bluuebunny/crossref_metadata_2025 huggingface dataset:
Soil aggregate structure, stability, and stoichiometric characteristics in a smelter-impacted soil under phytoremediation
Authors: Xu Lei , Xing Xiangyu , Bai Jingfeng , Li Ding
Published: August 2022

Smelter-impacted soils often result in soil degradation and the destruction of the soil structure. Although soil aggregate typically plays a crucial role in soil structure, the influence of phytoremediation on soil aggregate structure stability and stoichiometric characteristics remains unclear. To study the influence of phytoremediation on soil aggregate structure, stability and stoichiometric characteristics, a 3-year in situ experiment was conducted. After hydroxyapatite was applied, Elsholtzia splendens, Sedum plumbizincicola, and Pennisetum sp. were planted in a smelter-impacted soil. After 3 years, the soil aggregate structure, stability, and stoichiometric of chemical elements were analyzed. The results showed that the three phytoremediation treatments increased the content of >0.25 mm mechanically-stable (DR0.25) and water-stable (WR0.25) aggregates by 6.6%–10.4% and 13.3%–17.5%, respectively. Aggregate mean weight diameter (MWD), geometric mean diameter, and aggregate stability rate (AR, %) were significantly increased, and the soil mechanically stable aggregate fractal dimension (D) was significantly reduced after the 3-year remediation. Soil total nitrogen and phosphorus in aggregates with different particle sizes were significantly increased by 11.4%–46.4% and 107%–236% after different plant treatments. For the stoichiometric characteristics of the aggregates, the combined remediation only significantly reduced the value of N:P and C:P in different particle size aggregates and had no significant effect on the C:N in all particle size aggregates. Meanwhile, the combined remediation of hydroxyapatite and Elsholtzia splendens, Sedum plumbizincicola, and Pennisetum sp. in heavy metal heavily contaminated soil could reduce the availability of Cu and Cd by 54.1%–72.3% and 20.3%–47.2% during the 3 years, respectively. In summary, this combined remediation method can be used for the remediation of farmland that is contaminated by heavy metals.
The contribution of weather forecast information to agriculture, water, and energy sectors in East and West Africa: A systematic review
Authors: Agyekum Thomas Peprah , Antwi-Agyei Philip , Dougill Andrew J.
Published: August 2022

The provision of timely and precise weather information could reduce the vulnerability of people to climate change risks. In this study, we conduct a systematic review to synthesize the existing evidence on weather information services for the agriculture, water, and energy sectors of East and West Africa and identify priorities for future research. This systematic review was conducted following the Preferred Reporting Items for Systematic Reviews and Meta-Analysis (PRISMA) statement checklist. The review identified relevant peer-reviewed publications using ScienceDirect and Scopus databases for original research articles published in English from 2000 to 2022. After applying the eligibility criteria, 25 articles were included in the final review. The themes emerging from the articles were extracted, and a summary was provided to illustrate each theme. The review revealed that weather information studies focus more on the agriculture sector than energy production and water resource management. Users of weather information mainly accessed information related to rainfall and temperature, and the information was accessed mainly through radio, mobile phones, and television. Most of the information provided focused on generic meteorological forecasts instead of tailored impact-based forecasts. Only very few users can access, or benefit from the information produced due to poor communication and technical understanding of weather information. In addition, a lack of downscaled information, logistics, and trust hinders the uptake and use of climate information. Consequently, mainstreaming capacity-building of key stakeholders is required to promote effective adoption and strengthening of climate information services across East and West Africa.

Systematic Review Registration: [website], identifier [registration number].
Adoption intensity of a standardized technical system: The higher the better?—Evidence from China
Authors: Li Yu , Hua Yongjun , Liao Bing , Yuan Xiaohao , Zhou Ziyuan
Published: August 2022

Under contract farming, companies usually develop compulsory standardized technical systems for farmers in developing economies. However, in actual production, farmers often have differences in adoption intensity. Using data from 384 households and multinomial endogenous treatment effect regression, this study analyzes factors affecting the adoption intensity of farmers regarding standardized technical systems and estimates the impacts of adoption intensity of the standardized technical systems on household incomes in Chongqing, China. We adapt a multinomial endogenous treatment effect regression framework to correct for selection bias and endogeneity originating from both observed and unobserved heterogeneity. The results show that some factors could significantly affect the adoption intensity, such as farmers, satisfaction with technicians, perception of technology, attitude toward risks of adopting technologies, number of technical trainings, the proportion of leased land, and distances to townships and technology extension stations. Different from current perspectives, the results also indicate that the highest adoption intensity of farmers regarding standardized technical systems does not bring the greatest benefits. Based on the characteristics of a plot, medium adoption intensity has a significant effect on quality improvements and income growth. The conclusion of this study provides an empirical basis for the formulation and evaluation of policies for farmers that apply standardized technology systems in developing countries.
Application of ABB in environmental management accounting: Incorporating MFCA into the budget process
Authors: Qu Longyu , Wang Zhan , Sun Chang , Yin Linsen
Published: August 2022

Traditional management accounting methods are difficult to provide the necessary information for environmental economic management decisions. In response to the increasingly urgent need for decision-related information, a new branch of accounting, environmental management accounting, has emerged and is receiving increasing attention. Material Flow Cost Accounting (MFCA) is a useful tool for managing complex resource and waste streams. However, MFCA is mainly used for ex-post accounting and reporting and no efforts are made to use it for forecasting. In this study, we introduce MFCA method into the budgeting process of manufacturing firms, and thus construct an MFCA-ABB (Activity-Based Budget) model. This model is applied to JLC Company which is a fragrant liquor manufacturer in China, in order to forecast and plan for its resource consumption, positive product output, and negative product generation. Based on the forecasts of involved material flows, inefficiencies in the company’s liquor production process are identified; scenario analysis is then conducted to determine the optimal process and the technology adopted. The proposed MFCA-ABB model turns a pure operating budget into an environmental-economic budget, thus achieving both environmental and economic benefits for the company. Besides, this study makes an attempt to apply ABB in environmental management accounting, which suggests the possibility of applying the conventional management accounting tools, after modified, to the environmental-economic management of manufacturing firms in the future.
Characterization of the atmospheric circulation near the Empty Quarter Desert during major weather events
Authors: Nelli Narendra , Francis Diana , Fonseca Ricardo , Bosc Emmanuel , Addad Yacine , Temimi Marouane , Abida Rachid , Weston Michael , Cherif Charfeddine
Published: August 2022

In this study, we characterize the meteorological conditions and planetary boundary layer dynamics in western United Arab Emirates based on 2012–2020 in-situ measurements. This multi-year analysis is then complemented by an intensive field-campaign in winter 2021 from which we address the main patterns of the atmospheric circulation and the boundary layer structure during typical weather events identified in the long-term analysis. We found that, 10-m and 60-m wind speeds are generally below 5 m s−1 and 8 m s−1, respectively, blowing predominantly from a northerly direction. They peak in intensity at around 12–18 Local Time (LT) and 02–09 LT in association with the sea-breeze and the downward mixing of momentum from the nighttime low-level jet, respectively. The wind is stronger in the cold season, varying mostly in response to mid-latitude baroclinic systems, while the proximity of the site to the core of the Arabian Heat Low leads to more quiescent conditions in the summer. Radiation fog is a regular occurrence mostly from December to February owing to the colder nights and weaker wind speeds, with a peak fog occurrence around local sunrise. Sea fog, which develops when the hotter desert air is transported over the cooler Arabian Gulf waters, is advected to the site in the summer. Deep and very deep convective clouds are more common in March-April in association with organized convective systems, with generally reduced cloud cover from May to October. The region of interest exhibits a monthly-mean aerosol optical depth ranging from ∼0.3 in December-January to ∼1.2 in July due to its increased exposure to dust storms in the summer season. Dust activity is also found to peak during winter and spring associated with the intrusion of cold fronts from mid-latitudes.
Forest protection and permanence of reduced emissions
Authors: McCallister Margaret , Krasovskiy Andrey , Platov Anton , Pietracci Breno , Golub Alexander , Lubowski Ruben , Leslie Gabriela
Published: August 2022

Tropical forests are essential for climate change mitigation. With growing interest over the use of credits from reducing emissions from deforestation and forest degradation (REDD+) and other natural climate solutions within both voluntary and compliance carbon markets, key concerns about the long-term durability of the reductions, or their permanence, arise for countries, corporations, regulators, and policy makers. This paper seeks to analyze the longevity of emissions reductions from different policies to slow down and stop deforestation. To establish conditions of permanence, we conduct numerical analyses using a model based on a cellular automata algorithm that learns from historical deforestation patterns and other spatial features in the Brazilian state of Mato Grosso. First, we simulate increased law enforcement to curb deforestation at a jurisdictional scale from 2025 to 2034, followed by potential policy rollbacks from 2035 to 2050. Second, we consider alternative scenarios to avoid potentially legal deforestation coupled with reforestation. We find spatial and path dependence – a successful policy intervention may permanently change the deforestation trajectory even after potential policy reversals. Hence, permanence depends both on the probability of policy reversals and the risk of emissions overshooting. Our results are important for advancing the understanding around the unsettled debate on the permanence of avoided emissions. Further, this paper argues that as policies to prevent deforestation or reduce emissions otherwise are reversible, permanence should be understood and discussed in a probabilistic and time-dependent framework.
Prognostic and immunological role of SERPINH1 in pan-cancer
Authors: Zhong Huage , Wang Zheng , Wei Xiaoxia , Liu Yaning , Huang Xiaoliang , Mo Xianwei , Tang Weizhong
Published: August 2022

Background: The SERPINH1 gene plays a vital part in tumorigenesis and development, whereas its potential as an immunotherapy target is still unknown. Hence, this research aimed to probe the roles of SERPINH1 in human tumors.

Method: Using The Cancer Genome Atlas (TCGA), Genotype-Tissue Expression (GTEx) database, Oncomine, and SangerBox software, the pan-cancer expression of SERPINH1 and its correlation were systematically analyzed. SERPINH1 protein information was detected by the Human Protein Atlas (HPA) database and STRING database. The genomic alterations of SERPINH1 were studied using the c-BioPortal database. The influence of SERPINH1 on prognosis was analyzed using Kaplan–Meier plotter. The R package “clusterProfiler” was used for enrichment analysis to detect the role of SERPINH1. The TIMER2 database was used to further analyze the correlation between the immune cell infiltration score of TCGA samples and the expression of SERPINH1.

Results: SERPINH1 overexpression was related to worse survival status in pan-cancer. In addition, high expression of SERPINH1 was positively associated with tumor stage and poor prognosis. Moreover, SERPINH1 played an important role in tumor microenvironment and immune regulation. Our study revealed that SERPINH1 expression has a strong correlation with immune cell filtration, immune regulation, chemokines, and immune checkpoints.

Conclusion: Our research found that SERPINH1 was a risk factor and predictor of poor prognosis in various tumors. High expression of SERPINH1 may contribute to tumor immune-suppressive status. Also, SERPINH1 may become a potential immunotherapy target in pan-cancer.
Genomic signatures of artificial selection in fecundity of Pacific white shrimp, Penaeus vannamei
Authors: Sui Juan , Luan Sheng , Cao Jiawang , Dai Ping , Meng Xianhong , Luo Kun , Chen Baolong , Tan Jian , Fu Qiang , Kong Jie
Published: August 2022

Penaeusvannamei is the most important economic shrimp in the world. Many selective breeding programs are carried out to improve its production and performance traits. Although significant differences in the reproductive ability of female P. vannamei under artificial breeding conditions have been reported, the genome-wide adaption of the reproductive ability of domesticated female P. vannamei is less investigated. In this study, whole-genome analysis was performed along with pooled DNA sequencing on two fecundity separated bulks, high fecundity bulk (HB), and low fecundity bulk (LB). Each bulk contained 30 individuals from 3 commercial populations. A sequencing depth of >30× was achieved for each bulk, leading to the identification of 625,181 and 629,748 single nucleotide polymorphisms (SNPs) in HB and LB, respectively. Fixation index (Fst) combined with p ratio allowed for the identification of 145 selective sweep regions, with a sequence length of 14.5 Mb, accounting for 0.59% of the genome. Among the 145 selective sweep regions, a total of 64,046 SNPs were identified, and further verification was performed by genotyping 50 candidate SNPs on 60 samples from the offspring of the three populations. Furthermore, 121 genes were screened from the sweep regions. GO annotation and KEGG enrichment analyses showed that partial genes were essential for fecundity regulation. This study provides important information for in-depth investigation of genomic characteristics for long-term selective breeding on the fecundity of female P. vannamei and will also be important for genome-assisted breeding of P. vannamei in the future.
CDK2AP1 influences immune infiltrates and serves as a prognostic indicator for hepatocellular carcinoma
Authors: Che Yibin , Wang Ge , Xia Qiang
Published: August 2022

Background: Hepatocellular carcinoma (HCC) is a tumor with high malignancy and poor 5-years survival rate. Excellent tumor markers are very important for early clinical diagnosis and prognosis evaluation. Previous studies have shown that CDK2AP1 (Cyclin-dependent kinase 2-associated protein 1) is involved in cell-cycle and epigenetic regulation. In the present study, we assess CDK2AP1 expression, prognostic value, immunomodulatory and possible influencing pathways in HCC.

Method: The Cancer Genome Atlas (TCGA) database was used to analyse gene expression, clinicopathology and prognosis. The protein level of CDK2AP1 in HCC tissues was detected in the Human Protein Atlas (HPA) database. The immune score in HCC to CDKAP1 expression were analyzed using ESTIMATE. Furthermore, we use Tumor IMmune Estimation Resource (TIMER) database to study CDK2AP1 expression and Immune Infiltration Levels in HCC. Co-expressed genes of CDK2AP1 were predicted and elaborated by LinkedOmics.

Results: In normal liver tissues, the expression of CDK2AP1 was significantly lower than tumor tissues, and was correlated with the level of clinical stage and histologic grade in HCC patients. Patients with high expression of CDK2AP1 have a poor prognosis than patients with low CDK2AP1 expression. CDK2AP1 expression level exhibits significantly positive correlations with the number of infiltrating B cells, CD4+ T cells, CD8+ T cells, Macrophages, Neutrophils, and DCs in HCC tissues. KEGG enrichment analysis showed that the related pathways affected by CDK2AP1 mainly include: Fc gamma R-mediated phagocytosis, Th1 and Th2 cell differentiation, Cell cycle, etc. Both in vitro and in vivo experiments confirmed that CDK2AP1 promotes the proliferation and metastasis in hepatocellular carcinoma. Our results highlight the role of CDK2AP1 as an important prognostic indicator and immunotherapy target for HCC patients.

Conclusion: We found CDK2AP1 as a new prognostic biomarker for HCC, which could help explain changes in the biological processes and immune environment lead to liver cancer development. Therefore, CDK2AP1 is a potential new target for HCC therapy.
A comprehensive analysis and validation of cuproptosis-associated genes across cancers: Overall survival, the tumor microenvironment, stemness scores, and drug sensitivity
Authors: Liu Jinsong , Lu Yueyao , Dai Yuyang , Shen Ying , Zeng Cheng , Liu Xiuling , Yu Huayi , Deng Jianzhong , Lu Wenbin
Published: August 2022

Background: Cuproptosis is a novel type of cell death induced by copper. Cuproptosis-associated genes play a crucial part in oncogenesis and the growth and metastasis of tumors. However, the correlations among cuproptosis-associated genes, overall survival, the tumor microenvironment, and drug sensitivity remain unclear. Therefore, we performed an analysis of cuproptosis-associated genes across cancers.

Methods: We downloaded RNA sequence expression data, clinical and survival data, stemness score data, and immune subtype data of cuproptosis-associated genes from the UCSC Xena. Next, we conducted differential analysis, expression analysis and correlation analysis across cancers with various R packages. Moreover, survival analysis and Cox hazard analysis were conducted to investigate the relationships between cuproptosis-associated genes and survival outcomes in various cancer types. Finally, we also analyzed the relationship among the levels of cuproptosis-associated genes across cancers, immune types, the tumor microenvironment, stemness scores, and drug sensitivity. Expression validation of cuproptosis-associated genes in renal cancer and normal tissues by immunohistochemical staining.

Results: We found that 10 cuproptosis-associated genes (FDX1, LIAS, LIPT1, DLD, DLAT, PDHA1, PDHB, MTF1, GLS, and CDKN2A) were differently expressed in 18 tumors and normal tissues. Survival outcomes showed that cuproptosis-associated genes had prognostic value in various cancer types. Moreover, we identified that cuproptosis-associated genes had different levels in six immune subtypes. The study also indicated that the levels of most cuproptosis-associated genes were positively correlated with the RNAss and DNAss. FDX1, LIAS, LIPT1, DLD, DLAT, PDHA1, and PDHB were negatively correlated with immune scores and ESTIMATE scores. In addition, we identified the top 16 drugs strongly sensitivity to cuproptosis-associated genes according to the correlation coefficient. Finally, we also found that cuproptosis-associated genes were significantly correlated with immune subtype, clinical features, the tumor microenvironment, and drug sensitivity in Kidney renal clear cell carcinoma. And the results of immunohistochemical staining analysis was very consistent with the previous analysis.

Conclusion: We performed an overall analysis to uncover the roles of cuproptosis-associated genes in differential expression, survival outcomes, immune subtypes, the tumor microenvironment, stemness scores, and cancer drug sensitivity across cancers.
Diagnostic and prognostic value of m5C regulatory genes in hepatocellular carcinoma
Authors: Yang Xiawei , Yang Feng , Lan Liugen , Wen Ning , Li Haibin , Sun Xuyong
Published: August 2022

Background: A high mortality rate makes hepatocellular carcinoma (HCC) one of the most common types of cancer globally. 5-methylcytosine (m5C) is an epigenetic modification that contributes to the prognosis of several cancers, but its relevance to HCC remains unknown. We sought to determine if the m5C-related regulators had any diagnostic or prognostic value in HCC.

Methods: M5C regulatory genes were screened and compared between HCC and normal tissue from The Cancer Genome Atlas (TCGA)and Gene Expression Omnibus (GEO) databases. Least absolute shrinkage and selection operator method (LASSO) and univariate Cox regression analysis of differentially expressed genes were then performed to identify diagnostic markers. A LASSO prognostic model was constructed using M5C regulatory genes with prognostic values screened by TCGA expression data. HCC patients were stratified based on risk score, then clinical characteristics analysis and immune correlation analysis were performed for each subgroup, and the molecular functions of different subgroups were analyzed using both Gene Set Enrichment Analysis (GSEA) and Gene Set Variation Analysis (GSVA). The prognostic model was evaluated using univariate and multivariate Cox analyses as well as a nomogram. Molecular typing was performed according to m5C regulatory genes and immune checkpoint genes expression respectively, and clinical characterization and immune correlation analysis were performed for each subgroup.

Results: M5C regulatory genes are expressed differently in HCC patients with different clinical and pathological characteristics, and mutations in these genes are frequent. Based on five m5C regulators (NOP2, NSUN2, TET1, YBX1, and DNMT3B), we constructed a prognostic model with high predictive ability. The risk score was found to be an independent prognostic indicator. Additionally, risk scores can also be applied in subgroups with different clinical characteristics as prognostic indicators.

Conclusion: The study combined data from TCGA and GEO for the first time to reveal the genetic and prognostic significance of m5C-related regulators in HCC, which provides new directions for identifying predictive biomarkers and developing molecularly targeted therapies for HCC.
An integrated pan-cancer analysis of PSAT1: A potential biomarker for survival and immunotherapy
Authors: Feng Mingtao , Cui Huanhuan , Tu Wenjing , Li Liangdong , Gao Yang , Chen Lei , Li Deheng , Chen Xin , Xu Fengfeng , Zhou Changshuai , Cao Yiqun
Published: August 2022

Phosphoserine aminotransferase 1 (PSAT1) may be an oncogene that plays an important role in various cancer types. However, there are still many gaps in the expression of PSAT1 gene and its biological impact in different types of tumors. Here, we performed an integrated pan-cancer analysis to explore the potential molecular mechanisms of PSAT1 in cancers. We found that most human tumors express higher levels of PSAT1 than normal tissues, and that higher PSAT1 expression is associated with worse prognosis in Lung adenocarcinoma (LUAD), Pan-kidney cohort (KIPAN) and breast invasive carcinoma (BRCA), etc. In BRCA cases, the prognosis of patients with altered PSAT1 was worse than that of patients without alteration. In addition, PSAT1 hypermethylation is associated with T cell dysfunction and shortened survival time in BRCA. The Gene Set Enrichment Analysis (GSEA) analysis showed that PSAT1 can be enriched into the classic signaling pathways of cancer such as mTORC1 signaling, MYC targets and JAK STAT3. Further analysis demonstrated that PSAT1 was enriched in immune related signaling pathways in LUAD and BRCA. The results of immunoassay showed that PSAT1 was associated with immune cell infiltration in multiple cancer species. Furthermore, expression of PSAT1 was correlated with both tumor mutational burden (TMB) and microsatellite instability (MSI) in BRCA. Additionally, a remarkable correlation was found between PSAT1 expression and TMB in LUAD, and the expression of PSAT1 was negatively correlated with the Tumor Immune Dysfunction and Exclusion (TIDE) value, suggesting a good effect of immunotherapy. Together, these data suggest that PSAT1 expression is associated with the clinical prognosis, DNA methylation, gene mutations, and immune cell infiltration, contributing to clarify the role of PSAT1 in tumorigenesis from a variety of perspectives. What’s more, PSAT1 may be a new biomarker for survival and predicting the efficacy of immunotherapy for LUAD and BRCA.
Investigation of the risk factors to predict cytokine release syndrome in relapsed or refractory B-cell acute lymphoblastic leukemia patients receiving IL-6 knocking down anti-CD19 chimeric antigen receptor T-cell therapy
Authors: Gong Wen-Jie , Qiu Yan , Li Ming-Hao , Chen Li-Yun , Li Yan-Yan , Yu Jing-Qiu , Kang Li-Qing , Sun Ai-Ning , Wu De-Pei , Yu Lei , Xue Sheng-Li
Published: August 2022

CD19 chimeric antigen receptor-T (CAR-T) cell therapy has achieved remarkable results in patients with relapsed or refractory B-cell acute lymphoblastic leukemia (r/r B-ALL). However, the cytokine release syndrome (CRS) was presented in most patients as common toxicity and severe CRS (sCRS) characterized by the sharp increase in interleukin-6 (IL-6) could be life-threatening. We conducted a phase II clinical trial of ssCAR-T-19 cells, anti-CD19 CAR-T cells with shRNA targeting IL-6, in 61 patients with r/r B-ALL. This trial was registered at www.clinicaltrials.gov as #NCT03275493. Fifty-two patients achieved CR while nine patients were considered NR. The median duration of response (DOR) and overall survival (OS) were not reached (>50 months). CRS developed in 81.97% of patients, including 54.10% with grades 1 to 2 (grade 1, 31.15%; grade 2, 22.95%) and 27.87% with grades 3 to 4 (grade 3, 26.23%; grade 4, 1.64%). sCRS occurs earlier than mild CRS (mCRS). A multivariable analysis of baseline characteristics identified high bone marrow disease burden and poor genetic risk before infusion as independent risk factors for sCRS. After infusion, patients with sCRS exhibited larger expansion of ssCAR-T-19 cells, higher peak levels of IL-6, IL-10, and IFN-γ, and suffered more severe hematological and non-hematological toxicities compared with those with mCRS.
Innate lymphocytes: Role in alcohol-induced immune dysfunction
Authors: Ruiz-Cortes Karla , Villageliu Daniel N. , Samuelson Derrick R.
Published: August 2022

Alcohol use is known to alter the function of both innate and adaptive immune cells, such as neutrophils, macrophages, B cells, and T cells. Immune dysfunction has been associated with alcohol-induced end-organ damage. The role of innate lymphocytes in alcohol-associated pathogenesis has become a focus of research, as liver-resident natural killer (NK) cells were found to play an important role in alcohol-associated liver damage pathogenesis. Innate lymphocytes play a critical role in immunity and homeostasis; they are necessary for an optimal host response against insults including infections and cancer. However, the role of innate lymphocytes, including NK cells, natural killer T (NKT) cells, mucosal associated invariant T (MAIT) cells, gamma delta T cells, and innate lymphoid cells (ILCs) type 1–3, remains ill-defined in the context of alcohol-induced end-organ damage. Innate-like B lymphocytes including marginal zone B cells and B-1 cells have also been identified; however, this review will address the effects of alcohol misuse on innate T lymphocytes, as well as the consequences of innate T-lymphocyte dysfunction on alcohol-induced tissue damage.
Primitive genotypic characteristics in umbilical cord neutrophils identified by single-cell transcriptome profiling and functional prediction
Authors: Chen Yi , Huang Jiamin , Guo Zaiwen , Zhu Zhechen , Shao Yiming , Li Linbin , Yang Yunxi , Yu Yanzhen , Liu Lu , Sun Bingwei
Published: August 2022

The function and heterogeneity of neutrophils in neonatal umbilical cord blood (UCB) have not been characterized. In this study, we analyzed the neutrophils in UCB and healthy adults using single-cell RNA sequencing analysis for the first time. We found that neutrophils divided into six subpopulations (G2, G3, G4, G5a, G5b, and G5c) with different marker genes and different functions under homeostasis. Compared with healthy adults, neutrophils of UCB were more naïve and have more obvious degranulation and activation functions. Moreover, we found significant differences in the amount and function of G5b cells between healthy adults and UCB. The amount of G5b group in UCB was lower, but it has more degranulation, secretion and activation functions. In addition, we noted a new subset of G5c labeled by CD52, which almost did not exist in UCB. Besides, its differential genes were enriched in terms such as protein synthesis and mRNA transcription. Furthermore, uncharacteristic transcription factors ZNF-276, ZNF-319 and ZNF-354A were identified in our study. In summary, we first examined the heterogeneity and functional diversity of neutrophils in UCB, and these data provided new insights into the mechanism of neutrophil-mediated diseases of neonates and the wider use of neutrophils in UCB.
Systematic identification of cancer-associated-fibroblast-derived genes in patients with colorectal cancer based on single-cell sequencing and transcriptomics
Authors: Zhao Jia , Chen Ying
Published: August 2022

Colorectal cancer (CRC) has a high incidence rate and poor prognosis, and the available treatment approaches have limited therapeutic benefits. Therefore, understanding the underlying mechanisms of occurrence and development is particularly crucial. Increasing attention has been paid to the pathophysiological role of cancer-associated fibroblasts (CAFs) in the heterogeneous tumour microenvironment. CAFs play a crucial role in tumorigenesis, tumour progression and treatment response. However, routine tissue sequencing cannot adequately reflect the heterogeneity of tumours. In this study, single-cell sequencing was used to examine the fibroblast population in CRC. After cluster analysis, the fibroblast population was divided into four subgroups. The distribution and role of these four subgroups in CRC were found to be different. Based on differential gene expression and lasso regression analysis of the main marker genes in these subgroups, four representative genes were obtained, namely, TCF7L1, FLNA, GPX3 and MMP11. Patients with CRC were divided into the low- and high-risk groups using the prognostic risk model established based on the expression of these four genes. The prognosis of patients in different risk groups varied significantly; patients with low-risk scores had a greater response to PDL1 inhibitors, significant clinical benefits and significantly prolonged overall survival. These effects may be attributed to inhibition of the function of T cells in the immune microenvironment and promotion of the function of tumour-associated macrophages.
Transects in the deep: Opportunities with tele-operated resident seafloor robots
Authors: Chatzievangelou Damianos , Thomsen Laurenz , Doya Carolina , Purser Autun , Aguzzi Jacopo
Published: August 2022

Scientific, industrial and societal needs call urgently for the development and establishment of intelligent, cost-effective and ecologically sustainable monitoring protocols and robotic platforms for the continuous exploration of marine ecosystems. Internet Operated Vehicles (IOVs) such as crawlers, provide a versatile alternative to conventional observing and sampling tools, being tele-operated, (semi-) permanent mobile platforms capable of operating on the deep and coastal seafloor. Here we present outstanding observations made by the crawler “Wally” in the last decade at the Barkley Canyon (BC, Canada, NE Pacific) methane hydrates site, as a part of the NEPTUNE cabled observatory. The crawler followed the evolution of microhabitats formed on and around biotic and/or abiotic structural features of the site (e.g., a field of egg towers of buccinid snails, and a colonized boulder). Furthermore, episodic events of fresh biomass input were observed (i.e., the mass transport of large gelatinous particles, the scavenging of a dead jellyfish and the arrival of macroalgae from shallower depths). Moreover, we report numerous faunal behaviors (i.e., sablefish rheo- and phototaxis, the behavioral reactions and swimming or resting patterns of further fish species, encounters with octopuses and various crab intra- and interspecific interactions). We report on the observed animal reactions to both natural and artificial stimuli (i.e., crawler’s movement and crawler light systems). These diverse observations showcase different capabilities of the crawler as a modern robotic monitoring platform for marine science and offshore industry. Its long deployments and mobility enable its efficiency in combining the repeatability of long-term studies with the versatility to opportunistically observe rarely seen incidents when they occur, as highlighted here. Finally, we critically assess the empirically recorded ecological footprint and the potential impacts of crawler operations on the benthic ecosystem of the Barkley Canyon hydrates site, together with potential solutions to mitigate them into the future.
Autoimmune and immunoserological markers of COVID-19 pneumonia: Can they help in the assessment of disease severity
Authors: Stjepanovic Mihailo I. , Stojanovic Maja R. , Stankovic Sanja , Cvejic Jelena , Dimic-Janjic Sanja , Popevic Spasoje , Buha Ivana , Belic Slobodan , Djurdjevic Natasa , Stjepanovic Mirjana M. , Jovanovic Dragana , Stojkovic-Laloševic Milica , Soldatovic Ivan , Bonaci-Nikolic Branka , Miskovic Rada
Published: August 2022

Background

Immune dysregulation and associated inefficient anti-viral immunity during Coronavirus Disease 2019 (COVID-19) can cause tissue and organ damage which shares many similarities with pathogenetic processes in systemic autoimmune diseases. In this study, we investigate wide range autoimmune and immunoserological markers in hospitalized patients with COVID-19.

Methods

Study included 51 patients with confirmed Severe Acute Respiratory Syndrome Coronavirus 2 infection and hospitalized due to COVID-19 pneumonia. Wide spectrum autoantibodies associated with different autoimmune inflammatory rheumatic diseases were analyzed and correlated with clinical and laboratory features and pneumonia severity.

Results

Antinuclear antibodies (ANA) positivity was found in 19.6%, anti-cardiolipin IgG antibodies (aCL IgG) in 15.7%, and anti-cardiolipin IgM antibodies (aCL IgM) in 7.8% of patients. Positive atypical x anti-neutrophil cytoplasmic antibodies (xANCA) were detected in 10.0% (all negative for Proteinase 3 and Myeloperoxidase) and rheumatoid factor was found in 8.2% of patients. None of tested autoantibodies were associated with disease or pneumonia severity, except for aCL IgG being significantly associated with higher pneumonia severity index (p = 0.036). Patients with reduced total serum IgG were more likely to require non-invasive mechanical ventilation (NIMV) (p < 0.0001). Serum concentrations of IgG (p = 0.003) and IgA (p = 0.032) were significantly lower in this group of patients. Higher total serum IgA (p = 0.009) was associated with mortality, with no difference in serum IgG (p = 0.115) or IgM (p = 0.175). Lethal outcome was associated with lower complement C4 (p = 0.013), while there was no difference in complement C3 concentration (p = 0.135).

Conclusion

Increased autoimmune responses are present in moderate and severe COVID-19. Severe pneumonia is associated with the presence of aCL IgG, suggesting their role in disease pathogenesis. Evaluation of serum immunoglobulins and complement concentration could help assess the risk of non-invasive mechanical ventilation NIMV and poor outcome.
Fertility-enhancing effect of oil-based contrast agents during hysterosalpingography and the variation of this effect within a 3-year follow-up period in infertile patients
Authors: Lu Jingyuan , Qi Dan , Xu Wenjian
Published: August 2022

Objective

The previous study has indicated the fertility-enhancing effect of oil-based contrast agents during hysterosalpingography (HSG) in infertile patients. However, the variation of this effect with the time frame is seldom reported. The current study aimed to explore fertility improvement using oil-based contrast agents and the change of this improvement during the 3-year follow-up period in infertile patients.

Materials and methods

Infertile women who underwent HSG with oil-based contrast agents (N = 500) or water-based contrast agents (N = 500) were enrolled. Spontaneous pregnancy rate and time to pregnancy were assessed at months (M)1, M2, M3, M6, M12, M24, and M36 after HSG.

Results

The spontaneous pregnancy rate was 79% in the oil-based group and 70.2% in the water-based group. The cumulative spontaneous pregnancy rate was increased in the oil-based group when compared with the water-based group (p = 0.015). Fertility-enhancing effect of HSG was increased in the oil-based group when compared with the water-based group at all time points {M1 [odds ratio (OR)]: 1.536}; M2 (OR: 1.455); M3 (OR: 1.494); M6 (OR: 1.356); M9 (OR: 1.288); M12 (OR: 1.249); M24 (OR: 1.131); and M36 (OR: 1.125). While this superiority of the fertility-enhancing effect of HSG in the oil-based group (vs. the water-based group) was decreased with the time frame. Similar findings were also observed based on the physiological cycles.

Conclusion

The HSG procedure with oil-based contrast agents shows a fertility-enhancing effect when compared to water-based contrast agents. This improvement could last at least 1 year while dropping to the normal level within the subsequent 2 years.
The usefulness of endoscopic ultrasound in the diagnosis of gallbladder lesions
Authors: Tamura Takashi , Ashida Reiko , Kitano Masayuki
Published: August 2022

Gallbladder tumors are neoplastic lesions; however, it can be difficult to distinguish between benign and malignant gall bladder tumors before surgery, although endoscopic ultrasound (EUS) is useful for differentiation. Fundamental B mode EUS (FB-EUS) and contrast-enhanced harmonic EUS (CH-EUS) are reported to be useful for the diagnosis of gallbladder tumor because they allow evaluation of polypoid lesion and gallbladder wall thickening. Scoring systems based on FB-EUS imaging are available for the diagnosis of malignant gallbladder polypoid lesions. The characteristic findings of malignant gallbladder polypoid lesions on CH-EUS include the presence of irregular intratumoral vessels and perfusion defects. The characteristic findings of malignant gallbladder wall thickening on FB-EUS include wall thickening >12 mm, hypoechoic internal echogenicity, inhomogeneous internal echo pattern, and disrupted wall layer, whereas CH-EUS findings include hypovascular enhancement and inhomogeneous contrast distribution pattern. In addition, FB-EUS and CH-EUS are useful for evaluating the stage of gallbladder carcinoma because they allow the evaluation of the depth of invasion of the gallbladder wall. It is usually difficult to obtain pathological evidence from gallbladder tumors before surgery and chemotherapy, even though the histological diagnosis is necessary for determining treatment policy. EUS-guided fine needle aspiration (EUS-FNA) is useful for obtaining pathological samples from gallbladder tumors before surgery and chemotherapy. The accuracy rate of EUS-FNA for gallbladder tumor is as high as 90%, but complications such as bile leakage and needle track seeding can be a problem, although it was reported that contrast-enhanced harmonic imaging is useful for avoiding them.
Non-pharmacological treatment in difficult-to-treat rheumatoid arthritis
Authors: Majnik Judit , Császár-Nagy Noémi , Böcskei Georgina , Bender Tamás , Nagy György
Published: August 2022

Although the management of rheumatoid arthritis (RA) has improved remarkably with new pharmacological therapies, there is still a significant part of patients not reaching treatment goals. Difficult-to-treat RA (D2TRA) is a complex entity involving several factors apart from persistent inflammation, thereafter requiring a holistic management approach. As pharmacological treatment options are often limited in D2TRA, the need for non-pharmacological treatments (NPT) is even more pronounced. The mechanism of action of non-pharmacological treatments is not well investigated, NPTs seem to have a complex, holistic effect including the immune, neural and endocrine system, which can have a significant additive benefit together with targeted pharmacotherapies in the treatment of D2TRA. In this review we summarize the current knowledge on different NPT in rheumatoid arthritis, and we propose a NPT plan to follow when managing D2TRA patients.
Investigating the effects of sleep and sleep loss on the different stages of episodic emotional memory: A narrative review and guide to the future
Authors: Cunningham Tony J. , Stickgold Robert , Kensinger Elizabeth A.
Published: August 2022

For two decades, sleep has been touted as one of the primary drivers for the encoding, consolidation, retention, and retrieval of episodic emotional memory. Recently, however, sleep’s role in emotional memory processing has received renewed scrutiny as meta-analyses and reviews have indicated that sleep may only contribute a small effect that hinges on the content or context of the learning and retrieval episodes. On the one hand, the strong perception of sleep’s importance in maintaining memory for emotional events may have been exacerbated by publication bias phenomena, such as the “winner’s curse” and “file drawer problem.” On the other hand, it is plausible that there are sets of circumstances that lead to consistent and reliable effects of sleep on emotional memory; these circumstances may depend on factors such as the placement and quality of sleep relative to the emotional experience, the content and context of the emotional experience, and the probes and strategies used to assess memory at retrieval. Here, we review the literature on how sleep (and sleep loss) influences each stage of emotional episodic memory. Specifically, we have separated previous work based on the placement of sleep and sleep loss in relation to the different stages of emotional memory processing: (1) prior to encoding, (2) immediately following encoding during early consolidation, (3) during extended consolidation, separated from initial learning, (4) just prior to retrieval, and (5) post-retrieval as memories may be restructured and reconsolidated. The goals of this review are three-fold: (1) examine phases of emotional memory that sleep may influence to a greater or lesser degree, (2) explicitly identify problematic overlaps in traditional sleep–wake study designs that are preventing the ability to better disentangle the potential role of sleep in the different stages of emotional memory processing, and (3) highlight areas for future research by identifying the stages of emotional memory processing in which the effect of sleep and sleep loss remains under-investigated. Here, we begin the task of better understanding the contexts and factors that influence the relationship between sleep and emotional memory processing and aim to be a valuable resource to facilitate hypothesis generation and promote important future research.
Disrupting reconsolidation by PKA inhibitor in BLA reduces heroin-seeking behavior
Authors: Zhang Yanghui , Li Haoxian , Hu Ting , Zhao Zijin , Liu Qing , Li Haoyu
Published: August 2022

Drug abuse is considered a maladaptive pathology of emotional memory and is associated with craving and relapse induced by drug-associated stimuli or drugs. Reconsolidation is an independent memory process with a strict time window followed by the reactivation of drug-associated stimulus depending on the basolateral amygdala (BLA). Pharmacology or behavior treatment that disrupts the reconsolidation can effectively attenuate drug-seeking in addicts. Here, we hypothesized that heroin-memory reconsolidation requires cAMP-dependent protein kinase A (PKA) of BLA based on the fundamental effect of PKA in synaptic plasticity and memory process. After 10 days of acquisition, the rats underwent 11 days of extinction training and then received the intra-BLA infusions of the PKA inhibitor Rp-cAMPS at different time windows with/without a reactivation session. The results show that PKA inhibitor treatment in the reconsolidation time window disrupts the reconsolidation and consequently reduces cue-induced reinstatement, heroin-induced reinstatement, and spontaneous recovery of heroin-seeking behavior in the rats. In contrast, there was no effect on cue-induced reinstatement in the intra-BLA infusion of PKA inhibitor 6 h after reactivation or without reactivation. These data suggest that PKA inhibition disrupts the reconsolidation of heroin-associated memory, reduces subsequent drug seeking, and prevents relapse, which is retrieval-dependent, time-limited, and BLA-dependent.
The use of functional near infrared spectroscopy and gait analysis to characterize cognitive and motor processing in early-stage patients with multiple sclerosis
Authors: de Aratanha Maria Adelia , Balardin Joana Bisol , Cardoso do Amaral Carolina , Lacerda Shirley S. , Sowmy Tiago Abrão Setrak , Huppert Theodore J. , Thomaz Rodrigo Barbosa , Speciali Danielli S. , Machado Birajara , Kozasa Elisa Harumi
Published: August 2022

Background

Dual-task paradigms are a known tool to evaluate possible impairments in the motor and cognitive function in patients with multiple sclerosis (MS). A technique to evaluate the cortical function during movement is functional near-infrared spectroscopy (fNIRS). The evaluation of the MS course or its treatment by associating fNIRS with gait measurements may be flexible and low-cost; however, there are no feasibility studies in the literature using these combined techniques in early-stage patients with MS.

Objective

To evaluate cortical hemodynamics using fNIRS and gait parameters in patients at early stages of MS and in healthy controls during a dual-task paradigm.

Methods

Participants performed cognitive tasks while walking to simulate daily activities. Cortical activation maps and gait variability were used to evaluate differences between 19 healthy controls and 20 patients with MS.

Results and conclusion

The results suggest an enhanced cortical activation in the motor planning areas already at the early stages of MS when compared to controls. We have also shown that a systematic analysis of the spatiotemporal gait variability parameters indicates differences in the patient population. The association of cortical and gait parameters may reveal possible compensatory mechanisms related to gait during dual tasking at the early stages of the disease.