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Zhao F, Gong Z, Yang Y, Li X, Chen D, Shi X, Yu T, Wei P. Effects of environmentally relevant concentrations of florfenicol on the glucose metabolism system, intestinal microbiome, and liver metabolome of zebrafish. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 938:173417. [PMID: 38797401 DOI: 10.1016/j.scitotenv.2024.173417] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2024] [Revised: 05/16/2024] [Accepted: 05/19/2024] [Indexed: 05/29/2024]
Abstract
Florfenicol, a widely used veterinary antibiotic, has now been frequently detected in various water environments and human urines, with high concentrations. Accordingly, the ecological risks and health hazards of florfenicol are attracting increasing attention. In recent years, antibiotic exposure has been implicated in the disruption of animal glucose metabolism. However, the specific effects of florfenicol on the glucose metabolism system and the underlying mechanisms are largely unknown. Herein, zebrafish as an animal model were exposed to environmentally relevant concentrations of florfenicol for 28 days. Using biochemical and molecular analyses, we found that exposure to florfenicol disturbed glucose homeostasis, as evidenced by the abnormal levels of blood glucose and hepatic/muscular glycogen, and the altered expression of genes involved in glycogenolysis, gluconeogenesis, glycogenesis, and glycolysis. Considering the efficient antibacterial activity of florfenicol and the crucial role of intestinal flora in host glucose metabolism, we then analyzed changes in the gut microbiome and its key metabolite short-chain fatty acids (SCFAs). Results indicated that exposure to florfenicol caused gut microbiota dysbiosis, inhibited the production of intestinal SCFAs, and ultimately affected the downstream signaling pathways of SCFA involved in glucose metabolism. Moreover, non-targeted metabolomics revealed that arachidonic acid and linoleic acid metabolic pathways may be associated with insulin sensitivity changes in florfenicol-exposed livers. Overall, this study highlighted a crucial aspect of the environmental risks of florfenicol to both non-target organisms and humans, and presented novel insights into the mechanistic elucidation of metabolic toxicity of antibiotics.
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Affiliation(s)
- Fei Zhao
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Zhilin Gong
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Yanyu Yang
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Xinhui Li
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Dong Chen
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Xueqing Shi
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Tong Yu
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China
| | - Penghao Wei
- School of Environmental and Municipal Engineering, Qingdao University of Technology, Qingdao 266520, China.
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Doust SN, Haghshenas SA, Bishop EE, Risk MJ, Downs CA. Fine-scale geographic risk assessment of oxybenzone sunscreen pollution within Hanauma Bay using hydrodynamic characterization and modeling. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167614. [PMID: 37804976 DOI: 10.1016/j.scitotenv.2023.167614] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Revised: 09/20/2023] [Accepted: 10/04/2023] [Indexed: 10/09/2023]
Abstract
Hanauma Bay's coral reef system is threatened by sunscreen pollution. Understanding the hydrodynamic nature of the bay is crucial for understanding the transport and fate of pollutants within the bay. This study conducted a comprehensive hydrodynamic analysis, revealing significant aspects of current patterns and their influence on sunscreen pollutant behavior. The analysis demonstrated the formation of flows that drive currents parallel to the shoreline, resulting in increased pollutant retention time over sensitive reef areas. Direct flushing currents were identified as playing a role in reducing pollution buildup. Particle dynamics analysis highlighted the importance of considering temporal dynamics and their implications for pollutant pathways, particularly through the swash zone during high tide phases. The study identified primary current patterns near the reef area and emphasized the circular behavior within the water body, affecting corals' susceptibility to bleaching in the southwestern part of Hanauma bay. To understand where oxybenzone concentrations were a threat to wildlife, we created a geographic model that integrated ecological risk assessment with hydrodynamic behavior in a given system, which we designate the Risk Quotient Plume - the geographic area where the concentration is above the threat level for a chemical. The study found high oxybenzone concentrations throughout the bay, threatening coral, fish, and algae populations. Oxybenzone's distribution indicated a serious threat to the entire back reef habitat and a hinderance to coral restoration efforts. The study also emphasizes the need to consider the hydrodynamic behavior of pollutants and their interaction with microplastics in the bay. Overall, the findings provide insights into hydrodynamics and pollutant dispersion in Hanauma Bay, supporting effective pollution management and conservation strategies.
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Affiliation(s)
- Shadan Nasseri Doust
- Institute of Geophysics, University of Tehran, North Kargar Ave., Tehran 1439951113, Islamic Republic of Iran
| | - S Abbas Haghshenas
- Institute of Geophysics, University of Tehran, North Kargar Ave., Tehran 1439951113, Islamic Republic of Iran.
| | - Elizabeth E Bishop
- Friends of Hanauma Bay, P.O. Box 25761, Honolulu, HI 96825-07610, United States of America
| | - Michael J Risk
- School of Geography and Geology, McMaster University, N0G 1R0, Canada
| | - C A Downs
- Haereticus Environmental Laboratory, P.O. Box 92, Clifford, VA 24533, United States of America.
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Huang Y, Wang P, Peng W, Law JCF, Zhang L, Shi H, Zhang Y, Leung KSY. Co-exposure to organic UV filters and phthalates and their associations with oxidative stress levels in children: A prospective follow-up study in China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 905:167433. [PMID: 37774881 DOI: 10.1016/j.scitotenv.2023.167433] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Revised: 09/15/2023] [Accepted: 09/26/2023] [Indexed: 10/01/2023]
Abstract
Children are highly vulnerable to environmental pollutants, especially endocrine-disrupting chemicals (EDCs). Previous research has linked both organic UV filters and phthalates exposure to adiposity and pubertal development in children. Nevertheless, the individual and collective effects of these chemicals on this population remain poorly understood. In this study, twelve organic UV filters and metabolites, six phthalate metabolites and two oxidative stress biomarkers were analyzed in a prospective follow-up study in Shanghai, China after a baseline study conducted 1.5 years earlier. Results revealed a positive association between exposure to individual organic UV filters or their mixture and levels of 8-OHdG (β ranging from 0.242 to 0.588, P < 0.05), a marker of oxidative DNA damage. BP-3 and OD-PABA made a greater contribution to oxidative DNA damage than other UV filters. Levels of 8-OHdG were also positively correlated with single phthalate metabolites and their mixture, with MnBP and MMP contributing the most. Stratified analysis found that these associations were mainly observed in girls. Our mixture analysis revealed cumulative risks of oxidative DNA damage when there was co-exposure to these two kinds of EDCs. These results underscore the importance of considering the risks associated with organic UV filters and the necessity of evaluating the effects of all these pollutants, both individually and in mixtures.
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Affiliation(s)
- Yanran Huang
- Department of Applied Biology and Chemical Technology, Hong Kong Polytechnic University, Hong Kong Special Administrative Region, P. R. China
| | - Pengpeng Wang
- Department of Occupational and Environmental Health, College of Public Health, Zhengzhou University, Zhengzhou, China; Key Laboratory of Public Health Safety, Ministry of Education, School of Public Health, Fudan University, Shanghai 200032, China
| | - Weiyu Peng
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong Special Administrative Region, P. R. China
| | - Japhet Cheuk-Fung Law
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong Special Administrative Region, P. R. China
| | - Liyi Zhang
- Key Laboratory of Public Health Safety, Ministry of Education, School of Public Health, Fudan University, Shanghai 200032, China; Key Lab of Health Technology Assessment, National Health Commission of the People's Republic of China, Fudan University, China
| | - Huijing Shi
- Key Laboratory of Public Health Safety, Ministry of Education, School of Public Health, Fudan University, Shanghai 200032, China; Key Lab of Health Technology Assessment, National Health Commission of the People's Republic of China, Fudan University, China
| | - Yunhui Zhang
- Key Laboratory of Public Health Safety, Ministry of Education, School of Public Health, Fudan University, Shanghai 200032, China; Key Lab of Health Technology Assessment, National Health Commission of the People's Republic of China, Fudan University, China.
| | - Kelvin Sze-Yin Leung
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong Special Administrative Region, P. R. China; HKBU Institute of Research and Continuing Education, Shenzhen Virtual University Park, Shenzhen, China.
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Grimmelpont M, Lefrançois C, Panisset Y, Jourdon G, Receveur J, Le Floch S, Boudenne JL, Labille J, Milinkovitch T. Avoidance behaviour and toxicological impact of sunscreens in the teleost Chelon auratus. MARINE POLLUTION BULLETIN 2023; 194:115245. [PMID: 37517278 DOI: 10.1016/j.marpolbul.2023.115245] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2022] [Revised: 06/20/2023] [Accepted: 06/30/2023] [Indexed: 08/01/2023]
Abstract
There is increasing evidence that sunscreen, more specifically the organic ultra-violet filters (O-UVFs), are toxic for aquatic organisms. In the present study, we simulated an environmental sunscreen exposure on the teleost fish, Chelon auratus. The first objective was to assess their spatial avoidance of environmental concentrations of sunscreen products (i.e. a few μg.L-1 of O-UVFs). Our results showed that the fish did not avoid the contaminated area. Therefore, the second objective was to evaluate the toxicological impacts of such pollutants after 35 days exposure to concentrations of a few μg.L-1 of O-UVFs. At the individual level, O-UVFs increased the hepatosomatic index which could suggest pathological alterations of the liver or the initiation of the detoxification processes. At the cellular level, a significant increase of malondialdehyde was measured in the muscle of fish exposed to O-UVFs which suggests a failure of antioxidant defences and/or an excess of reactive oxygen species.
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Affiliation(s)
- Margot Grimmelpont
- Littoral Environnement et Sociétés (LIENSs), UMR 7266, CNRS-Université de La Rochelle, 2 rue Olympe de Gouges, F-17042 La Rochelle Cedex 01, France.
| | - Christel Lefrançois
- Littoral Environnement et Sociétés (LIENSs), UMR 7266, CNRS-Université de La Rochelle, 2 rue Olympe de Gouges, F-17042 La Rochelle Cedex 01, France.
| | - Yannis Panisset
- Littoral Environnement et Sociétés (LIENSs), UMR 7266, CNRS-Université de La Rochelle, 2 rue Olympe de Gouges, F-17042 La Rochelle Cedex 01, France
| | - Guilhem Jourdon
- Littoral Environnement et Sociétés (LIENSs), UMR 7266, CNRS-Université de La Rochelle, 2 rue Olympe de Gouges, F-17042 La Rochelle Cedex 01, France
| | - Justine Receveur
- Centre de Documentation de Recherche et d'Expérimentations sur les Pollutions Accidentelles des Eaux (CEDRE), 715 rue Alain Colas, CS41836-F-29218 Brest Cedex 2, France.
| | - Stéphane Le Floch
- Centre de Documentation de Recherche et d'Expérimentations sur les Pollutions Accidentelles des Eaux (CEDRE), 715 rue Alain Colas, CS41836-F-29218 Brest Cedex 2, France.
| | | | - Jérôme Labille
- Aix Marseille Univ, CNRS, IRD, INRAe, Coll France, CEREGE, Aix-en-Provence, France.
| | - Thomas Milinkovitch
- Littoral Environnement et Sociétés (LIENSs), UMR 7266, CNRS-Université de La Rochelle, 2 rue Olympe de Gouges, F-17042 La Rochelle Cedex 01, France.
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5
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Wang Y, Jiang S, Chen X, Liu X, Li N, Nie Y, Lu G. Comparison of developmental toxicity of benzophenone-3 and its metabolite benzophenone-8 in zebrafish. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2023; 258:106515. [PMID: 37011548 DOI: 10.1016/j.aquatox.2023.106515] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2022] [Revised: 03/28/2023] [Accepted: 03/29/2023] [Indexed: 06/19/2023]
Abstract
Benzophenone-3 (BP-3) as one of frequently used organic UV filters has been considered an emerging pollutant due to its toxicities. Benzophenone-8 (BP-8) is one of the main metabolites of BP-3 in organisms. Current reports show that BP-8 may be more toxic than BP-3. However, difference of their toxicities on embryonic development has rarely been reported. In this study, zebrafish embryos were chosen as the target organism to explore the developmental toxicities of BP-3 and BP-8. Non-targeted metabolomic analysis was performed to compare their modes of action. Results showed that BP-8 exposures led to higher bioaccumulation and lower hatching rate of zebrafish larvae than BP-3. Both BP-8 and BP-3 exposures caused behavioral abnormalities of zebrafish larvae, but no significant difference was found between them. At the metabolome level, 1 μg/L BP-3 and 1 μg/L BP-8 exposures altered neuroactive ligand-receptor interaction pathway and FoxO signaling pathway, respectively, which might be involved in the abnormal behaviors in zebrafish larvae. For higher exposure groups (30 and 300 μg/L), both BP-3 and BP-8 exposures changed metabolism of cofactors and vitamins of zebrafish larvae. Exposure of BP-3 altered the metabolism by pantothenate and CoA biosynthesis pathway, while BP-8 exposure changed riboflavin metabolism and folate biosynthesis. The above results indicated different modes of action of BP-3 and BP-8 in zebrafish embryonic development. This study sheds new light to biological hazards of BP-3 due to its metabolism in aquatic organisms.
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Affiliation(s)
- Yonghua Wang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China.
| | - Shengnan Jiang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China
| | - Xi Chen
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China
| | - Xiaodan Liu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China
| | - Na Li
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China
| | - Yang Nie
- Hangzhou Hydrology and Water Resources Monitoring Center, Hangzhou 310016, PR China.
| | - Guanghua Lu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, PR China
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6
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Scheele A, Sutter K, Karatum O, Danley-Thomson AA, Redfern LK. Environmental impacts of the ultraviolet filter oxybenzone. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 863:160966. [PMID: 36535482 DOI: 10.1016/j.scitotenv.2022.160966] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Revised: 10/17/2022] [Accepted: 12/12/2022] [Indexed: 06/17/2023]
Abstract
Organic UV filters are emerging contaminants with increasing evidence of their negative impact on environmental health and water quality. One of the most common and environmentally relevant organic UV filters is oxybenzone (OBZ). While much of the initial focus has been on investigating the interaction of OBZ with coral reefs, there have been several recent studies that indicate that organic UV filters are affecting other environmental endpoints, including marine animals, algae, and plants. OBZ has been found to bioaccumulate in marine animals such as fish and mussels and then potentially acting as an endocrine disruptor. In plants, exposure to OBZ has been associated with decreased photosynthesis, inhibited seed germination, and impaired plant growth. In this review, we summarize the current state of knowledge regarding the environmental impacts of OBZ and suggest potential future directions.
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Affiliation(s)
- Alexis Scheele
- Department of Bioengineering, Civil and Environmental Engineering, Florida Gulf Coast University, Fort Myers, FL 33965, United States of America
| | - Kimberly Sutter
- Department of Bioengineering, Civil and Environmental Engineering, Florida Gulf Coast University, Fort Myers, FL 33965, United States of America
| | - Osman Karatum
- Department of Bioengineering, Civil and Environmental Engineering, Florida Gulf Coast University, Fort Myers, FL 33965, United States of America
| | - Ashley A Danley-Thomson
- Department of Bioengineering, Civil and Environmental Engineering, Florida Gulf Coast University, Fort Myers, FL 33965, United States of America
| | - Lauren K Redfern
- Department of Bioengineering, Civil and Environmental Engineering, Florida Gulf Coast University, Fort Myers, FL 33965, United States of America.
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7
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He J, Xue Q, Hua X, Li Q, Chen Z, Zhu C, Shi W. Association between environmental phenols and all-cause and cancer mortality. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:33432-33437. [PMID: 36481850 DOI: 10.1007/s11356-022-24415-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2022] [Accepted: 11/22/2022] [Indexed: 06/17/2023]
Abstract
To study the association between environmental phenols exposure, including benzophenone-3 (BP3) and triclosan, and all-cause mortality and cancer mortality in adults. A total of 8035 participants were included from the National Health and Nutrition Examination Survey (2003-2012). Urinary BP3 and triclosan were measured with liquid chromatography-tandem mass spectrometry. The associations between urinary BP3 and triclosan with cancer and all-cause mortality were explored by multivariable logistic regressions and restricted cubic splines. During an average of 7.25-year follow-up, 696 cases (8.7%) of all-cause mortality and 137 cases (1.71%) of cancer mortality occurred. The average levels of BP3 and triclosan were 12.2 and 10.3 ng/mL, respectively. Compared with the lowest quartile, the multivariable-adjusted hazard ratio of the highest quartile was 0.64 (95% confidence interval: 0.50 to 0.81; P < 0.001) for BP3 and 0.76 (0.61 to 0.94; P = 0.011) for triclosan. However, no significant associations between urinary BP3 and triclosan and cancer mortality were observed. BP3 and triclosan exposure decreased the risk of all-cause mortality while they were not associated with cancer mortality.
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Affiliation(s)
- Jing He
- Department of Chemotherapy, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
- Medical School of Nantong University, Nantong, 226001, China
- Research Center of Clinical Medicine, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
| | - Qingfeng Xue
- Medical School of Nantong University, Nantong, 226001, China
- Department of Oncology, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
| | - Xin Hua
- Medical School of Nantong University, Nantong, 226001, China
- Department of Oncology, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
| | - Quanqing Li
- Medical School of Nantong University, Nantong, 226001, China
- Department of Oncology, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
| | - Ziwei Chen
- Department of Cardiology, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China
| | - Cindy Zhu
- Department of Psychology, University of California, Los Angeles, CA, 90025, USA
| | - Wenyu Shi
- Department of Chemotherapy, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China.
- Medical School of Nantong University, Nantong, 226001, China.
- Research Center of Clinical Medicine, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China.
- Department of Oncology, Affiliated Hospital of Nantong University, 20 Xisi Road, Nantong, 226001, China.
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8
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Costa RM, Matos E Chaib VR, Domingues AG, Rubio KTS, Martucci MEP. Untargeted Metabolomics Reveals Lipid Impairment in the Liver of Adult Zebrafish (Danio rerio) Exposed to Carbendazim. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2023; 42:437-448. [PMID: 36484755 DOI: 10.1002/etc.5534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Revised: 10/24/2022] [Accepted: 11/24/2022] [Indexed: 06/17/2023]
Abstract
Carbendazim is a systemic fungicide used in several countries, particularly in Brazil. However, studies suggest that it is related to the promotion of tumors, endocrine disruption, and toxicity to organisms, among other effects. As a result, carbendazim is not allowed in the United States, Australia, and some European Union countries. Therefore, further studies are necessary to evaluate its effects, and zebrafish is a model routinely used to provide relevant information regarding the acute and long-term effects of xenobiotics. In this way, zebrafish water tank samples (water samples from aquari containing zebrafish) and liver samples from animals exposed to carbendazim at a concentration of 120 μg/L were analyzed by liquid chromatography coupled to high-resolution mass spectrometry, followed by multivariate and univariate statistical analyses, using the metabolomics approach. Our results suggest impairment of lipid metabolism with a consequent increase in intrahepatic lipids and endocrine disruption. Furthermore, the results suggest two endogenous metabolites as potential biomarkers to determine carbendazim exposure. Finally, the present study showed that it is possible to use zebrafish water tank samples to assess the dysregulation of endogenous metabolites to understand biological effects. Environ Toxicol Chem 2023;42:437-448. © 2022 SETAC.
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Affiliation(s)
- Raíssa M Costa
- Postgraduate Program in Environmental Engineering-ProAmb, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
| | - Victória R Matos E Chaib
- Department of Pharmacy, School of Pharmacy, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
| | - Anderson G Domingues
- Department of Pharmacy, School of Pharmacy, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
| | - Karina T S Rubio
- Department of Pharmacy, School of Pharmacy, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
| | - Maria Elvira Poleti Martucci
- Postgraduate Program in Environmental Engineering-ProAmb, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
- Department of Pharmacy, School of Pharmacy, Federal University of Ouro Preto, Ouro Preto, Minas Gerais, Brazil
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9
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Colás-Ruiz NR, Courant F, Gomez E, Lara-Martín PA, Hampel M. Transcriptomic and metabolomic integration to assess the response of gilthead sea bream (Sparus aurata) exposed to the most used insect repellent: DEET. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 316:120678. [PMID: 36403875 DOI: 10.1016/j.envpol.2022.120678] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 11/12/2022] [Accepted: 11/14/2022] [Indexed: 06/16/2023]
Abstract
DEET is one of the most frequently detected insect repellents in the environment reaching concentrations of several μg L-1 in surface water. There is scarce information available regarding its mode of action in non-target organisms. Here, we have used an integrated metabolomic and transcriptomic approach to elucidate the possible adverse effects of DEET exposure in the marine fish gilthead sea bream (Sparus aurata). Individuals were exposed at an environmentally relevant concentration of DEET (10 μg L-1) for 22 days in a continuous flow-through system. Transcriptomic analysis revealed 250 differentially expressed genes in liver, while metabolomic analysis identified 190 differentially modulated features in liver and 98 in plasma. Multi-omic data integration and visualization allowed elucidation of the modes of action of DEET exposure, including: energy depletion through the disruption of carbohydrate and amino acids metabolisms, oxidative stress leading to DNA damage, lipid peroxidation, and damage to cell membrane and apoptosis. Activation of xenobiotic pathway as well as the inmune-inflammatory reaction was evidenced in the present work.
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Affiliation(s)
- Nieves R Colás-Ruiz
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510, Puerto Real, Cádiz, Spain.
| | - Frédérique Courant
- Hydrosciences Montpellier, University of Montpellier, IRD, CNRS, Montpellier, France
| | - Elena Gomez
- Hydrosciences Montpellier, University of Montpellier, IRD, CNRS, Montpellier, France
| | - Pablo A Lara-Martín
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510, Puerto Real, Cádiz, Spain
| | - Miriam Hampel
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510, Puerto Real, Cádiz, Spain
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Gilthead Seabream Liver Integrative Proteomics and Metabolomics Analysis Reveals Regulation by Different Prosurvival Pathways in the Metabolic Adaptation to Stress. Int J Mol Sci 2022; 23:ijms232315395. [PMID: 36499720 PMCID: PMC9741202 DOI: 10.3390/ijms232315395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 11/25/2022] [Accepted: 12/03/2022] [Indexed: 12/12/2022] Open
Abstract
The study of the molecular mechanisms of stress appraisal on farmed fish is paramount to ensuring a sustainable aquaculture. Stress exposure can either culminate in the organism's adaptation or aggravate into a metabolic shutdown, characterized by irreversible cellular damage and deleterious effects on fish performance, welfare, and survival. Multiomics can improve our understanding of the complex stressed phenotype in fish and the molecular mediators that regulate the underlying processes of the molecular stress response. We profiled the stress proteome and metabolome of Sparus aurata responding to different challenges common to aquaculture production, characterizing the disturbed pathways in the fish liver, i.e., the central organ in mounting the stress response. Label-free shotgun proteomics and untargeted metabolomics analyses identified 1738 proteins and 120 metabolites, separately. Mass spectrometry data have been made fully accessible via ProteomeXchange, with the identifier PXD036392, and via MetaboLights, with the identifier MTBLS5940. Integrative multivariate statistical analysis, performed with data integration analysis for biomarker discovery using latent components (DIABLO), depicted the 10 most-relevant features. Functional analysis of these selected features revealed an intricate network of regulatory components, modulating different signaling pathways related to cellular stress, e.g., the mTORC1 pathway, the unfolded protein response, endocytosis, and autophagy to different extents according to the stress nature. These results shed light on the dynamics and extent of this species' metabolic reprogramming under chronic stress, supporting future studies on stress markers' discovery and fish welfare research.
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Gautam K, Seth M, Dwivedi S, Jain V, Vamadevan B, Singh D, Roy SK, Downs CA, Anbumani S. Soil degradation kinetics of oxybenzone (Benzophenone-3) and toxicopathological assessment in the earthworm, Eisenia fetida. ENVIRONMENTAL RESEARCH 2022; 213:113689. [PMID: 35718163 DOI: 10.1016/j.envres.2022.113689] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2022] [Revised: 05/27/2022] [Accepted: 06/11/2022] [Indexed: 06/15/2023]
Abstract
A preponderance of recent evidence indicates that oxybenzone and other personal-care product chemicals threaten the biota inhabiting various ecological niches. What is understudied is the ecotoxicological impact of oxybenzone, a UV filter in sunscreens and anti-aging products, to terrestrial/soil organisms that are keystone species in these habitats. In the present study, acute exposure (14-day) to oxybenzone resulted in earthworm mortality (LC50 of 364 mg/kg) and growth rate inhibition. Environmentally relevant concentration of oxybenzone (3.64, 7.28 and 36.4 mg/kg) at exposures of 7-day, 14-day, 28-day induced oxidative stress and neurotoxicity followed by perturbations in reproduction processes and changes in vital organs. Decreased levels of superoxide dismutase (SOD) and catalase (CAT) activity were statistically lower than controls (p < 0.05) on day 14 for all three concentrations, while glutathione-s-transferase (GST) activity was significantly elevated from controls on days 7 and 14. On day 28, SOD and CAT activities were either not significantly different from the control or were higher, demonstrating a temporal multiphasic response of anti-oxidant enzymes. GST activity on day 28 was significantly reduced compared to controls. Acetylcholinesterase levels across the three-time points exhibited a complicated behaviour, with every exposure concentration being significantly different from the control. Chronic exposure negatively influences earthworm health status with elevated biomarker values analysed using IBRv2 index. This, in turn, impacted higher levels of hierarchical organization, significantly impairing reproduction and organismal homeostasis at the histological level and manifesting as decreasing cocoon formation and successful hatching events. Thus, the overall findings demonstrate that oxybenzone is toxic to Eisenia fetida at low-level, long-term exposure. Based on the concentration verification analysis and application of the EPA PestDF tool, oxybenzone undergoes single first-order kinetics degradation in OECD soil with DT50 and DT90 as 8.7-28.9 days, respectively.
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Affiliation(s)
- Krishna Gautam
- Ecotoxicology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Monika Seth
- Ecotoxicology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Shreya Dwivedi
- Ecotoxicology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India
| | - Veena Jain
- Analytical Chemistry Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Beena Vamadevan
- Central Pathology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India
| | - Dhirendra Singh
- Central Pathology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India
| | - Somendu K Roy
- Analytical Chemistry Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - C A Downs
- Haereticus Environmental Laboratory, Clifford, VA, 24522, USA
| | - Sadasivam Anbumani
- Ecotoxicology Laboratory, Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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12
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Li S, Liu Y, Li B, Ding L, Wei X, Wang P, Chen Z, Han S, Huang T, Wang B, Sun Y. Physiological responses to heat stress in the liver of rainbow trout (Oncorhynchus mykiss) revealed by UPLC-QTOF-MS metabolomics and biochemical assays. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 242:113949. [PMID: 35999764 DOI: 10.1016/j.ecoenv.2022.113949] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2022] [Revised: 07/16/2022] [Accepted: 08/01/2022] [Indexed: 06/15/2023]
Abstract
Rainbow trout (Oncorhynchus mykiss) is one of the world's most widely farmed cold-water fish. However, the rise in water temperature caused by global warming has seriously restricted the development of rainbow trout aquaculture. In this study, we investigated the physiological responses in the liver of rainbow trout exposed to 20 ℃ and 24 ℃ and returning to the initial temperature (14 ℃) by combining biochemical analyses and UPLC-QTOF-MS metabolomics. The results of the biochemical analysis showed that serum aminotransferase, lysozyme, total bilirubin, alkaline phosphatase and liver superoxide dismutase, glutathione peroxidase, and malondialdehyde in rainbow trout under heat stress changed significantly. Even after the temperature recovery, some of the above indicators were still affected. Compared to the control group, 115, 130, and 121 differentially expressed metabolites were identified in the 20 ℃, 24 ℃, and recovery groups, respectively. Further pathway enrichment of these metabolites revealed that heat stress mainly affected the linoleic acid metabolism, α-linolenic acid metabolism, glycerophospholipid metabolism, and sphingolipid metabolism in the liver of rainbow trout, and continuously affected these metabolic pathways during the recovery period. Notably, the enrichment of glutathione metabolic pathways was consistent with the changes in glutathione peroxidase in the biochemical results. The results above suggest that heat stress can induce immune responses and oxidative stress inside the rainbow trout. After temperature recovery, some of the hepatic functions of fish return to normal gradually. The biochemical analysis and UPLC-QTOF-MS metabolomics tools provide insight into the physiological regulation of rainbow trout in response to heat stress.
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Affiliation(s)
- Shanwei Li
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China; College of Food Science and Technology, Shanghai Ocean University, Shanghai 201306, China
| | - Yingjie Liu
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China; College of Food Science and Technology, Shanghai Ocean University, Shanghai 201306, China
| | - Bolun Li
- College of Life Sciences, Northeast Agricultural University, Harbin, Heilongjiang 150030, China
| | - Lu Ding
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China; College of Food Science and Technology, Shanghai Ocean University, Shanghai 201306, China
| | - Xiaofeng Wei
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China; College of Food Science and Engineering, Dalian Ocean University, Dalian 116023, China
| | - Peng Wang
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China
| | - Zhongxiang Chen
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China
| | - Shicheng Han
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China
| | - Tianqing Huang
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China
| | - Bingqian Wang
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China
| | - Yanchun Sun
- Heilongjiang River Fisheries Research Institute of Chinese Academy of Fishery Sciences, Laboratory of Quality & Safety Risk Assessment for Aquatic Products (Harbin), Ministry of Agriculture and Rural Areas, Harbin 150070, China; College of Food Science and Technology, Shanghai Ocean University, Shanghai 201306, China.
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13
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Li M, Luo X, Ho CT, Li D, Guo H, Xie Z. A new strategy for grading of Lu’an guapian green tea by combination of differentiated metabolites and hypoglycaemia effect. Food Res Int 2022; 159:111639. [DOI: 10.1016/j.foodres.2022.111639] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Revised: 06/30/2022] [Accepted: 07/05/2022] [Indexed: 12/08/2022]
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Xiao Y, Lin X, Zhou M, Ren T, Gao R, Liu Z, Shen W, Wang R, Xie X, Song Y, Hu W. Metabolomics analysis of the potential toxicological mechanisms of diquat dibromide herbicide in adult zebrafish (Danio rerio) liver. FISH PHYSIOLOGY AND BIOCHEMISTRY 2022; 48:1039-1055. [PMID: 35831485 DOI: 10.1007/s10695-022-01101-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Accepted: 06/30/2022] [Indexed: 06/15/2023]
Abstract
Although diquat is a widely used water-soluble herbicide in the world, its sublethal adverse effects to fish have not been well characterised. In this study, histopathological examination and biochemical assays were applied to assess hepatotoxicity and combined with gas chromatography-mass spectrometry (GC-MS)-based metabolomics analysis to reveal overall metabolic mechanisms in the liver of zebrafish (Danio rerio) after diquat exposure at concentrations of 0.34 and 1.69 mg·L-1 for 21 days. Results indicated that 1.69 mg·L-1 diquat exposure caused cellular vacuolisation and degeneration with nuclear abnormality and led to the disturbance of antioxidative system and dysfunction in the liver. No evident pathological injury was detected, and changes in liver biochemistry were not obvious in the fish exposed to 0.34 mg·L-1 diquat. Multivariate statistical analysis revealed differences between profiles obtained by GC-MS spectrometry from control and two treatment groups. A total of 17 and 22 metabolites belonging to different classes were identified following exposure to 0.34 and 1.69 mg·L-1 diquat, respectively. The metabolic changes in the liver of zebrafish are mainly manifested as inhibition of energy metabolism, disorders of amino acid metabolism and reduction of antioxidant capacity caused by 1.69 mg·L-1 diquat exposure. The energy metabolism of zebrafish exposed to 0.34 mg·L-1 diquat was more inclined to rely on anaerobic glycolysis than that of normal zebrafish, and interference effects on lipid metabolism were observed. The metabolomics approach provided an innovative perspective to explore possible hepatic damages on fish induced by diquat as a basis for further research.
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Affiliation(s)
- Ye Xiao
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Xiang Lin
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Meilan Zhou
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Tianyu Ren
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Ruili Gao
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Zhongqun Liu
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Wenjing Shen
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Rong Wang
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Xi Xie
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Yanting Song
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China
| | - Wenting Hu
- School of Pharmaceutical Sciences, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China.
- Key Laboratory of Tropical Biological Resources of Ministry of Education, Hainan University, 58 Renmin Rd, Haikou, 570228, People's Republic of China.
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In Vivo Bioconcentration, Distribution and Metabolization of Benzophenone-3 (BP-3) by Cyprinus carpio (European Carp). Foods 2022; 11:foods11111627. [PMID: 35681379 PMCID: PMC9180567 DOI: 10.3390/foods11111627] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Revised: 05/27/2022] [Accepted: 05/27/2022] [Indexed: 11/22/2022] Open
Abstract
Organic UV-filters, such as oxybenzone (BP-3), have attracted researcher attention in recent years due to its capacity to interfere with the proper functioning of the endocrine system and its widespread presence in the aquatic environment. The aim of this study was to investigate the bioconcentration, distribution and metabolization of BP-3 in one of the most common fish species in Romania, namely Cyprinus carp (European carp). Exposure experiments were performed for 11 weeks using a BP-3 nominal concentration level of 100 µg/L. The BP-3 concentration level decreased over time and needed to be re-established daily. Biological samples (fish organs and tissues) from control and test were taken at t0 (before contamination) and at t3, t5, t8 and t11 weeks from the beginning of the experiment. From the third week, BP-3 was identified and quantified, in all organs, in concentration values ranging between 3.2 and 782 ng/g d.w., the highest concentration being detected in the intestinal content, followed by gonads (up to 468 ng/g d.w.) and skin (up to 453 ng/g d.w.). In the case of gill and liver, the BP-3 concentration increased in the first five weeks, and then decreased to 15 and 6 ng/g d.w., respectively, which could be explained by a fast BP-3 metabolization. During the exposure period, six metabolites were identified through LC-MS/MS, all of them known for their endocrine disruptor and toxic properties being higher than those of the parent compound. The study is important from an ecological perspective and also in view of human health concerns involving food quality.
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Flos Carthami Exerts Hepatoprotective Action in a Rat Model of Alcoholic Liver Injury via Modulating the Metabolomics Profile. EVIDENCE-BASED COMPLEMENTARY AND ALTERNATIVE MEDICINE 2022; 2022:8158699. [PMID: 35547657 PMCID: PMC9085312 DOI: 10.1155/2022/8158699] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Revised: 02/22/2022] [Accepted: 04/05/2022] [Indexed: 02/06/2023]
Abstract
This study was intended to identify the shifts in the metabolomics profile of the hepatic tissue damaged by alcohol consumption and verify the potential restorative action of flos carthami (the flowers of Carthamus tinctorius, FC) in the protection of alcohol-induced injury by attenuating the level of identified metabolites. Rats were treated with FC and subsequently subjected to alcohol administration. The serum samples were subjected to liquid chromatography-mass spectrometry (LC-MS)-based metabolomics followed by statistical and bioinformatics analyses. The clustering of the samples showed an obvious separation in the principal component analysis (PCA) plot, and the scores plot of the orthogonal partial least squares-discriminant analysis (OPLS-DA) model allowed the distinction among the three groups. Among the 3211 total metabolites, 1088 features were significantly different between the control and alcohol-treated groups, while 367 metabolites were identified as differential metabolites between the alcohol- and FC-treated rat groups. Time series clustering approach indicated that 910 metabolites in profile 6 were upregulated by alcohol but subsequently reversed by FC treatment; among them, the top 10 metabolites based on the variable importance in projection (VIP) scores were 1-methyladenine, phenylglyoxylic acid, N-acetylvaline, mexiletine, L-fucose, propylthiouracil, dopamine 4-sulfate, isoleucylproline, (R)-salsolinol, and monomethyl phthalate. The Pearson correlation analysis and network construction revealed 96 hub metabolites that were upregulated in the alcohol liver injury model group but were downregulated by FC. This study confirmed the hepatoprotective effects of FC against alcohol-induced liver injury and the related changes in the metabolic profiles, which will contribute to the understanding and the treatment of alcohol-induced acute liver injury.
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Colás-Ruiz NR, Ramirez G, Courant F, Gomez E, Hampel M, Lara-Martín PA. Multi-omic approach to evaluate the response of gilt-head sea bream (Sparus aurata) exposed to the UV filter sulisobenzone. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 803:150080. [PMID: 34525742 DOI: 10.1016/j.scitotenv.2021.150080] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2021] [Revised: 08/24/2021] [Accepted: 08/29/2021] [Indexed: 06/13/2023]
Abstract
Sulisobenzone (BP-4) is one of the benzophenone type UV filters most frequently detected in aquatic ecosystems. As a suspected endocrine disrupting compound, scarce information is available yet about other molecular effects and its mechanism of action. Here, we used an integrated transcriptomic and metabolomic approach to improve the current understanding on the toxicity of BP-4 towards aquatic species. Gilt-head sea bream individuals were exposed at environmentally relevant concentrations (10 μg L-1) for 22 days. Transcriptomic analysis revealed 371 differentially expressed genes in liver while metabolomic analysis identified 123 differentially modulated features in plasma and 118 in liver. Integration of transcriptomic and metabolomic data showed disruption of the energy metabolism (>10 pathways related to the metabolism of amino acids and carbohydrates were impacted) and lipid metabolism (5 glycerophospholipids and the expression of 3 enzymes were affected), suggesting oxidative stress. We also observed, for the first time in vivo and at environmental relevant concentrations, the disruption of several enzymes involved in the steroid and thyroid hormones biosynthesis. DNA and RNA synthesis was also impacted by changes in the purine and pyrimidine metabolisms. Overall, the multiomic workflow presented here increases the evidence on suspected effects of BP-4 exposure and identifies additional modes of action of the compounds that could have been overlooked by using single omic approaches.
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Affiliation(s)
- Nieves R Colás-Ruiz
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510 Puerto Real, Cádiz, Spain
| | - Gaëlle Ramirez
- Hydrosciences Montpellier, University of Montpellier, IRD, CNRS, Montpellier, France
| | - Frédérique Courant
- Hydrosciences Montpellier, University of Montpellier, IRD, CNRS, Montpellier, France
| | - Elena Gomez
- Hydrosciences Montpellier, University of Montpellier, IRD, CNRS, Montpellier, France
| | - Miriam Hampel
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510 Puerto Real, Cádiz, Spain
| | - Pablo A Lara-Martín
- Faculty of Marine and Environmental Sciences (CASEM), University of Cadiz, 11510 Puerto Real, Cádiz, Spain.
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Legrand E, Basu N, Hecker M, Crump D, Xia J, Chandramouli B, Butler H, Head JA. Targeted Metabolomics to Assess Exposure to Environmental Chemicals of Concern in Japanese Quail at Two Life Stages. Metabolites 2021; 11:850. [PMID: 34940609 PMCID: PMC8715744 DOI: 10.3390/metabo11120850] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Accepted: 12/06/2021] [Indexed: 12/19/2022] Open
Abstract
This proof-of-concept study characterizes the Japanese quail (Coturnix japonica) hepatic metabolome following exposure to benzo[a]pyrene, chlorpyrifos, ethinylestradiol, fluoxetine hydrochloride, hexabromocyclododecane, lead(II)nitrate, seleno-L-methionine, and trenbolone in embryos and adults. The analysis revealed effects on lipid metabolism following exposure to several chemicals at both life stages. The most pronounced effects were observed in embryos exposed to 41.1 μg/g chlorpyrifos. This work highlighted challenges and the need for further avian metabolomics studies.
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Affiliation(s)
- Elena Legrand
- Faculty of Agricultural and Environmental Sciences, McGill University, Montréal, QC H9X 3V9, Canada; (N.B.); (J.X.); (J.A.H.)
| | - Niladri Basu
- Faculty of Agricultural and Environmental Sciences, McGill University, Montréal, QC H9X 3V9, Canada; (N.B.); (J.X.); (J.A.H.)
| | - Markus Hecker
- Toxicology Centre and School of the Environment and Sustainability, University of Saskatchewan, Saskatoon, SK S7N 5B3, Canada;
| | - Doug Crump
- Environment and Climate Change Canada, National Wildlife Research Centre, Carleton University, Ottawa, ON K1S 5B6, Canada;
| | - Jianguo Xia
- Faculty of Agricultural and Environmental Sciences, McGill University, Montréal, QC H9X 3V9, Canada; (N.B.); (J.X.); (J.A.H.)
| | - Bharat Chandramouli
- SGS-AXYS Analytical Services Ltd., 2045 Mills Road West, Sidney, BC V8L 5X2, Canada; (B.C.); (H.B.)
| | - Heather Butler
- SGS-AXYS Analytical Services Ltd., 2045 Mills Road West, Sidney, BC V8L 5X2, Canada; (B.C.); (H.B.)
| | - Jessica A. Head
- Faculty of Agricultural and Environmental Sciences, McGill University, Montréal, QC H9X 3V9, Canada; (N.B.); (J.X.); (J.A.H.)
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Lebeau-Roche E, Daniele G, Fildier A, Turies C, Dedourge-Geffard O, Porcher JM, Geffard A, Vulliet E. An optimized LC-HRMS untargeted metabolomics workflow for multi-matrices investigations in the three-spined stickleback. PLoS One 2021; 16:e0260354. [PMID: 34843526 PMCID: PMC8629232 DOI: 10.1371/journal.pone.0260354] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Accepted: 11/08/2021] [Indexed: 11/28/2022] Open
Abstract
Environmental metabolomics has become a growing research field to understand biological and biochemical perturbations of organisms in response to various abiotic or biotic stresses. It focuses on the comprehensive and systematic analysis of a biologic system’s metabolome. This allows the recognition of biochemical pathways impacted by a stressor, and the identification of some metabolites as biomarkers of potential perturbations occurring in a body. In this work, we describe the development and optimization of a complete reliable methodology based on liquid chromatography coupled to high resolution mass spectrometry (LC-HRMS) for untargeted metabolomics studies within a fish model species, the three-spined stickleback (Gasterosteus aculeatus). We evaluated the differences and also the complementarities between four different matrices (brain, gills, liver and whole fish) to obtain metabolome information. To this end, we optimized and compared sample preparation and the analytical method, since the type and number of metabolites detected in any matrix are closely related to these latter. For the sample preparation, a solid-liquid extraction was performed on a low quantity of whole fish, liver, brain, or gills tissues using combinations of methanol/water/heptane. Based on the numbers of features observed in LC-HRMS and on the responses of analytical standards representative of different metabolites groups (amino acids, sugars…), we discuss the influence of the nature, volume, and ratio of extraction solvents, the sample weight, and the reconstitution solvent. Moreover, the analytical conditions (LC columns, pH and additive of mobile phases and ionization modes) were also optimized so as to ensure the maximum metabolome coverages. Thus, two complementary chromatographic procedures were combined in order to cover a broader range of metabolites: a reversed phase separation (RPLC) on a C18 column followed by detection with positive ionization mode (ESI+) and a hydrophilic interaction chromatography (HILIC) on a zwitterionic column followed by detection with negative ionization mode (ESI-). This work provides information on brain, gills, liver, vs the whole body contribution to the stickleback metabolome. These information would help to guide ecotoxicological and biomonitoring studies.
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Affiliation(s)
- Emmanuelle Lebeau-Roche
- UMR-I 02 SEBIO (Stress Environnementaux et BIOsurveillance des milieux aquatiques), Université de Reims Champagne Ardenne, UFR Sciences Exactes et Naturelles, Campus Moulin de Housse, Reims cedex 2, France
- Univ Lyon, CNRS, Université Claude Bernard Lyon 1, Institut des Sciences Analytiques, UMR 5280, Villeurbanne, France
| | - Gaëlle Daniele
- Univ Lyon, CNRS, Université Claude Bernard Lyon 1, Institut des Sciences Analytiques, UMR 5280, Villeurbanne, France
| | - Aurélie Fildier
- Univ Lyon, CNRS, Université Claude Bernard Lyon 1, Institut des Sciences Analytiques, UMR 5280, Villeurbanne, France
| | - Cyril Turies
- Institut National de l’Environnement Industriel et des Risques (INERIS), UMR-I 02 SEBIO, Parc Technologique Alata, Verneuil-en-Halatte, France
| | - Odile Dedourge-Geffard
- UMR-I 02 SEBIO (Stress Environnementaux et BIOsurveillance des milieux aquatiques), Université de Reims Champagne Ardenne, UFR Sciences Exactes et Naturelles, Campus Moulin de Housse, Reims cedex 2, France
| | - Jean-Marc Porcher
- Institut National de l’Environnement Industriel et des Risques (INERIS), UMR-I 02 SEBIO, Parc Technologique Alata, Verneuil-en-Halatte, France
| | - Alain Geffard
- UMR-I 02 SEBIO (Stress Environnementaux et BIOsurveillance des milieux aquatiques), Université de Reims Champagne Ardenne, UFR Sciences Exactes et Naturelles, Campus Moulin de Housse, Reims cedex 2, France
| | - Emmanuelle Vulliet
- Univ Lyon, CNRS, Université Claude Bernard Lyon 1, Institut des Sciences Analytiques, UMR 5280, Villeurbanne, France
- * E-mail:
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Lozano C, Lebaron P, Matallana-Surget S. Shedding light on the bacterial resistance to toxic UV filters: a comparative genomic study. PeerJ 2021; 9:e12278. [PMID: 34760358 PMCID: PMC8567853 DOI: 10.7717/peerj.12278] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Accepted: 09/20/2021] [Indexed: 11/20/2022] Open
Abstract
UV filters are toxic to marine bacteria that dominate the marine biomass. Ecotoxicology often studies the organism response but rarely integrates the toxicity mechanisms at the molecular level. In this study, in silico comparative genomics between UV filters sensitive and resistant bacteria were conducted in order to unravel the genes responsible for a resistance phenotype. The genomes of two environmentally relevant Bacteroidetes and three Firmicutes species were compared through pairwise comparison. Larger genomes were carried by bacteria exhibiting a resistant phenotype, favoring their ability to adapt to environmental stresses. While the antitoxin and CRISPR systems were the only distinctive features in resistant Bacteroidetes, Firmicutes displayed multiple unique genes that could support the difference between sensitive and resistant phenotypes. Several genes involved in ROS response, vitamin biosynthesis, xenobiotic degradation, multidrug resistance, and lipophilic compound permeability were shown to be exclusive to resistant species. Our investigation contributes to a better understanding of UV filters resistance phenotypes, by identifying pivotal genes involved in key pathways.
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Affiliation(s)
- Clément Lozano
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom.,Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, Sorbonne Université, Banyuls-sur-mer, France
| | - Philippe Lebaron
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, Sorbonne Université, Banyuls-sur-mer, France
| | - Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, University of Stirling, Stirling, United Kingdom
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21
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Lozano C, Lee C, Wattiez R, Lebaron P, Matallana-Surget S. Unraveling the molecular effects of oxybenzone on the proteome of an environmentally relevant marine bacterium. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 793:148431. [PMID: 34182435 DOI: 10.1016/j.scitotenv.2021.148431] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Revised: 05/13/2021] [Accepted: 06/09/2021] [Indexed: 06/13/2023]
Abstract
The use of Benzophenone-3 (BP3), also known as oxybenzone, a common UV filter, is a growing environmental concern in regard to its toxicity on aquatic organisms. Our previous work stressed that BP3 is toxic to Epibacterium mobile, an environmentally relevant marine α-proteobacterium. In this study, we implemented a label-free quantitative proteomics workflow to decipher the effects of BP3 on the E. mobile proteome. Furthermore, the effect of DMSO, one of the most common solvents used to vehicle low concentrations of lipophilic chemicals, was assessed to emphasize the importance of limiting solvent concentration in ecotoxicological studies. Data-independent analysis proteomics highlighted that BP3 induced changes in the regulation of 56 proteins involved in xenobiotic export, detoxification, oxidative stress response, motility, and fatty acid, iron and amino acid metabolisms. Our results also outlined that the use of DMSO at 0.046% caused regulation changes in proteins related to transport, iron uptake and metabolism, and housekeeping functions, underlining the need to reduce the concentration of solvents in ecotoxicological studies.
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Affiliation(s)
- Clément Lozano
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France; Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Charlotte Lee
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom
| | - Ruddy Wattiez
- Department of Proteomic and Microbiology, University of Mons, Mons, Belgium
| | - Philippe Lebaron
- Sorbonne Université, CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR3579, Observatoire Océanologique, 66650 Banyuls-sur-mer, France
| | - Sabine Matallana-Surget
- Division of Biological and Environmental Sciences, Faculty of Natural Sciences, Stirling University, United Kingdom.
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Curtis-Quick JA, Ulanov AV, Li Z, Bieber JF, Tucker-Retter EK, Suski CD. Why the Stall? Using metabolomics to define the lack of upstream movement of invasive bigheaded carp in the Illinois River. PLoS One 2021; 16:e0258150. [PMID: 34618833 PMCID: PMC8496817 DOI: 10.1371/journal.pone.0258150] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Accepted: 09/20/2021] [Indexed: 11/18/2022] Open
Abstract
Bigheaded Carp have spread throughout the Mississippi River basin since the 1970s. Little has stopped the spread as carp have the ability to pass through locks and dams, and they are currently approaching the Great Lakes. However, the location of the leading edge in the Illinois River has stalled for over a decade, even though there is no barrier preventing further advancement towards the Great Lakes. Defining why carp are not moving towards the Great Lakes is important for predicting why they might advance in the future. The aim of this study was to test the hypothesis that anthropogenic contaminants in the Illinois River may be playing a role in preventing further upstream movement of Bigheaded Carp. Ninety three livers were collected from carp at several locations between May and October of 2018. Liver samples were analyzed using gas chromatography-mass spectrometry in a targeted metabolite profiling approach. Livers from carp at the leading edge had differences in energy use and metabolism, and suppression of protective mechanisms relative to downstream fish; differences were consistent across time. This body of work provides evidence that water quality is linked to carp movement in the Illinois River. As water quality in this region continues to improve, consideration of this impact on carp spread is essential to protect the Great Lakes.
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Affiliation(s)
- Jocelyn A. Curtis-Quick
- Department of Natural Resources and Environmental Sciences, University of Illinois, Urbana, Illinois, United States of America
| | - Alexander V. Ulanov
- Metabolomics Lab, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America
| | - Zhong Li
- Metabolomics Lab, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America
| | - John F. Bieber
- Department of Natural Resources and Environmental Sciences, University of Illinois, Urbana, Illinois, United States of America
| | - Emily K. Tucker-Retter
- Department of Natural Resources and Environmental Sciences, University of Illinois, Urbana, Illinois, United States of America
| | - Cory D. Suski
- Department of Natural Resources and Environmental Sciences, University of Illinois, Urbana, Illinois, United States of America
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23
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Wei Y, Jasbi P, Shi X, Turner C, Hrovat J, Liu L, Rabena Y, Porter P, Gu H. Early Breast Cancer Detection Using Untargeted and Targeted Metabolomics. J Proteome Res 2021; 20:3124-3133. [PMID: 34033488 DOI: 10.1021/acs.jproteome.1c00019] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Breast cancer (BC) is a common cause of morbidity and mortality, particularly in women. Moreover, the discovery of diagnostic biomarkers for early BC remains a challenging task. Previously, we [Jasbi et al. J. Chromatogr. B. 2019, 1105, 26-37] demonstrated a targeted metabolic profiling approach capable of identifying metabolite marker candidates that could enable highly sensitive and specific detection of BC. However, the coverage of this targeted method was limited and exhibited suboptimal classification of early BC (EBC). To expand the metabolome coverage and articulate a better panel of metabolites or mass spectral features for classification of EBC, we evaluated untargeted liquid chromatography quadrupole time-of-flight mass spectrometry (LC-QTOF-MS) data, both individually as well as in conjunction with previously published targeted LC-triple quadruple (QQQ)-MS data. Variable importance in projection scores were used to refine the biomarker panel, whereas orthogonal partial least squares-discriminant analysis was used to operationalize the enhanced biomarker panel for early diagnosis. In this approach, 33 altered metabolites/features were detected by LC-QTOF-MS from 124 BC patients and 86 healthy controls. For EBC diagnosis, significance testing and analysis of the area under receiver operating characteristic (AUROC) curve identified six metabolites/features [ethyl (R)-3-hydroxyhexanoate; caprylic acid; hypoxanthine; and m/z 358.0018, 354.0053, and 356.0037] with p < 0.05 and AUROC > 0.7. These metabolites informed the construction of EBC diagnostic models; evaluation of model performance for the prediction of EBC showed an AUROC = 0.938 (95% CI: 0.895-0.975), with sensitivity = 0.90 when specificity = 0.90. Using the combined untargeted and targeted data set, eight metabolic pathways of potential biological relevance were indicated to be significantly altered as a result of EBC. Metabolic pathway analysis showed fatty acid and aminoacyl-tRNA biosynthesis as well as inositol phosphate metabolism to be most impacted in response to the disease. The combination of untargeted and targeted metabolomics platforms has provided a highly predictive and accurate method for BC and EBC diagnosis from plasma samples. Furthermore, such a complementary approach yielded critical information regarding potential pathogenic mechanisms underlying EBC that, although critical to improved prognosis and enhanced survival, are understudied in the current literature. All mass spectrometry data and deidentified subject metadata analyzed in this study have been deposited to Mendeley Data and are publicly available (DOI: 10.17632/kcjg8ybk45.1).
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Affiliation(s)
- Yiping Wei
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States
| | - Paniz Jasbi
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States
| | - Xiaojian Shi
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States.,Systems Biology Institute, Cellular and Molecular Physiology, Yale School of Medicine, West Haven, Connecticut 06516, United States
| | - Cassidy Turner
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States
| | - Jonathon Hrovat
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States
| | - Li Liu
- College of Health Solutions, Biodesign Institute, Arizona State University, Tempe, Arizona 85281, United States.,Department of Neurology, Mayo Clinic, Scottsdale, Arizona 85259, United States
| | - Yuri Rabena
- Human Biology Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States
| | - Peggy Porter
- Human Biology Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States
| | - Haiwei Gu
- Arizona Metabolomics Laboratory, College of Health Solutions, Arizona State University, Scottsdale, Arizona 85259, United States
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Aru V, Khakimov B, Sørensen KM, Chikwati EM, Kortner TM, Midtlyng P, Krogdahl Å, Engelsen SB. The plasma metabolome of Atlantic salmon as studied by 1H NMR spectroscopy using standard operating procedures: effect of aquaculture location and growth stage. Metabolomics 2021; 17:50. [PMID: 33999285 DOI: 10.1007/s11306-021-01797-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Accepted: 04/23/2021] [Indexed: 12/15/2022]
Abstract
INTRODUCTION Metabolomics applications to the aquaculture research are increasing steadily. The use of standardized proton nuclear magnetic resonance (1H NMR) spectroscopy can provide the aquaculture industry with an unbiased, reproducible, and high-throughput screening tool, which can help to diagnose nutritional and disease-related metabolic disorders in farmed fish. OBJECTIVE Standard operating procedures developed for analysing (human) plasma by 1H NMR were applied to fingerprint the metabolome in plasma samples collected from Atlantic salmon. The aim was to explore the metabolome of salmon plasma in relation to growth stage and sampling site. METHODS A total of 72 salmon were collected from three aquaculture sites in Norway (Lat. 65, 67, and 70 °N) and over two sampling events (December 2017 and November 2018). Plasma drawn from each salmon was measured by 1H NMR and metabolites were quantified using the SigMa software. The NMR data was analysed by principal component analysis (PCA) and ANOVA-simultaneous component analysis (ASCA). RESULTS Important metabolic differences were evidenced, with adult salmon having a much higher content of very low-density lipoproteins and cholesterol in their plasma, while smolts displayed significantly higher levels of propylene glycol. Overall, 24% of the metabolite variation was due to the growth stage, whereas 12% of the metabolite variation was related to the aquaculture site and practice (p < 0.001). CONCLUSION This study provides a baseline investigation of the plasma metabolome of the Atlantic salmon and demonstrates how 1H NMR metabolomics can be used in future investigations for comparing aquaculture practices and their influence on the fish metabolome.
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Affiliation(s)
- Violetta Aru
- Chemometrics & Analytical Technology, Department of Food Science, University of Copenhagen, Rolighedsvej 26, 1958, Frederiksberg C, Denmark.
| | - Bekzod Khakimov
- Chemometrics & Analytical Technology, Department of Food Science, University of Copenhagen, Rolighedsvej 26, 1958, Frederiksberg C, Denmark
| | - Klavs Martin Sørensen
- Chemometrics & Analytical Technology, Department of Food Science, University of Copenhagen, Rolighedsvej 26, 1958, Frederiksberg C, Denmark
| | - Elvis Mashingaidze Chikwati
- Department of Paraclinical Sciences, Faculty of Veterinary Medicine, Norwegian University of Life Sciences, Oslo, Norway
- Aquamedic AS, Gaustadallèen 21, 0349, Oslo, Norway
| | - Trond M Kortner
- Department of Paraclinical Sciences, Faculty of Veterinary Medicine, Norwegian University of Life Sciences, Oslo, Norway
| | | | - Åshild Krogdahl
- Department of Paraclinical Sciences, Faculty of Veterinary Medicine, Norwegian University of Life Sciences, Oslo, Norway
| | - Søren Balling Engelsen
- Chemometrics & Analytical Technology, Department of Food Science, University of Copenhagen, Rolighedsvej 26, 1958, Frederiksberg C, Denmark.
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25
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Chai C, Jin B, Yan Y, Yuan Q, Wen H, Tao W, Cui X, Shan C, Yu S. Anti-depressant effect of Zhi-zi-chi decoction on CUMS mice and elucidation of its signaling pathway. JOURNAL OF ETHNOPHARMACOLOGY 2021; 266:113283. [PMID: 32827659 DOI: 10.1016/j.jep.2020.113283] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2020] [Revised: 06/30/2020] [Accepted: 08/11/2020] [Indexed: 06/11/2023]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Zhi-zi-chi decoction (ZZCD) is used for treating depression as an effectively traditional Chinese medicine. Until now, studies on pharmacological research of ZZCD have mostly been centered in pharmacokinetic level. Little was known about its pharmacological mechanism of relieving depression. AIM OF THE STUDY This study was to evaluate the effect of ZZCD on relieving depression via behavioral tests, serum metabolomics and signaling target expression analysis on chronic unpredictable mild stress (CUMS) model mice. MATERIALS AND METHODS The CUMS exposure lasted 7 consecutive weeks. The mice were administrated with ZZCD for the last 3 weeks. Behavioral tests were applied and a serum metabolomics method based on UFLC/Q-TOF-MS with multivariate statistical and global metabolic network analysis was performed to identify relevant metabolites and pathways. Finally, the protein expressions in mouse hippocampi were determined by western blot to verify the metabolomics deduction. RESULTS Behavioral parameters were visibly changed after modeling, while high and medium dosage groups showed status improvement compared to the model group. Seventy six metabolites were identified as potential biomarkers from the metabolomics profiles in C18 and HILIC systems. In addition, 9 significant pathways related to changed biomarkers were conducted. The pathways were closely connected by some key targets, which were significantly reduced in the model group compared with those in control group, while ZZCD treated groups showed corrections after 3-week administration. The results revealed that the anti-depression efficacy of ZZCD might be associated with PKA-CREB-BDNF-TrkB-PSD-95 pathway influenced by metabolic changes, verifying the pathway annotation speculation. CONCLUSION This study demonstrated that ZZCD had a positive treatment effect on CUMS depression model mice. Metabolomics results revealed the holistic and interconnected metabolic changes of ZZCD in CUMS mice. The metabolic pathway annotation suggested that the anti-depression mechanism of ZZCD might be related to signaling pathway in brain. PKA-CREB-BDNF-TrkB-PSD-95 signaling expression was a verification and complement to the metabolomics results.
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Affiliation(s)
- Chuan Chai
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
| | - Bo Jin
- China Mobile Group Jiangsu Co., Ltd., Nanjing, 210029, Jiangsu, China
| | - Yinyu Yan
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
| | - Qi Yuan
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
| | - Hongmei Wen
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China.
| | - Weiwei Tao
- Center for Translational Systems Biology and Neuroscience, School of Basic Biomedical Science, Nanjing University of Chinese Medicine, Jiangsu, China
| | - Xiaobing Cui
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
| | - Chenxiao Shan
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
| | - Sheng Yu
- School of Pharmacy, Nanjing University of Chinese Medicine, Nanjing, 210023, Jiangsu, China
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26
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Carvalhais A, Pereira B, Sabato M, Seixas R, Dolbeth M, Marques A, Guilherme S, Pereira P, Pacheco M, Mieiro C. Mild Effects of Sunscreen Agents on a Marine Flatfish: Oxidative Stress, Energetic Profiles, Neurotoxicity and Behaviour in Response to Titanium Dioxide Nanoparticles and Oxybenzone. Int J Mol Sci 2021; 22:ijms22041567. [PMID: 33557180 PMCID: PMC7913899 DOI: 10.3390/ijms22041567] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 01/27/2021] [Accepted: 01/30/2021] [Indexed: 12/18/2022] Open
Abstract
UV filters are potentially harmful to marine organisms. Given their worldwide dissemination and the scarcity of studies on marine fish, we evaluated the toxicity of an organic (oxybenzone) and an inorganic (titanium dioxide nanoparticles) UV filter, individually and in a binary mixture, in the turbot (Scophthalmus maximus). Fish were intraperitoneally injected and a multi-level assessment was carried out 3 and 7 days later. Oxybenzone and titanium dioxide nanoparticles induced mild effects on turbot, both isolated and in mixture. Neither oxidative stress (intestine, liver and kidney) nor neurotoxicity (brain) was found. However, liver metabolic function was altered after 7 days, suggesting the impairment of the aerobic metabolism. An increased motility rate in oxybenzone treatment was the only behavioural alteration (day 7). The intestine and liver were preferentially targeted, while kidney and brain were unaffected. Both infra- and supra-additive interactions were perceived, with a toxicodynamic nature, resulting either in favourable or unfavourable toxicological outcomes, which were markedly dependent on the organ, parameter and post-injection time. The combined exposure to the UV filters did not show a consistent increment in toxicity in comparison with the isolated exposures, which is an ecologically relevant finding providing key information towards the formulation of environmentally safe sunscreen products.
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Affiliation(s)
- Ana Carvalhais
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Bárbara Pereira
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Mariangela Sabato
- Department of Biological and Environmental Sciences, Università degli Studi di Messina, 98166 Messina, Italy;
| | - Rafaela Seixas
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Marina Dolbeth
- CIIMAR, University of Porto, 4450-208 Matosinhos, Portugal; or
| | - Ana Marques
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Sofia Guilherme
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Patrícia Pereira
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Mário Pacheco
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
| | - Cláudia Mieiro
- CESAM and Department of Biology, University of Aveiro, 3810-193 Aveiro, Portugal; (A.C.); (B.P.); (R.S.); (A.M.); (S.G.); (P.P.); (M.P.)
- Correspondence:
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Zhang LJ, Qian L, Ding LY, Wang L, Wong MH, Tao HC. Ecological and toxicological assessments of anthropogenic contaminants based on environmental metabolomics. ENVIRONMENTAL SCIENCE AND ECOTECHNOLOGY 2021; 5:100081. [PMID: 36158612 PMCID: PMC9488080 DOI: 10.1016/j.ese.2021.100081] [Citation(s) in RCA: 34] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Revised: 01/06/2021] [Accepted: 01/23/2021] [Indexed: 05/02/2023]
Abstract
There has long been a great concern with growing anthropogenic contaminants and their ecological and toxicological effects on living organisms and the surrounding environment for decades. Metabolomics, a functional readout of cellular activity, can capture organismal responses to various contaminant-related stressors, acquiring direct signatures to illustrate the environmental behaviours of anthropogenic contaminants better. This review entails the application of metabolomics to profile metabolic responses of environmental organisms, e.g. animals (rodents, fish, crustacean and earthworms) and microorganisms (bacteria, yeast and microalgae) to different anthropogenic contaminants, including heavy metals, nanomaterials, pesticides, pharmaceutical and personal products, persistent organic pollutants, and assesses their ecotoxicological impacts with regard to literature published in the recent five years. Contaminant-induced metabolism alteration and up/down-regulation of metabolic pathways are revealed in typical organisms. The obtained insights of variations in global metabolism provide a distinct understanding of how anthropogenic contaminants exert influences on specific metabolic pathways on living organisms. Thus with a novel ecotechnique of environmental metabolomics, risk assessments of anthropogenic contaminants are profoundly demonstrated.
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Affiliation(s)
- Li-Juan Zhang
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, Guangdong, 518055, China
| | - Lu Qian
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, Guangdong, 518055, China
| | - Ling-Yun Ding
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, Guangdong, 518055, China
| | - Lei Wang
- Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing, 100871, China
| | - Ming Hung Wong
- Consortium on Health, Environment, Education and Research (CHEER), Department of Science and Environmental Studies, The Education University of Hong Kong, Tai Po, Hong Kong, China
| | - Hu-Chun Tao
- Key Laboratory for Heavy Metal Pollution Control and Reutilization, School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen, Guangdong, 518055, China
- Corresponding author.
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28
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Yin J, Hong X, Ma L, Liu R, Bu Y. Non-targeted metabolomic profiling of atrazine in Caenorhabditis elegans using UHPLC-QE Orbitrap/MS. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 206:111170. [PMID: 32861007 DOI: 10.1016/j.ecoenv.2020.111170] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 08/06/2020] [Accepted: 08/08/2020] [Indexed: 06/11/2023]
Abstract
The widespread use of the herbicides Atrazine (ATR) has been raised attention due to its ubiquitous occurrence in the environment. As an endocrine disruptor, ATR causes reproductive, immune, nervous system toxicity in biota. In this study, we aimed to investigate metabolic profile characteristics and potential metabolic biomarker that reflects specific damage in toxic effect after ATR exposure. Hence, a metabolomics study was performed to determine the significantly affected metabolites and the reproduction and locomotion of C. elegans were investigated. Mediation analysis was used to evaluate the mediating effect of metabolites on association between ATR exposure and toxic effect. ATR (≥0.04 mg/L) caused the significant dose dependent reduction of brood size and locomotion behavior, however, the body length and width were significantly decreased only in 40 mg/L group. These results suggesting that brood size, head thrashes and body bends are more sensitive indictor to assessment ATR toxicity in C. elegans. Meanwhile, metabolomics analysis revealed that ATR exposure can induce metabolic profiles significant alterations in C. elegans. We found that 9 metabolites significantly increased and 18 metabolites significantly decreased, such as phosphatidylcholine, GMP, CDP-choline, neopterin etc. Those alteration of metabolites were mainly involved in the pathways: glycerophospholipid metabolism, glycolysis/gluconeogenesis, folate biosynthesis, glycine, serine and threoninemetabolism, pyrimidine and purine metabolism. Overall, these changes are signs of possible oxidative stress and ATP synthesis disruption modification. Mediation analysis showed a significant indirect effect of ATR exposure on brood size, via 7,8-dihydroneopterin 2',3'-cyclic-p, and phosphatidylcholine might mediate association between ATR exposure and body bends, suggesting that 7,8-dihydroneopterin 2',3'-cyclic-p and phosphatidylcholine might be potentially specificity marker for brood size and body bend respectively. This preliminary analysis investigates metabolic characteristics in C. elegans after ATR exposure, helping to understand the pathways involved in the response to ATR exposure and provide potential biomarkers for the safety evaluation of ATR.
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Affiliation(s)
- Jiechen Yin
- Nanjing Institute of Environmental Science, Key Laboratory of Pesticide Environmental Assessment and Pollution Control, Ministry of Ecology and Environment, Nanjing, 210042, China; Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, 210009, China
| | - Xiang Hong
- Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, 210009, China
| | - Lingyi Ma
- Nanjing Institute of Environmental Science, Key Laboratory of Pesticide Environmental Assessment and Pollution Control, Ministry of Ecology and Environment, Nanjing, 210042, China; Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, 210009, China
| | - Ran Liu
- Key Laboratory of Environmental Medicine Engineering, Ministry of Education, School of Public Health, Southeast University, Nanjing, 210009, China.
| | - Yuanqing Bu
- Nanjing Institute of Environmental Science, Key Laboratory of Pesticide Environmental Assessment and Pollution Control, Ministry of Ecology and Environment, Nanjing, 210042, China; Jiangsu Collaborative Innovation Center of Atmospheric Environment and Equipment Technology, Nanjing University of Information Science & Technology, Nanjing, 210044, China.
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29
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Gimeno-Monforte S, Montesdeoca-Esponda S, Sosa-Ferrera Z, Santana-Rodríguez JJ, Castro Ó, Pocurull E, Borrull F. Multiresidue Analysis of Organic UV Filters and UV Stabilizers in Fish of Common Consumption. Foods 2020; 9:foods9121827. [PMID: 33317000 PMCID: PMC7763012 DOI: 10.3390/foods9121827] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Revised: 12/02/2020] [Accepted: 12/04/2020] [Indexed: 12/11/2022] Open
Abstract
Fish species can bioaccumulate different pollutants present in the marine environments and incorporate them into the trophic chain. In this work, the occurrence of organic ultraviolet (UV) stabilizers and filters in different species of fishes of high consumption has been studied. A multiresidue method based on microwave-assisted extraction and ultra-high performance liquid chromatography with mass spectrometry detection was developed and then it was applied to nine fish species from markets in the Canary Islands and Catalonia (Spain). Three UV filters (BP-3, OC and BM-DBM) and two stabilizers (UV-328 and UV-329) were found in some of the studied species, in concentrations ranging between 0.067 and 0.683 µg g−1 dry weight (dw). BP-3 (UV filter) was the most frequently detected compound, followed by UV-329 (UV stabilizer). Thunnus thynnus was the most heavily polluted species, with a concentration of 1.201 µg g−1 dw as the sum of all measured compounds.
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Affiliation(s)
- Sandra Gimeno-Monforte
- Instituto Universitario de Estudios Ambientales y Recursos Naturales (i-UNAT), Universidad de Las Palmas de Gran Canaria, 35017 Las Palmas de Gran Canaria, Spain; (S.G.-M.); (Z.S.-F.); (J.J.S.-R.)
| | - Sarah Montesdeoca-Esponda
- Instituto Universitario de Estudios Ambientales y Recursos Naturales (i-UNAT), Universidad de Las Palmas de Gran Canaria, 35017 Las Palmas de Gran Canaria, Spain; (S.G.-M.); (Z.S.-F.); (J.J.S.-R.)
- Correspondence: ; Tel.: +34-(92)-845-4432
| | - Zoraida Sosa-Ferrera
- Instituto Universitario de Estudios Ambientales y Recursos Naturales (i-UNAT), Universidad de Las Palmas de Gran Canaria, 35017 Las Palmas de Gran Canaria, Spain; (S.G.-M.); (Z.S.-F.); (J.J.S.-R.)
| | - José Juan Santana-Rodríguez
- Instituto Universitario de Estudios Ambientales y Recursos Naturales (i-UNAT), Universidad de Las Palmas de Gran Canaria, 35017 Las Palmas de Gran Canaria, Spain; (S.G.-M.); (Z.S.-F.); (J.J.S.-R.)
| | - Óscar Castro
- Department of Analytical Chemistry and Organic Chemistry, Universitat Rovira i Virgili, Marcel•lí Domingo s/n, Sescelades Campus, 43007 Tarragona, Spain; (Ó.C.); (E.P.); (F.B.)
| | - Eva Pocurull
- Department of Analytical Chemistry and Organic Chemistry, Universitat Rovira i Virgili, Marcel•lí Domingo s/n, Sescelades Campus, 43007 Tarragona, Spain; (Ó.C.); (E.P.); (F.B.)
| | - Francesc Borrull
- Department of Analytical Chemistry and Organic Chemistry, Universitat Rovira i Virgili, Marcel•lí Domingo s/n, Sescelades Campus, 43007 Tarragona, Spain; (Ó.C.); (E.P.); (F.B.)
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Bioaccumulation and Toxicological Effects of UV-Filters on Marine Species. THE HANDBOOK OF ENVIRONMENTAL CHEMISTRY 2020. [DOI: 10.1007/698_2019_442] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Adeyemi JA, Harmon DL, Compart DMP, Ogunade IM. Effects of a blend of Saccharomyces cerevisiae-based direct-fed microbial and fermentation products in the diet of newly weaned beef steers: growth performance, whole-blood immune gene expression, serum biochemistry, and plasma metabolome1. J Anim Sci 2019; 97:4657-4667. [PMID: 31563947 PMCID: PMC6827398 DOI: 10.1093/jas/skz308] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Accepted: 09/25/2019] [Indexed: 12/17/2022] Open
Abstract
We examined the effects of dietary supplementation of a Saccharomyces cerevisiae-based direct-fed microbial (DFM) on the growth performance, whole-blood immune gene expression, serum biochemistry, and plasma metabolome of newly weaned beef steers during a 42 d receiving period. Forty newly weaned Angus crossbred steers (7 d post-weaning; 210 ± 12 kg of BW; 180 ± 17 d of age) from a single source were stratified by BW and randomly assigned to 1 of 2 treatments: basal diet with no additive (CON; n = 20) or a basal diet top-dressed with 19 g of the DFM (PROB; n = 20). Daily DMI and weekly body weights were measured to calculate average daily gain (ADG) and feed efficiency (FE). Expression of 84 immune-related genes was analyzed on blood samples collected on days 21 and 42. Serum biochemical parameters and plasma metabolome were analyzed on days 0, 21, and 42. On day 40, fecal grab samples were collected for pH measurement. Compared with CON, dietary supplementation of PROB increased final body weight (P = 0.01) and ADG (1.42 vs. 1.23 kg; P = 0.04) over the 42 d feeding trial. There was a tendency for improved FE with PROB supplementation (P = 0.10). No treatment effect (P = 0.24) on DMI was observed. Supplementation with PROB increased (P ≤ 0.05) the concentrations of serum calcium, total protein, and albumin. Compared with CON, dietary supplementation with PROB increased (P ≤ 0.05) the expression of some immune-related genes involved in detecting pathogen-associated molecular patterns (such as TLR1, TLR2, and TLR6), T-cell differentiation (such as STAT6, ICAM1, RORC, TBX21, and CXCR3) and others such as TNF and CASP1, on day 21 and/or day 42. Conversely, IL-8 was upregulated (P = 0.01) in beef steers fed CON diet on day 21. Plasma untargeted plasma metabolome analysis revealed an increase (P ≤ 0.05) in the concentration of metabolites, 5-methylcytosine and indoleacrylic acid involved in protecting the animals against inflammation in steers fed PROB diet. There was a tendency for lower fecal pH in steers fed PROB diet (P = 0.08), a possible indication of increased hindgut fermentation. This study demonstrated that supplementation of PROB diet improved the performance, nutritional status, and health of newly weaned beef steers during a 42 d receiving period.
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Affiliation(s)
- James A Adeyemi
- College of Agriculture, Communities, and the Environment, Kentucky State University, Frankfort, KY
| | - David L Harmon
- Department of Animal and Food Science, University of Kentucky, Lexington, KY
| | | | - Ibukun M Ogunade
- College of Agriculture, Communities, and the Environment, Kentucky State University, Frankfort, KY
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Picart-Armada S, Fernández-Albert F, Vinaixa M, Yanes O, Perera-Lluna A. FELLA: an R package to enrich metabolomics data. BMC Bioinformatics 2018; 19:538. [PMID: 30577788 PMCID: PMC6303911 DOI: 10.1186/s12859-018-2487-5] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2018] [Accepted: 11/12/2018] [Indexed: 12/27/2022] Open
Abstract
Background Pathway enrichment techniques are useful for understanding experimental metabolomics data. Their purpose is to give context to the affected metabolites in terms of the prior knowledge contained in metabolic pathways. However, the interpretation of a prioritized pathway list is still challenging, as pathways show overlap and cross talk effects. Results We introduce FELLA, an R package to perform a network-based enrichment of a list of affected metabolites. FELLA builds a hierarchical representation of an organism biochemistry from the Kyoto Encyclopedia of Genes and Genomes (KEGG), containing pathways, modules, enzymes, reactions and metabolites. In addition to providing a list of pathways, FELLA reports intermediate entities (modules, enzymes, reactions) that link the input metabolites to them. This sheds light on pathway cross talk and potential enzymes or metabolites as targets for the condition under study. FELLA has been applied to six public datasets –three from Homo sapiens, two from Danio rerio and one from Mus musculus– and has reproduced findings from the original studies and from independent literature. Conclusions The R package FELLA offers an innovative enrichment concept starting from a list of metabolites, based on a knowledge graph representation of the KEGG database that focuses on interpretability. Besides reporting a list of pathways, FELLA suggests intermediate entities that are of interest per se. Its usefulness has been shown at several molecular levels on six public datasets, including human and animal models. The user can run the enrichment analysis through a simple interactive graphical interface or programmatically. FELLA is publicly available in Bioconductor under the GPL-3 license. Electronic supplementary material The online version of this article (10.1186/s12859-018-2487-5) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Sergio Picart-Armada
- B2SLab, Departament d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial, Universitat Politècnica de Catalunya, Barcelona, 08028, Spain. .,Networking Biomedical Research Centre in the subject area of Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, 28029, Spain. .,Institut de Recerca Pediàtrica Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, 08950, Spain.
| | - Francesc Fernández-Albert
- B2SLab, Departament d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial, Universitat Politècnica de Catalunya, Barcelona, 08028, Spain.,Networking Biomedical Research Centre in the subject area of Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, 28029, Spain.,Takeda Cambridge Ltd, Cambridge, CB4 0PZ, UK
| | - Maria Vinaixa
- Metabolomics Platform, IISPV, Department of Electronic Engineering (DEEEA), Universitat Rovira i Virgili, Tarragona, 43003, Spain.,CIBER of Diabetes and Associated Metabolic Diseases (CIBERDEM), Madrid, 28029, Spain
| | - Oscar Yanes
- Metabolomics Platform, IISPV, Department of Electronic Engineering (DEEEA), Universitat Rovira i Virgili, Tarragona, 43003, Spain.,CIBER of Diabetes and Associated Metabolic Diseases (CIBERDEM), Madrid, 28029, Spain
| | - Alexandre Perera-Lluna
- B2SLab, Departament d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial, Universitat Politècnica de Catalunya, Barcelona, 08028, Spain.,Networking Biomedical Research Centre in the subject area of Bioengineering, Biomaterials and Nanomedicine (CIBER-BBN), Madrid, 28029, Spain.,Institut de Recerca Pediàtrica Hospital Sant Joan de Déu, Esplugues de Llobregat, Barcelona, 08950, Spain
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