments and are at risk of co-transmission with, for example, tetracycline and aminoglycoside resistance genes. The spread of florfenicol- and oxazolidinone–resistant bacteria on animal farms should be continuously monitored.
State-of-the-art review of the clinical research on menopause and hormone replacement therapy association with Parkinson’s disease: What meta-analysis studies cannot tell us
Authors: Unda Santiago R. , Marciano Sabina , Milner Teresa A. , Marongiu Roberta
Published: October 2022

The menopause is a midlife endocrinological process that greatly affects women’s central nervous system functions. Over the last 2 decades numerous clinical studies have addressed the influence of ovarian hormone decline on neurological disorders like Parkinson’s disease and Alzheimer’s disease. However, the findings in support of a role for age at menopause, type of menopause and hormone replacement therapy on Parkinson’s disease onset and its core features show inconsistencies due to the heterogeneity in the study design. Here, we provide a unified overview of the clinical literature on the influence of menopause and ovarian hormones on Parkinson’s disease. We highlight the possible sources of conflicting evidence and gather considerations for future observational clinical studies that aim to explore the neurological impact of menopause-related features in Parkinson’s disease.
Cellular reaction gene regulation network for swarm robots with pattern formation maneuvering control
Authors: Xiao Zhenlong , Wang Xin , Hong Lin
Published: October 2022

Self-organized pattern formation enables swarm robots to interact with local environments to self-organize into intricate structures generated by gene regulatory network (GRN) control methods without global knowledge. Previous studies have reported that it is challenging to maintain pattern formation stability during maneuvering in the environment due to local morphogenetic reaction rules. Motivated by the mechanism of the GRN in multi-cellular organisms, we propose a novel cellular reaction gene regulatory network (CR-GRN) for pattern formation maneuvering control. In CR-GRN, a cellular reaction network is creatively proposed to depict the robots, environment, virtual target pattern, and their interaction to generate emergent swarm behavior in multi-robot systems. A novel diffusion equation is proposed to simulate the process of morphogen diffusion among cells to ensure stable adaptive pattern generation. In addition, genes, proteins, and morphogens are used to define the internal and external states of cells and form a feedback regulation network. Simulation experiments are conducted to validate the proposed method. The results show that the CR-GRN can satisfy the requirements of turning curvature and maintain the robot's uniformity based on the proposed algorithm. This proves that robots using the CR-GRN can cooperate more effectively to cope in a complicated environment, and maintain a stable formation during maneuvering.
Defective PTEN-induced kinase 1/Parkin mediated mitophagy and neurodegenerative diseases
Authors: Braun Megan M. , Puglielli Luigi
Published: October 2022

The selective degradation of mitochondria through mitophagy is a crucial process for maintaining mitochondrial function and cellular health. Mitophagy is a specialized form of selective autophagy that uses unique machinery to recognize and target damaged mitochondria for mitophagosome- and lysosome-dependent degradation. This process is particularly important in cells with high metabolic activity like neurons, and the accumulation of defective mitochondria is a common feature among neurodegenerative disorders. Here, we describe essential steps involved in the induction and progression of mitophagy, and then highlight the various mechanisms that specifically contribute to defective mitophagy in highly prevalent neurodegenerative diseases such as Parkinson’s disease, Alzheimer’s disease, Huntington’s disease, and Amyotrophic Lateral Sclerosis.
Meningo-cortical manifestations of myelin oligodendrocyte glycoprotein antibody-associated disease: Review of a novel clinico-radiographic spectrum
Authors: Budhram Adrian , Mirian Ario , Sharma Manas
Published: October 2022

Myelin oligodendrocyte glycoprotein antibody-associated disease (MOGAD) is an inflammatory demyelinating disease that is distinct from multiple sclerosis. Initial manifestations of MOGAD that were reported in the literature included optic neuritis, myelitis, brainstem demyelination and encephalitis, with emphasis placed on acute disseminated encephalomyelitis (ADEM) as the primary encephalitic presentation. In 2017, however, Ogawa et al. described four patients with seizures, unilateral cortical hyperintensities on brain magnetic resonance imaging T2-fluid-attenuated inversion recovery sequences, and anti-MOG positivity, indicating a potentially novel form of encephalitis in MOGAD. In 2019, we systematically reviewed the literature to better characterize this unique syndrome, which we referred to as unilateral cortical FLAIR-hyperintense Lesions in Anti-MOG-associated Encephalitis with Seizures (FLAMES). Subsequently, anti-MOG positivity in patients with a variety of cortical and meningeal disease presentations has been reported, indicating a broader spectrum of meningo-cortical manifestations in MOGAD that we review herein.