Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel
Background: Genomic and transcriptomic approaches have the potential for unveiling the genome-wide response to environmental perturbations. The abundance of the catadromous European eel (Anguilla anguilla) stock has been declining since the 1980s probably due to a combination of anthropogenic and cl...
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Online Access: | https://hdl.handle.net/10023/4362 https://doi.org/10.1186/1471-2164-13-507 |
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ftstandrewserep:oai:research-repository.st-andrews.ac.uk:10023/4362 2024-04-28T07:55:07+00:00 Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel Pujolar, Jose Martin Marino, Ilaria A M Milan, Massimo Coppe, Alessandro Maes, Gregory E Capoccioni, Fabrizio Ciccotti, Eleonora Bervoets, Lieven Covaci, Adrian Belpaire, Claude Cramb, Gordon Patarnello, Tomaso Bargelloni, Luca Bortoluzzi, Stefania Zane, Lorenzo NERC University of St Andrews. School of Medicine 2014-01-13T14:31:01Z 21 3329754 application/pdf https://hdl.handle.net/10023/4362 https://doi.org/10.1186/1471-2164-13-507 eng eng BMC Genomics 49279753 f04778ca-12cf-4913-b9d3-ad0a21cf1430 84866560252 Pujolar , J M , Marino , I A M , Milan , M , Coppe , A , Maes , G E , Capoccioni , F , Ciccotti , E , Bervoets , L , Covaci , A , Belpaire , C , Cramb , G , Patarnello , T , Bargelloni , L , Bortoluzzi , S & Zane , L 2012 , ' Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel ' , BMC Genomics , vol. 13 , 507 . https://doi.org/10.1186/1471-2164-13-507 1471-2164 ORCID: /0000-0003-4929-951X/work/64033642 https://hdl.handle.net/10023/4362 doi:10.1186/1471-2164-13-507 NE/C513234/1 NE/F001401/1 NE/E015514/1 Anguilla anguilla European eel Transcriptome Microarrays Pollution QH426 Genetics QL Zoology SDG 12 - Responsible Consumption and Production QH426 QL Journal article 2014 ftstandrewserep https://doi.org/10.1186/1471-2164-13-507 2024-04-03T14:07:22Z Background: Genomic and transcriptomic approaches have the potential for unveiling the genome-wide response to environmental perturbations. The abundance of the catadromous European eel (Anguilla anguilla) stock has been declining since the 1980s probably due to a combination of anthropogenic and climatic factors. In this paper, we explore the transcriptomic dynamics between individuals from high (river Tiber, Italy) and low pollution (lake Bolsena, Italy) environments, which were measured for 36 PCBs, several organochlorine pesticides and brominated flame retardants and nine metals. Results: To this end, we first (i) updated the European eel transcriptome using deep sequencing data with a total of 640,040 reads assembled into 44,896 contigs (Eeelbase release 2.0), and (ii) developed a transcriptomic platform for global gene expression profiling in the critically endangered European eel of about 15,000 annotated contigs, which was applied to detect differentially expressed genes between polluted sites. Several detoxification genes related to metabolism of pollutants were upregulated in the highly polluted site, including genes that take part in phase I of the xenobiotic metabolism (CYP3A), phase II (glutathione-S-transferase) and oxidative stress (glutathione peroxidase). In addition, key genes in the mitochondrial respiratory chain and oxidative phosphorylation were down-regulated at the Tiber site relative to the Bolsena site. Conclusions: Together with the induced high expression of detoxification genes, the suggested lowered expression of genes supposedly involved in metabolism suggests that pollution may also be associated with decreased respiratory and energy production. Peer reviewed Article in Journal/Newspaper Anguilla anguilla University of St Andrews: Digital Research Repository BMC Genomics 13 1 507 |
institution |
Open Polar |
collection |
University of St Andrews: Digital Research Repository |
op_collection_id |
ftstandrewserep |
language |
English |
topic |
Anguilla anguilla European eel Transcriptome Microarrays Pollution QH426 Genetics QL Zoology SDG 12 - Responsible Consumption and Production QH426 QL |
spellingShingle |
Anguilla anguilla European eel Transcriptome Microarrays Pollution QH426 Genetics QL Zoology SDG 12 - Responsible Consumption and Production QH426 QL Pujolar, Jose Martin Marino, Ilaria A M Milan, Massimo Coppe, Alessandro Maes, Gregory E Capoccioni, Fabrizio Ciccotti, Eleonora Bervoets, Lieven Covaci, Adrian Belpaire, Claude Cramb, Gordon Patarnello, Tomaso Bargelloni, Luca Bortoluzzi, Stefania Zane, Lorenzo Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
topic_facet |
Anguilla anguilla European eel Transcriptome Microarrays Pollution QH426 Genetics QL Zoology SDG 12 - Responsible Consumption and Production QH426 QL |
description |
Background: Genomic and transcriptomic approaches have the potential for unveiling the genome-wide response to environmental perturbations. The abundance of the catadromous European eel (Anguilla anguilla) stock has been declining since the 1980s probably due to a combination of anthropogenic and climatic factors. In this paper, we explore the transcriptomic dynamics between individuals from high (river Tiber, Italy) and low pollution (lake Bolsena, Italy) environments, which were measured for 36 PCBs, several organochlorine pesticides and brominated flame retardants and nine metals. Results: To this end, we first (i) updated the European eel transcriptome using deep sequencing data with a total of 640,040 reads assembled into 44,896 contigs (Eeelbase release 2.0), and (ii) developed a transcriptomic platform for global gene expression profiling in the critically endangered European eel of about 15,000 annotated contigs, which was applied to detect differentially expressed genes between polluted sites. Several detoxification genes related to metabolism of pollutants were upregulated in the highly polluted site, including genes that take part in phase I of the xenobiotic metabolism (CYP3A), phase II (glutathione-S-transferase) and oxidative stress (glutathione peroxidase). In addition, key genes in the mitochondrial respiratory chain and oxidative phosphorylation were down-regulated at the Tiber site relative to the Bolsena site. Conclusions: Together with the induced high expression of detoxification genes, the suggested lowered expression of genes supposedly involved in metabolism suggests that pollution may also be associated with decreased respiratory and energy production. Peer reviewed |
author2 |
NERC University of St Andrews. School of Medicine |
format |
Article in Journal/Newspaper |
author |
Pujolar, Jose Martin Marino, Ilaria A M Milan, Massimo Coppe, Alessandro Maes, Gregory E Capoccioni, Fabrizio Ciccotti, Eleonora Bervoets, Lieven Covaci, Adrian Belpaire, Claude Cramb, Gordon Patarnello, Tomaso Bargelloni, Luca Bortoluzzi, Stefania Zane, Lorenzo |
author_facet |
Pujolar, Jose Martin Marino, Ilaria A M Milan, Massimo Coppe, Alessandro Maes, Gregory E Capoccioni, Fabrizio Ciccotti, Eleonora Bervoets, Lieven Covaci, Adrian Belpaire, Claude Cramb, Gordon Patarnello, Tomaso Bargelloni, Luca Bortoluzzi, Stefania Zane, Lorenzo |
author_sort |
Pujolar, Jose Martin |
title |
Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
title_short |
Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
title_full |
Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
title_fullStr |
Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
title_full_unstemmed |
Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel |
title_sort |
surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered european eel |
publishDate |
2014 |
url |
https://hdl.handle.net/10023/4362 https://doi.org/10.1186/1471-2164-13-507 |
genre |
Anguilla anguilla |
genre_facet |
Anguilla anguilla |
op_relation |
BMC Genomics 49279753 f04778ca-12cf-4913-b9d3-ad0a21cf1430 84866560252 Pujolar , J M , Marino , I A M , Milan , M , Coppe , A , Maes , G E , Capoccioni , F , Ciccotti , E , Bervoets , L , Covaci , A , Belpaire , C , Cramb , G , Patarnello , T , Bargelloni , L , Bortoluzzi , S & Zane , L 2012 , ' Surviving in a toxic world : transcriptomics and gene expression profiling in response to environmental pollution in the critically endangered European eel ' , BMC Genomics , vol. 13 , 507 . https://doi.org/10.1186/1471-2164-13-507 1471-2164 ORCID: /0000-0003-4929-951X/work/64033642 https://hdl.handle.net/10023/4362 doi:10.1186/1471-2164-13-507 NE/C513234/1 NE/F001401/1 NE/E015514/1 |
op_doi |
https://doi.org/10.1186/1471-2164-13-507 |
container_title |
BMC Genomics |
container_volume |
13 |
container_issue |
1 |
container_start_page |
507 |
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1797578511050866688 |