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Pamanji R, Ragothaman P, Koigoora S, Sivan G, Selvin J. Network analysis of toxic endpoints of fungicides in zebrafish. Toxicol Res (Camb) 2024; 13:tfae087. [PMID: 38845614 PMCID: PMC11150978 DOI: 10.1093/toxres/tfae087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2024] [Revised: 05/08/2024] [Accepted: 05/28/2024] [Indexed: 06/09/2024] Open
Abstract
Zebrafish being the best animal model to study, every attempt has been made to decipher the toxic mechanism of every fungicide of usage and interest. It is important to understand the multiple targets of a toxicant to estimate the toxic potential in its totality. A total of 22 fungicides of different classes like amisulbrom, azoxystrobin, carbendazim, carboxin, chlorothalonil, difenoconazole, etridiazole, flusilazole, fluxapyroxad, hexaconazole, kresoxim methyl, mancozeb, myclobutanil, prochloraz, propiconazole, propineb, pyraclostrobin, tebuconazole, thiophanate-methyl, thiram, trifloxystrobin and ziram were reviewed and analyzed for their multiple explored targets in zebrafish. Toxic end points in zebrafish are highly informative when it comes to network analysis. They provide a window into the molecular and cellular pathways that are affected by a certain toxin. This can then be used to gain insights into the underlying mechanisms of toxicity and to draw conclusions on the potential of a particular compound to induce toxicity. This knowledge can then be used to inform decisions about drug development, environmental regulation, and other areas of research. In addition, the use of zebrafish toxic end points can also be used to better understand the effects of environmental pollutants on ecosystems. By understanding the pathways affected by a given toxin, researchers can determine how pollutants may interact with the environment and how this could lead to health or environmental impacts.
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Affiliation(s)
- Rajesh Pamanji
- Department of Microbiology, Pondicherry University, R.V. Nagar, Kalapet, Puducherry 605014, India
| | - Prathiviraj Ragothaman
- Department of Microbiology, Pondicherry University, R.V. Nagar, Kalapet, Puducherry 605014, India
| | - Srikanth Koigoora
- Department of Biotechnology, Vignan's Foundation for Science, Technology and Research (Deemed to be University), Guntur -Tenali Rd, Vadlamudi 522213, AP, India
| | - Gisha Sivan
- Division of Medical Research, SRM SRM Medical College Hospital and Research Centre, SRM Institute of Science and Technology, Potheri, SRM Nagar, Kattankulathur, Chennai 603203, India
| | - Joseph Selvin
- Department of Microbiology, Pondicherry University, R.V. Nagar, Kalapet, Puducherry 605014, India
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2
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Moniruzzaman M, Kumar S, Mukherjee M, Chakraborty SB. Delineating involvement of MAPK/NF-κB pathway during mitigation of permethrin-induced oxidative damage in fish gills by melatonin. ENVIRONMENTAL TOXICOLOGY AND PHARMACOLOGY 2023; 104:104312. [PMID: 37967690 DOI: 10.1016/j.etap.2023.104312] [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: 10/01/2022] [Revised: 07/18/2023] [Accepted: 11/09/2023] [Indexed: 11/17/2023]
Abstract
Present study evaluated involvement of transcription factors during permethrin-induced gill toxicity and its amelioration by melatonin. First, adult Notoptertus notopterus females were exposed to permethrin at nominal concentrations [C: 0.0, P1: 0.34, P2: 0.68 µg/L] for 15 days followed by intramuscular melatonin administration (100 µg/kg body weight) for 7 days. Gill MDA, XO, LDH levels increased, while Na+-K+-ATPase, SDH, cytochrome C oxidase levels decreased with increasing permethrin concentrations. Glutathione, SOD, CAT, GST, GRd levels increased in P1 than C, but decreased in P2 than P1, C. Melatonin administration restored gill enzyme and antioxidant levels in P1, P2. Next, isolated gill tissues were exposed to permethrin at 25, 50 µM doses along with melatonin administration (100 μg/mL). NF-κB, NRF2, Keap1, ERK, Akt, caspases protein expression changed significantly during permethrin-induced gill damage. Melatonin administration amended permethrin-induced molecular imbalance through modulation of caspase proteins and MAPK/NF-κB signal transduction pathway via melatonin receptor 1.
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Affiliation(s)
| | - Saheli Kumar
- Department of Zoology, University of Calcutta, Kolkata, India
| | - Mainak Mukherjee
- Department of Zoology, University of Calcutta, Kolkata, India; Department of Zoology, Fakir Chand College, Diamond Harbour, India
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3
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Yang G, Weng Y, Zhao Y, Wang D, Luo T, Jin Y. Transcriptomic and targeted metabolomic analysis revealed the toxic effects of prochloraz on larval zebrafish. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 822:153625. [PMID: 35124026 DOI: 10.1016/j.scitotenv.2022.153625] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Revised: 01/24/2022] [Accepted: 01/29/2022] [Indexed: 06/14/2023]
Abstract
Prochloraz (PCZ), an imidazole fungicide, has been extensively used in horticulture and agriculture to protect against pests and diseases. To investigate the potential toxicity of PCZ on aquatic organisms, larval zebrafish, as a model, were exposed to a series of concentrations (0, 20, 100, and 500 μg/L) of PCZ for 7 days. With transcriptomic analysis, we found that exposure to high dose PCZ could produce 76 downregulated and 345 upregulated differential expression genes (DEGs). Bioinformatics analysis revealed that most of the DEGs were characterized in the pathways of glycolipid metabolism, amino acid metabolism and oxidative stress in larval zebrafish. Targeted metabolomic analysis was conducted to verify the effects of PCZ on the levels of acyl-carnitines and some amino acids in larval zebrafish. In addition, biochemical indicators related to glycolipid metabolism were affected obviously, manifested as elevated triglyceride (TG) levels and decreased glucose (Glu) levels in whole larvae. The expression levels of genes associated with glycolipid metabolism were affected in larvae after exposure to PCZ (PK, GK, PEPckc, SREBP, ACO). Interestingly, we further confirmed that PCZ could induce oxidative stress by the changing enzyme activities (T-GSH, GSSG) and upregulating several related genes levels in larval zebrafish. Generally, our results revealed that the endpoints related to glycolipid metabolism, amino acid metabolism and oxidative stress were influenced by PCZ in larval zebrafish.
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Affiliation(s)
- Guiling Yang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Agro-products Safety and Nutrition, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, Zhejiang, China
| | - You Weng
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310032, China
| | - Yao Zhao
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Agro-products Safety and Nutrition, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, Zhejiang, China; College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310032, China
| | - Dou Wang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Agro-products Safety and Nutrition, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, Zhejiang, China
| | - Ting Luo
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Agro-products Safety and Nutrition, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, Zhejiang, China; College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310032, China
| | - Yuanxiang Jin
- College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310032, China.
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4
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Protein Signatures to Trace Seafood Contamination and Processing. Foods 2020; 9:foods9121751. [PMID: 33256117 PMCID: PMC7761302 DOI: 10.3390/foods9121751] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Revised: 11/21/2020] [Accepted: 11/24/2020] [Indexed: 12/14/2022] Open
Abstract
This review presents some applications of proteomics and selected spectroscopic methods to validate certain aspects of seafood traceability. After a general introduction to traceability and the initial applications of proteomics to authenticate traceability information, it addresses the application of proteomics to trace seafood exposure to some increasingly abundant emergent health hazards with the potential to indicate the geographic/environmental origin, such as microplastics, triclosan and human medicinal and recreational drugs. Thereafter, it shows the application of vibrational spectroscopy (Fourier-Transform Infrared Spectroscopy (FTIR) and Fourier-Transform Raman Spectroscopy (FT Raman)) and Low Field Nuclear Magnetic Resonance (LF-NMR) relaxometry to discriminate frozen fish from thawed fish and to estimate the time and temperature history of frozen fillets by monitoring protein modifications induced by processing and storage. The review concludes indicating near future trends in the application of these techniques to ensure seafood safety and traceability.
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5
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Genario R, de Abreu MS, Giacomini ACVV, Demin KA, Kalueff AV. Sex differences in behavior and neuropharmacology of zebrafish. Eur J Neurosci 2019; 52:2586-2603. [PMID: 31090957 DOI: 10.1111/ejn.14438] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Revised: 04/27/2019] [Accepted: 05/08/2019] [Indexed: 12/17/2022]
Abstract
Sex is an important variable in biomedical research. The zebrafish (Danio rerio) is increasingly utilized as a powerful new model organism in translational neuroscience and pharmacology. Mounting evidence indicates important sex differences in zebrafish behavioral and neuropharmacological responses. Here, we discuss the role of sex in zebrafish central nervous system (CNS) models, their molecular mechanisms, recent findings and the existing challenges in this field. We also emphasize the growing utility of zebrafish models in translational neuropharmacological research of sex differences, fostering future CNS drug discovery and the search for novel sex-specific therapies. Finally, we highlight the interplay between sex and environment in zebrafish models of sex-environment correlations as an important strategy of CNS disease modeling using this aquatic organism.
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Affiliation(s)
- Rafael Genario
- Bioscience Institute, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil
| | - Murilo S de Abreu
- Bioscience Institute, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil.,The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, Louisiana
| | - Ana C V V Giacomini
- Bioscience Institute, University of Passo Fundo (UPF), Passo Fundo, RS, Brazil.,Postgraduate Program in Environmental Sciences, University of Passo Fundo (UPF), Passo Fundo, Brazil
| | - Konstantin A Demin
- Institute of Experimental Medicine, Almazov National Medical Research Center, Ministry of Healthcare of Russian Federation, St. Petersburg, Russia.,Institute of Translational Biomedicine, St. Petersburg State University, St. Petersburg, Russia
| | - Allan V Kalueff
- School of Pharmacy, Southwest University, Chongqing, China.,Ural Federal University, Ekaterinburg, Russia
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6
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Kao CM, Ou WJ, Lin HD, Eva AW, Wang TL, Chen SC. Toxicity of diuron in HepG2 cells and zebrafish embryos. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 172:432-438. [PMID: 30735975 DOI: 10.1016/j.ecoenv.2019.01.036] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Revised: 01/02/2019] [Accepted: 01/09/2019] [Indexed: 06/09/2023]
Abstract
Diuron is an herbicide, which is used to control a wide variety of annual and perennial broadleaf, grassy weeds, and mosses. However, the toxicity of diuron in HepG2 cells and zebrafish embryos was unclear. In this study, HpeG2 cells and zebrafish embryos were exposed to different concentrations of diuron for 24 h and 48 h, respectively. Results reveal the diuron caused cytotoxicity and the generation of reactive oxygen species (ROS) in the treated HepG2 cells. The effects of diuron on the expression of catalase and superoxide dismutase (SOD1 and SOD2), an antioxidant enzyme, were investigated. Results showed that only SOD1 was significantly induced after treated diuron 48 h, but the expression of catalase and SOD2 was unaffected. Additionally, the cytotoxicity of diuron was not attenuated in cells pretreated with of N-acetyl-cysteine (NAC), a well-known antioxidant, indicating that oxidative stress could not contribute to cellular death in the treated HepG2 cells. In zebrafish embryos, results from proteomic analysis show that 332 differentially upregulated proteins and 199 down-regulated proteins were detected in the treated embryos (P < 0.05). In addition to the up-regulated antioxidant proteins (prdx3, cat, prdx4, txnrd1, prdx1, sod1, prdx2, and sod2), some decreased proteins were related to cytoskeleton formation, tight junction, and gap junction, which could be related to the malformation of the treated zebrafish embryos. In summary, diuron caused cytotoxicity in HepG2 cells, and the mechanisms of toxicity in zebrafish were addressed using the proteomic analysis.
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Affiliation(s)
- Chih Ming Kao
- Institute of Environmental Engineering, National Sun Yat-Sen University, Kaohsiung, Taiwan
| | - Wei-Jen Ou
- Hematology-Oncology Section, LANDSEED Hospital, Jhongli, Taiwan
| | - Heng-Dao Lin
- Department of Life Sciences, National Central University, Jhongli, Taiwan
| | - Ari Wahyuni Eva
- Department of Life Sciences, National Central University, Jhongli, Taiwan
| | - Tzu-Ling Wang
- Graduate Institute of Mathematics and Science Education, National Tsing Hua University, Taiwan
| | - Ssu Ching Chen
- Department of Life Sciences, National Central University, Jhongli, Taiwan.
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7
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Rietjens IMCM, Vervoort J, Maslowska-Górnicz A, Van den Brink N, Beekmann K. Use of proteomics to detect sex-related differences in effects of toxicants: implications for using proteomics in toxicology. Crit Rev Toxicol 2018; 48:666-681. [PMID: 30257127 DOI: 10.1080/10408444.2018.1509941] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
This review provides an overview of results obtained when using proteome analysis for detecting sex-based differences in response to toxicants. It reveals implications to be taken into account when considering the use of proteomics in toxicological studies. It appears that results may differ when studying the same chemical in the same species in different target tissues. Another result of interest is the limited dose-response behavior of differential abundance patterns observed in studies where more than one dose level is tested. It is concluded that use of proteomics to study differences in modes of action of toxic compounds is an active area of research. The examples from use of proteomics to study sex-dependent differences also reveal that further studies are needed to provide reliable insight in modes of action, novel biomarkers or even novel therapies. To eventually reach this aim for this and other toxicological endpoints, it is essential to consider background variability, consequences of timing of toxicant administration, dose-response behavior, relevant species and target organ, species and organ variability and the presence of proteoforms.
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Affiliation(s)
| | - Jacques Vervoort
- Laboratory of Biochemistry, Wageningen University, Wageningen, The Netherlands
| | | | - Nico Van den Brink
- Division of Toxicology, Wageningen University, Wageningen, The Netherlands
| | - Karsten Beekmann
- Division of Toxicology, Wageningen University, Wageningen, The Netherlands
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8
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Liang X, Feswick A, Simmons D, Martyniuk CJ. Reprint of: Environmental toxicology and omics: A question of sex. J Proteomics 2018:S1874-3919(18)30113-1. [PMID: 29650353 DOI: 10.1016/j.jprot.2018.03.018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Molecular initiating events and downstream transcriptional/proteomic responses provide valuable information for adverse outcome pathways, which can be used predict the effects of chemicals on physiological systems. There has been a paucity of research that addresses sex-specific expression profiling in toxicology and due to cost, time, and logistic considerations, sex as a variable has not been widely considered. In response to this deficiency, federal agencies in the United States, Canada, and Europe have highlighted the importance of including sex as a variable in scientific investigations. Using case studies from both aquatic and mammalian toxicology, we report that there can be less than ~20-25% consensus in how the transcriptome and proteome of each sex responds to chemicals. Chemicals that have been shown to elicit sex-specific responses in the transcriptome or proteome include pharmaceuticals, anti-fouling agents, anticorrosive agents, and fungicides, among others. Sex-specific responses in the transcriptome and proteome are not isolated to whole animals, as investigations demonstrate that primary cell cultures isolated from each sex responds differently to toxicants. This signifies that sex is important, even in cell lines. Sex has significant implications for predictive toxicology, and both male and female data are required to improve robustness of adverse outcome pathways. BIOLOGICAL SIGNIFICANCE Clinical toxicology recognizes that sex is an important variable, as pharmacokinetics (ADME; absorption, distribution, metabolism, and excretion) can differ between females and males. However, few studies in toxicology have explored the implication of sex in relation to the transcriptome and proteome of whole organisms. High-throughput molecular approaches are becoming more frequently applied in toxicity screens (e.g. pre-clinical experiments, fish embryos, cell lines, synthetic tissues) and such data are expected to build upon reporter-based cell assays (e.g. receptor activation, enzyme inhibition) used in toxicant screening programs (i.e. Tox21, ToxCast, REACH). Thus, computational models can more accurately predict the diversity of adverse effects that can occur from chemical exposure within the biological system. Our studies and those synthesized from the literature suggest that the transcriptome and proteome of females and males respond quite differentially to chemicals. This has significant implications for predicting adverse effects in one sex when using molecular data generated in the other sex. While molecular initiating events are not expected to differ dramatically between females and males (i.e. an estrogen binds estrogen receptors in both sexes), it is important to acknowledge that the downstream transcriptomic and proteomic responses can differ based upon the presence/absence of co-regulators and inherent sex-specific variability in regulation of transcriptional and translational machinery. Transcriptomic and proteomic studies also reveal that cell processes affected by chemicals can differ due to sex, and this can undoubtedly lead to sex-specific physiological responses.
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Affiliation(s)
- Xuefang Liang
- School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China; Department of Physiological Sciences and Center for Environmental and Human Toxicology, UF Genetics Institute, College of Veterinary Medicine, University of Florida, Gainesville, FL, 32611, USA
| | - April Feswick
- Department of Molecular Genetics and Microbiology, College of Medicine, University of Florida, Gainesville, FL, USA
| | - Denina Simmons
- Department of Chemistry, McMaster University, Hamilton, Ontario, Canada
| | - Christopher J Martyniuk
- Department of Physiological Sciences and Center for Environmental and Human Toxicology, UF Genetics Institute, College of Veterinary Medicine, University of Florida, Gainesville, FL, 32611, USA.
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9
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Liang X, Feswick A, Simmons D, Martyniuk CJ. Environmental toxicology and omics: A question of sex. J Proteomics 2018; 172:152-164. [DOI: 10.1016/j.jprot.2017.09.010] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2017] [Revised: 09/19/2017] [Accepted: 09/25/2017] [Indexed: 12/26/2022]
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10
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Ciaramella MA, Nair MN, Suman SP, Allen PJ, Schilling MW. Differential abundance of muscle proteome in cultured channel catfish (Ictalurus punctatus) subjected to ante-mortem stressors and its impact on fillet quality. COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY. PART D, GENOMICS & PROTEOMICS 2016; 20:10-18. [PMID: 27484844 DOI: 10.1016/j.cbd.2016.06.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2015] [Revised: 06/10/2016] [Accepted: 06/23/2016] [Indexed: 11/19/2022]
Abstract
The effects of environmental and handling stress during catfish (Ictalurus punctatus) aquaculture were evaluated to identify the biochemical alterations they induce in the muscle proteome and their impacts on fillet quality. Temperature (25°C and 33°C) and oxygen (~2.5mg/L [L] and >5mg/L [H]) were manipulated followed by sequential socking (S) and transport (T) stress to evaluate changes in quality when fish were subjected to handling (25-H-ST; temperature-oxygen-handling), oxygen stress (25-L-ST), temperature stress (33-H-ST) and severe stress (33-L-ST). Instrumental color and texture of fillets were evaluated, and muscle proteome profile was analyzed. Fillet redness, yellowness and chroma decreased, and hue angle increased in all treatments except temperature stress (33-H-ST). Alterations in texture compared to controls were observed when oxygen levels were held high. In general, changes in the abundance of structural proteins and those involved in protein regulation and energy metabolism were identified. Rearing under hypoxic conditions demonstrated a shift in metabolism to ketogenic pathways and a suppression of the stress-induced changes as the severity of the stress increased. Increased proteolytic activity observed through the down-regulation of various structural proteins could be responsible for the alterations in color and texture.
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Affiliation(s)
- Michael A Ciaramella
- Mississippi State University, Department of Food Science, Nutrition and Health Promotion, Herzer Building, 945 Stone Blvd, Box 9805, Mississippi State, MS 39762, United States; Mississippi State University, Department Wildlife, Fisheries and Aquaculture, Box 9690, Mississippi State, MS 39762, United States.
| | - Mahesh N Nair
- University of Kentucky, Department of Animal and Food Sciences, Lexington, KY 40546, United States
| | - Surendranath P Suman
- University of Kentucky, Department of Animal and Food Sciences, Lexington, KY 40546, United States.
| | - Peter J Allen
- Mississippi State University, Department Wildlife, Fisheries and Aquaculture, Box 9690, Mississippi State, MS 39762, United States.
| | - M Wes Schilling
- Mississippi State University, Department of Food Science, Nutrition and Health Promotion, Herzer Building, 945 Stone Blvd, Box 9805, Mississippi State, MS 39762, United States.
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11
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Smidak R, Aradska J, Kirchberger S, Distel M, Sialana FJ, Wackerlig J, Mechtcheriakova D, Lubec G. A detailed proteomic profiling of plasma membrane from zebrafish brain. Proteomics Clin Appl 2016; 10:1264-1268. [PMID: 27459904 DOI: 10.1002/prca.201600081] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 06/29/2016] [Accepted: 07/21/2016] [Indexed: 12/11/2022]
Abstract
Zebrafish (Danio rerio) is a well-established model organism in developmental biology and disease modeling. In recent years, an increasing amount of studies used zebrafish to analyze the genetic changes underlying various neurological disorders. The brain plasma membrane proteome represents the major subsets of signaling proteins and promising drug targets, but is often understudied due to traditional experimental difficulties including problems with solubility, detergent removal, or low abundance. Here, we report a comprehensive dataset of the proteins identified in the enriched plasma membrane of the zebrafish brain by applying sequential trypsin/chymotrypsin digestion with multidimensional LC-MS/MS. A total number of 97 017 peptide groups corresponding to 9201 proteins were identified. These were annotated in various molecular functions or neurological disorders. The dataset of the current study provides a useful data source for further utilizing zebrafish in basic and clinical neuroscience.
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Affiliation(s)
- Roman Smidak
- Department of Pediatrics, Medical University of Vienna, Vienna, Austria
| | - Jana Aradska
- Department of Pediatrics, Medical University of Vienna, Vienna, Austria
| | - Stefanie Kirchberger
- Children's Cancer Research Institute, St. Anna Kinderkrebsforschung, Innovative Cancer Models, Vienna, Austria
| | - Martin Distel
- Children's Cancer Research Institute, St. Anna Kinderkrebsforschung, Innovative Cancer Models, Vienna, Austria
| | | | - Judith Wackerlig
- Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Vienna, Austria
| | - Diana Mechtcheriakova
- Department of Pathophysiology and Allergy Research, Medical University of Vienna, Vienna, Austria
| | - Gert Lubec
- Department of Pharmaceutical Chemistry, Faculty of Life Sciences, University of Vienna, Vienna, Austria
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12
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Geary B, Magee K, Cash P, Young IS, Whitfield PD, Doherty MK. Determining synthesis rates of individual proteins in zebrafish (Danio rerio
) with low levels of a stable isotope labelled amino acid. Proteomics 2016; 16:1398-406. [DOI: 10.1002/pmic.201500357] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2015] [Revised: 02/01/2016] [Accepted: 02/24/2016] [Indexed: 11/11/2022]
Affiliation(s)
- Bethany Geary
- Division of Health Research; University of the Highlands and Islands; Inverness UK
| | - Kieran Magee
- Institute of Integrative Biology; University of Liverpool; Liverpool UK
| | - Phillip Cash
- Division of Applied Medicine; University of Aberdeen; Aberdeen UK
| | - Iain S. Young
- Institute of Integrative Biology; University of Liverpool; Liverpool UK
| | - Phillip D. Whitfield
- Division of Health Research; University of the Highlands and Islands; Inverness UK
| | - Mary K. Doherty
- Division of Health Research; University of the Highlands and Islands; Inverness UK
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13
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Kalueff AV, Echevarria DJ, Homechaudhuri S, Stewart AM, Collier AD, Kaluyeva AA, Li S, Liu Y, Chen P, Wang J, Yang L, Mitra A, Pal S, Chaudhuri A, Roy A, Biswas M, Roy D, Podder A, Poudel MK, Katare DP, Mani RJ, Kyzar EJ, Gaikwad S, Nguyen M, Song C. Zebrafish neurobehavioral phenomics for aquatic neuropharmacology and toxicology research. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2016; 170:297-309. [PMID: 26372090 DOI: 10.1016/j.aquatox.2015.08.007] [Citation(s) in RCA: 90] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Revised: 08/13/2015] [Accepted: 08/17/2015] [Indexed: 05/25/2023]
Abstract
Zebrafish (Danio rerio) are rapidly emerging as an important model organism for aquatic neuropharmacology and toxicology research. The behavioral/phenotypic complexity of zebrafish allows for thorough dissection of complex human brain disorders and drug-evoked pathological states. As numerous zebrafish models become available with a wide spectrum of behavioral, genetic, and environmental methods to test novel drugs, here we discuss recent zebrafish phenomics methods to facilitate drug discovery, particularly in the field of biological psychiatry. Additionally, behavioral, neurological, and endocrine endpoints are becoming increasingly well-characterized in zebrafish, making them an inexpensive, robust and effective model for toxicology research and pharmacological screening. We also discuss zebrafish behavioral phenotypes, experimental considerations, pharmacological candidates and relevance of zebrafish neurophenomics to other 'omics' (e.g., genomic, proteomic) approaches. Finally, we critically evaluate the limitations of utilizing this model organism, and outline future strategies of research in the field of zebrafish phenomics.
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Affiliation(s)
- Allan V Kalueff
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China; The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; ZENEREI Institute, 309 Palmer Court, Slidell, LA 70458, USA; Institute of Translational Biomedicine, St. Petersburg State University, St. Petersburg 199034, Russia; Chemical-Technological Institute and Institute of Natural Sciences, Ural Federal University, Ekaterinburg 620002, Russia.
| | - David J Echevarria
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; Department of Psychology, University of Southern Mississippi, 118 College Drive, Hattiesburg, MS 39406, USA
| | - Sumit Homechaudhuri
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Adam Michael Stewart
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; ZENEREI Institute, 309 Palmer Court, Slidell, LA 70458, USA
| | - Adam D Collier
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; Department of Psychology, University of Southern Mississippi, 118 College Drive, Hattiesburg, MS 39406, USA
| | | | - Shaomin Li
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China
| | - Yingcong Liu
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China
| | - Peirong Chen
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China
| | - JiaJia Wang
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China
| | - Lei Yang
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China
| | - Anisa Mitra
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Subharthi Pal
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Adwitiya Chaudhuri
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Anwesha Roy
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Missidona Biswas
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Dola Roy
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Anupam Podder
- Department of Zoology, University of Calcutta, 35, Ballygunge Circular Road, Kolkata 700019, India
| | - Manoj K Poudel
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; ZENEREI Institute, 309 Palmer Court, Slidell, LA 70458, USA
| | - Deepshikha P Katare
- Proteomics and Translational Research Lab, Centre for Medical Biotechnology, Amity Institute of Biotechnology, Amity University Uttar Pradesh, Noida 201303, UP, India
| | - Ruchi J Mani
- Proteomics and Translational Research Lab, Centre for Medical Biotechnology, Amity Institute of Biotechnology, Amity University Uttar Pradesh, Noida 201303, UP, India
| | - Evan J Kyzar
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; Department of Psychiatry, Psychiatric Institute, University of Illinois at Chicago, 1601 W Taylor St., Chicago, IL 60612, USA
| | - Siddharth Gaikwad
- Graduate Institute of Neural and Cognitive Sciences, China Medical University Hospital, Taichung 40402, Taiwan
| | - Michael Nguyen
- The International Zebrafish Neuroscience Research Consortium (ZNRC), Slidell, LA 70458, USA; ZENEREI Institute, 309 Palmer Court, Slidell, LA 70458, USA
| | - Cai Song
- Research Institute for Marine Drugs and Nutrition, College of Food Science and Technology, Guangdong Ocean University, Zhanjiang, Guangdong 524025, China; Graduate Institute of Neural and Cognitive Sciences, China Medical University Hospital, Taichung 40402, Taiwan
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14
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Biales AD, Denton DL, Riordan D, Breuer R, Batt AL, Crane DB, Schoenfuss HL. Complex watersheds, collaborative teams: Assessing pollutant presence and effects in the San Francisco Delta. INTEGRATED ENVIRONMENTAL ASSESSMENT AND MANAGEMENT 2015; 11:674-688. [PMID: 25779725 DOI: 10.1002/ieam.1633] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Revised: 12/19/2014] [Accepted: 02/23/2015] [Indexed: 06/04/2023]
Abstract
There is a great diversity of sources of chemical contaminants and stressors over large geographic areas. Chemical contaminant inputs and magnitude can potentially exhibit wide seasonal variation over large geographic areas. Together, these factors make linking exposure to monitored chemical contaminants and effects difficult. In practice, this linkage typically relies on relatively limited chemical occurrence data loosely coupled with individual effects, and population- or community-level assessments. Increased discriminatory power may be gained by approaching watershed level assessment in a more holistic manner, drawing from a number of disciplines that target endpoints spanning levels of the biological hierarchy. Using the Sacramento River as a case study, the present study aimed to 1) evaluate the performance of new analytical and biomarker tools in a real world setting and their potential for linking occurrence and effect; 2) characterize the effects of geographic and temporal variability through the integration of suborganismal, tissue, and individual level endpoints, as well as extensive chemical analyses; 3) identify knowledge gaps and research needs that limit the implementation of this holistic approach; and 4) provide an experimental design workflow for these types of assessments. Sites were selected to target inputs into the Sacramento River as it transitions from an agricultural to a mixed but primarily urban landscape. Chemical analyses were conducted on surface water samples at each site in both the spring and fall for pesticides, hormones, and active pharmaceutical ingredients (APIs). Active pharmaceutical ingredients were more often detected across sampling events in the fall; however, at the most downstream site the number of analytes detected and their concentrations were greater in the spring, which may be due to seasonal differences in rainfall. Changes in gene and protein expression targeting endocrine and reproductive effects were observed within each sampling event; however, they were inconsistent across seasons. Larval mortality at the most downstream site was seen in both seasons; however, behavioral changes were only observed in the spring. No clear linkages of specific analyte exposure to biological response were observed, nor were linkages across biological levels of organization. This failure may have resulted from limitations of the scope of molecular endpoints used, inconsistent timing of exposure, or discordance of analytical chemistry through grab sampling and longer term, integrative exposure. Together, results indicate a complicated view of the watershed.
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Affiliation(s)
- Adam D Biales
- US Environmental Protection Agency, Office of Research and Development, Cincinnati, Ohio
| | - Debra L Denton
- US Environmental Protection Agency, Region 9, Sacramento, California
| | - Dan Riordan
- California Department of Water Resources, West Sacramento, California, USA
| | - Richard Breuer
- State Water Resources Control Board, Sacramento, California, USA
| | - Angela L Batt
- US Environmental Protection Agency, Office of Research and Development, Cincinnati, Ohio
| | - David B Crane
- California Department of Fish and Wildlife, Rancho Cordova, California, USA
| | - Heiko L Schoenfuss
- Aquatic Toxicology Laboratory, Saint Cloud State University, Saint Cloud, Minnesota, USA
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15
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Peng HF, Bao XD, Zhang Y, Huang L, Huang HQ. Identification of differentially expressed proteins of brain tissue in response to methamidophos in flounder (Paralichthys olivaceus). FISH & SHELLFISH IMMUNOLOGY 2015; 44:555-565. [PMID: 25827626 DOI: 10.1016/j.fsi.2015.03.028] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Revised: 03/19/2015] [Accepted: 03/19/2015] [Indexed: 06/04/2023]
Abstract
Methamidophos (MAP), an organophosphorus pesticide used around the world, has been associated with a wide spectrum of toxic effects on organisms in the environment. In this study, the flounder Paralichthys olivaceus was subjected to 10 mg/L MAP for 72 h and 144 h, and the morphological and proteomic changes in the brain were observed, analyzed and compared with those in the non-exposed control group. Under the light microscope and transmission electron microscope, MAP had evidently induced changes in or damage to the flounder tissues. Gas chromatography analysis demonstrated that the MAP residues were significantly accumulated in the flounder brain tissues. Proteomic changes in the brain tissue were revealed using two-dimensional gel electrophoresis and 27 protein spots were observed to be significantly changed by MAP exposure. The results indicated that the regulated proteins were involved in immune and stress responses, protein biosynthesis and modification, signal transduction, organismal development, and 50% of them are protease. qRT-PCR was used to further detect the corresponding change of transcription. These data may be beneficial to understand the molecular mechanism of MAP toxicity in flounder, be very useful for MAP-resistance screening in flounder culture. According to our results and analyzing, heat shock protein 90 (HSP90) and granzyme K (GzmK) had taken important part in immune response to MAP-stress and could be biomarkers for MAP-stress in flounder.
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Affiliation(s)
- Hui-Fang Peng
- State Key Laboratory of Stress Cell Biology, School of Life Science, Xiamen University, Xiamen 361102, China
| | - Xiao-Dong Bao
- State Key Laboratory of Stress Cell Biology, School of Life Science, Xiamen University, Xiamen 361102, China
| | - Yong Zhang
- Department of Chemistry, College of Chemistry & Chemical Engineering, and the Key Laboratory of Chemical Biology of Fujian Province, Xiamen University, Xiamen 361102, China
| | - Lin Huang
- Department of Chemistry, Oregon State University, Corvallis, OR 97331-4003, USA
| | - He-Qing Huang
- State Key Laboratory of Stress Cell Biology, School of Life Science, Xiamen University, Xiamen 361102, China; State Key Laboratory of Marine Environmental Science, School of Ocean and Earth Science, Xiamen University, Xiamen 361102, China; Department of Chemistry, College of Chemistry & Chemical Engineering, and the Key Laboratory of Chemical Biology of Fujian Province, Xiamen University, Xiamen 361102, China.
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16
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Groh KJ, Suter MJF. Stressor-induced proteome alterations in zebrafish: a meta-analysis of response patterns. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2015; 159:1-12. [PMID: 25498419 DOI: 10.1016/j.aquatox.2014.11.013] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2014] [Revised: 11/05/2014] [Accepted: 11/18/2014] [Indexed: 06/04/2023]
Abstract
Proteomics approaches are being increasingly applied in ecotoxicology on the premise that the identification of specific protein expression changes in response to a particular chemical would allow elucidation of the underlying molecular pathways leading to an adverse effect. This in turn is expected to promote the development of focused testing strategies for specific groups of toxicants. Although both gel-based and gel-free global characterization techniques provide limited proteome coverage, the conclusions regarding the cellular processes affected are still being drawn based on the few changes detected. To investigate how specific the detected responses are, we analyzed a set of studies that characterized proteome alterations induced by various physiological, chemical and biological stressors in zebrafish, a popular model organism. Our analysis highlights several proteins and protein groups, including heat shock and oxidative stress defense proteins, energy metabolism enzymes and cytoskeletal proteins, to be most frequently identified as responding to diverse stressors. In contrast, other potentially more specifically responding protein groups are detected much less frequently. Thus, zebrafish proteome responses to stress reported by different studies appear to depend mostly on the level of stress rather than on the specific stressor itself. This suggests that the most broadly used current proteomics technologies do not provide sufficient proteome coverage to allow in-depth investigation of specific mechanisms of toxicant action. We suggest that the results of any differential proteomics experiment performed with zebrafish should be interpreted keeping in mind the list of the most frequent responders that we have identified. Similar reservations should apply to any other species where proteome responses are analyzed by global proteomics methods. Careful consideration of the reliability and significance of observed changes is necessary in order not to over-interpret the experimental results and to prevent the proliferation of false positive linkages between the chemical and the cellular functions it perturbs. We further discuss the implications of the identified "top lists" of frequently responding proteins and protein families, and suggest further directions for proteomics research in ecotoxicology. Apart from improving the proteome coverage, further research should focus on defining the significance of the observed stress response patterns for organism phenotypes and on searching for common upstream regulators that can be targeted by specific assays.
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Affiliation(s)
- Ksenia J Groh
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland; ETH Zürich, Swiss Federal Institute of Technology, Department of Chemistry and Applied Biosciences, 8093 Zürich, Switzerland.
| | - Marc J-F Suter
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, 8600 Dübendorf, Switzerland; ETH Zürich, Swiss Federal Institute of Technology, Department of Environmental Systems Science, 8092 Zürich, Switzerland
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17
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Kalasekar SM, Zacharia E, Kessler N, Ducharme NA, Gustafsson JÅ, Kakadiaris IA, Bondesson M. Identification of environmental chemicals that induce yolk malabsorption in zebrafish using automated image segmentation. Reprod Toxicol 2014; 55:20-9. [PMID: 25462786 DOI: 10.1016/j.reprotox.2014.10.022] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2014] [Revised: 10/16/2014] [Accepted: 10/17/2014] [Indexed: 10/24/2022]
Abstract
Environmental factors affecting nutrient availability during development can cause predisposition to diseases later in life. To identify chemicals in the environment capable of altering nutrient mobilization, we analyzed yolk malabsorption in the zebrafish embryo, which relies on maternally-derived yolk for nutrition during its first week of life. Embryos of the transgenic zebrafish line HGn50D, which fluoresce in the yolk syncytial layer, were exposed from two to five days post fertilization to different chemicals. We developed a software package to automatically and accurately segment and quantify the area of the fluorescing yolk in images captured at the end of the treatment period. Based on this quantification, we found that prochloraz decreased yolk absorption, while butralin, tetrabromobisphenol A, tetrachlorobisphenol A and tributyltin increased yolk absorption. Given the number and variety of industrial chemicals in commerce today, development of automated image processing to perform high-speed quantitative analysis of biological effects is an important step for enabling high throughput screening to identify chemicals altering nutrient absorption.
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Affiliation(s)
- Sharanya Maanasi Kalasekar
- Center for Nuclear Receptors and Cell Signaling, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA
| | - Eleni Zacharia
- Department of Computer Science, University of Houston, Houston, TX 77204, USA
| | - Noah Kessler
- Department of Computer Science, University of Houston, Houston, TX 77204, USA
| | - Nicole A Ducharme
- Center for Nuclear Receptors and Cell Signaling, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA
| | - Jan-Åke Gustafsson
- Center for Nuclear Receptors and Cell Signaling, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA; Karolinska Institutet, Department of Biosciences and Nutrition, 14183 Huddinge, Sweden
| | | | - Maria Bondesson
- Center for Nuclear Receptors and Cell Signaling, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA.
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18
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Liang X, Martyniuk CJ, Cheng G, Zha J, Wang Z. Pyruvate carboxylase as a sensitive protein biomarker for exogenous steroid chemicals. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2014; 189:184-193. [PMID: 24681510 DOI: 10.1016/j.envpol.2014.03.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2013] [Revised: 03/03/2014] [Accepted: 03/06/2014] [Indexed: 06/03/2023]
Abstract
Assessing protein responses to endocrine disrupting chemicals is critical for understanding the mechanisms of chemical action and for the assessment of hazards. In this study, the response of the liver proteome of male rare minnows (Gobiocypris rarus) treated with 17β-estradiol (E2) and females treated with 17α-methyltestosterone (MT) were analyzed. A total of 23 and 24 proteins were identified with differential expression in response to E2 and MT, respectively. Pyruvate carboxylase (PC) was the only common differentially expressed protein in both males and females after E2- and MT-treatments. The mRNA as well as the protein levels of PC were significantly down-regulated compared with that of the controls (p < 0.05). Our results suggest that endocrine disruptors interfere with genes and proteins of the TCA cycle and PC may be a sensitive biomarker of exposure to exogenous steroid chemicals in the liver of fish.
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Affiliation(s)
- Xuefang Liang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Haidian District, Beijing 100085, China
| | - Christopher J Martyniuk
- Canadian Rivers Institute, Department of Biology, University of New Brunswick, Saint John, New Brunswick, Canada E2L 4L5
| | - Gang Cheng
- Key Lab for Biotechnology of National Commission for Nationalities, College of Life Science, South Central University for Nationalities, Wuhan 430074, China
| | - Jinmiao Zha
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Haidian District, Beijing 100085, China.
| | - Zijian Wang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 18 Shuangqing Road, Haidian District, Beijing 100085, China.
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19
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Jha MK, Suk K. Glia-based biomarkers and their functional role in the CNS. Expert Rev Proteomics 2014; 10:43-63. [DOI: 10.1586/epr.12.70] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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20
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Abstract
Zebrafish offer a unique vertebrate model for research areas such as drug development, disease modeling and other biological exploration. There is significant conservation of genetics and other cellular networks among zebrafish and other vertebrate models, including humans. Here we discuss the recent work and efforts made in different fields of biology to explore the potential of zebrafish. Along with this, we also reviewed the concept of systems biology. A biological system is made up of a large number of components that interact in a huge variety of combinations. To understand completely the behavior of a system, it is important to know its components and interactions, and this can be achieved through a systems biology approach. At the end of the paper we present a concept of integrating zebrafish into the systems biology approach.
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Affiliation(s)
- Mian Yahya Mushtaq
- a Natural Products Laboratory, Institute of Biology, Leiden University , Leiden , The Netherlands
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21
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Biales AD, Kostich M, Burgess RM, Ho KT, Bencic DC, Flick RL, Portis LM, Pelletier MC, Perron MM, Reiss M. Linkage of genomic biomarkers to whole organism end points in a Toxicity Identification Evaluation (TIE). ENVIRONMENTAL SCIENCE & TECHNOLOGY 2013; 47:1306-1312. [PMID: 23305514 DOI: 10.1021/es304274a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Aquatic organisms are exposed to many toxic chemicals and interpreting the cause and effect relationships between occurrence and impairment is difficult. Toxicity Identification Evaluation (TIE) provides a systematic approach for identifying responsible toxicants. TIE relies on relatively uninformative and potentially insensitive toxicological end points. Gene expression analysis may provide needed sensitivity and specificity aiding in the identification of primary toxicants. The current work aims to determine the added benefit of integrating gene expression end points into the TIE process. A cDNA library and a custom microarray were constructed for the marine amphipod Ampelisca abdita. Phase 1 TIEs were conducted using 10% and 40% dilutions of acutely toxic sediment. Gene expression was monitored in survivors and controls. An expression-based classifier was developed and evaluated against control organisms, organisms exposed to low or medium toxicity diluted sediment, and chemically selective manipulations of highly toxic sediment. The expression-based classifier correctly identified organisms exposed to toxic sediment even when little mortality was observed, suggesting enhanced sensitivity of the TIE process. The ability of the expression-based end point to correctly identify toxic sediment was lost concomitantly with acute toxicity when organic contaminants were removed. Taken together, this suggests that gene expression enhances the performance of the TIE process.
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Affiliation(s)
- Adam D Biales
- US EPA, National Exposure Research Laboratory AWBERC, MD 592 26 W. Martin Luther King Drive Cincinnati, Ohio 45268, United States.
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22
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Andreu V, Picó Y. Determination of currently used pesticides in biota. Anal Bioanal Chem 2012; 404:2659-81. [PMID: 22918537 DOI: 10.1007/s00216-012-6331-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2012] [Revised: 07/16/2012] [Accepted: 08/03/2012] [Indexed: 01/06/2023]
Abstract
Although pesticides enable control of the quantity and quality of farm products and food, and help to limit diseases in humans transmitted by insects and rodents, they are regarded as among the most dangerous environmental contaminants because of their tendency to bioaccumulate, and their mobility and long-term effects on living organisms. In the past decade, more analytical methods for accurate identification and quantitative determination of traces of pesticides in biota have been developed to improve our understanding of their risk to ecosystems and humans. Because sample preparation is often the rate-determining step in analysis of pesticides in biological samples, this review first discusses extraction and clean-up procedures, after a brief introduction to the classes, and the methods used in the analysis of pesticides in biota. The analytical methods, especially chromatographic techniques and immunoassay-based methods, are reviewed in detail, and their corresponding advantages, limitations, applications, and prospects are also discussed. This review mainly covers reports published since 2008 on methods for analysis of currently used pesticides in biota.
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Affiliation(s)
- Vicente Andreu
- Centro de Investigaciones sobre Desertificación -CIDE, Moncada, Valencia, Spain
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23
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Effects of chronic tramadol exposure on the zebrafish brain: A proteomic study. J Proteomics 2012; 75:3351-64. [DOI: 10.1016/j.jprot.2012.03.038] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2011] [Revised: 03/12/2012] [Accepted: 03/26/2012] [Indexed: 11/18/2022]
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