bluuebunny/crossref_metadata_2025 huggingface dataset:
Climate change-induced invasion risk of ecosystem disturbing alien plant species: An evaluation using species distribution modeling
Authors: Adhikari Pradeep , Lee Yong Ho , Adhikari Prabhat , Hong Sun Hee , Park Yong-Soon
Published: July 2022

Species distribution modeling is widely used for evaluating invasion risk, and for prioritizing areas for the control and management of invasive species. However, selecting a modeling tool that accurately predicts species invasion risk requires a systematic approach. In this study, five species distribution models (SDMs), namely, artificial neural network (ANN), generalized linear model (GLM), multivariate adaptive regression splines (MARS), maximum entropy (MaxEnt), and random forest (RF), were performed and evaluated their model performance using the mean value of area under the curve (AUC), true skill statistics (TSS), and Kappa scores of 12 ecosystem disturbing alien plant species (EDAPS). The mean evaluation metric scores were highest in RF (AUC = 0.924 ± 0.058, TSS = 0.789 ± 0.109, Kappa = 0.671 ± 0.096, n = 12) and lowest in ANN. The ANOVA of AUC, TSS, and Kappa metrics revealed the RF model was significantly different from other SDMs and was therefore selected as the relatively best model. The potential distribution area and invasion risk for each EDAPS were quantified. Under the current climate conditions of South Korea, the average potential distribution area of EDAPS was estimated to be 13,062 km2. However, in future climate change scenarios, the average percentage change of EDAPS distribution relative to the current climate was predicted to be increased over 219.93%. Furthermore, under the current climate, 0.16% of the area of the country was estimated to be under a very high risk of invasion, but this would increase to 60.43% by 2070. Invasion risk under the current climate conditions was highest in the northwestern, southern, and southeastern regions, and in densely populated cities, such as Seoul, Busan, and Daegu. By 2070, invasion risk was predicted to expand across the whole country except in the northeastern region. These results suggested that climate change induced the risk of EDAPS invasiveness, and SDMs could be valuable tools for alien and invasive plant species risk assessment.
Combining food web theory and population dynamics to assess the impact of invasive species
Authors: Vagnon Chloé , Rohr Rudolf P. , Bersier Louis-Félix , Cattanéo Franck , Guillard Jean , Frossard Victor
Published: July 2022

The impacts of invasive species on resident communities are driven by a tangle of ecological interactions difficult to quantify empirically. Combining a niche model with a population dynamic model, both allometrically parametrized, may represent a consistent framework to investigate invasive species impacts on resident communities in a food web context when empirical data are scarce. We used this framework to assess the ecological consequences of an invasive apex predator (Silurus glanis) in peri-Alpine lake food webs. Both increases and decreases of resident species abundances were highlighted and differed when accounting for differentS. glanisbody sizes. Complementarily, the prominence of indirect effects, such as trophic cascades, suggested that common approaches may only capture a restricted fraction of invasion consequences through direct predation or competition. By leveraging widely available biodiversity data, our approach may provide relevant insights for a comprehensive assessment and management of invasive species impacts on aquatic ecosystems.
The importance of complete and high-quality genome sequences in Aspergillus niger research
Authors: Ellena Valeria , Steiger Matthias G.
Published: July 2022

The possibility to sequence the entire genome of an organism revolutionized the fields of biology and biotechnology. The first genome sequence of the important filamentous fungus Aspergillus niger was obtained in 2007, 11 years after the release of the first eukaryotic genome sequence. From that moment, genomics of A. niger has seen major progresses, facilitated by the advances in the sequencing technologies and in the methodologies for gene function prediction. However, there are still challenges to face when trying to obtain complete genomes, equipped with all the repetitive sequences that they contain and without omitting the mitochondrial sequences.

The aim of this perspective article is to discuss the current status of A. niger genomics and draw attention to the open challenges that the fungal community should address to move research of this important fungus forward.
Differential Frequencies of Intermediate Monocyte Subsets Among Individuals Infected With Drug-Sensitive or Drug-Resistant Mycobacterium tuberculosis
Authors: Sampath Pavithra , Natarajan Alangudi Palaniappan , Moideen Kadar , Kathamuthu Gokul Raj , Hissar Syed , Dhanapal Madhavan , Jayabal Lavanya , Ramesh Paranchi Murugesan , Tripathy Srikanth Prasad , Ranganathan Uma Devi , Babu Subash , Bethunaickan Ramalingam
Published: July 2022

The rampant increase in drug-resistant tuberculosis (TB) remains a major challenge not only for treatment management but also for diagnosis, as well as drug design and development. Drug-resistant mycobacteria affect the quality of life owing to the delayed diagnosis and require prolonged treatment with multiple and toxic drugs. The phenotypic modulations defining the immune status of an individual during tuberculosis are well established. The present study aims to explore the phenotypic changes of monocytes & dendritic cells (DC) as well as their subsets across the TB disease spectrum, from latency to drug-sensitive TB (DS-TB) and drug-resistant TB (DR-TB) using traditional immunophenotypic analysis and by uniform manifold approximation and projection (UMAP) analysis. Our results demonstrate changes in frequencies of monocytes (classical, CD14++CD16-, intermediate, CD14++CD16+ and non-classical, CD14+/-CD16++) and dendritic cells (DC) (HLA-DR+CD11c+ myeloid DCs, cross-presenting HLA-DR+CD14-CD141+ myeloid DCs and HLA-DR+CD14-CD16-CD11c-CD123+ plasmacytoid DCs) together with elevated Monocyte to Lymphocyte ratios (MLR)/Neutrophil to Lymphocyte ratios (NLR) and alteration of cytokine levels between DS-TB and DR-TB groups. UMAP analysis revealed significant differential expression of CD14+, CD16+, CD86+ and CD64+ on monocytes and CD123+ on DCs by the DR-TB group. Thus, our study reveals differential monocyte and DC subset frequencies among the various TB disease groups towards modulating the immune responses and will be helpful to understand the pathogenicity driven by Mycobacterium tuberculosis.
An imaging mass cytometry immunophenotyping panel for non-human primate tissues
Authors: Niewold Paula , Ijsselsteijn Marieke E. , Verreck Frank A. W. , Ottenhoff Tom H. M. , Joosten Simone A.
Published: July 2022

It has recently become clear that spatial organization contributes to cellular function and that expanding our knowledge on cellular organization is essential to further our understanding of processes in health and disease. Imaging mass cytometry enables high dimensional imaging of tissue while preserving spatial context and is therefore a suitable tool to unravel spatial relationships between cells. As availability of human tissue collected over the course of disease or infection is limited, preclinical models are a valuable source of such material. Non-human primate models are used for translational research as their anatomy, physiology and immune system closely resemble those of humans due to close evolutionary proximity. Tissue from non-human primate studies is often preserved large archives encompassing a range of conditions and organs. However, knowledge on antibody clones suitable for FFPE tissue of non-human primate origin is very limited. Here, we present an imaging mass cytometry panel development pipeline which enables the selection and incorporation of antibodies for imaging of non-human primate tissue. This has resulted in an 18-marker backbone panel which enables visualization of a broad range of leukocyte subsets in rhesus and cynomolgus macaque tissues. This high-dimensional imaging mass cytometry panel can be used to increase our knowledge of cellular organization within tissues and its effect on outcome of disease.
The Role of The Tumor Microbiome in Tumor Development and Its Treatment
Authors: Chen Yan , Wu Fa-Hong , Wu Peng-Qiang , Xing Hong-Yun , Ma Tao
Published: July 2022

Commensal bacteria and other microorganisms that reside in the human body are closely associated with the development and treatment of cancers. Recently, tumor microbiome (TM) has been identified in a variety of cancers such as pancreatic, lung, and breast cancers. TM has different compositions in different tumors and has different effects on tumors. TM plays an important role in the formation of the tumor microenvironment, regulation of local immunity, and modification of tumor cell biology, and directly affects the efficacy of drug treatment for tumors. TM is expected to be a biomarker for tumors, and engineered tumor-targeting bacteria and anti-cancer microbial agents (GEN-001) have an important role in the treatment of tumors. This paper reviews the relevant studies on TM in recent years and describes its distribution in different tumors, its correlation with clinical features, its effect on local immunity, and the research directions of TM in tumor treatment.
Oncolytic viruses combined with immune checkpoint therapy for colorectal cancer is a promising treatment option
Authors: Ren Yi , Miao Jia-Meng , Wang Yuan-Yuan , Fan Zheng , Kong Xian-Bin , Yang Long , Cheng Gong
Published: July 2022

Immunotherapy is one of the promising strategies in the treatment of oncology. Immune checkpoint inhibitors, as a type of immunotherapy, have no significant efficacy in the clinical treatment of patients with pMMR/MSS/MSI-L mCRC alone. Therefore, there is an urgent need to find combination therapies that can improve the response rate of immune checkpoint inhibitors. Oncolytic viruses are a new class of cancer drugs that, in addition to directly lysing tumor cells, can facilitate the action of immune checkpoint inhibitors by modulating the tumor microenvironment and transforming “cold” tumors into “hot” ones. The combination of oncolytic viruses and immune checkpoint inhibitors is currently being used in several primary and clinical studies to treat tumors with exciting results. The combination of genetically modified “armed” OV with ICIs is expected to be one of the treatment options for pMMR/MSS/MSI-L mCRC. In this paper, we will analyze the current status of oncolytic viruses and ICIs available for the treatment of CRC. The feasibility of OV in combination with ICI for CRC will be discussed in terms of the mechanism of action of OV in treating tumors.
Carbon Dioxide Sequestration by Microbial Carbonic Anhydrases From Submarine Hydrothermal Systems
Authors: Ma Xiaoyi , Liu Le , Tang Kai
Published: July 2022

Owing to serious environmental and climatic impacts of increasing carbon dioxide (CO2) concentrations, there is an urgent need for the development of efficient CO2 capture methods. Carbonic anhydrases (CAs) can mediate CO2 capture via a rapid reaction between CO2 and bicarbonate ions. However, because of their stability, most of the CAs are not suitable for use in hostile environments (high temperature, high alkalinity, high pressure, and solvent). Therefore, this review explores thermophilic microorganisms in submarine hydrothermal environments as a valuable source of thermostable tolerant CAs, and highlights the questions and future directions that must be addressed for the application of CAs in CO2 capture.
Distribution, Sources, and Biogeochemistry of Carbon Pools (DIC, DOC, and POC) in the Mangrove-Fringed Zhangjiang Estuary, China
Authors: Yan Ran , Feng Jianxiang , Wang Yuming , Fu Linxi , Luo Xiangxin , Niu Lixia , Yang Qingshu
Published: July 2022

The lateral carbon export related to mangroves is of great scientific significance and ecological value in the global carbon cycle. The dissolved inorganic carbon (DIC), dissolved organic carbon (DOC), particulate organic carbon (POC), and stable isotopes (δ13CPOC) of water samples were quantified in the flood (September 2020) and dry (January 2021) seasons in Zhangjiang Estuary. The results revealed that the carbon compositions in the tidal channel of the Zhangjiang Estuary are as follows: DIC > DOC > POC in both seasons. Except for the POC in the site near the sluice, the contents of all carbon compositions were significantly larger in the flood season than those in the dry season (p< 0.05). In the flood season, the POC and DOC exhibited similar spatial characteristics that all sites from the lower sites to the mouth were significantly larger than the site near the sluice. The DIC had an increasing trend from the upper site to the mouth. In the dry season, DIC and DOC displayed patchy distribution under the influence of mariculture and the sluice, while the POC had a decreasing trend from the upper site to the mouth. The MixSIAR model indicates that the source of the POC is overwhelmingly the mariculture, averagely accounting for 42.7% in the flood season and 52.6% in the dry season, mainly in the form of microalgae. The average contribution of mangrove to POC was 33.1% in the flood season and 39.3% in the dry season. The DIC-δ13CPOC and DOC-POC relationships represent the biogeochemical process of microbial photosynthesis and the physical process of adsorption-desorption of organic carbon by redundancy analysis, respectively. This initial dataset for this region should be included in other studies to improve the mangrove outwelling estimate.
Drivers of the North Aegean Sea Ecosystem (Eastern Mediterranean) Through Time: Insights From Multidecadal Retrospective Analysis and Future Simulations
Authors: Tsagarakis Konstantinos , Libralato Simone , Giannoulaki Marianna , Touloumis Konstantinos , Somarakis Stylianos , Machias Athanassios , Frangoulis Constantin , Papantoniou Georgia , Kavadas Stefanos , Stoumboudi Maria Th.
Published: July 2022

Ecosystem models are important tools for the implementation of Ecosystem Based Fisheries Management (EBFM), especially in highly exploited ecosystems affected by climate change, such as the Mediterranean Sea. Herein, we present the development of an Ecopath ecosystem model for the North Aegean Sea (Eastern Mediterranean) in the early 1990s, as well as the parameterization of the temporal dynamic module (Ecosim) after fitting to catch and relative biomass time series for the period 1993-2020. The Ecosim model included as drivers (i) fishing, assuming a technology creep factor of 2% annual increase (0.79% for bottom trawls), (ii) Sea Surface Temperature, (iii) trophic interactions and (iv) a Primary Production (PP) Anomaly which was positively correlated with the North Atlantic Oscillation of the previous year, highlighting the synergistic effect of environmental and anthropogenic processes during the three-decades hindcast period. Trends in biomasses, catches and ecosystem indicators were characterized by a decline from 1993 to 2010 and a strong recovery thereafter. Sea warming scenarios for the period 2021-2050 indicated contrasting responses to increased temperature among the main commercial groups, while simulations of changes in productivity had relatively straightforward effects. Two scenarios of 10% and 25% reduction in fishing effort revealed quick increases in the biomass of most commercial species, though coupled with lower catches due to reduced fishing, except for few groups that their population increase was remarkably high. Although the 25% effort reduction resulted in high recoveries in the short term, it didn’t necessarily lead to constantly high biomasses resulting in reduced catches towards the end of the forecast period for some groups, in contrast to the 10% reduction. When impacts of reduced productivity were added to temperature effects, the model forecasted lower biomass increases for the winners of sea warming and even higher decreases for the losers. Biomass losses were compensated by a 10% reduction in fishing effort, but this was not overall enough to counterbalance losses in catches. The model developed here contributes to better elucidate observed changes in the past and to hind directions of change in future simulations, as well as to advance EBFM in the area.
Evaluating Catch-Only Methods to Inform Fisheries Management in the East China Sea
Authors: Dai Libin , Hodgdon Cameron T. , Xu Luoliang , Gao Chunxia , Tian Siquan , Chen Yong
Published: July 2022

China contributes the largest catches to global marine wild-capture fisheries. The majority of them are harvested from China Seas which are highly productive, but are facing heavy fisheries exploitation. The status of exploited fisheries stocks in China Seas have remained largely unknown due to severe data-limited conditions, which hindered their sustainable use and effective management. Although the off-the-shelf use of catch-only methods (COMs) has been cautioned because of their poor estimation performance, such methods have been increasingly applied to infer the status of exploited stocks in China Seas without performance evaluation. In this study, we established an empirical approach to evaluate the performance of a suite of COMs in predicting stock biomass status for the data-limited fisheries in the East China Sea (ECS) from data-rich stocks with similar characteristics in the RAM Legacy Stock Assessment Database (RLSADB). The results confirmed that ensemble approaches performed better than the individual COMs in estimating the mean of stock biomass status for data-rich stocks selected from RLSADB. By contrast, mechanistic COMs demonstrated more accurate estimates when predicting the trend of stock biomass status. The stock status of commercial fisheries in ECS estimated by three mechanistic COMs (Catch-MSY, CMSY, and OCOM) was likely too optimistic for most species. We suggest that China establish its national database and develop and implement regular monitoring programs to satisfy formal statistical stock assessment for its coastal fisheries.
Examining the expansion of Spartina alterniflora in coastal wetlands using an MCE-CA-Markov model
Authors: Yan Dandan , Li Jingtai , Xie Siying , Liu Yao , Sheng Yufeng , Luan Zhaoqing
Published: July 2022

The spread ofSpartina alterniflora(smooth cordgrass) has put biodiversity and ecosystem function at risk since it was introduced to China just a few decades ago. A better understanding of how the range ofS. alterniflorawill expand in the future will help manage the invasion of this species in coastal wetlands. However, it is difficult to model the future extent ofSpartinasaltmarshes in China. To address this issue, we combined multi criteria evaluation with traditional CA Markov model to provide robust forecasting of the spatial expansion ofS. alterniflorafor the next ten years, at Dafeng Milu National Nature Reserve, Jiangsu, China. Our results showed that, compared with the interpretation results of high-resolution remote sensing images in 2020, the kappa coefficient of verification accuracy was 82.63%, indicating that the MCE-CA-Markov model has good prediction results. Therefore, the model can forecast the expansion process ofS. alternifloraover the next ten years. The model predicts that the area ofS. alternifloracontinued to decrease from 910.25 ha in 2020 to 881.21 ha in 2030. The spatial distribution ofS. alterniflorahas been decreasing on the landward side while it has been expanding towards the sea on the seaward side. This study provides some suggestions for effective management and control of invasive species, which could be important for wetland biodiversity conservation and resource management.
Unsteady extension of quasi-steady physical modeling and experimental verification of a magnetorheological energy absorber
Authors: Zou Zhiyuan , Zhang Honghui , Liao Changrong , Wang Ning
Published: July 2022

Magnetorheological (MR) fluids are promising in controllable damping based on regulated apparent viscosity under magnetic field control, and they are employed in various damping devices such as automotive dampers and energy absorbers for artillery or landing gears by medium substitution with structural adaptations. In this study, we designed and fabricated a magnetorheological energy absorber (MREA) with disc springs as recoiling parts, modeled the MR fluid flow based on the Bingham constitutive model, and then carried out unsteady extension based on the quasi-steady model. The experimental tests of the MREA show that the unsteady extension of the quasi-steady model can designate the behaviors of the MREA in different impact speeds better than the original; thus, the controllability of the MREA is verified. An interesting phenomenon, where a rippled MREA peak force is observed at the saturated excitation when the impact speed is not so high and disappears when the impact speed is high enough, is accounted from the viewpoint of flow modeling and finally verified by more experimental results.
Comparison of the Efficacy and Safety of Single-Session OK-432 and Multiple-Session 99% Ethanol Sclerotherapy for Symptomatic Simple Hepatic Cysts
Authors: Mo Zhiqiang , Yang Fangfang , Lv Ling , He Jian , Gou Qin , Chen Xiaoming , Zhuang Wenhang , Mai Qicong
Published: July 2022

Purpose

This retrospective study aimed to compare the efficacy and safety of single-session OK-432 and multiple-session 99% ethanol sclerotherapy for symptomatic simple hepatic cysts.

Methods

We reviewed patients who received aspiration sclerotherapy with OK-432 (group A) or 99% ethanol (group B) for symptomatic simple hepatic cysts at Guangdong Provincial People's Hospital from January 2013 to November 2019.

Results

We included 42 patients in group A and 39 patients in group B. No significant difference was found in the mean volume of hepatic cysts between the two groups. The overall success rates were 92.9% (39 of 42 patients) in group A and 79.5% (31 of 39 patients) in group B (P = 0.08). The treatment success for cyst volumes <200 ml, 200–500 ml, and >500 ml was 100, 93.3, and 88.2% in group A, and 100, 84.6, and 57.1% in group B, respectively. The symptomatic relief rate in group A was higher than that in group B for cysts ≥500 ml (P = 0.049) and cysts <500 ml. For treatment-related complications, the incidence of pain at the injection site in group A was lower than that in group B.

Conclusion

Single-session OK-432 sclerotherapy was safer and more effective than multiple-session 99% ethanol sclerotherapy for treating large cysts, although both treatments had similar effects on small cysts.
Advancing precision medicines for ocular disorders: Diagnostic genomics to tailored therapies
Authors: Panikker Priyalakshmi , Roy Shomereeta , Ghosh Anuprita , Poornachandra B. , Ghosh Arkasubhra
Published: July 2022

Successful sequencing of the human genome and evolving functional knowledge of gene products has taken genomic medicine to the forefront, soon combining broadly with traditional diagnostics, therapeutics, and prognostics in patients. Recent years have witnessed an extraordinary leap in our understanding of ocular diseases and their respective genetic underpinnings. As we are entering the age of genomic medicine, rapid advances in genome sequencing, gene delivery, genome surgery, and computational genomics enable an ever-increasing capacity to provide a precise and robust diagnosis of diseases and the development of targeted treatment strategies. Inherited retinal diseases are a major source of blindness around the world where a large number of causative genes have been identified, paving the way for personalized diagnostics in the clinic. Developments in functional genetics and gene transfer techniques has also led to the first FDA approval of gene therapy for LCA, a childhood blindness. Many such retinal diseases are the focus of various clinical trials, making clinical diagnoses of retinal diseases, their underlying genetics and the studies of natural history important. Here, we review methodologies for identifying new genes and variants associated with various ocular disorders and the complexities associated with them. Thereafter we discuss briefly, various retinal diseases and the application of genomic technologies in their diagnosis. We also discuss the strategies, challenges, and potential of gene therapy for the treatment of inherited and acquired retinal diseases. Additionally, we discuss the translational aspects of gene therapy, the important vector types and considerations for human trials that may help advance personalized therapeutics in ophthalmology. Retinal disease research has led the application of precision diagnostics and precision therapies; therefore, this review provides a general understanding of the current status of precision medicine in ophthalmology.
Urinary CD8+HLA-DR+ T Cell Abundance Non-invasively Predicts Kidney Transplant Rejection
Authors: Grothgar Emil , Goerlich Nina , Samans Bjoern , Skopnik Christopher M. , Metzke Diana , Klocke Jan , Prskalo Luka , Freund Paul , Wagner Leonie , Duerr Michael , Matz Mareen , Olek Sven , Budde Klemens , Paliege Alexander , Enghard Philipp
Published: July 2022

Early detection of kidney transplant (KT) rejection remains a challenge in patient care. Non-invasive biomarkers hold high potential to detect rejection, adjust immunosuppression, and monitor KT patients. So far, no approach has fully satisfied requirements to innovate routine monitoring of KT patients. In this two-center study we analyzed a total of 380 urine samples. T cells and tubular epithelial cells were quantified in KT patients with graft deterioration using flow cytometry. Epigenetic urine cell quantification was used to confirm flow cytometric results. Moreover, a cohort of KT patients was followed up during the first year after transplantation, tracking cell subsets over time. Abundance of urinary cell counts differed in patients with and without rejection. Most strikingly, various T cell subsets were enriched in patients with T cell-mediated rejection (TCMR) compared to patients without TCMR. Among T cell subsets, CD8+HLA-DR+ T cells were most distinctive (AUC = 0.91, Spec.: 95.9%, Sens.: 76.5%). Epigenetic analysis confirmed T cell and tubular epithelial cell quantities as determined by flow cytometry. Urinary T cell abundance in new KT patients decreased during their first year after transplantation. In conclusion urinary T cells reflect intrarenal inflammation in TCMR. T cell subsets yield high potential to monitor KT patients and detect rejection. Hereby we present a promising biomarker to non-invasively diagnose TCMR.
Extracorporeal membrane oxygenation support for lung transplantation: Initial experience in a single center in China and a literature review
Authors: Zhao Yanfeng , Su Yiliang , Duan Ruowang , Song Jiong , Liu Xiaogang , Shen Lei , Ding Junrong , Zhang Pei , Bao Minwei , Chen Chang , Zhu Yuming , Jiang Gening , Li Yuping
Published: July 2022

Background

Extracorporeal membrane oxygenation (ECMO) is a versatile tool associated with favorable outcomes in the field of lung transplantation (LTx). Here, the clinical outcomes and complications of patients who underwent LTx with ECMO support, mainly prophylactically both intraoperatively and post-operatively, in a single center in China are reviewed.

Methods

The study cohort included all consecutive patients who underwent LTx between January 2020 and January 2022. Demographics and LTx data were retrospectively reviewed. Perioperative results, including complications and survival outcomes, were assessed.

Results

Of 86 patients included in the study, 32 received ECMO support, including 21 who received prophylactic intraoperative use of ECMO with or without prolonged post-operative use (pro-ECMO group), while the remaining 54 (62.8%) received no external support (non-ECMO group). There were no significant differences in the incidence of grade 3 primary graft dysfunction (PGD), short-term survival, or perioperative outcomes and complications between the non-ECMO and pro-ECMO groups. However, the estimated 1- and 2-year survival were superior in the pro-ECMO group, although this difference was not statistically significant (64.1% vs. 82.4%, log-rank P = 0.152; 46.5% vs. 72.1%, log-rank P = 0.182, respectively). After regrouping based on the reason for ECMO support, 30-day survival was satisfactory, while 90-day survival was poor in patients who received ECMO as a bridge to transplantation. However, prophylactic intraoperative use of ECMO and post-operative ECMO prolongation demonstrated promising survival and acceptable complication rates. In particular, patients who initially received venovenous (VV) ECMO intraoperatively with the same configuration post-operatively achieved excellent outcomes. The use of ECMO to salvage a graft affected by severe PGD also achieved acceptable survival in the rescue group.

Conclusions

Prophylactic intraoperative ECMO support and post-operative ECMO prolongation demonstrated promising survival outcomes and acceptable complications in LTx patients. Particularly, VV ECMO provided safe and effective support intraoperatively and prophylactic prolongation reduced the incidence of PGD in selected patients. However, since this study was conducted in a relatively low-volume transplant center, further studies are needed to validate the results.
Past, present and future in low-risk myelodysplastic syndrome
Authors: Toprak Selami Kocak
Published: July 2022

Myelodysplastic syndromes (MDS) is a heterogeneous group of disorders characterized by increased risk of acute myeloid leukemia transformation and cytopenia. The prognosis of MDS patients can be evaluated with various scoring systems, the most commonly used are IPSS (International Prognostic Scoring System), revised-IPSS, and WPSS (WHO classification-based prognostic scoring system). MDS treatment is decided according to the risk classification. The goal of treatment in low-risk MDS is to improve cytopenia, reduce transfusion needs, improve quality of life, prolong overall survival, and maybe reduce the risk of progression to leukemia. In the near future, combining both genomics-based, ex vivo functional based and molecular stratification analysis will lead the way to a personalized and targeted approach.
Multiphysics pharmacokinetic model for targeted nanoparticles
Authors: Glass Emma M. , Kulkarni Sahil , Eng Christina , Feng Shurui , Malaviya Avishi , Radhakrishnan Ravi
Published: July 2022

Nanoparticles (NP) are being increasingly explored as vehicles for targeted drug delivery because they can overcome free therapeutic limitations by drug encapsulation, thereby increasing solubility and transport across cell membranes. However, a translational gap exists from animal to human studies resulting in only several NP having FDA approval. Because of this, researchers have begun to turn toward physiologically based pharmacokinetic (PBPK) models to guide in vivo NP experimentation. However, typical PBPK models use an empirically derived framework that cannot be universally applied to varying NP constructs and experimental settings. The purpose of this study was to develop a physics-based multiscale PBPK compartmental model for determining continuous NP biodistribution. We successfully developed two versions of a physics-based compartmental model, models A and B, and validated the models with experimental data. The more physiologically relevant model (model B) had an output that more closely resembled experimental data as determined by normalized root mean squared deviation (NRMSD) analysis. A branched model was developed to enable the model to account for varying NP sizes. With the help of the branched model, we were able to show that branching in vasculature causes enhanced uptake of NP in the organ tissue. The models were solved using two of the most popular computational platforms, MATLAB and Julia. Our experimentation with the two suggests the highly optimized ODE solver package DifferentialEquations.jl in Julia outperforms MATLAB when solving a stiff system of ordinary differential equations (ODEs). We experimented with solving our PBPK model with a neural network using Julia's Flux.jl package. We were able to demonstrate that a neural network can learn to solve a system of ODEs when the system can be made non-stiff via quasi-steady-state approximation (QSSA). Our model incorporates modules that account for varying NP surface chemistries, multiscale vascular hydrodynamic effects, and effects of the immune system to create a more comprehensive and modular model for predicting NP biodistribution in a variety of NP constructs.
Analysis of intact prophages in genomes of Paenibacillus larvae: An important pathogen for bees
Authors: Ribeiro Henrique G. , Nilsson Anna , Melo Luís D. R. , Oliveira Ana
Published: July 2022

Paenibacillus larvae is the etiological agent of American Foulbrood (AFB), a highly contagious and worldwide spread bacterial disease that affects honeybee brood. In this study, all complete P. larvae genomes available on the NCBI database were analyzed in order to detect presence of prophages using the PHASTER software. A total of 55 intact prophages were identified in 11 P. larvae genomes (5.0 ± 2.3 per genome) and were further investigated for the presence of genes encoding relevant traits related to P. larvae. A closer look at the prophage genomes revealed the presence of several putative genes such as metabolic and antimicrobial resistance genes, toxins or bacteriocins, potentially influencing host performance. Some of the coding DNA sequences (CDS) were present in all ERIC-genotypes, while others were only found in a specific genotype. While CDS encoding toxins and antitoxins such as HicB and MazE were found in prophages of all bacterial genotypes, others, from the same category, were provided by prophages particularly to ERIC I (enhancin-like toxin), ERIC II (antitoxin SocA) and ERIC V strains (subunit of Panton-Valentine leukocidin system (PVL) LukF-PV). This is the first in-depth analysis of P. larvae prophages. It provides better knowledge on their impact in the evolution of virulence and fitness of P. larvae, by discovering new features assigned by the viruses.
Ensemble Learning-Based Feature Selection for Phage Protein Prediction
Authors: Liu Songbo , Cui Chengmin , Chen Huipeng , Liu Tong
Published: July 2022

Phage has high specificity for its host recognition. As a natural enemy of bacteria, it has been used to treat super bacteria many times. Identifying phage proteins from the original sequence is very important for understanding the relationship between phage and host bacteria and developing new antimicrobial agents. However, traditional experimental methods are both expensive and time-consuming. In this study, an ensemble learning-based feature selection method is proposed to find important features for phage protein identification. The method uses four types of protein sequence-derived features, quantifies the importance of each feature by adding perturbations to the features to influence the results, and finally splices the important features among the four types of features. In addition, we analyzed the selected features and their biological significance.
Nanoparticles in ocular applications and their potential toxicity
Authors: Yang Cao , Yang Junling , Lu Ao , Gong Jing , Yang Yuanxing , Lin Xi , Li Minghui , Xu Haiwei
Published: July 2022

Nanotechnology has been developed rapidly in recent decades and widely applied in ocular disease therapy. Nano-drug delivery systems overcome the bottlenecks of current ophthalmic drug delivery and are characterized with strong biocompatibility, stability, efficiency, sustainability, controllability, and few side effects. Nanoparticles have been identified as a promising and generally safe ophthalmic drug-delivery system based on the toxicity assessment in animals. Previous studies have found that common nanoparticles can be toxic to the cornea, conjunctiva, and retina under certain conditions. Because of the species differences between humans and animals, advanced in vitro cell culture techniques, such as human organoids, can mimic the human organism to a certain extent, bringing nanoparticle toxicity assessment to a new stage. This review summarizes the advanced application of nanoparticles in ocular drug delivery and the potential toxicity, as well as some of the current challenges and future opportunities in nanotoxicological evaluation.
Cerebral small vessel disease mediates the association between homocysteine and cognitive function
Authors: Teng Zhenjie , Feng Jing , Liu Ronghui , Ji Yifan , Xu Jing , Jiang Xin , Chen Huifang , Dong Yanhong , Meng Nan , Xiao Yining , Xie Xiaohua , Lv Peiyuan
Published: July 2022

Objective

To investigate the relations of serum total homocysteine (tHcy) with cerebral small vessel disease (CSVD) and cognitive function and evaluate whether CSVD mediates the effect of serum tHcy on cognitive function.

Methods

A total of 1,033 consecutive eligible participants who received serum tHcy, brain magnetic resonance imaging (MRI), and neuropsychological assessment were included in this retrospective study. White matter hyperintensity, lacune, cerebral microbleed, and enlarged perivascular space were evaluated based on brain MRI. We used multivariate binary logistic regression analysis, multivariate ordinal logistic regression analysis, and mediation analyses to assess the relations of serum tHcy with CSVD and cognitive function.

Results

Serum tHcy levels were higher in patients with cognitive impairment than those with no cognitive impairment. Logistic regression analyses showed elevated serum tHcy was associated with cognitive impairment [odds ratio (OR): 10.475; 95% confidence interval (CI): 4.522 to 24.264; p < 0.001] and a higher CSVD burden score (OR: 17.151; 95% CI: 8.785 to 33.921; p < 0.001) after adjusting potential confounders. Compared with the lowest tHcy quartile, the multivariable-adjusted OR of the highest quartile was 4.851 (95% CI: 3.152 to 7.466; p for the trend < 0.001) for cognitive impairment, 3.862 (95% CI: 2.467 to 6.047; p for the trend < 0.001) for a severe CSVD burden score. Mediation analyses showed significant moderating effects (9.3–23.6%) by different imaging markers of CSVD on the association between higher serum tHcy levels and cognitive impairment.

Conclusion

Elevated serum tHcy is associated with cognitive impairment and the development of CSVD. A proportion of the association between elevated serum tHcy and cognitive impairment may be attributed to the presence of different imaging markers of CSVD, especially the severe CSVD burden score.
Blood-Brain Barrier Alterations and Edema Formation in Different Brain Mass Lesions
Authors: Solar Peter , Hendrych Michal , Barak Martin , Valekova Hana , Hermanova Marketa , Jancalek Radim
Published: July 2022

Differential diagnosis of brain lesion pathologies is complex, but it is nevertheless crucial for appropriate clinical management. Advanced imaging methods, including diffusion-weighted imaging and apparent diffusion coefficient, can help discriminate between brain mass lesions such as glioblastoma, brain metastasis, brain abscesses as well as brain lymphomas. These pathologies are characterized by blood-brain barrier alterations and have been extensively studied. However, the changes in the blood-brain barrier that are observed around brain pathologies and that contribute to the development of vasogenic brain edema are not well described. Some infiltrative brain pathologies such as glioblastoma are characterized by glioma cell infiltration in the brain tissue around the tumor mass and thus affect the nature of the vasogenic edema. Interestingly, a common feature of primary and secondary brain tumors or tumor-like brain lesions characterized by vasogenic brain edema is the formation of various molecules that lead to alterations of tight junctions and result in blood-brain barrier damage. The resulting vasogenic edema, especially blood-brain barrier disruption, can be visualized using advanced magnetic resonance imaging techniques, such as diffusion-weighted imaging and apparent diffusion coefficient. This review presents a comprehensive overview of blood-brain barrier changes contributing to the development of vasogenic brain edema around glioblastoma, brain metastases, lymphomas, and abscesses.
An Infrared Sequence Image Generating Method for Target Detection and Tracking
Authors: Zhijian Huang , Bingwei Hui , Shujin Sun
Published: July 2022

Training infrared target detection and tracking models based on deep learning requires a large number of infrared sequence images. The cost of acquisition real infrared target sequence images is high, while conventional simulation methods lack authenticity. This paper proposes a novel infrared data simulation method that combines real infrared images and simulated 3D infrared targets. Firstly, it stitches real infrared images into a panoramic image which is used as background. Then, the infrared characteristics of 3D aircraft are simulated on the tail nozzle, skin, and tail flame, which are used as targets. Finally, the background and targets are fused based on Unity3D, where the aircraft trajectory and attitude can be edited freely to generate rich multi-target infrared data. The experimental results show that the simulated image is not only visually similar to the real infrared image but also consistent with the real infrared image in terms of the performance of target detection algorithms. The method can provide training and testing samples for deep learning models for infrared target detection and tracking.
The Quest for Anti-α-Synuclein Antibody Specificity—Lessons Learnt From Flow Cytometry Analysis
Authors: Leupold Lukas , Sigutova Veronika , Gerasimova Elizaveta , Regensburger Martin , Zundler Sebastian , Zunke Friederike , Xiang Wei , Winner Beate , Prots Iryna
Published: July 2022

The accumulation of alpha-synuclein (aSyn) is the hallmark of a group of neurodegenerative conditions termed synucleopathies. Physiological functions of aSyn, including those outside of the CNS, remain elusive. However, a reliable and reproducible evaluation of aSyn protein expression in different cell types and especially in low-expressing cells is impeded by the existence of a huge variety of poorly characterized anti-aSyn antibodies and a lack of a routinely used sensitive detection methods. Here, we developed a robust flow cytometry-based workflow for aSyn detection and antibody validation. We test our workflow using three commercially available antibodies (MJFR1, LB509, and 2A7) in a variety of human cell types, including induced pluripotent stem cells, T lymphocytes, and fibroblasts, and provide a cell- and antibody-specific map for aSyn expression. Strikingly, we demonstrate a previously unobserved unspecificity of the LB509 antibody, while the MJFR1 clone revealed specific aSyn binding however with low sensitivity. On the other hand, we identified an aSyn-specific antibody clone 2A7 with an optimal sensitivity for detecting aSyn in a range of cell types, including those with low aSyn expression. We further utilize our workflow to demonstrate the ability of the 2A7 antibody to distinguish between physiological differences in aSyn expression in neuronal and non-neuronal cells from the cortical organoids, and in neural progenitors and midbrain dopaminergic neurons from healthy controls and in patients with Parkinson's disease who have aSyn gene locus duplication. Our results provide a proof of principle for the use of high-throughput flow cytometry-based analysis of aSyn and highlight the necessity of rigorous aSyn antibody validation to facilitate the research of aSyn physiology and pathology.
A Systematic Review on Neurological Aspects of COVID-19: Exploring the Relationship Between COVID-19-Related Olfactory Dysfunction and Neuroinvasion
Authors: Purja Sujata , Oh SuA , Kim EunYoung
Published: July 2022

Objectives

To identify neurological aspects of Coronavirus disease 2019 (COVID-19) and to investigate COVID-19 infected patients with and without olfactory dysfunction in relation to polymerase chain reaction (PCR) assay results for severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) in the cerebrospinal fluid (CSF).

Methods

PubMed and EMBASE databases were searched until March 26, 2021, for observational studies with COVID-19 patients that had performed CSF PCR assay due to the neurologic symptom and reported anosmia status.

Results

Initially, 2,387 studies were identified;167 studies performed SARS-CoV-2 CSF PCR assay, of which our review comprised 45 observational studies that conducted CSF PCR assay for SARS-CoV-2 in 101 patients and reported anosmia status in 55 of 101 patients. Central and peripheral neurological manifestations observed in COVID-19 patients were diverse. The most common neurological diagnoses were Guillain-Barré syndrome (GBS) and its variants (24%), followed by encephalopathy (21%). The SARS-CoV-2 PCR assay was positive in only four CSF samples, of which two patients had olfactory dysfunction while the others did not.

Conclusions

The neurological spectrum of COVID-19 is diverse, and direct neuroinvasion of SARS-CoV-2 is rare. The neuroprotection against SARS-CoV-2 in COVID-19 patients with anosmia is controversial, as an equal number of patients with and without olfactory dysfunction had positive CSF PCR results for SARS-CoV-2 in our study, and further studies are required to provide more insight into this topic.
Diagnosis and Management of Fingolimod-Associated Macular Edema
Authors: Wang Chunjiang , Deng Zhenzhen , Song Liying , Sun Wei , Zhao Shaoli
Published: July 2022

Objective

To investigate the clinical features, treatment, and prognosis of fingolimod-associated macular edema (FAME) and to provide a reference for its rational management.

Methods

FAME-related case reports were included in a pooled analysis by searching Chinese and English databases from 2010 to November 31, 2021.

Results

The median age of 41 patients was 50 years (range, 21, 67 years), of whom 32 were women. The median time to onset of FAME was 3 m (range.03, 120), and blurred vision (17 cases) and decreased vision (13 cases) were the most common complaints. A total of 55 eyes were involved in FAME, including the left eye (14 cases), right eye (10 cases), and both eyes (15 cases), of which 46 eyes had best-corrected visual acuity close to normal (20/12-20/60) and 8 eyes had moderate to severe visual impairment (20/80-20/500). Fundus examination in 23 patients showed macular edema (11 cases). Optical coherence tomography (OCT) in 39 patients mainly showed perifoveal cysts (24 cases), ME (23 cases), and foveal thickening (19 cases). Fundus fluorescein angiography (FFA) in 18 patients showed vascular leakage (11 cases). Complete resolution of ME occurred in 50 eyes and recovery of visual acuity occurred in 45 eyes at a median time of 2 m (range 0.25, 24) after discontinuation of fingolimod or administration of topical therapy.

Conclusions

Macular edema is a known complication of fingolimod. All patients using fingolimod require regular eye exams, especially those with a history of diabetes and uveitis and those undergoing cataract surgery.