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Jiang SL, Fang DA, Xu DP. Transcriptome changes of Takifugu obscurus liver after acute exposure to phenanthrene. Physiol Genomics 2021; 53:116-124. [PMID: 33459152 DOI: 10.1152/physiolgenomics.00100.2020] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Phenanthrene (Phe) is a model compound in polycyclic aromatic hydrocarbon (PAH) research. Reportedly, Phe treatment induced oxidative stress and histological disorders to Takifugu obscurus liver. In this study, to further explore the molecular responses of T. obscurus liver to Phe exposure, transcriptome sequencing was applied to compare mRNA transcription profiles between Phe treatment and the control. Compared with the control, 1,581 and 1,428 genes were significantly upregulated and downregulated in Phe treatment, respectively. Further analysis revealed that Phe treatment mainly upregulated genes in Ras-MAPK and PI3K-akt signaling pathways, which represented insulin resistance and further activated the FOXO signaling pathway. The triacylglycerol biosynthesis was promoted but the gluconeogenesis process was inhibited in response to Phe treatment, demonstrating that Phe exposure disturbed the sugar and lipid metabolism. Moreover, Phe treatment upregulated the Apelin-APJ and ErbB signaling pathways, promoting angiogenesis in T. obscurus liver. Insulin resistance, promoted triacylglycerol biosynthesis, and angiogenesis might explain the molecular mechanisms underlying carcinogenic toxicity of Phe. Overall, this study provides new insights to understand the environmental risk of Phe to fishes.
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Affiliation(s)
- Shu-Lun Jiang
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi, China
| | - Di-An Fang
- Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, China
| | - Dong-Po Xu
- Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, China
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2
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Choi Y, Kim M, Hong CP, Kang JH, Jung JH. Is hull cleaning wastewater a potential source of developmental toxicity on coastal non-target organisms? AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2020; 227:105615. [PMID: 32932041 DOI: 10.1016/j.aquatox.2020.105615] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Revised: 08/21/2020] [Accepted: 08/30/2020] [Indexed: 06/11/2023]
Abstract
Chemical contaminants can be discharged by vessel hull cleaning processes, such as scraping, jet spraying, and painting, all of which produce readily transportable contaminants into the marine environment, where they are referred to as 'hotspots' of contamination in coastal areas. However, many countries have not yet established effective evaluation methods for disposal of waste mixtures or management guidelines for areas of hull cleaning. To define the toxic effects of wastewater from vessel hull cleaning in dry docks on resident non-target organisms, we investigated the chemical concentrations and developmental toxicity on embryonic flounder, which is an organism sensitive to chemical contamination. In this study, the dominant inorganic metal discharged was zinc when cleaning Ship A (300 tons) and copper for Ship B (5,000 tons). The wastewater from high-pressure water blasting (WHPB) of Ship A (300 tons) and Ship B (5,000 tons) produced a largely overlapping suite of developmental malformations including pericardial edema, spinal curvature, and tail fin defects. Forty-eight hours after exposure, the frequency percentage of malformation began to increase in embryos exposed to a 500-fold dilution of WHPB from Ships A and B. We performed transcriptome sequencing to characterize the toxicological developmental effects of WHPB exposure at the molecular level. The results of the analysis revealed significantly altered expression of genes associated with muscle cell differentiation, actin-mediated cell contraction, and nervous system development (cutoff P < 0.01) in embryonic flounder exposed to high-pressure cleaning effluent from Ship A. Genes associated with chromatin remodeling, cell cycling, and insulin receptor signaling pathways were significantly altered in embryonic flounder exposed to WHPB of Ship B (cutoff P < 0.01). These findings provide a greater understanding of the developmental toxicity and potential effects of WHPB effluent on coastal embryonic fish. Furthermore, our results could inform WHPB effluent management practices to reduce impacts on non-target coastal organisms.
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Affiliation(s)
- Youmi Choi
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Ocean Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea
| | - Moonkoo Kim
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Ocean Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea
| | - Chang Pyo Hong
- Theragen Etex Bio Institute Inc., 145 Gwanggyo-ro, Yeongtong-gu, Suwon-si, 16229, Gyeonggi-do, Republic of Korea
| | - Jung-Hoon Kang
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Ocean Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea
| | - Jee-Hyun Jung
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Ocean Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea.
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Feng K, Lu X, Luo J, Tang F. SMRT sequencing of the full-length transcriptome of Odontotermes formosanus (Shiraki) under Serratia marcescens treatment. Sci Rep 2020; 10:15909. [PMID: 32985611 PMCID: PMC7522981 DOI: 10.1038/s41598-020-73075-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2020] [Accepted: 09/09/2020] [Indexed: 11/22/2022] Open
Abstract
Odontotermes formosanus (Shiraki) is an important pest in the world. Serratia marcescens have a high lethal effect on O. formosanus, but the specific insecticidal mechanisms of S. marcescens on O. formosanus are unclear, and the immune responses of O. formosanus to S. marcescens have not been clarified. At present, genetic database resources of O. formosanus are extremely scarce. Therefore, using O. formosanus workers infected by S. marcescens and the control as experimental materials, a full-length transcriptome was sequenced using the PacBio Sequel sequencing platform. A total of 10,364 isoforms were obtained as the final transcriptome. The unigenes were further annotated with the Nr, Swiss-Prot, EuKaryotic Orthologous Groups (KOG), Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) Ortholog public databases. In a comparison between the control group and a Serratia marcescens-infected group, a total of 259 differentially expressed genes (DEGs) were identified, including 132 upregulated and 127 downregulated genes. Pathway enrichment analysis indicated that the expression of the mitogen-activated protein kinase (MAPK) pathway, oxidative stress genes and the AMP-activated protein kinase (AMPK) pathway in O. formosanus may be associated with S. marcescens treatment. This research intensively studied O. formosanus at the high-throughput full-length transcriptome level, laying a foundation for further development of molecular markers and mining of target genes in this species and thereby promoting the biological control of O. formosanus. Furthermore, these results will be helpful to clarify the action mechanisms of S. marcescens on O. formosanus, and also explore the relationship between O. formosanus and S. marcescens. In addition, this study will identify the immune response of O. formosanus to S. marcescens, which will provide a theoretical foundation for the development of new immunosuppressants for O. formosanus.
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Affiliation(s)
- Kai Feng
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.,College of Forestry, Nanjing Forestry University, Nanjing, 210037, China
| | - Xiaoyu Lu
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.,College of Forestry, Nanjing Forestry University, Nanjing, 210037, China
| | - Jian Luo
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.,College of Forestry, Nanjing Forestry University, Nanjing, 210037, China
| | - Fang Tang
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China. .,College of Forestry, Nanjing Forestry University, Nanjing, 210037, China.
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Zhang J, Deng Y, Zuo Y, Wang J, Zhao Y. Analysis of Colorectal Cancer-Associated Alternative Splicing Based on Transcriptome. DNA Cell Biol 2020; 39:16-24. [PMID: 31808724 DOI: 10.1089/dna.2019.5111] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
Affiliation(s)
- Jiting Zhang
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, P.R. China
| | - Yulan Deng
- Department of Thoracic Surgery, West China Hospital, Sichuan University, Chengdu, P.R. China
| | - Yuanli Zuo
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, P.R. China
| | - Jin Wang
- State/National Key Laboratory of Biotherapy, Sichuan University, Chengdu, P.R. China
| | - Yun Zhao
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, P.R. China
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Moon YS, Kim M, Hong CP, Kang JH, Jung JH. Overlapping and unique toxic effects of three alternative antifouling biocides (Diuron, Irgarol 1051 ®, Sea-Nine 211 ®) on non-target marine fish. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 180:23-32. [PMID: 31059904 DOI: 10.1016/j.ecoenv.2019.04.070] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2019] [Revised: 04/19/2019] [Accepted: 04/23/2019] [Indexed: 06/09/2023]
Abstract
The use of alternative biocides has increased due to their economic and ecological relevance. Although data regarding the toxicity of commercial alternative biocides in marine organisms are accumulating, little is known about their toxic pathways or mechanisms. To compare the toxic effects of commercial alternative biocides on non-target pelagic fish (flounder) embryos, we investigated the adverse effects of developmental malformation and transcriptional changes. Three biocides including Diuron, Irgarol 1051® and Sea-Nine 211® produced a largely overlapping suite of developmental malformations, including tail-fin fold defects and dorsal body axis curvature. In our test, the potencies of these biocides were ranked in the following order with respect to malformation and mortalities: Sea-Nine 211® > Irgarol 1051® > Diuron. Consistent with the toxicity rankings, the expression of genes related to heart formation was greater in embryonic flounder exposed to Sea-Nine 211® than in those exposed to Irgarol 1051® or Diuron, while expression of genes related to fin malformation was greater in the Irgarol 1051® exposure group. In analyses of differential gene expression (DEG) profiles (fold change of genes with a cutoff P < 0.05) by high-throughput sequencing (RNA-seq), genes associated with nervous system development, transmembrane transport activity, and muscle cell development were significantly changed commonly. Embryos exposed to Diuron showed changes related to cellular protein localization, whereas genes associated with immune system processes were up-regulated significantly in embryos exposed to Irgarol 1051®. Genes related to actin filament organization and embryonic morphogenesis were up-regulated in embryos exposed to Sea-Nine 211®. Overall, our study provides a better understanding of the overlapping and unique developmental toxic effects of three commercial booster biocides through transcriptomic analyses in a non-target species, embryonic flounder.
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Affiliation(s)
- Young-Sun Moon
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea
| | - Moonkoo Kim
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea
| | - Chang Pyo Hong
- Theragen Etex Bio Institute Inc., 145 Gwanggyo-ro, Yeongtong-gu, Suwon-si, 16229, Gyeonggi-do, Republic of Korea
| | - Jung-Hoon Kang
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea
| | - Jee-Hyun Jung
- Risk Assessment Research Center, Korea Institute of Ocean Science and Technology, Geoje, 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon, 34113, Republic of Korea.
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Wang Y, Zhou S, Liu T, Chen M, Li W, Zhang X. The transcriptomic responses of the ark shell, Anadara broughtonii, to sulfide and hypoxia exposure. Mol Biol Rep 2019; 46:4245-4257. [DOI: 10.1007/s11033-019-04879-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2018] [Accepted: 05/14/2019] [Indexed: 01/15/2023]
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Chi C, Giri SS, Jun JW, Kim HJ, Kim SW, Kang JW, Park SC. Detoxification and Immune Transcriptomic Response of the Gill Tissue of Bay Scallop ( Argopecten irradians) Following Exposure to the Algicide Palmitoleic Acid. Biomolecules 2018; 8:biom8040139. [PMID: 30404247 PMCID: PMC6315773 DOI: 10.3390/biom8040139] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2018] [Revised: 10/26/2018] [Accepted: 10/29/2018] [Indexed: 12/16/2022] Open
Abstract
Palmitoleic acid (PA) is an effective algicide against Alexandrium tamarense. However, the toxicological mechanism of PA exposure is unclear. The transcript abundance and differentially expressed genes (DEGs) in gills of bay scallop were investigated following 80 mg/L PA exposure up to 48 h using the Illumina HiSeq 4000 deep-sequencing platform with the recommended read length of 100 bp. De novo assembly of paired-end reads yielded 62,099 unigenes; 5414 genes were identified as being significantly increased, and 4452 were decreased. Based on gene ontology classification and enrichment analysis, the ‘cellular process’, ‘metabolic process’, ‘response to stimulus’, and ‘catalytic process’ with particularly high functional enrichment were revealed. The DEGs, which are related to detoxification and immune responses, revealed that acid phosphatase, fibrinogen C domain-containing protein, cyclic AMP-responsive element-binding protein, glutathione reductase, ATP-binding cassette, nuclear factor erythroid 2-related factor, NADPH2:quinone reductase, and cytochrome P450 4F22, 4B1, and 2C8-related gene expression decreased. In contrast, some genes related to glutathione S-transferase, C-type lectin, superoxide dismutase, toll-like receptors, and cytochrome P450 2C14, 2U1, 3A24 and 4A2 increased. The results of current research will be a valuable resource for the investigation of gene expression stimulated by PA, and will help understanding of the molecular mechanisms underlying the scallops’ response to PA exposure.
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Affiliation(s)
- Cheng Chi
- Laboratory of Aquatic Nutrition and Ecology, College of Animal Science and Technology, Nanjing Agricultural University, Weigang Road 1, Nanjing 210095, China.
| | - Sib Sankar Giri
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 08826, Korea.
| | - Jin Woo Jun
- Department of Aquaculture, Korea National College of Agriculture and Fisheries, Jeonju 54874, Korea.
| | - Hyoun Joong Kim
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 08826, Korea.
| | - Sang Wha Kim
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 08826, Korea.
| | - Jeong Woo Kang
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 08826, Korea.
| | - Se Chang Park
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 08826, Korea.
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Chi C, Giri SS, Jun JW, Kim SW, Kim HJ, Kang JW, Park SC. Detoxification- and Immune-Related Transcriptomic Analysis of Gills from Bay Scallops ( Argopectenirradians) in Response to Algal Toxin Okadaic Acid. Toxins (Basel) 2018; 10:toxins10080308. [PMID: 30060565 PMCID: PMC6115978 DOI: 10.3390/toxins10080308] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2018] [Revised: 07/24/2018] [Accepted: 07/26/2018] [Indexed: 01/08/2023] Open
Abstract
To reveal the molecular mechanisms triggered by okadaic acid (OA)-exposure in the detoxification and immune system of bay scallops, we studied differentially-expressed genes (DEGs) and the transcriptomic profile in bay scallop gill tissue after 48 h exposure to 500 nM of OA using the Illumina HiSeq 4000 deep-sequencing platform. De novo assembly of paired-end reads yielded 55,876 unigenes, of which 3204 and 2620 genes were found to be significantly up- or down-regulated, respectively. Gene ontology classification and enrichment analysis of the DEGs detected in bay scallops exposed to OA revealed four ontologies with particularly high functional enrichment, which were ‘cellular process’ (cellular component), ‘metabolic process’ (biological process), ‘immune system process’ (biological process), and ‘catalytic process’ (molecular function). The DEGs revealed that cyclic AMP-responsive element-binding proteins, acid phosphatase, toll-like receptors, nuclear erythroid 2-related factor, and the NADPH2 quinone reductase-related gene were upregulated. In contrast, the expression of some genes related to glutathione S-transferase 1, C-type lectin, complement C1q tumor necrosis factor-related protein, Superoxide dismutase 2 and fibrinogen C domain-containing protein, decreased. The outcomes of this study will be a valuable resource for the study of gene expression induced by marine toxins, and will help understanding of the molecular mechanisms underlying the scallops’ response to OA exposure.
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Affiliation(s)
- Cheng Chi
- Laboratory of Aquatic Nutrition and Ecology, College of Animal Science and Technology, Nanjing Agricultural University, Weigang Road 1, Nanjing 210095, China.
| | - Sib Sankar Giri
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
| | - Jin Woo Jun
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
| | - Sang Wha Kim
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
| | - Hyoun Joong Kim
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
| | - Jeong Woo Kang
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
| | - Se Chang Park
- Laboratory of Aquatic Biomedicine, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, Seoul 151742, Korea.
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Chen Y, Cai K, Tu Z, Nie W, Ji T, Hu B, Chen C, Jiang S. Prediction of benzo[a]pyrene content of smoked sausage using back-propagation artificial neural network. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2018; 98:3022-3030. [PMID: 29193124 DOI: 10.1002/jsfa.8801] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2017] [Revised: 10/15/2017] [Accepted: 11/24/2017] [Indexed: 06/07/2023]
Abstract
BACKGROUND Benzo[a]pyrene (BaP), a potent mutagen and carcinogen, is reported to be present in processed meat products and, in particular, in smoked meat. However, few methods exist for predictive determination of the BaP content of smoked meats such as sausage. In this study, an artificial neural network (ANN) model based on the back-propagation (BP) algorithm was used to predict the BaP content of smoked sausage. RESULTS The results showed that the BP network based on the Levenberg-Marquardt algorithm was the best suited for creating a nonlinear map between the input and output parameters. The optimal network structure was 3-7-1 and the learning rate was 0.6. This BP-ANN model allowed for accurate predictions, with the correlation coefficients (R) for the experimentally determined training, validation, test and global data sets being 0.94, 0.96, 0.95 and 0.95 respectively. The validation performance was 0.013, suggesting that the proposed BP-ANN may be used to predictively detect the BaP content of smoked meat products. CONCLUSION An effective predictive model was constructed for estimation of the BaP content of smoked sausage using ANN modeling techniques, which shows potential to predict the BaP content in smoked sausage. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Yan Chen
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Kezhou Cai
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Zehui Tu
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Wen Nie
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Tuo Ji
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Bing Hu
- Anhui Grain & Oil Quality Inspection Station, China National Supervision and Examination Center For Foodstuff Quality, Hefei, China
| | - Conggui Chen
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
| | - Shaotong Jiang
- School of Food Science and Engineering, Key Laboratory for Agricultural Products Processing of Anhui Province, Hefei University of Technology, Hefei, China
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Wang M, Wang L, Jia Z, Yi Q, Song L. The various components implied the diversified Toll-like receptor (TLR) signaling pathway in mollusk Chlamys farreri. FISH & SHELLFISH IMMUNOLOGY 2018; 74:205-212. [PMID: 29305991 DOI: 10.1016/j.fsi.2017.12.064] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2017] [Revised: 12/25/2017] [Accepted: 12/31/2017] [Indexed: 06/07/2023]
Abstract
Toll-like receptor (TLR) signaling pathway, composed of various components, plays pivotal roles in host innate immune defense mechanism. In the present study, twenty-nine TLR signaling pathway components, including receptors, adaptors, transduction molecules and immune effectors, were identified in Zhikong scallop Chlamys farreri via assembling and screening public available transcriptomic data and expression sequence tags (ESTs). These identified TLR signaling pathway components were constitutively expressed and detectable in various tissues, and almost all of them were highly expressed in gill and hepatopancreas. These results indicated the presence of TLR signaling pathways in both MyD88-dependent and MyD88-independent forms in scallop, and implied the diversified TLR signaling pathway in mollusk C. farreri.
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Affiliation(s)
- Mengqiang Wang
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
| | - Lingling Wang
- Functional Laboratory of Marine Fisheries Science and Food Production Process, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China; Liaoning Key Laboratory of Marine Animal Immunology, Dalian Ocean University, Dalian 116023, China
| | - Zhihao Jia
- Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qilin Yi
- Liaoning Key Laboratory of Marine Animal Immunology, Dalian Ocean University, Dalian 116023, China
| | - Linsheng Song
- Functional Laboratory of Marine Fisheries Science and Food Production Process, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China; Liaoning Key Laboratory of Marine Animal Immunology, Dalian Ocean University, Dalian 116023, China.
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Liu S, Guo C, Lin W, Wu F, Lu G, Lu J, Dang Z. Comparative transcriptomic evidence for Tween80-enhanced biodegradation of phenanthrene by Sphingomonas sp. GY2B. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 609:1161-1171. [PMID: 28787790 DOI: 10.1016/j.scitotenv.2017.07.245] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2017] [Revised: 07/27/2017] [Accepted: 07/27/2017] [Indexed: 06/07/2023]
Abstract
Previous study of the effects of surfactants on the biodegradation of phenanthrene focused on investigating alterations of the cell characteristics of Sphingomonas sp. GY2B. However, genes regulation associated with biodegradation and biological processes in response to the presence of surfactants, remains unclear. In this study, comparative transcriptome analysis was conducted to observe the gene expression of GY2B during phenanthrene biodegradation in the presence and absence of Tween80. A diverse set of genes was regulated by Tween80, leading to increased biodegradation of phenanthrene by GY2B: (i) Tween80 increased expression of genes related to H+ transport in the plasma membrane to provide a driving force (i.e., ATP) for accelerating transmembrane transport of phenanthrene with increasing Tween80 concentrations, thereby enhancing the uptake and degradation of phenanthrene by GY2B; (ii) Tween80 (1 and 8 CMC) promoted intracellular biodegradation of phenanthrene by stimulating expression of genes encoding dioxygenases and monooxygenase, increasing expression of genes involved in intracellular metabolic processes (e.g., TCA cycle); and (iii) Tween80 likely increased GY2B vitality and growth by inducing expression of genes associated with ABC transporters and protein transport, regulating genes involved in other biological processes (e.g., transcription, translation).
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Affiliation(s)
- Shasha Liu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China
| | - Chuling Guo
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, PR China.
| | - Weijia Lin
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China
| | - Fengji Wu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China
| | - Guining Lu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, PR China
| | - Jing Lu
- School of Chemical Engineering and Environment, North University of China, Taiyuan 030051, PR China
| | - Zhi Dang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, Guangzhou 510006, PR China
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12
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Jung JH, Ko J, Lee EH, Choi KM, Kim M, Yim UH, Lee JS, Shim WJ. RNA seq- and DEG-based comparison of developmental toxicity in fish embryos of two species exposed to Iranian heavy crude oil. Comp Biochem Physiol C Toxicol Pharmacol 2017; 196:1-10. [PMID: 28257923 DOI: 10.1016/j.cbpc.2017.02.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/23/2016] [Revised: 02/21/2017] [Accepted: 02/23/2017] [Indexed: 02/05/2023]
Abstract
To determine and compare the toxic effects of Iranian heavy crude oil (IHCO) on the embryonic development of two fish species, we examined transcriptome profiles using RNA-seq. The assembled contigs were 66,070 unigenes in olive flounder embryos and 76,498 unigenes in spotted seabass embryos. In the differential gene expression (DEG) profiles, olive flounder embryos showed different up- and down-regulated patterns than spotted seabass embryos in response to fresh IHCO (FIHCO) and weathered IHCO (WIHCO). In this work, we categorized DEG profiles into six pathways: ribosome, oxidative phosphorylation, Parkinson's disease, Alzheimer's disease, Huntington's disease, and cardiac muscle contraction, validating the expression patterns of 13 DEGs using real-time quantitative RT-PCR. The expression of the CYP1A, CYP1B1, and CYP1C1 genes in spotted seabass embryos was higher than in olive flounder embryos, whereas genes related to cell processing, development, and the immune system showed the opposite trend. Orthologous gene cluster analysis showed that olive flounder embryos were sensitive (fold change of genes with cutoff P<0.05) to both FIHCO and WIHCO, but spotted seabass embryos exhibited higher sensitivity to WIHCO than FIHCO, indicating that species-specific differences are likely to be reflected in population levels after oil spills. Overall, our study provides new insight on the different embryonic susceptibilities of two marine fish species to FIHCO and WIHCO and a better understanding of the underlying molecular mechanisms via RNA-seq and DEGs.
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Affiliation(s)
- Jee-Hyun Jung
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon 34113, Republic of Korea.
| | - Junsu Ko
- Theragen Etex Bio Institute Inc., Suwon 16229, Republic of Korea
| | - Eun-Hee Lee
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea
| | - Kwang-Min Choi
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea
| | - Moonkoo Kim
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon 34113, Republic of Korea
| | - Un Hyuk Yim
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon 34113, Republic of Korea
| | - Jae-Seong Lee
- Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 16419, Republic of Korea
| | - Won Joon Shim
- Oil & POPs Research Group, Korea Institute of Ocean Science & Technology, Geoje 53201, Republic of Korea; Department of Marine Environmental Science, Korea University of Science and Technology, Daejeon 34113, Republic of Korea
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13
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Ma J, Li X. High-throughput sequencing provides an insight into the hepatotoxicity mechanism of MC-LR in HepG2 cells. TOXIN REV 2017. [DOI: 10.1080/15569543.2017.1318403] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Junguo Ma
- College of Life Science, Henan Normal University, Xinxiang, Henan, China
| | - Xiaoyu Li
- College of Life Science, Henan Normal University, Xinxiang, Henan, China
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14
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Ertl NG, O'Connor WA, Brooks P, Keats M, Elizur A. Combined exposure to pyrene and fluoranthene and their molecular effects on the Sydney rock oyster, Saccostrea glomerata. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2016; 177:136-145. [PMID: 27286571 DOI: 10.1016/j.aquatox.2016.05.012] [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: 02/16/2016] [Revised: 05/15/2016] [Accepted: 05/20/2016] [Indexed: 06/06/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are ubiquitously detected in the water column, associated with particulate matter or in the tissue of marine organisms such as molluscs. PAH exposure and their resultant bioaccumulation in molluscs can cause a range of serious physiological effects in the affected animals. To examine the molecular response of these xenobiotics in bivalves, Sydney rock oysters (Saccostrea glomerata) were exposed to pyrene and fluoranthene for seven days. Chemical analysis of the soft-tissue of PAH stressed S. glomerata confirmed that pyrene and fluoranthene could be bioaccumulated by these oysters. RNA-Seq analysis of PAH-exposed S. glomerata showed a total of 765 transcripts differentially expressed between control and PAH-stressed oysters. Closer examination of the transcripts revealed a range genes encoding enzymes involved in PAH detoxification (e.g. cytochrome P450), innate immune responses (e.g. pathogen recognition, phagocytosis) and protein synthesis. Overall, pyrene and fluoranthene exposure appears to have resulted in a suppression of pathogen recognition and some protein synthesis processes, whereas transcripts of genes encoding proteins involved in clearance of cell debris and some transcripts of genes involved in PAH detoxification were induced in response to the stressors. Pyrene and fluoranthene exposure thus invoked a complex molecular response in S. glomerata, with results suggesting that oysters focus on removing the stressors from their system and dealing with the downstream effects of PAH exposure, potentially at the exclusion of other, less immediate concerns (e.g. protection from infection).
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Affiliation(s)
- Nicole G Ertl
- University of the Sunshine Coast, Sippy Downs, Queensland, Australia; Australian Seafood Cooperative Research Centre, South Australia, Australia.
| | - Wayne A O'Connor
- University of the Sunshine Coast, Sippy Downs, Queensland, Australia; Department of Primary Industries, New South Wales, Australia. wayne.o'
| | - Peter Brooks
- University of the Sunshine Coast, Sippy Downs, Queensland, Australia.
| | - Michael Keats
- University of the Sunshine Coast, Sippy Downs, Queensland, Australia.
| | - Abigail Elizur
- University of the Sunshine Coast, Sippy Downs, Queensland, Australia.
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15
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Piazza RS, Trevisan R, Flores-Nunes F, Toledo-Silva G, Wendt N, Mattos JJ, Lima D, Taniguchi S, Sasaki ST, Mello ÁCP, Zacchi FL, Serrano MAS, Gomes CHAM, Bícego MC, Almeida EAD, Bainy ACD. Exposure to phenanthrene and depuration: Changes on gene transcription, enzymatic activity and lipid peroxidation in gill of scallops Nodipecten nodosus. AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2016; 177:146-155. [PMID: 27286572 DOI: 10.1016/j.aquatox.2016.05.025] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2016] [Revised: 05/24/2016] [Accepted: 05/25/2016] [Indexed: 06/06/2023]
Abstract
Understanding the mechanism of phenanthrene (PHE) biotransformation and related cellular responses in bivalves can be an important tool to elucidate the risks of polycyclic aromatic hydrocarbons (PAHs) to aquatic organisms. In the present study it was analyzed the transcriptional levels of 13 biotransformation genes related to cytochrome P450 (CYP), glutathione S-transferase (GST), sulfotransferase (SULT), flavin-containing monooxygenase and fatty acid-binding proteins by qPCR in gill of scallops Nodipecten nodosus exposed for 24 or 96h to 50 or 200μgL(-1) PHE (equivalent to 0.28 and 1.12μM, respectively), followed by depuration in clean water for 96h (DEP). Likewise, it was quantified the activity of catalase (CAT), glutathione peroxidase (GPx), superoxide dismutase (SOD), glutathione reductase (GR), glucose 6-phosphate dehydrogenase (G6PDH), GST and levels of lipid peroxidation. Increased transcriptional levels of CYP2UI-like, CYP2D20-like, CYP3A11-like, GSTomega-like, SULT1B1-like genes were detected in organisms exposed to PHE for 24 or 96h. In parallel, GR and GPX activities increased after 96h exposure to 200μgL(-1) PHE and G6PDH activity increased after 24h exposure to 50μgL(-1) PHE. This enhancement of antioxidant and phase I and II biotransformation systems may be related to the 2.7 and 12.5 fold increases in PHE bioaccumulation after 96h exposure to 50 and 200μgL(-1) PHE, respectively. Interestingly, DEP caused reestablishment of GPX and GR activity, as well as to the transcript levels of all upregulated biotransformation genes (except for SULT1B1-like). Bioaccumulated PHE levels decreased 2.5-2.9 fold after depuration, although some biochemical and molecular modifications were still present. Lipid peroxidation levels remained lower in animals exposed to 200μgL(-1) PHE for 24h and DEP. These data indicate that N. nodosus is able to induce an antioxidant and biotransformation-related response to PHE exposure, counteracting its toxicity, and DEP can be an effective protocol for bivalve depuration after PHE exposure.
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Affiliation(s)
- Rômi S Piazza
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Rafael Trevisan
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Fabrício Flores-Nunes
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Guilherme Toledo-Silva
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Nestor Wendt
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Jacó J Mattos
- Aquaculture Pathology Research Center - NEPAQ, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Daína Lima
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Satie Taniguchi
- Laboratory of Marine Organic Chemistry, Oceanographic Institute, University of São Paulo, São Paulo, Brazil
| | - Silvio Tarou Sasaki
- Laboratory of Marine Organic Chemistry, Oceanographic Institute, University of São Paulo, São Paulo, Brazil
| | - Álvaro C P Mello
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Flávia L Zacchi
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Miguel A S Serrano
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil
| | - Carlos H A M Gomes
- Laboratory of Marine Mollusks (LMM), Department of Aquaculture, Center of Agricultural Science, Federal University of Santa Catarina, Florianópolis, SC, Brazil
| | - Márcia C Bícego
- Laboratory of Marine Organic Chemistry, Oceanographic Institute, University of São Paulo, São Paulo, Brazil
| | - Eduardo A de Almeida
- Department of Chemical and Environmental Sciences, IBILCE, UNESP, São José do Rio Preto, SP, Brazil
| | - Afonso C D Bainy
- Laboratory of Biomarkers of Aquatic Contamination and Immunochemistry, Department of Biochemistry, Federal University of Santa Catarina, UFSC, Florianópolis, SC, Brazil.
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16
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The Regulation of para-Nitrophenol Degradation in Pseudomonas putida DLL-E4. PLoS One 2016; 11:e0155485. [PMID: 27191401 PMCID: PMC4871426 DOI: 10.1371/journal.pone.0155485] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 04/29/2016] [Indexed: 01/06/2023] Open
Abstract
Pseudomonas putida DLL-E4 can efficiently degrade para-nitrophenol and its intermediate metabolite hydroquinone. The regulation of para-nitrophenol degradation was studied, and PNP induced a global change in the transcriptome of P. putida DLL-E4. When grown on PNP, the wild-type strain exhibited significant downregulation of 2912 genes and upregulation of 845 genes, whereas 2927 genes were downregulated and 891 genes upregulated in a pnpR-deleted strain. Genes related to two non-coding RNAs (ins1 and ins2), para-nitrophenol metabolism, the tricarboxylic acid cycle, the outer membrane porin OprB, glucose dehydrogenase Gcd, and carbon catabolite repression were significantly upregulated when cells were grown on para-nitrophenol plus glucose. pnpA, pnpR, pnpC1C2DECX1X2, and pnpR1 are key genes in para-nitrophenol degradation, whereas pnpAb and pnpC1bC2bDbEbCbX1bX2b have lost the ability to degrade para-nitrophenol. Multiple components including transcriptional regulators and other unknown factors regulate para-nitrophenol degradation, and the transcriptional regulation of para-nitrophenol degradation is complex. Glucose utilization was enhanced at early stages of para-nitrophenol supplementation. However, it was inhibited after the total consumption of para-nitrophenol. The addition of glucose led to a significant enhancement in para-nitrophenol degradation and up-regulation in the expression of genes involved in para-nitrophenol degradation and carbon catabolite repression (CCR). It seemed that para-nitrophenol degradation can be regulated by CCR, and relief of CCR might contribute to enhanced para-nitrophenol degradation. In brief, the regulation of para-nitrophenol degradation seems to be controlled by multiple factors and requires further study.
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Wen J, Pan L. Short-term exposure to benzo[a]pyrene causes oxidative damage and affects haemolymph steroid levels in female crab Portunus trituberculatus. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2016; 208:486-494. [PMID: 26552528 DOI: 10.1016/j.envpol.2015.10.019] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2015] [Revised: 10/15/2015] [Accepted: 10/15/2015] [Indexed: 06/05/2023]
Abstract
Concern has increased regarding the adverse effects of polycyclic aromatic hydrocarbons (PAHs) on reproduction. However, limited information is available on the effects of PAHs in crustacean. In order to determine whether benzo[a]pyrene (B[a]P) could cause reproductive toxicity on the swimming crab Portunus trituberculatus, sexually mature female crabs were exposed to environmentally relevant concentrations of B[a]P (0, 0.1, 0.5 and 2.5 μg/L) for 10 days. B[a]P treatments resulted in high accumulation in ovary, and induced oxidative stress in a dose-dependent manner on ovary of crab. Furthermore, the haemolymph estradiol (E2) and testosterone (T) levels were significantly decreased. Histological investigation also revealed the reproductive toxicity caused by B[a]P. The results demonstrated that waterborne exposure to B[a]P caused oxidative damage and disrupted sex steroids in female crab P. trituberculatus, ultimately resulting in histological alternation.
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Affiliation(s)
- Jianmin Wen
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao 266003, PR China
| | - Luqing Pan
- The Key Laboratory of Mariculture, Ministry of Education, Ocean University of China, Qingdao 266003, PR China.
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18
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Using digital gene expression profile to detect representational difference of Chlamys farreri genes after laboratory exposure to persistent organic pollutants. Genes Genomics 2015. [DOI: 10.1007/s13258-015-0360-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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