bluuebunny/crossref_metadata_2025 huggingface dataset:
An investigation into biochar, acid-modified biochar, and wood vinegar on the remediation of saline−alkali soil and the growth of strawberries
Authors: Pan Xin , Shi Mei , Chen Xichao , Kuang Shaoping , Ullah Habib , Lu Hongxiu , Riaz Luqman
Published: November 2022

The salinization of several hundred million hectares of land poses a serious threat to global food security and biodiversity. Biochar and wood vinegar amendment has been suggested as a possible way to promote plant productivity and improve soil qualities, whereas less emphasis has been placed on the application of biochar in saline−alkaline soils to increase plant productivity. Herein, the single and composite application of sawdust biochar, wood vinegar, and acid-modified biochar on the restoration of coastal saline−alkali soil and plant growth of strawberry seedlings was investigated. Proximate and ultimate analyses and different characterization techniques such as FTIR and scanning electron microscopy were applied to study the physicochemical characteristics of raw and modified biochar. A pot experiment was conducted to explore the effects of different soil additives on soil properties and strawberry growth. Our results revealed that acid-modified biochar shows the most significant promoting effect on strawberry growth, which could increase the weight gain rate, root length, root specific surface area, and root volume of strawberry seedlings by 41.2%, 18.9%, 23.0%, and 34.7%, respectively. Moreover, the application of acid-modified biochar can effectively alleviate soil salinization by reducing soil pH (7.65) and CEC (19.5 cmol/kg). Furthermore, the addition of biochar can significantly improve the community structure of microorganisms (Proteobacteria) and increase the content of bacteria related to soil nutrient cycling (Pseudomonadaceae and Sphingomonadaceae). Preliminary findings from this study suggested that acid-modified biochar is a potentially effective means of preventing soil salinization and increasing economic crop yields.
Effect of green technology innovation on the upgrading of the manufacturing value chain: Evidence from China
Authors: Wang Xiuting , Zhou Jun , Maitlo Qamaruddin
Published: November 2022

Green technology innovation is an important driving force for the upgrading of the manufacturing value chain. The purpose of this study is to explore the effect of green technology innovation on the upgrading of the manufacturing value chain under institutional environments. To this aim, the panel data of 28 provinces in China from 2010 to 2019 and panel threshold regression model are applied. Empirical results show that the effect of green technology innovation on the upgrading of the manufacturing value chain is nonlinear under institutional environments. The effect of formal and informal institutional environments on the relationship between green technology innovation and the upgrading of the manufacturing value chain is also different. The positive effect of green technology innovation on the upgrading of the manufacturing value chain is best when the level of formal institutional environment is high and informal institutional environment is moderate. In addition, when we divide the sample into three regions (Eastern, Central, Western), the effect of green technology innovation on the upgrading of the manufacturing value chain under institutional environments shows regional heterogeneity. Hence, with this calculated optimal interval of institutional environments, the government can adjust and improve institutional environments so as to provide the most favorable institutional conditions for green technology innovation to promote the upgrading of the manufacturing value chain. This research is helpful for the government to make rational decisions according to the situation.
Risk assessment of cadmium pollution in selenium rich areas based on machine learning in the context of carbon emission reduction
Authors: Zhou Wei , Wang Dan , Yan Jiali , Zhang Yangyang , Yang Liangzhe , Jiang Chengfeng , Cheng Hao
Published: November 2022

Machine learning is of great value for the situation analysis and scientific prevention and control of soil heavy metal pollution risk. In this paper, taking the selenium rich area as the research object, the improved Genetic Algorithm (GA)–Back Propagation (BP) algorithm was used to construct the risk assessment model of Cd pollution in this area. Firstly, the content of Cd and Se in the soil of the study area was statistically analyzed based on descriptive statistics and correlation analysis. Then, a three-layer BP neural network structure was designed and optimized by GA algorithm. The individual coding length was calculated by connecting weights and thresholds of Cd and Se elements. Based on 97 groups of field data in this area, the experimental results show that the BP model optimized by GA has faster convergence speed, maintains good generalization ability on the test sample points. Compared with multiple linear regression model (MLRM), GA-BP reduces RMSE by 64.84, 52.12, 49.53, and 63.18% compared with M5. The accuracy of estimating Cd pollution status in different areas by GA-BP neural network model is higher than the other three regression models on the whole. In the whole research region, the samples in the safe interval, relatively safe interval, light pollution interval, moderate pollution interval and severe pollution interval accounted for 4.12, 8.24, 42.26, 17.52 and 27.86%, respectively, and the prediction results of soil Cd pollution level showed that only 12.36% of the samples were in a safe state without the risk of Cd pollution, while most of the samples were in a mild state. Because of the huge potential of carbon sequestration and emission reduction in agriculture, planting se-rich and Cd-low crops in these areas can not only promote the development of local Se-rich industries but also achieve carbon sequestration and emission reduction.
Aboveground biomass of marshes in Northeast China: Spatial pattern and annual changes responding to climate change
Authors: Ren Yongxing , Mao Dehua , Li Xiaoyan , Wang Zongming , Xi Yanbiao , Feng Kaidong
Published: November 2022

Examining vegetation aboveground biomass (AGB) changes is important to understanding wetland carbon sequestration. Here, we combined the field-measured AGB data (458 samples) from 2009 to 2021, moderate resolution imaging spectroradiometer reflectance products, and climatic data to reveal the AGB variations of marshes in Northeast China by comparing various models driven by different indicators. The results indicated that random forest model driven by six vegetation indices, land surface temperature, and land surface water index achieved accurate marsh AGB estimation with R2 being 0.78 and relative error being 16.71%. The mean marsh AGB in Northeast China from 2000 to 2021 was 682.89 ± 31.69 g·m−2, which generally increased from north to south in space. Temporally, annual marsh AGB declined slowly at a rate of 3.45 g·m−2·year−1 during the past 21 years driven mainly by the decrease in summer mean temperature that was characterized by a significantly positive correlation between them. Nevertheless, we highlighted that the temporal changes of marsh AGB spatially varied in response to inconsistent climate change, thus place-based measures are required for sustainable management of marshes.
Contrasting effects of dispersal network heterogeneity on ecosystem stability in rock-paper-scissors games
Authors: Guo Guanming , Zhang Zeyu , Zhang Helin , Bearup Daniel , Liao Jinbao
Published: November 2022

Intransitive competition, typically represented by the classic rock-paper-scissors game, provides an endogenous mechanism promoting species coexistence. As well known, species dispersal and interaction in nature might occur on complex patch networks, with species interacting in diverse ways. However, the effects of different interaction modes, combined with spatial heterogeneity in patch connectivities, have not been well integrated into our general understanding of how stable coexistence emerges in cyclic competition. We thus incorporate network heterogeneity into the classic rock-paper-scissors game, in order to compare ecosystem stability under two typical modes of interaction: species compete to fill empty sites, and species seize each other’s colony sites. On lattice-structured regular networks, the two interaction modes produce similar stability patterns through forming conspecific clusters to reduce interspecific competition. However, for heterogeneous networks, the interaction modes have contrasting effects on ecosystem stability. Specifically, if species compete for colony sites, increasing network heterogeneity stabilizes competitive dynamics. When species compete to fill empty sites, an increase in network heterogeneity leads to larger population fluctuations and therefore a higher risk of stochastic extinctions, in stark contrast to current knowledge. Our findings strongly suggest that particular attention should be devoted to testing which mode of interaction is more appropriate for modeling a given system.
Chasing the unbiased willingness to pay: Using an integrated contingent valuation survey in estimating the non-market value of rubber plantation ecological restoration programs in China
Authors: Qiao Dan , Liu Han , Zhang Desheng , Xu Tao , Gan Yu
Published: November 2022

The rubber expansion in Asian countries has led to various environmental problems. To smoothly promote the ecological restoration programs, an essential premise is that the local government must consider public attitude and understand the public willingness to pay (WTP) for the programs. In this study, we employ an integrated contingent valuation (ICV) survey to evaluate the citizen’s WTP of implementing rubber plantation ecological restoration (RPER) programs in Hainan, China. Considering three types of the respondents’ WTP data (interval truncated, merged, and point data), we adopt the Point and Interval Data (PID) model to estimate the determinants of WTP and calculate the non-market value with the comparison of the Tobit model. Results show that the mean value of WTP for the RPER program is 178 yuan per year, and the total non-market value throughout the province is worth approximately 1.839 billion yuan per year after controlling the regional differences. We also find that the respondents’ WTP has a significant regional difference, in which Danzhou has the highest WTP, followed by Haikou, Wanning, and Sanya. Age has a significant negative effect on the WTP for the restoration program, whereas the factors such as education, family burden, income, and residents’ environmental knowledge have a significant positive effect. Our findings add to the evidence that using improved estimation methods can generate diverse results, where neglecting the bias caused by the usual interval data model would lead to downward biased estimates.
PAIP2 is a potential diagnostic and prognostic biomarker of breast cancer and is associated with immune infiltration
Authors: Wang Chenyu , Jiang Xianglai , Qi Jiaojiao , Xu Jiachao , Yang Guangfei , Mi Chengrong
Published: November 2022

Breast cancer is the second highest incidence of cancer in the world. It is of great significance to find biomarkers to diagnose breast cancer and predict the prognosis of breast cancer patients. PAIP2 is a poly (A) -binding protein interacting protein that regulates the expression of VEGF. However, the possible role of PAIP2 in the progression of breast cancer is still unknown. RT-qRCR and Western blotting were used to verify the expression of PAIP2 in breast cancer cells and normal breast cells. The data of breast cancer samples were obtained in the TCGA database and the HPA database to analyze the expression of PAIP2 in breast cancer samples. Transwell experiment and CCK8 experiment confirmed the changes in the invasion and proliferation ability of PAIP2 after siRNA was down-regulated. Using bioinformatics technology to explore the prognostic value of PAIP2 and its possible biological function, and its effect on tumor immunity and immunotherapy. Studies have shown that PAIP2 has higher expression in breast cancer tissues and breast cancer cells. PAIP2 can promote the proliferation and invasion of breast cancer cells and has significantly high expression in higher tumor stages. The high expression of PAIP2 is associated with better OS in breast cancer patients and is negatively correlated with most chemotherapeutic drug sensitivity and IPS in cancer immunotherapy. Our study explored the potential value of PAIP2 as a biomarker for diagnosis and prognosis and may predict the efficacy of immunotherapy, providing reference for the follow-up study on the role of PAIP2 in breast cancer.
Targeted metabolomics reveals fatty acid abundance adjustments as playing a crucial role in drought-stress response and post-drought recovery in wheat
Authors: Ullah Safi , Khan Mudassar Nawaz , Lodhi Sumaira Salahuddin , Ahmed Iftikhar , Tayyab Muhammad , Mehmood Tariq , Din Israr Ud , Khan Majid , Sohail Quahir , Akram Muhammad
Published: November 2022

Drought stress is one of the abiotic stresses restricting plant development, reproductive growth, and survival. In the present study, the effect of drought stress and post-drought recovery for the selected local wheat cultivar, Atta Habib, was studied. Wheat was grown for 16 days followed by drought stress for 7 days and allowed to recover for 7 days after the removal of the drought stress. Same-aged untreated plants were also grown as a control. The effect of drought stress and post-drought recovery on morphology (root length, shoot length, root weight, and shoot weight), enzymatic activity, and fatty acid profile were analyzed. The results showed that shoot weight (93.1 mg), root weight (85.2 mg), and shoot length (11.1 cm) decreased in the stressed plants but increased steadily in the recovered plants compared to the same-aged control plants, while root length showed a higher increase (14.0 cm) during drought stress and tended to normalize during the recovery phase (13.4 cm). The ascorbate peroxidase activity increased in the stressed plants (5.44 unit/mg protein) compared to the control, while gradually normalizing in the recovery phase (5.41 unit/mg protein). Gas chromatography coupled mass spectrometric analysis revealed abundance changes in important fatty acids, such as palmitic acid, stearic acid, oleic acid, linoleic acid, and linolenic acid. Palmitic acid (39.1%) and oleic acid (2.11%) increased in the drought-stressed plants, while a reduction in linoleic acid (6.85%) and linolenic acid (51.18%) was observed compared to the same-aged control plants, i.e., palmitic (33.71%), oleic (0.95%), linoleic (7.52%), and linolenic acid (55.23%). The results suggest that wheat tries to recover in the post-drought stage by repairing oxidative damage through ascorbate peroxidase, and by adjusting fatty acid abundances under drought stress and during the post-drought phase in an effort to maintain membranes’ integrity and a suitable fat metabolism route, thus helping recovery. Targeted metabolomics may be further used to explore the role of other metabolites in the drought-stress response mechanism in wheat. Furthermore, this relatively little explored avenue of post-drought recovery needs more detailed studies involving multiple stress durations.
A pyroptosis expression pattern score predicts prognosis and immune microenvironment of lung squamous cell carcinoma
Authors: Chen Wei , Wen Min-Yu , Yang Kai-Bin , Zheng Li-Tao , Li Xuan
Published: November 2022

Pyroptosis has been proved to significantly influence the development of lung squamous cell carcinoma (LUSC). To better predict overall survival (OS) and provide guidance on the selection of therapy for LUSC patients, we constructed a novel prognostic biomarker based on pyroptosis-related genes. The dataset for model construction were obtained from The Cancer Genome Atlas and the validation dataset were obtained from Gene Expression Omnibus. Differential expression genes between different pyroptosis expression patterns were identified. These genes were then used to construct pyroptosis expression pattern score (PEPScore) through weighted gene co-expression network analysis, univariate and multivariate cox regression analysis. Afterward, the differences in molecule and immune characteristics and the effect of different therapies were explored between the subgroups divided by the model. The PEPScore was constructed based on six pyroptosis-related genes (CSF2, FGA, AKAP12, CYP2C18, IRS4, TSLP). Compared with the high-PEPScore subgroup, the low-PEPScore subgroup had significantly better OS, higher TP53 and TTN mutation rate, higher infiltration of T follicular helper cells and CD8 T cells, and may benefit more from chemotherapeutic drugs, immunotherapy and radiotherapy. PEPScore is a prospective prognostic model to differentiate prognosis, molecular and immune microenvironmental features, as well as provide significant guidance for selecting clinical therapies.
Case report: Local cryoablation combined with pembrolizumab to eliminate lung metastases from ovarian clear cell carcinoma
Authors: Meng Liangliang , Zhang Zhongliang , Zhang Xiao , Zhang Xiaobo , Wei Yingtian , Wu Bin , Xue Xiaodong , Zhang Xin , He Xiaofeng , Xiao Yueyong
Published: November 2022

Ovarian clear cell carcinoma has a high recurrence rate with poor prognosis and is generally not sensitive to conventional platinum-based chemotherapy. Its less frequent occurrence of mutations such as BRCA limited the targeted therapies. Immunotherapy is not currently recommended as a first-line agent for ovarian cancer, and most patients are not yet able to benefit from it. Cryoablation can be used to treat solid systemic tumors, including ovarian cancer metastases, and can produce a limited anti-tumor immune response. The anti-tumor effects of cryoablation combined with immunotherapy have not been adequately confirmed. This study reports a case of a patient with ovarian clear cell carcinoma who underwent conventional adjuvant chemotherapy after initially surgical resection of the tumor. Unfortunately, cancer recurred and metastasized to the abdominal wall. After a series of painful chemotherapy and a second surgery, the cancer was still not effectively controlled, and the patient developed extensive metastases in the lung. The patient’s PD-L1 expression level also did not support solo immunotherapy. We pioneered the use of cryoablation to first eradicate the most significant lesion in the upper lobe of the left lung and then combined it with the PD-L1 inhibitor pembrolizumab to treat the patient with immunotherapy, which resulted in the complete eradication of the other multiple metastases in the lung and saved the patient’s life. Although the precise mechanism of action has not yet been explored, we have reason to believe that the combination of cryoablation and immune checkpoint inhibitor has a powerful synergistic anti-tumor effect, which is yet to be confirmed by more basic research and clinical applications in the next step.
Neglected mycobiome in HIV infection: Alterations, common fungal diseases and antifungal immunity
Authors: Li Shuang , Yang Xiaodong , Moog Christiane , Wu Hao , Su Bin , Zhang Tong
Published: November 2022

Human immunodeficiency virus (HIV) infection might have effects on both the human bacteriome and mycobiome. Although many studies have focused on alteration of the bacteriome in HIV infection, only a handful of studies have also characterized the composition of the mycobiome in HIV-infected individuals. Studies have shown that compromised immunity in HIV infection might contribute to the development of opportunistic fungal infections. Despite effective antiretroviral therapy (ART), opportunistic fungal infections continue to be a major cause of HIV-related mortality. Human immune responses are known to play a critical role in controlling fungal infections. However, the effect of HIV infection on innate and adaptive antifungal immunity remains unclear. Here, we review recent advances in understanding of the fungal microbiota composition and common fungal diseases in the setting of HIV. Moreover, we discuss innate and adaptive antifungal immunity in HIV infection.
Hypersensitivity reactions to small molecule drugs
Authors: Han Jiayin , Pan Chen , Tang Xuan , Li Qi , Zhu Yan , Zhang Yushi , Liang Aihua
Published: November 2022

Drug hypersensitivity reactions induced by small molecule drugs encompass a broad spectrum of adverse drug reactions with heterogeneous clinical presentations and mechanisms. These reactions are classified into allergic drug hypersensitivity reactions and non-allergic drug hypersensitivity reactions. At present, the hapten theory, pharmacological interaction with immune receptors (p-i) concept, altered peptide repertoire model, and altered T-cell receptor (TCR) repertoire model have been proposed to explain how small molecule drugs or their metabolites induce allergic drug hypersensitivity reactions. Meanwhile, direct activation of mast cells, provoking the complement system, stimulating or inhibiting inflammatory reaction-related enzymes, accumulating bradykinin, and/or triggering vascular hyperpermeability are considered as the main factors causing non-allergic drug hypersensitivity reactions. To date, many investigations have been performed to explore the underlying mechanisms involved in drug hypersensitivity reactions and to search for predictive and preventive methods in both clinical and non-clinical trials. However, validated methods for predicting and diagnosing hypersensitivity reactions to small molecule drugs and deeper insight into the relevant underlying mechanisms are still limited.
Single-cell transcriptomic characterization reveals the landscape of airway remodeling and inflammation in a cynomolgus monkey model of asthma
Authors: Wang Yingshuo , Dong Xinyan , Pan Caizhe , Zhu Cihang , Qi Hantao , Wang Yifan , Wei Hao , Xie Qiangmin , Wu Lei , Shen Huijuan , Li Shuxian , Xie Yicheng
Published: November 2022

Monkey disease models, which are comparable to humans in terms of genetic, anatomical, and physiological characteristics, are important for understanding disease mechanisms and evaluating the efficiency of biological treatments. Here, we established an A.suum-induced model of asthma in cynomolgus monkeys to profile airway inflammation and remodeling in the lungs by single-cell RNA sequencing (scRNA-seq). The asthma model results in airway hyperresponsiveness and remodeling, demonstrated by pulmonary function test and histological characterization. scRNA-seq reveals that the model elevates the numbers of stromal, epithelial and mesenchymal cells (MCs). Particularly, the model increases the numbers of endothelial cells (ECs), fibroblasts (Fibs) and smooth muscle cells (SMCs) in the lungs, with upregulated gene expression associated with cell functions enriched in cell migration and angiogenesis in ECs and Fibs, and VEGF-driven cell proliferation, apoptotic process and complement activation in SMCs. Interestingly, we discover a novel Fib subtype that mediates type I inflammation in the asthmatic lungs. Moreover, MCs in the asthmatic lungs are found to regulate airway remodeling and immunological responses, with elevated gene expression enriched in cell migration, proliferation, angiogenesis and innate immunological responses. Not only the numbers of epithelial cells in the asthmatic lungs change at the time of lung tissue collection, but also their gene expressions are significantly altered, with an enrichment in the biological processes of IL-17 signaling pathway and apoptosis in the majority of subtypes of epithelial cells. Moreover, the ubiquitin process and DNA repair are more prevalent in ciliated epithelial cells. Last, cell-to-cell interaction analysis reveals a complex network among stromal cells, MCs and macrophages that contribute to the development of asthma and airway remodeling. Our findings provide a critical resource for understanding the principle underlying airway remodeling and inflammation in a monkey model of asthma, as well as valuable hints for the future treatment of asthma, especially the airway remodeling-characterized refractory asthma.
CD11c regulates late-stage T cell development in the thymus
Authors: Hou Lifei , Yuki Koichi
Published: November 2022

CD11c, also named integrin αX, has been deemed solely as a dendritic cell marker for decades while the delineation of its biological function was limited. In the current study, we observed in mice that CD11c deficiency led to a defect in T cell development, demonstrated by the loss of CD4+CD8+double positive (DP) T cells, CD4+CD8-, and CD4-CD8+single positive (SP) T cells in the thymus and less mature T cells in the periphery. By using bone marrow chimera, we confirmed that CD11c regulated T cell development in the thymus. We further showed that CD11c deficiency led to an accelerated apoptosis of CD3 positive thymocytes, but not CD4-CD8-double negative (DN) T cells. Overall, this study added one more layer of knowledge on the regulatory mechanism of late-stage T cell development that the presence of CD11c in the thymus is critical for maintaining T cell survival.
The impact of tumor associated macrophages on tumor biology under the lens of mathematical modelling: A review
Authors: Shojaee Pejman , Mornata Federica , Deutsch Andreas , Locati Massimo , Hatzikirou Haralampos
Published: November 2022

In this article, we review the role of mathematical modelling to elucidate the impact of tumor-associated macrophages (TAMs) in tumor progression and therapy design. We first outline the biology of TAMs, and its current application in tumor therapies, and their experimental methods that provide insights into tumor cell-macrophage interactions. We then focus on the mechanistic mathematical models describing the role of macrophages as drug carriers, the impact of macrophage polarized activation on tumor growth, and the role of tumor microenvironment (TME) parameters on the tumor-macrophage interactions. This review aims to identify the synergies between biological and mathematical approaches that allow us to translate knowledge on fundamental TAMs biology in addressing current clinical challenges.
TRIM21 aggravates cardiac injury after myocardial infarction by promoting M1 macrophage polarization
Authors: Li Zhiqiang , Liu Xiangdong , Zhang Xingxu , Zhang Wenming , Gong Mengmeng , Qin Xiaoming , Luo Jiachen , Fang Yuan , Liu Baoxin , Wei Yidong
Published: November 2022

Macrophage polarization followed by myocardial infarction (MI) is essential for wound healing. Tripartite motif-containing protein 21 (TRIM21), a member of E3 ubiquitin ligases, is emerging as a mediator in cardiac injury and heart failure. However, its function in modulating post-MI macrophage polarization remains elusive. Here, we detected that the levels of TRIM21 significantly increased in macrophages of wild-type (WT) mice after MI. In contrast, MI was ameliorated in TRIM21 knockout (TRIM21-/-) mice with improved cardiac remodeling, characterized by a marked decrease in mortality, decreased infarct size, and improved cardiac function compared with WT-MI mice. Notably, TRIM21 deficiency impeded the post-MI apoptosis and DNA damage in the hearts of mice. Consistently, the accumulation of M1 phenotype macrophages in the infarcted tissues was significantly reduced with TRIM21 deletion. Mechanistically, the deletion of TRIM21 orchestrated the process of M1 macrophage polarization at least partly via a PI3K/Akt signaling pathway. Overall, we identify TRIM21 drives the inflammatory response and cardiac remodeling by stimulating M1 macrophage polarization through a PI3K/Akt signaling pathway post-MI.
Analysis of signature genes and association with immune cells infiltration in pediatric septic shock
Authors: Fan Jiajie , Shi Shanshan , Qiu Yunxiang , Liu Mingnan , Shu Qiang
Published: November 2022

Background

Early diagnosis of septic shock in children is critical for prognosis. This study committed to investigate the signature genes and their connection with immune cells in pediatric septic shock.

Methods

We screened a dataset of children with septic shock from the GEO database and analyzed differentially expressed genes (DEGs). Functional enrichment analysis was performed for these DEGs. Weighted gene co-expression network analysis (WCGNA) was used to screen the key modules. Least absolute shrinkage and selection operator (LASSO) and random forest analysis were finally applied to identify the signature genes. Then gene set enrichment analysis (GSEA) was exerted to explore the signaling pathways related to the hub genes. And the immune cells infiltration was subsequently classified via using CIBERSORT.

Results

A total of 534 DEGs were screened from GSE26440. The data then was clustered into 17 modules via WGCNA, which MEgrey module was significantly related to pediatric septic shock (cor=−0.62, p<0.0001). LASSO and random forest algorithms were applied to select the signature genes, containing UPP1, S100A9, KIF1B, S100A12, SLC26A8. The receiver operating characteristic curve (ROC) of these signature genes was 0.965, 0.977, 0.984, 0.991 and 0.989, respectively, which were verified in the external dataset from GSE13904. GSEA analysis showed these signature genes involve in positively correlated fructose and mannose metabolism and starch and sucrose metabolism signaling pathway. CIBERSORT suggested these signature genes may participate in immune cells infiltration.

Conclusion

UPP1, S100A9, KIF1B, S100A12, SLC26A8 emerge remarkable diagnostic performance in pediatric septic shock and involved in immune cells infiltration.
miR-142 favors naïve B cell residence in peripheral lymph nodes
Authors: Hagen Magdalena , Chakraborty Tirtha , Olson William J. , Heitz Martin , Hermann-Kleiter Natascha , Kimpel Janine , Jenewein Brigitte , Pertoll Johanna , Labi Verena , Rajewsky Klaus , Derudder Emmanuel
Published: November 2022

B lymphocyte development proceeds through a well-ordered sequence of steps, leading to the formation of a sizeable mature B population recognizing a diversity of antigens. These latter cells are ultimately responsible for the production of antibodies upon immune challenges. The detection of threats to the organism is facilitated by the ability of naïve follicular B cells, the main subset of mature B cells in mice, to circulate between lymphoid tissues in search of their cognate antigens. miRNA-mediated fine-tuning of mRNA stability and translation participates in the optimal expression of genetic programs. This regulatory mechanism has been shown to contribute to B cell biology, although the role of individual miRNAs remains understudied. Here, we selectively inactivated the miR-142 locus in B cells. As a consequence, the mature B compartment was visibly perturbed, in agreement with work in miR-142 knockout mice. However, our strategy allowed us to identify roles for the miR-142 locus in B cell physiology obscured by the complexity of the immune phenotype in the null mutant mice. Thus, these miRNAs are necessary for the proper formation of the pre-B cell compartment during development. More remarkably, naïve follicular B cells demonstrated altered migratory properties upon conditional inactivation of the miR-142 locus. The latter mutant cells expressed reduced levels of the homing molecule CD62L. They also migrated more efficiently towards sphingosine-1-phosphate in vitro and displayed an increased abundance of the sphingosine-1-phosphate receptor 1, compatible with improved lymphocyte egress in vivo. In line with these observations, the ablation of the miR-142 locus in B cells caused a paucity of B cells in the lymph nodes. Mutant B cell accumulation in the latter tissues was also compromised upon transfer into a wild-type environment. These changes coincided with suboptimal levels of FOXO1, a positive regulator of CD62L transcription, in mutant B cells. Overall, our findings indicate contributions for the miR-142 locus in various aspects of the B cell life cycle. Notably, this locus appears to favor the establishment of the migratory behavior required for naïve follicular B cell patrolling activity.
Adjuvant alternative cytokine-induced killer cell combined with natural killer cell immunotherapy improves the prognosis of post-mastectomy breast cancer
Authors: Yang Xinyi , Weng Desheng , Pan Qiuzhong , Xiang Tong , Yang Chaopin , Wu Zhengrong , Li Minxing , Xie Songzuo , Tang Yan , Xia Jianchuan , Zhao Jingjing
Published: November 2022

Breast cancer is one of the most common cancers in women. Triple-negative breast cancer (TNBC) has a significantly worse prognosis due to the lack of endocrine receptors including estrogen receptor (ER), progesterone receptor (PR) and human epidermal growth factor receptor 2 (HER2). In this study, we investigated adjuvant cellular immunotherapy (CIT) in patients with post-mastectomy breast cancer. We enrolled 214 post-mastectomy breast cancer patients, including 107 patients in the control group (who received chemotherapy/radiotherapy/endocrine therapy) and the other 107 patients in the CIT group (who received chemotherapy/radiotherapy/endocrine therapy and subsequent immune cell infusion). Of these 214 patients, 54 had TNBC, including 26 patients in the control group and 28 patients in the CIT group. Survival analysis showed that the overall survival rate of patients treated with cellular immunotherapy was higher than that of patients who were not treated with CIT. Compared to those who received cytokine-induced killer (CIK) cells alone, the patients who received CIK combined with natural killer (NK) cell immunotherapy showed the best overall survival rate. In subgroup analyses, adjuvant CIT significantly improved the overall survival of patients in the TNBC subgroup and the patients who were aged over 50 years. Our study indicates that adjuvant CIK cell combined with NK cell treatment is an effective therapeutic strategy to prolong the survival of post-mastectomy patients, particularly for TNBC patients and those who are aged over 50 years.
Phosphate enrichment increases the resilience of the pulsating soft coral Xenia umbellata to warming
Authors: Klinke Annabell , Mezger Selma D. , Thobor Bianca , Tilstra Arjen , El-Khaled Yusuf C. , Wild Christian
Published: November 2022

Hard corals are in decline as a result of the simultaneous occurrence of global (e.g., ocean warming) and local (e.g., inorganic eutrophication) factors, facilitating phase shifts towards soft coral dominated reefs. Yet, related knowledge about soft coral responses to anthropogenic factors remains scarce. We thus investigated the ecophysiological response of the pulsating soft coral Xenia umbellata to individual and combined effects of phosphate enrichment (1, 2, and 8 μM) and ocean warming (26 to 32°C) over 35 days. Throughout the experiment, we assessed pulsation, mortality, Symbiodiniaceae density, and cellular chlorophyll a content. Simulated ocean warming up to 30°C led to a significant increase in polyp pulsation and by the end of the experiment to a significant increase in Symbiodiniaceae density, whereas cellular chlorophyll a content significantly decreased with warming, regardless of the phosphate treatment. The combination of phosphate enrichment and simulated ocean warming increased pulsation significantly by 41 – 44%. Warming alone and phosphate enrichment alone did not affect any of the investigated response parameters. Overall, X. umbellata displayed a high resilience towards ocean warming with no mortality in all treatments. Phosphate enrichment enabled soft corals to significantly increase their pulsation under increasing temperatures which may enhance their resilience towards ocean warming. This, in turn, could further facilitate their dominance over hard corals on future reefs.
Overlapping-calibration of wide-swath altimeter baseline errors using two satellites formation flying design
Authors: Ma Chunyong , Wang Xuan , Gao Zhanwen , Li Zheng , Zhao Chaofang , Chen Ge
Published: November 2022

The sea surface height (SSH) measured by future wide-swath altimetry satellites contains observation error due to baseline measurement, which is called SSH_Error_Baseline. It is a huge challenge for satellite engineering to maintain such high accuracies of the baseline roll and length in orbit to ensure that the SSH_Error_Baseline can be maintained below 1 cm. Therefore, how to effectively reduce the SSH_Error_Baseline is extremely important. In order to solve the existing problem, an innovative overlapping-calibration method is proposed based on two-satellite formation flight design with overlapping swath. In this study, the differences of SSH data observed by these two satellites in the overlapping area is so small that it can be ignored, and the SSH_Error_Baseline dominates the difference. Then, the baseline parameters of the two satellites can be well estimated by adopting an optimal inverse method. A total of 9 groups of observing system simulation experiments (OSSEs) have been carried out, and they respectively indicate different pessimistic theoretical scenarios of baseline measurement systems. According to the results, this design can effectively reduce the SSH_Error_Baseline in most scenarios. Regarding the advantage of this method, it can be applied to all along-track observation data without requiring the application of additional auxiliary data (i.e. model data, SSH derived from nadir altimetry). Therefore, when two wide-swath altimetry satellites are simultaneously designed, the formation flight scheme proposed in this paper is recommended, especially when the measurements of the baseline cannot meet the expected accuracies.
Role of abiotic drivers on crab burrow distribution in a saltmarsh wetland
Authors: Chen Xue , Zhou Zeng , He Qiang , Zhang Heyue , Bouma Tjeerd , Gong Zheng , Townend Ian , Zhang Changkuan
Published: November 2022

Crab burrows play an important role in saltmarsh wetlands and are a useful indicator of wetland condition. The spatiotemporal distribution of crab burrows varies considerably in tidal wetlands. However, the reasons for these variations are poorly understood, in part, due to the limited availability of comprehensive field data. Based on a two-year continuous observation at a tidal wetland in the northern Jiangsu Coast, China, this study explored the relationship between crab burrow density and environmental variables, including median grain size, water content, organic matter content, soil salinity, and elevation. Our results show that the distribution of crab burrows was unimodal across the shore in winter and spring (Nov-Apr) when air temperature was relatively low, while bimodal in summer and autumn (May-Oct) when temperature was relatively high. The density of crab burrows was larger at areas with higher water content, higher organic matter content, and lower soil salinity, while it was lower with stronger hydrodynamics and lower suspended sediment concentration. Crab burrows were more abundant in vegetated areas than in un-vegetated areas. A backward stepwise model selection was performed based on R-square and Akaike information criterion (AIC) to distinguish the main driving factors that determine crab burrow distribution. Results suggested that the principal driving factors were organic matter content and soil salinity in all the seasons, with the addition of water content in warm seasons. Overall, this study provides a comprehensive field dataset for a more in-depth understanding of crab burrow distribution and a scientific basis for sustainable management of tidal wetlands.
The effect of environmental factors on spatial-temporal variation of heterobranch sea slug community in northern Taiwan
Authors: Chan Ho Yeung , Chang Yen-Wei , Chen Li-Shu , Nishida Kazuki , Shao Yi Ta
Published: November 2022

Sea slug (Subclass Heterobranchia) biodiversity is an important element of marine coral reef communities. However, due to their small size and cryptic behavior, few studies have examined their spatiotemporal variation. Taiwan is in the middle of East Asia Island Arcs, where it is one of the hotspots of sea slug diversity. Meanwhile, the northeast coast of this island lies within the subtropical monsoon region, where the climate shifts from a warm southwest monsoon (SW: May to Sep) to a cold northeast monsoon (NE: Oct to Apr). Between the monsoons, distinct temperatures and currents result in different community structures. To understand how those environmental factors (i.e., monsoon season, diel period and water depth) influence sea slug species richness and assemblages, we surveyed these invertebrates monthly at both night and day by diving in a marine protection area (CJ) and at a nearby non-protected site (MR) from May 2020 to Apr 2021. We showed that the species composition in our sampling area was highly consistent with what was found in Okinawa and Pescadores island, but less similar to those in southern Taiwan or Hong Kong. On the northeast coast of Taiwan, sea slug number and abundance were both higher in CJ than MR, but biodiversity (H’) and the species evenness indexJ’ was lower in CJ than MR. Additionally, cluster analysis indicated that the sea slug assemblages differed between the two sites. Monsoon season significantly influenced both species richness and species assemblages, with species richness during SW being significantly higher than in the NE monsoon and species assemblages also being distinct between these two seasons. Moreover, species richness increased with water depth (within the surveyed range of 0-25 m). Diel period did not exert a strong impact on sea slug biodiversity, except for species richness at CJ, where it was higher during the day than at night. Our study suggested that changing currents between the monsoon seasons could transport individuals originating from either the north or south of these island arcs. Furthermore, temperature and food sources may differ between seasons and depths, thereby influencing sea slug assemblages in this region.
Transcriptome analysis of gonads and brain of giant freshwater prawn (Macrobrachium rosenbergii): screening and validation of genes related to germ cell development
Authors: Wei Jie , Hong Kunhao , Zhou Qiaoyan , Wang Yakun , Li Wei , Liu Xiaoli , Hong Xiaoyou , Chen Chen , Yu Lingyun , Zhu Xinping
Published: November 2022

Macrobrachium rosenbergii is an important cultured shrimp worldwide, and its precocious puberty has led to serious economic losses. Although reproductive sterilization can avoid this problem, little is known about the molecular mechanisms underlying gonadal development and gametogenesis in M. rosenbergii. Here, we conducted transcriptome analysis of the ovaries, testes, and male/female brain tissues of M. rosenbergii to discover germ cell development-related genes. A total of 60,607 unigenes were identified, of which 20,963 unigenes could be functionally annotated. Eighteen candidate genes were identified by Venn diagram analysis, keyword, and known marker search, followed by elimination of low-expression and repetitive genes. Subsequent real-time quantitative reverse transcription polymerase chain reaction and in situ hybridization identified five genes (RAD51, vasa, SPDS, MRR, and Fem-1C) associated with germ cell development—RAD51, vasa, and SPDS were expressed in both male and female gonads, whereas Fem-1C was specifically expressed in the ovary and MRR in the testis. In the ovary, vasa, SPDS, and Fem-1C were mainly expressed in stage 1–3 oocytes, while RAD51 was expressed in stage 2–3 oocytes. In testis, vasa were significantly expressed in spermatogonia and primary spermatocytes, whereas RAD51 and SPDS were only enriched in spermatogonia and MRR in vas deferens. Our research indicates that these five genes are important germ cell development-related genes, of which RAD51, SPDS, and Fem-1C were proven to function in germ cells of this species for the first time. The discovery of these genes could help develop molecular breeding techniques to overcome precocious puberty in M. rosenbergii.
Light spectrum impacts on development respiratory metabolism and antioxidant capacity of larval swimming crab Portunus trituberculatus
Authors: Zhang Feifei , Zhang Shuai , Ren Zhiming , Song Changbin , Ye Yangfang , Mu Changkao , Wang Chunlin , Shi Ce
Published: November 2022

The effects of the spectrum on the development, respiratory metabolism, and antioxidant capacity of the larval swimming crab Portunus trituberculatus were studied. Seven light spectra, i.e., purple (400 nm), blue (425 nm), cyan (510 nm), green (525 nm), yellow (598 nm), red (638 nm), and white (full spectrum), were estimated. The larvae had the optimum survival rate and development under cyan light. On the contrary, larvae in red and yellow lights had poor growth performance. The oxygen consumption rate (OCR) dropped while the ammonia excretion rate (AER) rose as the larvae developed. Early larvae’s oxygen-nitrogen ratio (O: N) fell when exposed to red light, suggesting more protein was utilized in the respiratory process. Regarding the antioxidant system, crab had the lowest malondialdehyde (MDA) under green, cyan and yellow light, and the highest total antioxidant capacity (T-AOC) in cyan light. Taken together, the current results suggest that cyan was the optimum spectrum for the development of P. trituberculatus larvae.
Co-design of a marine protected area zoning and the lessons learned from it
Authors: Horta e Costa Barbara , Guimarães M. Helena , Rangel Mafalda , Ressurreição Adriana , Monteiro Pedro , Oliveira Frederico , Bentes Luís , Sales Henriques Nuno , Sousa Inês , Alexandre Sofia , Pontes João , Afonso Carlos M. L. , Belackova Adela , Marçalo Ana , Cardoso-Andrade Mariana , Correia António José , Lobo Vanda , Gonçalves Emanuel J. , Pitta e Cunha Tiago , Gonçalves Jorge M. S.
Published: November 2022

Marine Protected Areas (MPAs) are a tool to safeguard marine natural systems, yet their effectiveness depends on how well they are integrated into the existing socioeconomic context. Stakeholder engagement in MPA design can contribute to increasing integration. This study focuses on the co-design of an MPA between researchers, public administration, the private sector, and non-governmental organizations. The proposed MPA is in Portugal and includes an area that is a hotspot for biodiversity and economic activities. This is the first MPA proposal in mainland Portugal co-designed using a participatory approach. This study highlights the steps of the zoning process and synthesizes the eight main lessons learned, useful for other cases, particularly for relatively small coastal MPAs with multiple socioeconomic activities. Three zoning proposals were developed and discussed within the participatory process. The proposals considered the best scientific and local knowledge available and were defined using ecological, socioeconomic, and shape-area guiding principles. In an iterative manner and following a participatory approach, compromises with stakeholders were achieved, and a final proposal, scientifically sound and socially accepted by most stakeholders, was delivered to the government. The final zoning plan will achieve ambitious conservation goals, including the largest fully protected area to be declared in mainland Portugal, while minimizing the impacts on the existing economic activities and promoting its sustainability. This process resulted in valuable lessons that may be applied elsewhere and guide future MPA implementation or rezoning of existing ones. These transdisciplinary and participatory processes can be time and resource-consuming but are vital for ensuring MPA effectiveness.