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Article ; Online: Human health risk assessment for contaminated sites

Shuai Zhang / Yingyue Han / Jingyu Peng / Yunmin Chen / Liangtong Zhan / Jinlong Li

Environment International, Vol 171, Iss , Pp 107700- (2023)

A retrospective review

1480

Abstract: Soil contamination is a serious global hazard as contaminants can migrate to the human body through the soil, water, air, and food, threatening human health. Human Health Risk Assessment (HHRA) is a commonly used method for estimating the magnitude and ... ...

Abstract	Soil contamination is a serious global hazard as contaminants can migrate to the human body through the soil, water, air, and food, threatening human health. Human Health Risk Assessment (HHRA) is a commonly used method for estimating the magnitude and probability of adverse health effects in humans that may be exposed to contaminants in contaminated environmental media in the present or future. Such estimations have improved for decades with various risk assessment frameworks and well-established models. However, the existing literature does not provide a comprehensive overview of the methods and models of HHRA that are needed to grasp the current status of HHRA and future research directions. Thus, this paper aims to systematically review the HHRA approaches and models, particularly those related to contaminated sites from peer-reviewed literature and guidelines. The approaches and models focus on methods used in hazard identification, toxicity databases in dose–response assessment, approaches and fate and transport models in exposure assessment, risk characterization, and uncertainty characterization. The features and applicability of the most commonly used HHRA tools are also described. The future research trend for HHRA for contaminated sites is also forecasted. The transition from animal experiments to new methods in risk identification, the integration and update and sharing of existing toxicity databases, the integration of human biomonitoring into the risk assessment process, and the integration of migration and transformation models and risk assessment are the way forward for risk assessment in the future. This review provides readers with an overall understanding of HHRA and a grasp of its developmental direction.
Keywords	Contaminated sites ; Human Health Risk Assessment ; Hazard identification ; Dose-response assessment ; Exposure assessment ; Fate and transport model ; Environmental sciences ; GE1-350
Subject code	910
Language	English
Publishing date	2023-01-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: p53–GSDME Elevation

Yueyuan Wang / Jingyu Peng / Xuguang Mi / Ming Yang

Frontiers in Molecular Biosciences, Vol

A Path for CDK7 Inhibition to Suppress Breast Cancer Cell Survival

2021 Volume 8

Abstract: Higher cyclin-dependent kinase (CDK7) expression is a character of breast cancer and indicates poor prognosis. Inhibiting CDK7 exhibited effective cancer cell suppression which implies the potential of CDK7 inhibition to be a method for anti-cancer ... ...

Abstract	Higher cyclin-dependent kinase (CDK7) expression is a character of breast cancer and indicates poor prognosis. Inhibiting CDK7 exhibited effective cancer cell suppression which implies the potential of CDK7 inhibition to be a method for anti-cancer treatment. Our study aimed to explore a novel mechanism of CDK7 inhibition for suppressing breast cancer cell survival. Here, we proved inhibiting CDK7 repressed breast cancer cell proliferation and colony formation and increased the apoptotic cell rate, with p53 and GSDME protein level elevation. When p53 was suppressed in MCF-7 cells, the decline of GSDME expression and associated stronger proliferation and colony formation could be observed. Since downregulation of GSDME was of benefit to breast cancer cells, p53 inhibition blocked the elevation of GSDME induced by CDK7 inhibition and retrieved cells from the tumor suppressive effect of CDK7 inhibition. Therefore, CDK7 inhibition exerted a negative effect on breast cancer cell proliferation and colony formation in a p53–GSDME dependent manner. These results revealed the CDK7–p53–GSDME axis could be a pathway affecting breast cancer cell survival.
Keywords	CDK7 ; p53 ; GSDME ; CDK7 inhibitor ; breast cancer ; Biology (General) ; QH301-705.5
Subject code	616 ; 610
Language	English
Publishing date	2021-08-01T00:00:00Z
Publisher	Frontiers Media S.A.
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Comparative Analysis of the Complete Chloroplast Genomes of Eight Ficus Species and Insights into the Phylogenetic Relationships of Ficus

Xi Xia / Jingyu Peng / Lin Yang / Xueli Zhao / Anan Duan / Dawei Wang

Life, Vol 12, Iss 848, p

2022 Volume 848

Abstract: The genus Ficus is an evergreen plant, the most numerous species in the family Moraceae, and is often used as a food and pharmacy source. The phylogenetic relationships of the genus Ficus have been debated for many years due to the overlapping phenotypic ...

Abstract	The genus Ficus is an evergreen plant, the most numerous species in the family Moraceae, and is often used as a food and pharmacy source. The phylogenetic relationships of the genus Ficus have been debated for many years due to the overlapping phenotypic characters and morphological similarities between the genera. In this study, the eight Ficus species ( Ficus altissima , Ficus auriculata , Ficus benjamina , Ficus curtipes , Ficus heteromorpha , Ficus lyrata , Ficus microcarpa , and Ficus virens ) complete chloroplast (cp) genomes were successfully sequenced and phylogenetic analyses were made with other Ficus species. The result showed that the eight Ficus cp genomes ranged from 160,333 bp ( F. heteromorpha ) to 160,772 bp ( F. curtipes ), with a typical quadripartite structure. It was found that the eight Ficus cp genomes had similar genome structures, containing 127 unique genes. The cp genomes of the eight Ficus species contained 89–104 SSR loci, which were dominated by mono-nucleotides repeats. Moreover, we identified eight hypervariable regions ( trnS-GCU _ trnG-UCC , trnT-GGU _ psbD , trnV-UAC _ trnM-CAU , clpP _ psbB , ndhF _ trnL-UAG , trnL-UAG _ ccsA , ndhD _ psaC , and ycf1 ). Phylogenetic analyses have shown that the subgenus Ficus and subgenus Synoecia exhibit close affinities and based on the results, we prefer to merge the subgenus Synoecia into the subgenus Ficus . At the same time, new insights into the subgeneric classification of the Ficus macrophylla were provided. Overall, these results provide useful data for further studies on the molecular identification, phylogeny, species identification and population genetics of speciation in the Ficus genus.
Keywords	chloroplast genome ; Ficus ; hypervariable regions ; phylogenetic relationship ; Science ; Q
Subject code	590
Language	English
Publishing date	2022-06-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: GIS-based soil planar slide susceptibility mapping using logistic regression and neural networks

Shuai Zhang / Can Li / Jingyu Peng / Dalei Peng / Qiang Xu / Qun Zhang / Bate Bate

Geomatics, Natural Hazards & Risk, Vol 12, Iss 1, Pp 852-

a typical red mudstone area in southwest China

2021 Volume 879

Abstract: Global warming increases the frequency and intensity of extreme rainfall, putting many areas at risk of landslides. Landslide susceptibility assessment is essential to understand the threats and to predict, prevent, and mitigate landslides. In this study, ...

Abstract	Global warming increases the frequency and intensity of extreme rainfall, putting many areas at risk of landslides. Landslide susceptibility assessment is essential to understand the threats and to predict, prevent, and mitigate landslides. In this study, a soil landslide inventory was constructed based on satellite images, topological maps, and extensive field studies. Subsequently, eight different GIS layers, which were geomorphology, elevation, slope angle, slope aspect, slope structure, slope curvature, antecedent rainfall, and cumulative rainfall on 16 September, were produced as control factors of soil planar slides for the susceptibility mapping. Landslide susceptibility mapping was performed using two different methods, logistic regression model and backpropagation (BP) neural network. Landslide susceptibility in the study area is divided into four levels, which are high, moderate, low, and no susceptibility in both the logistic regression model and the BP neural network model. In both the two models, most of the observed soil planar slides were located in areas with high or moderate susceptibility. For the logistic regression model, total 605 soil planar slides locate in the area with high susceptibility, of which the area is 800.56 km2, accounting for 40.31% of the total area. Finally, the validation of two models was evaluated. The AUC value of the logistic regression model was 0.878 and the parameters of BP neural network has the correlation coefficient of 0.880, which shows the two models are both reliable and reasonable for predicting the spatial susceptibility of soil planar slides. According to field checks, the BP neural network model is verified to have more accurate spatial prediction performance than the logistic regression model.
Keywords	soil landslides ; slope stability ; spatial susceptibility ; logistic regression model ; artificial neural network ; Environmental technology. Sanitary engineering ; TD1-1066 ; Environmental sciences ; GE1-350 ; Risk in industry. Risk management ; HD61
Subject code	910
Language	English
Publishing date	2021-01-01T00:00:00Z
Publisher	Taylor & Francis Group
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Genome Sequencing of Paecilomyces Penicillatus Provides Insights into Its Phylogenetic Placement and Mycoparasitism Mechanisms on Morel Mushrooms

Xinxin Wang / Jingyu Peng / Lei Sun / Gregory Bonito / Yuxiu Guo / Yu Li / Yongping Fu

Pathogens, Vol 9, Iss 834, p

2020 Volume 834

Abstract: Morels ( Morchella spp.) are popular edible fungi with significant economic and scientific value. However, white mold disease, caused by Paecilomyces penicillatus , can reduce morel yield by up to 80% in the main cultivation area in China. Paecilomyces ... ...

Abstract	Morels ( Morchella spp.) are popular edible fungi with significant economic and scientific value. However, white mold disease, caused by Paecilomyces penicillatus , can reduce morel yield by up to 80% in the main cultivation area in China. Paecilomyces is a polyphyletic genus and the exact phylogenetic placement of P. penicillatus is currently still unclear. Here, we obtained the first high-quality genome sequence of P. penicillatus generated through the single-molecule real-time (SMRT) sequencing platform. The assembled draft genome of P. penicillatus was 40.2 Mb, had an N50 value of 2.6 Mb and encoded 9454 genes. Phylogenetic analysis of single-copy orthologous genes revealed that P. penicillatus is in Hypocreales and closely related to Hypocreaceae, which includes several genera exhibiting a mycoparasitic lifestyle. CAZymes analysis demonstrated that P. penicillatus encodes a large number of fungal cell wall degradation enzymes. We identified many gene clusters involved in the production of secondary metabolites known to exhibit antifungal, antibacterial, or insecticidal activities. We further demonstrated through dual culture assays that P. penicillatus secretes certain soluble compounds that are inhibitory to the mycelial growth of Morchella sextelata . This study provides insights into the correct phylogenetic placement of P. penicillatus and the molecular mechanisms that underlie P. penicillatus pathogenesis.
Keywords	paecilomyces penicillatus ; whole genome sequencing ; PacBio ; phylogeny ; carbohydrate-active enzymes (CAZymes) ; Medicine ; R
Subject code	572
Language	English
Publishing date	2020-10-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Resistance to Boscalid, Fluopyram and Fluxapyroxad in Blumeriella jaapii from Michigan (U.S.A.)

Jacqueline Gleason / Jingyu Peng / Tyre J. Proffer / Suzanne M. Slack / Cory A. Outwater / Nikki L. Rothwell / George W. Sundin

Microorganisms, Vol 9, Iss 2198, p

Molecular Characterization and Assessment of Practical Resistance in Commercial Cherry Orchards

2021 Volume 2198

Abstract: Management of cherry leaf spot disease, caused by the fungus Blumeriella jaapii , with succinate dehydrogenase inhibitor (SDHI) fungicides has been ongoing in Michigan tart cherry orchards for the past 17 years. After boscalid-resistant B. jaapii were ... ...

Abstract	Management of cherry leaf spot disease, caused by the fungus Blumeriella jaapii , with succinate dehydrogenase inhibitor (SDHI) fungicides has been ongoing in Michigan tart cherry orchards for the past 17 years. After boscalid-resistant B. jaapii were first isolated from commercial orchards in 2010, premixes of SDHI fungicides fluopyram or fluxapyroxad with a quinone outside inhibitor were registered in 2012. Here, we report widespread resistance to fluopyram (Fluo R ), fluxapyroxad (Flux R ), and boscalid (Bosc R ) in commercial orchard populations of B. jaapii in Michigan from surveys conducted between 2016 and 2019. A total of 26% of 1610 isolates from the 2016–2017 surveys exhibited the fully-resistant Bosc R Fluo R Flux R phenotype and only 7% were sensitive to all three SDHIs. Practical resistance to fluopyram and fluxapyroxad was detected in 29 of 35 and 14 of 35 commercial tart cherry orchards, respectively, in surveys conducted in 2018 and 2019. Sequencing of the SdhB, SdhC, and SdhD target genes from 22 isolates with varying resistance phenotypes showed that Bosc S Fluo R Flux S isolates harbored either an I262V substitution in SdhB or an S84L substitution in SdhC. Bosc R Fluo R Flux R isolates harbored an N86S substitution in SdhC, or contained the N86S substitution with the additional I262V substitution in SdhB. One Bosc R Fluo R Flux R isolate contained both the I262V substitution in SdhB and the S84L substitution in SdhC. These mutational analyses suggest that Bosc R Fluo R Flux R isolates evolved from fully sensitive Bosc S , Fluo S , Flux S isolates in the population and not from boscalid-resistant isolates that were prevalent in the 2010–2012 time period.
Keywords	cherry leaf spot ; succinate dehydrogenase inhibitor ; SdhB ; SdhC ; Biology (General) ; QH301-705.5
Language	English
Publishing date	2021-10-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Monitoring and Quantitative Human Risk Assessment of Municipal Solid Waste Landfill Using Integrated Satellite–UAV–Ground Survey Approach

Shuai Zhang / Yunhong Lv / Haiben Yang / Yingyue Han / Jingyu Peng / Jiwu Lan / Liangtong Zhan / Yunmin Chen / Bate Bate

Remote Sensing, Vol 13, Iss 4496, p

2021 Volume 4496

Abstract: Landfills are the dominant method of municipal solid waste (MSW) disposal in many developing countries, which are extremely susceptible to failure under circumstances of high pore water pressure and insufficient compaction. Catastrophic landfill failures ...

Abstract	Landfills are the dominant method of municipal solid waste (MSW) disposal in many developing countries, which are extremely susceptible to failure under circumstances of high pore water pressure and insufficient compaction. Catastrophic landfill failures have occurred worldwide, causing large numbers of fatalities. Tianziling landfill, one of the largest engineered sanitary landfills in China, has experienced massive deformation since January 2020, making early identification and monitoring of great significance for the purpose of risk management. The human risk posed by potential landfill failures also needs to be quantitatively evaluated. The interferometric synthetic aperture radar (InSAR) technique, unmanned aerial vehicle (UAV) photogrammetry, and ground measurements were combined to obtain landfill deformation data in this study. The integrated satellite–UAV–ground survey (ISUGS) approach ensures a comprehensive understanding of landfill deformation and evolution. The deformation characteristics obtained using the InSAR technique and UAV photogrammetry were analyzed and compared. A close relationship between the most severe mobility events, precipitation episodes, and was observed. Based on early hazard identification using ISUGS, a quantitative risk assessment (QRA) method and F-N curves were proposed, which can be applied to landfills. The comparison showed that ISUGS allowed a better understanding of the spatial and temporal evolution of the landfill and more accurate QRA results, which could be as references for local governments to take effective precautions.
Keywords	InSAR ; UAV photogrammetry ; early identification ; risk analysis ; risk management ; F-N curve ; Science ; Q
Subject code	710
Language	English
Publishing date	2021-11-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Generating Salt-Affected Irrigated Cropland Map in an Arid and Semi-Arid Region Using Multi-Sensor Remote Sensing Data

Deji Wuyun / Junwei Bao / Luís Guilherme Teixeira Crusiol / Tuya Wulan / Liang Sun / Shangrong Wu / Qingqiang Xin / Zheng Sun / Ruiqing Chen / Jingyu Peng / Hongtao Xu / Nitu Wu / Anhong Hou / Lan Wu / Tingting Ren

Remote Sensing, Vol 14, Iss 6010, p

2022 Volume 6010

Abstract: Soil salinization is a widespread environmental hazard and a major abiotic constraint affecting global food production and threatening food security. Salt-affected cropland is widely distributed in China, and the problem of salinization in the Hetao ... ...

Abstract	Soil salinization is a widespread environmental hazard and a major abiotic constraint affecting global food production and threatening food security. Salt-affected cropland is widely distributed in China, and the problem of salinization in the Hetao Irrigation District (HID) in the Inner Mongolia Autonomous Region is particularly prominent. The salt-affected soil in Inner Mongolia is 1.75 million hectares, accounting for 14.8% of the total land. Therefore, mapping saline cropland in the irrigation district of Inner Mongolia could evaluate the impacts of cropland soil salinization on the environment and food security. This study hypothesized that a reasonably accurate regional map of salt-affected cropland would result from a ground sampling approach based on PlanetScope images and the methodology developed by Sentinel multi-sensor images employing the machine learning algorithm in the cloud computing platform. Thus, a model was developed to create the salt-affected cropland map of HID in 2021 based on the modified cropland base map, valid saline and non-saline samples through consistency testing, and various spectral parameters, such as reflectance bands, published salinity indices, vegetation indices, and texture information. Additionally, multi-sensor data of Sentinel from dry and wet seasons were used to determine the best solution for mapping saline cropland. The results imply that combining the Sentinel-1 and Sentinel-2 data could map the soil salinity in HID during the dry season with reasonable accuracy and close to real time. Then, the indicators derived from the confusion matrix were used to validate the established model. As a result, the combined dataset, which included reflectance bands, spectral indices, vertical transmit–vertical receive (VV) and vertical transmit–horizontal receive (VH) polarization, and texture information, outperformed the highest overall accuracy at 0.8938, while the F1 scores for saline cropland and non-saline cropland are 0.8687 and 0.9109, respectively. According to the ...
Keywords	irrigation district ; cropland ; quantile and quantile plots testing ; dry season ; Google Earth Engine ; Science ; Q
Subject code	333
Language	English
Publishing date	2022-11-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: RNF8-mediated regulation of Akt promotes lung cancer cell survival and resistance to DNA damage

Yongjie Xu / Yumeng Hu / Tao Xu / Kaowen Yan / Ting Zhang / Qin Li / Fen Chang / Xueyuan Guo / Jingyu Peng / Mo Li / Min Zhao / Hongying Zhen / Luzheng Xu / Duo Zheng / Li Li / Genze Shao

Cell Reports, Vol 37, Iss 3, Pp 109854- (2021)

2021

Abstract: Summary: Despite the tremendous success of targeted and conventional therapies for lung cancer, therapeutic resistance is a common and major clinical challenge. RNF8 is a ubiquitin E3 ligase that plays essential roles in the DNA damage response; however, ...

Abstract	Summary: Despite the tremendous success of targeted and conventional therapies for lung cancer, therapeutic resistance is a common and major clinical challenge. RNF8 is a ubiquitin E3 ligase that plays essential roles in the DNA damage response; however, its role in the pathogenesis of lung cancer is unclear. Here, we report that RNF8 is overexpressed in lung cancer and positively correlates with the expression of p-Akt and poor survival of patients with non-small-cell lung cancer. In addition, we identify RNF8 as the E3 ligase for regulating the activation of Akt by K63-linked ubiquitination under physiological and genotoxic conditions, which leads to lung cancer cell proliferation and resistance to chemotherapy. Together, our study suggests that RNF8 could be a very promising target in precision medicine for lung cancer.
Keywords	RNF8 ; ubiquitination ; Akt ; lung cancer ; chemoresistance ; DNA damage response ; Biology (General) ; QH301-705.5
Subject code	610
Language	English
Publishing date	2021-10-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Glucosyltransferase Activity of Clostridium difficile Toxin B Triggers Autophagy-mediated Cell Growth Arrest

Ruina He / Jingyu Peng / Pengfei Yuan / Junjiao Yang / Xiaoji Wu / Yinan Wang / Wensheng Wei

Scientific Reports, Vol 7, Iss 1, Pp 1-

2017 Volume 14

Abstract: Abstract Autophagy is a bulk cell-degradation process that occurs through the lysosomal machinery, and many reports have shown that it participates in microbial pathogenicity. However, the role of autophagy in Clostridium difficile infection (CDI), the ... ...

Abstract	Abstract Autophagy is a bulk cell-degradation process that occurs through the lysosomal machinery, and many reports have shown that it participates in microbial pathogenicity. However, the role of autophagy in Clostridium difficile infection (CDI), the leading cause of antibiotics-associated diarrhea, pseudomembranous colitis and even death in severe cases, is not clear. Here we report that the major virulent factor toxin B (TcdB) of Clostridium difficile elicits a strong autophagy response in host cells through its glucosyltransferase activity. Using a variety of autophagy-deficient cell lines, i.e. HeLa/ATG7 −/−, MEF/atg7 −/−, MEF/tsc2 −/−, we demonstrate that toxin-triggered autophagy inhibits host cell proliferation, which contributes to TcdB-caused cytopathic biological effects. We further show that both the PI3K complex and mTOR pathway play important roles in this autophagy induction process and consequent cytopathic event. Although the glucosyltransferase activity of TcdB is responsible for inducing both cell rounding and autophagy, there is no evidence suggesting the causal relationship between these two events. Taken together, our data demonstrate for the first time that the glucosyltransferase enzymatic activity of a pathogenic bacteria is responsible for host autophagy induction and the following cell growth arrest, providing a new paradigm for the role of autophagy in host defense mechanisms upon pathogenic infection.
Keywords	Medicine ; R ; Science ; Q
Subject code	571
Language	English
Publishing date	2017-09-01T00:00:00Z
Publisher	Nature Publishing Group
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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