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1.
Heliyon ; 10(6): e27043, 2024 Mar 30.
Artigo em Inglês | MEDLINE | ID: mdl-38509882

RESUMO

Despite the raised awareness of the role of pharmacogenomic (PGx) in personalized medicines for COVID-19, data for COVID-19 drugs is extremely scarce and not even a publication on this topic for post-COVID-19 medications to date. In the current study, we investigated the genetic variations associated with COVID-19 and post-COVID-19 therapies by using whole genome sequencing data of the 1000 Vietnamese Genomes Project (1KVG) in comparison with other populations retrieved from the 1000 Genomes Project Phase 3 (1KGP3) and the Genome Aggregation Database (gnomAD). Moreover, we also evaluated the risk of drug interactions in comorbid COVID-19 and post-COVID-19 patients based on pharmacogenomic profiles of drugs using a computational approach. For COVID-19 therapies, variants related to the response of two causal treatment agents (tolicizumab and ritonavir) and antithrombotic drugs are common in the Vietnamese cohort. Regarding post-COVID-19, drugs for mental manipulations possess the highest number of clinical annotated variants carried by Vietnamese individuals. Among the superpopulations, East Asian populations shared the most similar genetic structure with the Vietnamese population, whereas the African population showed the most difference. Comorbid patients are at an increased drug-drug interaction (DDI) risk when suffering from COVID-19 and after recovering as well due to a large number of potential DDIs which have been identified. Our results presented the population-specific understanding of the pharmacogenomic aspect of COVID-19 and post-COVID-19 therapy to optimize therapeutic outcomes and promote personalized medicine strategy. We also partly clarified the higher risk in COVID-19 patients with underlying conditions by assessing the potential drug interactions.

2.
BMC Genomics ; 25(1): 52, 2024 Jan 11.
Artigo em Inglês | MEDLINE | ID: mdl-38212682

RESUMO

BACKGROUND: Most skin-related traits have been studied in Caucasian genetic backgrounds. A comprehensive study on skin-associated genetic effects on underrepresented populations such as Vietnam is needed to fill the gaps in the field. OBJECTIVES: We aimed to develop a computational pipeline to predict the effect of genetic factors on skin traits using public data (GWAS catalogs and whole-genome sequencing (WGS) data from the 1000 Genomes Project-1KGP) and in-house Vietnamese data (WGS and genotyping by SNP array). Also, we compared the genetic predispositions of 25 skin-related traits of Vietnamese population to others to acquire population-specific insights regarding skin health. METHODS: Vietnamese cohorts of whole-genome sequencing (WGS) of 1008 healthy individuals for the reference and 96 genotyping samples (which do not have any skin cutaneous issues) by Infinium Asian Screening Array-24 v1.0 BeadChip were employed to predict skin-associated genetic variants of 25 skin-related and micronutrient requirement traits in population analysis and correlation analysis. Simultaneously, we compared the landscape of cutaneous issues of Vietnamese people with other populations by assessing their genetic profiles. RESULTS: The skin-related genetic profile of Vietnamese cohorts was similar at most to East Asian cohorts (JPT: Fst = 0.036, CHB: Fst = 0.031, CHS: Fst = 0.027, CDX: Fst = 0.025) in the population study. In addition, we identified pairs of skin traits at high risk of frequent co-occurrence (such as skin aging and wrinkles (r = 0.45, p = 1.50e-5) or collagen degradation and moisturizing (r = 0.35, p = 1.1e-3)). CONCLUSION: This is the first investigation in Vietnam to explore genetic variants of facial skin. These findings could improve inadequate skin-related genetic diversity in the currently published database.


Assuntos
Predisposição Genética para Doença , Polimorfismo de Nucleotídeo Único , Pele , População do Sudeste Asiático , Humanos , Estudo de Associação Genômica Ampla , Fenótipo , Vietnã
3.
Sci Rep ; 13(1): 23083, 2023 12 27.
Artigo em Inglês | MEDLINE | ID: mdl-38155188

RESUMO

Most current genotype imputation methods are reference-based, which posed several challenges to users, such as high computational costs and reference panel inaccessibility. Thus, deep learning models are expected to create reference-free imputation methods performing with higher accuracy and shortening the running time. We proposed a imputation method using recurrent neural networks integrating with an additional discriminator network, namely GRUD. This method was applied to datasets from genotyping chips and Low-Pass Whole Genome Sequencing (LP-WGS) with the reference panels from The 1000 Genomes Project (1KGP) phase 3, the dataset of 4810 Singaporeans (SG10K), and The 1000 Vietnamese Genome Project (VN1K). Our model performed more accurately than other existing methods on multiple datasets, especially with common variants with large minor allele frequency, and shrank running time and memory usage. In summary, these results indicated that GRUD can be implemented in genomic analyses to improve the accuracy and running-time of genotype imputation.


Assuntos
Genoma , Polimorfismo de Nucleotídeo Único , Humanos , Genótipo , Frequência do Gene , Estudo de Associação Genômica Ampla/métodos , Técnicas de Genotipagem/métodos
4.
Environ Sci Technol ; 56(16): 11835-11844, 2022 08 16.
Artigo em Inglês | MEDLINE | ID: mdl-35905396

RESUMO

Mercury (Hg) is a ubiquitous contaminant in the environment and its methylated form, methylmercury (MeHg), poses a worldwide health concern for humans and wildlife, primarily through fish consumption. Global production of forest fire ash, derived from wildfires and prescribed burns, is rapidly increasing due to a warming climate, but their interactions with aqueous and sedimentary Hg are poorly understood. Herein, we compared the differences of wildfire ash with activated carbon and biochar on the sorption of aqueous inorganic Hg and sedimentary Hg methylation. Sorption of aqueous inorganic Hg was greatest for wildfire ash materials (up to 0.21 µg g-1 or 2.2 µg g-1 C) among all of the solid sorbents evaluated. A similar Hg adsorption mechanism for activated carbon, biochar made of walnut, and wildfire ash was found that involves the formation of complexes between Hg and oxygen-containing functional groups, especially the -COO group. Notably, increasing dissolved organic matter from 2.4 to 70 mg C L-1 remarkably reduced Hg sorption (up to 40% reduction) and increased the time required to reach Hg-sorbent pseudo-equilibrium. Surprisingly, biochar and wildfire ash, but not activated carbon, stimulated MeHg production during anoxic sediment incubation, possibly due to the release of labile organic matter. Overall, our study indicates that while wildfire ash can sequester aqueous Hg, the leaching of its labile organic matter may promote production of toxic MeHg in anoxic sediments, which has an important implication for potential MeHg contamination in downstream aquatic ecosystems after wildfires.


Assuntos
Mercúrio , Compostos de Metilmercúrio , Poluentes Químicos da Água , Incêndios Florestais , Animais , Ecossistema , Sedimentos Geológicos , Humanos , Mercúrio/análise , Poluentes Químicos da Água/análise
5.
Environ Toxicol Chem ; 41(10): 2488-2499, 2022 10.
Artigo em Inglês | MEDLINE | ID: mdl-35866476

RESUMO

Freshwater organisms are often exposed to contaminants such as heavy metals from stormwater discharges, which are dependent on rainfall duration and intensity. Therefore, standardized (48- or 96-h) continuous exposure methods developed for whole effluent toxicity (WET) testing might not always accurately convey the effects of stormwater and runoff contaminants. The present study characterized the acute toxicity of copper (Cu), zinc (Zn), and cadmium (Cd) to freshwater amphipods (Hyalella azteca) and cadmium (Cd) to water fleas (Ceriodaphnia dubia) using a modified exposure design that integrated relevant pulsed durations and included post-exposure monitoring. Less than 24-h-old C. dubia and 7 to 8-day-old H. azteca were exposed to water spiked with Cu, Zn, or Cd using 6-, 12-, 26-, or 96-h durations under standard laboratory conditions and monitored for cumulative mortality and reproduction (C. dubia only). Lethal effect (LC10s, LC25s, LC50s) and reproductive effect (EC25s, EC50s) were determined based on either mortality or reproduction of organisms at the end of each pulse (6, 12, or 26 h) and at the end of their respective tests (96 h). For all metals exposed to each organism, acute toxicity was found to be highest for the (96 h) continuous exposures. For pulsed exposures, mortality continued to increase following transfer to clean water for post-exposure monitoring. These results indicate a latent effect of Cu, Zn, and Cd to H. azteca and Cd to C. dubia. The present study concluded that using the continuous (48- or 96-h) WET exposure method overestimates the effects of stormwater and runoff contaminants. However, pulsed exposures without post-exposure monitoring also underestimate the toxicity of contaminants. The proposed pulsed exposure design provides a compromise that is more realistic than current WET methods to assess impacts from episodic events and accounts for potential latent effects that may be overlooked without monitoring post-exposure. Environ Toxicol Chem 2022;41:2488-2499. © 2022 SETAC.


Assuntos
Anfípodes , Cladocera , Metais Pesados , Poluentes Químicos da Água , Animais , Organismos Aquáticos , Cádmio , Cobre/toxicidade , Metais Pesados/toxicidade , Poluentes Químicos da Água/análise , Zinco/farmacologia
6.
BMC Infect Dis ; 22(1): 558, 2022 Jun 19.
Artigo em Inglês | MEDLINE | ID: mdl-35718768

RESUMO

BACKGROUND: A global pandemic has been declared for coronavirus disease 2019 (COVID-19), which has serious impacts on human health and healthcare systems in the affected areas, including Vietnam. None of the previous studies have a framework to provide summary statistics of the virus variants and assess the severity associated with virus proteins and host cells in COVID-19 patients in Vietnam. METHOD: In this paper, we comprehensively investigated SARS-CoV-2 variants and immune responses in COVID-19 patients. We provided summary statistics of target sequences of SARS-CoV-2 in Vietnam and other countries for data scientists to use in downstream analysis for therapeutic targets. For host cells, we proposed a predictive model of the severity of COVID-19 based on public datasets of hospitalization status in Vietnam, incorporating a polygenic risk score. This score uses immunogenic SNP biomarkers as indicators of COVID-19 severity. RESULT: We identified that the Delta variant of SARS-CoV-2 is most prevalent in southern areas of Vietnam and it is different from other areas in the world using various data sources. Our predictive models of COVID-19 severity had high accuracy (Random Forest AUC = 0.81, Elastic Net AUC = 0.7, and SVM AUC = 0.69) and showed that the use of polygenic risk scores increased the models' predictive capabilities. CONCLUSION: We provided a comprehensive analysis for COVID-19 severity in Vietnam. This investigation is not only helpful for COVID-19 treatment in therapeutic target studies, but also could influence further research on the disease progression and personalized clinical outcomes.


Assuntos
Tratamento Farmacológico da COVID-19 , COVID-19 , Infecções por Coronavirus , Pneumonia Viral , Betacoronavirus , COVID-19/epidemiologia , Estudo de Associação Genômica Ampla , Humanos , SARS-CoV-2/genética , Vietnã/epidemiologia
8.
Sci Total Environ ; 838(Pt 1): 155827, 2022 Sep 10.
Artigo em Inglês | MEDLINE | ID: mdl-35577091

RESUMO

This study examines the abundance and types of microplastic (MP) content in the digestive system of different bird species to help us better understand MP transfer to birds from their environments. The lower GI tracts of six bird species (Tree Swallow (Tachycineta bicolor), Ovenbird (Seiurus aurocapilla), Dark-eyed Junco (Junco hyemalis), Hermit Thrush (Catharus guttatus), Tennessee Warbler (Leiothlypis peregrine), White-throated Sparrow (Zonotrichia albicollis)) were collected for MP analysis. Tree Swallows were collected from nine locations along three drainages in the Milwaukee area and at a remote lake in Wisconsin, USA and consisted of nestlings not yet fledged. The five other bird species were adult migratory bird fatalities from window strikes at the Loyola University Chicago's Lake Shore Campus. Results of plastic analysis showed that the lower GI tracts of all bird species contained different types of MPs (i.e., fibers, fragment, beads). Fiber was the most dominant, followed by fragment and beads. Microplastics were polyethylene, polyethylene terephthalate, nylon, and polyvinyl base materials. There was no statistically significant difference in the site average MP concentration for nestling Tree Swallows or in the species average concentration for adult migratory birds. However, except for Ovenbird, species of adult migratory birds had a species average MP concentration (20.1) that was statistically higher than the site-average MP concentration for Tree Swallow nestlings (5.9). The presence of MPs in the lower GI tracts of unfledged swallows could suggest that MPs had been transferred to the birds from the environment via their diet, such as flying insects-the food source of the birds. Further study should be conducted to investigate the potential transfer of MPs from aquatic insects to birds.


Assuntos
Passeriformes , Aves Canoras , Andorinhas , Animais , Trato Gastrointestinal , Humanos , Lagos , Microplásticos , Plásticos
9.
Genes (Basel) ; 13(2)2022 01 29.
Artigo em Inglês | MEDLINE | ID: mdl-35205313

RESUMO

(1) Background: Individuals with BRCA1/2 gene mutations are at increased risk of breast and ovarian cancer. The prevalence of BRCA1/2 mutations varies by race and ethnicity, and the prevalence and the risks associated with most BRCA1/2 mutations has not been unknown in the Vietnamese population. We herein screen the entire BRCA1 and BRCA2 genes for breast and ovarian cancer patients with a family history of breast cancer and ovarian cancer, thereby, suggesting a risk score associated with carrier status and history for aiding personalized treatment; (2) Methods: Between December 2017 and December 2019, Vietnamese patients who had a pathological diagnosis of breast and epithelial ovarian cancer were followed up, prospectively, after treatment from two large institutions in Vietnam. Blood samples from 33 Vietnamese patients with hereditary breast and ovarian cancers (HBOC) syndrome were collected and analyzed using Next Generation Sequencing; (3) Results: Eleven types of mutations in both BRCA1 (in nine patients) and BRCA2 (in three patients) were detected, two of which (BRCA1:p.Tyr1666Ter and BRCA2:p.Ser1341Ter) have not been previously documented in the literature. Seven out of 19 patient's relatives had BRCA1/2 gene mutations. All selected patients were counselled about the likelihood of cancer rising and prophylactic screening and procedures. The study established a risk score associated with the cohorts based on carrier status and family history; (4) Conclusions: Our findings suggested the implications for the planning of a screening programme for BRCA1 and BRCA2 genes testing in breast and ovarian cancer patients and genetic screening in their relatives. BRCA1/2 mutation carriers without cancer should have early and regular cancer screening, and prophylactic measures. This study could be beneficial for a diverse group in a large population-specific cohort, related to HBOC Syndrome.


Assuntos
Síndrome Hereditária de Câncer de Mama e Ovário , Neoplasias Ovarianas , Proteína BRCA1/genética , Feminino , Predisposição Genética para Doença , Síndrome Hereditária de Câncer de Mama e Ovário/epidemiologia , Síndrome Hereditária de Câncer de Mama e Ovário/genética , Humanos , Mutação , Neoplasias Ovarianas/epidemiologia , Neoplasias Ovarianas/genética , Neoplasias Ovarianas/patologia , Vietnã/epidemiologia
10.
Environ Toxicol Chem ; 40(8): 2121-2134, 2021 08.
Artigo em Inglês | MEDLINE | ID: mdl-33945644

RESUMO

A review of nickel (Ni) toxicity to aquatic organisms was conducted to determine the primary water quality factors that affect Ni toxicity and to provide information for the development and testing of a biotic ligand model (BLM) for Ni. Acute and chronic data for 66 aquatic species were compiled for the present review. The present review found that dissolved organic carbon (DOC) and hardness act as toxicity-modifying factors (TMFs) because they reduced Ni toxicity to fish and aquatic invertebrates, and these effects were consistent in acute and chronic exposures. The effects of pH on Ni toxicity were inconsistent, and for most organisms there was either no effect of pH or, in some cases, a reduction in toxicity at low pH. There appears to be a unique pH effect on Ceriodaphnia dubia that results in increased toxicity at pHs above 8, but otherwise the effects of TMFs were consistent enough across all organisms and endpoints that a single set of parameters in the Ni BLM worked well with all acute and chronic toxicity data for fish, amphibians, aquatic invertebrates, and aquatic plants and algae. The unique effects of pH on C. dubia may be due to mixture toxicity involving both Ni and bicarbonate. The implications of this mixture effect on BLM modeling and a proposed set of BLM parameters for C. dubia are addressed in the review. Other than this exception, the Ni BLM with a single set of parameters could successfully predict toxicity to all acute and chronic data compiled in the present review. Environ Toxicol Chem 2021;40:2121-2134. © 2021 SETAC.


Assuntos
Poluentes Químicos da Água , Qualidade da Água , Animais , Organismos Aquáticos , Disponibilidade Biológica , Peixes , Água Doce/química , Invertebrados , Ligantes , Níquel/toxicidade , Testes de Toxicidade Crônica , Poluentes Químicos da Água/toxicidade
11.
Environ Toxicol Chem ; 40(7): 2053-2072, 2021 07.
Artigo em Inglês | MEDLINE | ID: mdl-33749927

RESUMO

A long-term exposure outdoor microcosm study was conducted to evaluate the effects of zinc (Zn) on zooplankton, phytoplankton, and periphyton in a freshwater system. Five Zn treatment concentrations (nominal: 8, 20, 40, 80, and 160 µg/L Zn) and an untreated control with 3 replicates each were used. Various physical and chemical characteristics of the microcosms and biological assessment endpoints (e.g., total abundance, group abundance, species richness, chlorophyll a, etc.) were measured to determine the effects of Zn over time. In general, physical and chemical characteristics (e.g., total dissolved solids, total suspended solids, dissolved oxygen, pH, dissolved organic carbon) of water fluctuated over time, but they were not significantly different within treatments and controls during the study. Zinc significantly affected the population dynamics and community structure of plankton. The effects occurred 7 d after initial treatment exposures began and continued to the end of the treatment phase, especially at the high treatment concentrations. Total and group abundance, species richness, the Shannon index, and chlorophyll a concentrations for high Zn treatment concentrations were significantly lower than the controls during the treatment phase. The no-observed-effect, lowest-observed-effect, and median effect concentrations were generally lower than the literature-reported results from single-species toxicity tests for fish and invertebrates, suggesting that plankton are more sensitive to Zn than planktivores. Although primary producers play an important role in the ecosystem, they have not been consistently incorporated into numerical environmental quality criteria for freshwater organisms, at least in the United States. The results of the present study are useful for development of environmental quality guidelines for freshwater ecosystems and ecological risk assessment. Environ Toxicol Chem 2021;40:2053-2072. © 2021 SETAC.


Assuntos
Poluentes Químicos da Água , Zinco , Animais , Clorofila A , Ecossistema , Água Doce/química , Fitoplâncton , Poluentes Químicos da Água/análise , Zinco/análise , Zooplâncton
12.
Environ Toxicol Chem ; 39(8): 1485-1505, 2020 08.
Artigo em Inglês | MEDLINE | ID: mdl-32474951

RESUMO

Environmental and human health challenges are pronounced in Asia, an exceptionally diverse and complex region where influences of global megatrends are extensive and numerous stresses to environmental quality exist. Identifying priorities necessary to engage grand challenges can be facilitated through horizon scanning exercises, and to this end we identified and examined 23 priority research questions needed to advance toward more sustainable environmental quality in Asia, as part of the Global Horizon Scanning Project. Advances in environmental toxicology, environmental chemistry, biological monitoring, and risk-assessment methodologies are necessary to address the adverse impacts of environmental stressors on ecosystem services and biodiversity, with Asia being home to numerous biodiversity hotspots. Intersections of the food-energy-water nexus are profound in Asia; innovative and aggressive technologies are necessary to provide clean water, ensure food safety, and stimulate energy efficiency, while improving ecological integrity and addressing legacy and emerging threats to public health and the environment, particularly with increased aquaculture production. Asia is the largest chemical-producing continent globally. Accordingly, sustainable and green chemistry and engineering present decided opportunities to stimulate innovation and realize a number of the United Nations Sustainable Development Goals. Engaging the priority research questions identified herein will require transdisciplinary coordination through existing and nontraditional partnerships within and among countries and sectors. Answering these questions will not be easy but is necessary to achieve more sustainable environmental quality in Asia. Environ Toxicol Chem 2020;39:1485-1505. © 2020 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.


Assuntos
Ecossistema , Desenvolvimento Sustentável , Animais , Ásia , Biodiversidade , Ecotoxicologia , Poluentes Ambientais/análise , Humanos , Medição de Risco
13.
BMC Genomics ; 21(Suppl 1): 834, 2020 Mar 05.
Artigo em Inglês | MEDLINE | ID: mdl-32138666

RESUMO

BACKGROUND: Pathway analysis is one of the later stage data analysis steps essential in interpreting high-throughput gene expression data. We propose a set of algorithms which given gene expression data can recognize which portion of sub-pathways are actively utilized in the biological system being studied. The degree of activation is measured by conditional probability of the input expression data based on the Bayesian Network model constructed from the topological pathway. RESULTS: We demonstrate the effectiveness of our pathway analysis method by conducting two case studies. The first one applies our method to a well-studied temporal microarray data set for the cell cycle using the KEGG Cell Cycle pathway. Our method closely reproduces the biological claims associated with the data sets, but unlike the original work ours can produce how pathway routes interact with each other above and beyond merely identifying which pathway routes are involved in the process. The second study applies the method to the p53 mutation microarray data to perform a comparative study. CONCLUSIONS: We show that our method achieves comparable performance against all other pathway analysis systems included in this study in identifying p53 altered pathways. Our method could pave a new way of carrying out next generation pathway analysis.


Assuntos
Perfilação da Expressão Gênica/métodos , Sequenciamento de Nucleotídeos em Larga Escala/métodos , Mutação , Proteína Supressora de Tumor p53/genética , Algoritmos , Teorema de Bayes , Ciclo Celular , Regulação da Expressão Gênica , Redes Reguladoras de Genes , Células HeLa , Humanos
14.
Sci Total Environ ; 704: 135433, 2020 Feb 20.
Artigo em Inglês | MEDLINE | ID: mdl-31896224

RESUMO

The present study characterizes the dependence of microplastic consumption and excretion on particle size and body shape of fathead minnow (Pimephales promelas) over time that has not been studied. Specifically, the study is to answer four important questions: 1) how do P. promelas consume microplastic particles at different size ranges over time? 2) how long does it take for P. promelas to excrete microplastic particles after consumption? 3) do P. promelas reconsume microplastic particles after excretion? 4) are microplastic consumption and excretion by P. promelas dependent on the body shape? To answer these questions, larval P. promelas were exposed to polyethylene microbeads (PMBs) at two different consumable size ranges of 63-75 µm and 125-150 µm in moderately hard water. The experiments were designed to allow and to not allow fish to reconsume the particles they excreted. Results of the present study showed that P. promelas consumed significant amount of PMBs after 1 h of exposure to PMBs regardless particle size. The number of consumed PMBs per fish at smaller size range was up to 10 times higher than that at larger size range. When expressing the consumption in µg PMBs/fish, this difference was approximately 1.3 times, suggesting the importance of the measurement unit. After consuming, fish excreted PMBs over time and reconsumed excreted PMBs if reconsumption was allowed. Interestingly, it took longer for bent body fish to excrete PMBs than regular straight body fish. Our observation showed that excreted PMBs were likely coated with intestinal fluid that is denser than water, resulting in aggregation and deposition of PMBs. This result suggests that in the natural environment, the consumption and excretion of plastics by fish would enhance the movement of plastics from the water column to the waterbed and make it available for benthic organisms.


Assuntos
Cyprinidae , Microplásticos , Animais , Tamanho da Partícula , Poluentes Químicos da Água
15.
Sci Rep ; 9(1): 9029, 2019 06 21.
Artigo em Inglês | MEDLINE | ID: mdl-31227749

RESUMO

Transcriptome data can provide information on signaling pathways active in cancers, but new computational tools are needed to more accurately quantify pathway activity and identify tissue-specific pathway features. We developed a computational method called "BioTarget" that incorporates ChIP-seq data into cellular pathway analysis. This tool relates the expression of transcription factor TF target genes (based on ChIP-seq data) with the status of upstream signaling components for an accurate quantification of pathway activity. This analysis also reveals TF targets expressed in specific contexts/tissues. We applied BioTarget to assess the activity of TBX21 and GATA3 pathways in cancers. TBX21 and GATA3 are TF regulators that control the differentiation of T cells into Th1 and Th2 helper cells that mediate cell-based and humoral immune responses, respectively. Since tumor immune responses can impact cancer progression, the significance of our pathway scores should be revealed by effective patient stratification. We found that low Th1/Th2 activity ratios were associated with a significantly poorer survival of stomach and breast cancer patients, whereas an unbalanced Th1/Th2 response was correlated with poorer survival of colon cancer patients. Lung adenocarcinoma and lung squamous cell carcinoma patients had the lowest survival rates when both Th1 and Th2 responses were high. Our method also identified context-specific target genes for TBX21 and GATA3. Applying the BioTarget tool to BCL6, a TF associated with germinal center lymphocytes, we observed that patients with an active BCL6 pathway had significantly improved survival for breast, colon, and stomach cancer. Our findings support the effectiveness of the BioTarget tool for transcriptome analysis and point to interesting associations between some immune-response pathways and cancer progression.


Assuntos
Biologia Computacional/métodos , Perfilação da Expressão Gênica/métodos , Sistema Imunitário/metabolismo , Neoplasias/genética , Transdução de Sinais/genética , Linfócitos T/metabolismo , Diferenciação Celular/genética , Diferenciação Celular/imunologia , Fator de Transcrição GATA3/genética , Humanos , Sistema Imunitário/citologia , Sistema Imunitário/imunologia , Estimativa de Kaplan-Meier , Neoplasias/classificação , Neoplasias/patologia , Proteínas Proto-Oncogênicas c-bcl-6/genética , Transdução de Sinais/imunologia , Proteínas com Domínio T/genética , Subpopulações de Linfócitos T/imunologia , Subpopulações de Linfócitos T/metabolismo , Linfócitos T/citologia , Linfócitos T/imunologia , Células Th1/imunologia , Células Th1/metabolismo , Células Th2/imunologia , Células Th2/metabolismo
16.
Environ Manage ; 63(4): 433-436, 2019 04.
Artigo em Inglês | MEDLINE | ID: mdl-30739149

RESUMO

This editorial introduces the issue of selected papers that were presented at the third International Conference on Environmental Pollution, Restoration, and Management in Quy Nhon, Vietnam on 6-10 March 2017. While environmental problems caused by diverse municipal, industrial, and other economic development activities continue to increase in many Asian countries, public awareness about environmental management for public health and the environment remain at levels that favor accepting environmental degradation and impacts for tradeoffs with economic values. This special issue resulted from a conference that was organized to bringing scientists from developed and developing countries to Vietnam to share experiences, discuss environmental problems, and enhance future collaborations for research and training in support of better management plans for the environment and health. Papers published in this issue present original results from diverse research on current environmental management challenges in Vietnam and other Asian countries. The research areas include environmental contamination in groundwater and diet that affect human health, waste composting, and effects of wastewater effluent, which is one of the greatest challenges in most Asian countries. In addition, impacts of hazardous chemical emissions and related environmental management efforts, and sustainable development approaches are included.


Assuntos
Países em Desenvolvimento , Poluição Ambiental , Ásia , Humanos , Vietnã
17.
Environ Sci Technol ; 52(24): 14149-14157, 2018 12 18.
Artigo em Inglês | MEDLINE | ID: mdl-30516053

RESUMO

Wildfires are expected to become more frequent and intensive at the global scale due to climate change. Many studies have focused on the loss of mercury (Hg) from burned forests; however, little is known about the origins, concentration, reactivity, and bioavailability of Hg in residual ash materials in postfire landscapes. We examine Hg levels and reactivity in black ash (BA, low burn intensity) and white ash (WA, high burn intensity) generated from two recent northern California wildfires and document that all ash samples contained measurable, but highly variable, Hg levels ranging from 4 to 125 ng/g dry wt. ( n = 28). Stable Hg isotopic compositions measured in select ash samples suggest that most Hg in wildfire ash is derived from vegetation. Ash samples had a highly variable fraction of Hg in recalcitrant forms (0-75%), and this recalcitrant Hg pool appears to be associated with the black carbon fraction in ash. Both BA and WA were found to strongly sequester aqueous inorganic Hg but not gaseous elemental Hg under controlled conditions. During anoxic ash incubation with natural surface water, we find that Hg in most ash samples had a minimal release and low methylation potential. Thus, the formation of wildfire ash can sequester Hg into relatively nonbioavailable forms, attenuating the potentially adverse effects of Hg erosion and transport to aquatic environments along with eroded wildfire ash.


Assuntos
Mercúrio , Incêndios Florestais , Disponibilidade Biológica , California , Florestas
18.
Chemosphere ; 208: 991-1001, 2018 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-30068043

RESUMO

The present study assessed the chronic toxicity of cadmium (Cd) and nickel (Ni) mixtures to Daphnia magna. Using a titration design, Ni concentrations of 20, 40, 80, 100, 120, 140, and 160 µg/L were tested alone and simultaneously titrated in increments against a constant concentration of 1.5 µg/L Cd. The results demonstrated that Cd at 1.5 µg/L was highly toxic to D. magna, and Ni alone concentrations ≥80 µg/L were toxic to D. magna survival, reproduction, and growth. No Ni alone concentration was found to induce a toxic effect on undeveloped embryos and the time to first brood. Only the Ni alone treatment containing 200 µg/L affected the reproductive rates of D. magna. For CdNi mixtures, Ni concentrations of 20, 40, and 80 µg/L were found to strongly protect D. magna from Cd toxicity at the survival and growth endpoints, resulting in less-than-additive effects, but not on the reproductive endpoint. At higher concentrations, Ni exceeded the necessary concentration needed to protect D. magna, and appeared to contribute to the toxicity. Overall, the results of metal uptake support the competitive binding mechanism at the biotic ligand and explain the less-than-additive effects observed in the CdNi mixtures concentration. The embryonic effects of CdNi mixtures are not explained by the competitive binding mechanism at the biotic ligand. More research is needed to determine the mechanisms that produce embryonic impairment when cellular metals interact. Overall, the results of the present study are relevant for the development of improved environmental quality guidelines for metal mixtures.


Assuntos
Cádmio/toxicidade , Daphnia/crescimento & desenvolvimento , Níquel/toxicidade , Reprodução/efeitos dos fármacos , Poluentes Químicos da Água/toxicidade , Animais , Daphnia/efeitos dos fármacos
19.
Environ Toxicol Chem ; 37(10): 2705-2713, 2018 10.
Artigo em Inglês | MEDLINE | ID: mdl-30044002

RESUMO

The aim of the present study was to determine the influence of salinity and organism age on the chronic toxicity of waterborne lead (Pb) to Atherinops affinis and to compare the relative Pb sensitivity of A. affinis with other marine species. Chronic Pb exposure experiments were conducted in a water flow-through testing system. Survival, standard length, dry weight, and tissue Pb concentration were measured and lethal concentrations (LCs), effect concentrations (ECs), and bioconcentration factors (BCFs) were calculated. In general, increasing salinity and organism age decreased Pb toxicity. The LC50s for larval fish at 14 and 28 ppt salinity were 15.1 and 79.8 µg/L dissolved Pb, respectively; whereas, the LC50 for juvenile fish was 167.6 µg/L dissolved Pb at 28 ppt salinity. Using standard length data, the EC10 values for larval fish were 16.4 and 82.4 µg/L dissolved Pb at 14 and 28 ppt salinity, respectively. The dry weight EC25s for low and high salinity were 15.6 and 61.84 µg/L dissolved Pb, respectively. The BCFs were higher with the lower salinity study (1703) in comparison to the higher salinity study (654). Results of Pb speciation calculation showed higher fraction of Pb2+ in water with lower salinity, explaining the higher observed toxicity of Pb in lower salinity water than higher salinity water. Atherinops affinis is more sensitive to Pb than several other marine species. Evidence of abnormal swimming and skeletal deformities were observed in Pb exposure treatments. Results of the present study are useful for marine biotic ligand modeling and support ecological risk assessment and deriving Pb environmental quality criteria for marine environments. Environ Toxicol Chem 2018;37:2705-2713. © 2018 SETAC.


Assuntos
Envelhecimento/fisiologia , Organismos Aquáticos/efeitos dos fármacos , Exposição Ambiental/análise , Peixes/fisiologia , Chumbo/toxicidade , Salinidade , Animais , Determinação de Ponto Final , Peixes/anatomia & histologia , Larva/efeitos dos fármacos , Dose Letal Mediana , Nível de Efeito Adverso não Observado , Testes de Toxicidade , Água/química , Poluentes Químicos da Água/toxicidade
20.
Sci Total Environ ; 633: 500-507, 2018 Aug 15.
Artigo em Inglês | MEDLINE | ID: mdl-29579661

RESUMO

The rapid increase in plastic use over the last few decades has resulted in plastic pollution in freshwater and marine ecosystems. However, more attention has been paid to plastic pollution in marine ecosystems than to freshwater ecosystems. This research determined microplastic ingestion by Daphnia magna and the potential effect of microplastics on the organism's survival and reproduction. The study also examined the potential of microplastics to enhance algal growth in support of understanding effects of microplastic ingestion on the organism. When exposed to 25, 50, and 100mg/L fluorescent green polyethylene microbeads at size of 63-75µm, D. magna ingested significant amount of plastic microbeads. The number of ingested beads increased with increasing particle concentration and exposure time. However, no significant effect on survival and reproduction was observed although the gut of D. magna was filled with plastic microbeads. In the algal experiment, Raphidocelis subcapitata grew more in the exposure media with the present of plastic microbeads than without plastic microbeads. This result suggests that plastic microbeads could serve as substrates for R. subcapitata to grow. Raphidocelis subcapitata then could be transferred to the organism's gut and provided energy for survival and reproduction. Results of the present study add to the literature of microplastic ingestion by aquatic organisms. Caution should be taken when interpreting hazards of microplastics based on ingestion, such as the measurement unit and the presence of algae in the environment.


Assuntos
Clorófitas/crescimento & desenvolvimento , Daphnia/fisiologia , Plásticos/análise , Poluentes Químicos da Água/análise , Animais
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