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Montiel-Mora JR, Méndez-Rivera M, Ramírez-Morales D, Cambronero-Heinrichs JC, Rodríguez-Rodríguez CE. Toxicity of selected pharmaceuticals and their mixtures to the aquatic indicators Daphnia magna and Aliivibrio fischeri. ECOTOXICOLOGY (LONDON, ENGLAND) 2024; 33:1047-1061. [PMID: 39264549 DOI: 10.1007/s10646-024-02798-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 08/24/2024] [Indexed: 09/13/2024]
Abstract
Despite the benefits derived from the use of pharmaceuticals, these compounds are currently considered contaminants of emerging concern because of their presence and persistence in the environment. This study aimed to determine the toxicity of 27 pharmaceuticals and the interaction effects of binary mixtures of selected compounds towards two model organisms: the microcrustacean Daphnia magna and the bacterium Aliivibrio fischeri (Microtox test). Six compounds, namely polymyxin B, polymyxin E, fluoxetine, diphenhydramine, clenbuterol and ketoprofen exhibited moderate toxicity towards D. magna. Additionally, three compounds (cefotaxime, polymyxin B, polymyxin E) also showed a moderate toxic effect on A. fischeri. The comparison of such results with model estimations showed inaccuracy in the predicted data, highlighting the relevance of experimental ecotoxicological assays. The assayed mixtures contained four selected drugs of high-hazard according to their reported concentrations in wastewater and surface water (diphenhydramine, trimethoprim, ketoprofen, and fluoxetine); data revealed interactions only in the fluoxetine-containing mixtures for D. magna, while all mixtures showed interactions (mostly synergistic) for Microtox. Chronic effects on the reproduction of D. magna were observed after exposure to fluoxetine and diphenhydramine, although higher sensitivity was determined for the latter, while the mixture of these compounds (which showed acute synergy in both models) also affected the reproduction patterns. Nonetheless, all the effects described at the acute or chronic level (for individual compounds or mixtures) were determined at concentrations higher than commonly reported at environmental levels. This work provides valuable ecotoxicological information for the risk assessment of pharmaceuticals and their mixtures in the environment.
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Affiliation(s)
- José R Montiel-Mora
- Centro de Investigación en Contaminación Ambiental (CICA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica
- Instituto de Investigaciones en Salud (INISA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica
| | - Michael Méndez-Rivera
- Centro de Investigación en Contaminación Ambiental (CICA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica
| | - Didier Ramírez-Morales
- Centro de Investigación en Contaminación Ambiental (CICA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica
| | - Juan Carlos Cambronero-Heinrichs
- Centro de Investigación en Contaminación Ambiental (CICA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Viale dell'Università, Legnaro, PD, 35020, Italy
| | - Carlos E Rodríguez-Rodríguez
- Centro de Investigación en Contaminación Ambiental (CICA), Universidad de Costa Rica, Montes de Oca, San José, 11501-2060, Costa Rica.
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2
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Guo J, Ren J, Chang C, Duan Q, Li J, Kanerva M, Yang F, Mo J. Freshwater crustacean exposed to active pharmaceutical ingredients: ecotoxicological effects and mechanisms. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:48868-48902. [PMID: 36884171 DOI: 10.1007/s11356-023-26169-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Accepted: 02/23/2023] [Indexed: 04/16/2023]
Abstract
Concerns over the ecotoxicological effects of active pharmaceutical ingredients (APIs) on aquatic invertebrates have been raised in the last decade. While numerous studies have reported the toxicity of APIs in invertebrates, no attempt has been made to synthesize and interpret this dataset in terms of different exposure scenarios (acute, chronic, multigenerational), multiple crustacean species, and the toxic mechanisms. In this study, a thorough literature review was performed to summarize the ecotoxicological data of APIs tested on a range of invertebrates. Therapeutic classes including antidepressants, anti-infectives, antineoplastic agents, hormonal contraceptives, immunosuppressants, and neuro-active drugs exhibited higher toxicity to crustaceans than other API groups. The species sensitivity towards APIs exposure is compared in D. magna and other crustacean species. In the case of acute and chronic bioassays, ecotoxicological studies mainly focus on the apical endpoints including growth and reproduction, whereas sex ratio and molting frequency are commonly used for evaluating the substances with endocrine-disrupting properties. The multigenerational and "Omics" studies, primarily transcriptomics and metabolomics, were confined to a few API groups including beta-blocking agents, blood lipid-lowing agents, neuroactive agents, anticancer drugs, and synthetic hormones. We emphasize that in-depth studies on the multigenerational effects and the toxic mechanisms of APIs on the endocrine systems of freshwater crustacean are warranted.
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Affiliation(s)
- Jiahua Guo
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, College of Urban and Environmental Sciences, Northwest University, Xi'an, 710127, China
| | - Jingya Ren
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, College of Urban and Environmental Sciences, Northwest University, Xi'an, 710127, China
| | - Chao Chang
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, College of Urban and Environmental Sciences, Northwest University, Xi'an, 710127, China
| | - Qiannan Duan
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, College of Urban and Environmental Sciences, Northwest University, Xi'an, 710127, China
| | - Jun Li
- Department of Environment and Geography, University of York, Heslington, York, YO10 5NG, UK
| | - Mirella Kanerva
- Center for Marine Environmental Studies, Ehime University, Matsuyama, 7908577, Japan
| | - Fangshe Yang
- Shaanxi Key Laboratory of Earth Surface System and Environmental Carrying Capacity, College of Urban and Environmental Sciences, Northwest University, Xi'an, 710127, China.
| | - Jiezhang Mo
- State Key Laboratory of Marine Pollution and Department of Chemistry, City University of Hong Kong, Kowloon, Hong Kong SAR, China
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3
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Saputra F, Farhan A, Suryanto ME, Kurnia KA, Chen KHC, Vasquez RD, Roldan MJM, Huang JC, Lin YK, Hsiao CD. Automated Cardiac Chamber Size and Cardiac Physiology Measurement in Water Fleas by U-Net and Mask RCNN Convolutional Networks. Animals (Basel) 2022; 12:ani12131670. [PMID: 35804569 PMCID: PMC9265036 DOI: 10.3390/ani12131670] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2022] [Revised: 06/22/2022] [Accepted: 06/27/2022] [Indexed: 11/16/2022] Open
Abstract
Simple Summary With the rapid development of technology, artificial intelligent become a major breakthrough that can help human with laborious job. Previously cardiac imaging in Daphnia was also suffer from laborious and tedious process to extract some information from it. Thus the aim of this study was to develop a simple artificial intelligent based method to help anyone in this field to perform analysis in fast, reliable, and less tedious manner. In this study, we compare U-Net and Mask RCNN and found out that Mask RCNN was perform better than U-Net in cardiac chamber area estimation. From this data, several parameter like heart rhythm, stroke volume, ejection fraction, fractional shortening, and cardiac output can be extracted. The validation was done by comparing the normal and Roundup exposed group and it show that Roundup can increase the stroke volume, cardiac output, and the shortening fraction of Daphnia magna. Abstract Water fleas are an important lower invertebrate model that are usually used for ecotoxicity studies. Contrary to mammals, the heart of a water flea has a single chamber, which is relatively big in size and with fast-beating properties. Previous cardiac chamber volume measurement methods are primarily based on ImageJ manual counting at systolic and diastolic phases which suffer from low efficiency, high variation, and tedious operation. This study provides an automated and robust pipeline for cardiac chamber size estimation by a deep learning approach. Image segmentation analysis was performed using U-Net and Mask RCNN convolutional networks on several different species of water fleas such as Moina sp., Daphnia magna, and Daphnia pulex. The results show that Mask RCNN performs better than U-Net at the segmentation of water fleas’ heart chamber in every parameter tested. The predictive model generated by Mask RCNN was further analyzed with the Cv2.fitEllipse function in OpenCV to perform a cardiac physiology assessment of Daphnia magna after challenging with the herbicide of Roundup. Significant increase in normalized stroke volume, cardiac output, and the shortening fraction was observed after Roundup exposure which suggests the possibility of heart chamber alteration after roundup exposure. Overall, the predictive Mask RCNN model established in this study provides a convenient and robust approach for cardiac chamber size and cardiac physiology measurement in water fleas for the first time. This innovative tool can offer many benefits to other research using water fleas for ecotoxicity studies.
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Affiliation(s)
- Ferry Saputra
- Department of Chemistry, Chung Yuan Christian University, Taoyuan 320314, Taiwan; (F.S.); (A.F.); (M.E.S.); (K.A.K.)
- Department of Bioscience Technology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
| | - Ali Farhan
- Department of Chemistry, Chung Yuan Christian University, Taoyuan 320314, Taiwan; (F.S.); (A.F.); (M.E.S.); (K.A.K.)
- Department of Bioscience Technology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
| | - Michael Edbert Suryanto
- Department of Chemistry, Chung Yuan Christian University, Taoyuan 320314, Taiwan; (F.S.); (A.F.); (M.E.S.); (K.A.K.)
- Department of Bioscience Technology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
| | - Kevin Adi Kurnia
- Department of Chemistry, Chung Yuan Christian University, Taoyuan 320314, Taiwan; (F.S.); (A.F.); (M.E.S.); (K.A.K.)
- Department of Bioscience Technology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
| | - Kelvin H.-C. Chen
- Department of Applied Chemistry, National Pingtung University, Pingtung 90003, Taiwan;
| | - Ross D. Vasquez
- Department of Pharmacy, Research Center for Natural and Applied Sciences, University of Santo Tomas, Manila 1008, Philippines;
| | - Marri Jmelou M. Roldan
- Faculty of Pharmacy, The Graduate School, University of Santo Tomas, Manila 1008, Philippines;
| | - Jong-Chin Huang
- Department of Applied Chemistry, National Pingtung University, Pingtung 90003, Taiwan;
- Correspondence: (J.-C.H.); (Y.-K.L.); (C.-D.H.)
| | - Yih-Kai Lin
- Department of Computer Science, National Pingtung University, Pingtung 90003, Taiwan
- Correspondence: (J.-C.H.); (Y.-K.L.); (C.-D.H.)
| | - Chung-Der Hsiao
- Department of Chemistry, Chung Yuan Christian University, Taoyuan 320314, Taiwan; (F.S.); (A.F.); (M.E.S.); (K.A.K.)
- Department of Bioscience Technology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
- Center for Nanotechnology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
- Research Center for Aquatic Toxicology and Pharmacology, Chung Yuan Christian University, Taoyuan 320314, Taiwan
- Correspondence: (J.-C.H.); (Y.-K.L.); (C.-D.H.)
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Davico CE, Pereira AG, Nezzi L, Jaramillo ML, de Melo MS, Müller YMR, Nazari EM. Reproductive toxicity of Roundup WG® herbicide: impairments in ovarian follicles of model organism Danio rerio. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:15147-15159. [PMID: 33226558 DOI: 10.1007/s11356-020-11527-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2020] [Accepted: 11/03/2020] [Indexed: 06/11/2023]
Abstract
Glyphosate-based herbicides are widely used in global agriculture, and their effects on different non-target animal organisms have been the focus of many toxicological studies. Regarding the potential role of glyphosate-based herbicides as an endocrine disruptor, the present study aims to investigate the effects of the herbicide Roundup WG® (RWG) on female reproduction, specifically on the ovarian maturation of Danio rerio. Adult females were exposed to low concentrations of RWG (0.065, 0.65, and 6.5 mg L-1) for 15 days, and then the ovaries were submitted to structural and morphometric procedures, accompanied by analysis of the vitellin protein content. Our results showed an increase of initial ovarian follicle numbers, decrease of late ovarian follicles, and smaller diameter of ovarian follicles in fish exposed to 0.065 and 6.5 mg L-1. The thickness of vitelline envelope was reduced, and the vitellin protein content was increased in the ovarian follicle in the two highest concentrations. Ultrastructural changes in the ovarian follicular component were evident and expressed by the cell index; vacuolization in follicular cells, increase of perivitelline space, and impaired mitochondria in oocytes were observed. Therefore, RWG adversely affects the ovarian maturation in D. rerio, and these changes can lead to reproductive toxicity, compromising population dynamics.
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Affiliation(s)
- Carla Eliana Davico
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Aline Guimarães Pereira
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Luciane Nezzi
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Michael Lorenz Jaramillo
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Madson Silveira de Melo
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Yara Maria Rauh Müller
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil
| | - Evelise Maria Nazari
- Departamento de Biologia Celular, Embriologia e Genética, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianopolis, 88040-900, Brazil.
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Panahi T, Weaver DJ, Lamb JD, Harrison RG. A new approach for trace analysis of guanidine compounds in surface water with resorcinarene-based ion chromatography columns. Analyst 2017; 141:939-46. [PMID: 26649362 DOI: 10.1039/c5an01076d] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Trace levels of pharmaceuticals have been detected in surface water and may pose a health risk to humans and other organisms. New chromatographic materials will help identify and quantify these contaminants. We introduce a new ion chromatographic (IC) material designed to separate cationic pharmaceuticals and report its ability to separate a group of guanidine compounds. Guanidine moieties are strongly basic and protonated under acid conditions, and therefore can potentially be separated on the newly designed stationary phase and detected by ion exchange chromatography. The new column packing material is based on glutamic acids bonded to resorcinarene moieties that in turn are bound to divinylbenzene macroporous resin. Detection limits in the range of 5-30 μg L(-1) were achieved using integrated pulsed amperometric detection (IPAD) for guanidine (G), methylguanidine (MG), 1,1-dimethylbiguanide (DMG), agmatine (AGM), guanidinobenzoic acid (GBA) and cimetidine (CIM). Suppressed conductivity (CD) and UV-vis detection resulted in limits of detection similar to IPAD, in the range of 2-66 μg L(-1), but were not able to detect all of the analytes. Three water sources, river, lake, and marsh, were analyzed and despite matrix effects, sensitivity for guanidine compounds was in the 100 μg L(-1) range and apparent recoveries were 80-96%. The peak area precision was 0.01-2.89% for IPAD, CD and UV-vis detection.
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Affiliation(s)
- Tayyebeh Panahi
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602, USA.
| | - Douglas J Weaver
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602, USA.
| | - John D Lamb
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602, USA.
| | - Roger G Harrison
- Department of Chemistry and Biochemistry, Brigham Young University, Provo, Utah 84602, USA.
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Zhang Y, Ma J, Shi L, Cao D, Quan X. Joint toxicity of cadmium and SDBS on Daphnia magna and Danio rerio. ECOTOXICOLOGY (LONDON, ENGLAND) 2016; 25:1703-1711. [PMID: 27709398 DOI: 10.1007/s10646-016-1701-3] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 07/30/2016] [Indexed: 06/06/2023]
Abstract
Information on joint toxicity is limited. To clarify the joint toxicity and the interactions among toxicants on different aquatic organisms, we investigated the acute toxicity of cadmium and sodium dodecyl benzene sulfonate, two chemicals with high concerns in Chinese waters, on the immobilization of Daphnia magna (D. magna) and the swimming behavior of Danio rerio (D. rerio). Our results illustrated that cadmium and sodium dodecyl benzene sulfonate expressed a synergistic effect on the immobilization of D. magna; and an antagonistic effect on the swimming speed D. rerio, but a synergistic effect on its vertical position in the water column. Based on the observed data, we found the independent action model was more appropriate than the concentration addition model in the prediction of their joint toxicity. Our results gave an example of the joint toxicity investigation, and aided to comprehensive the toxicity action mode of chemical mixtures.
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Affiliation(s)
- Ying Zhang
- Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China.
| | - Jing Ma
- Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Liu Shi
- Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Di Cao
- Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Xie Quan
- Laboratory of Industrial Ecology and Environmental Engineering (MOE), School of Environmental Science and Technology, Dalian University of Technology, Dalian, 116024, China
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García-García M, Liarte S, Gómez-González NE, García-Alcázar A, Pérez-Sánchez J, Meseguer J, Mulero V, García-Ayala A, Chaves-Pozo E. Cimetidine disrupts the renewal of testicular cells and the steroidogenesis in a hermaphrodite fish. Comp Biochem Physiol C Toxicol Pharmacol 2016; 189:44-53. [PMID: 27475025 DOI: 10.1016/j.cbpc.2016.07.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Revised: 06/29/2016] [Accepted: 07/22/2016] [Indexed: 02/06/2023]
Abstract
The importance of histamine in the physiology of the testis in mammals and reptiles has been recently shown. Histamine receptors (Hrs) are well conserved in fish and are functional in several fish species. We report here for the first time that histamine and the mRNA of Hrh1, Hrh2 and Hrh3 are all present in the gonad of the hermaphrodite teleost fish gilthead seabream. Moreover, cimetidine, which acts in vitro as an agonist of Hrh1 and Hrh2 on this species, was intraperitoneally injected in one and two years old gilthead seabream males. After three and five days of cimetidine injection, we found that this compound differently modified the gonadal hrs transcript levels and affects the testicular cell renewal and the gene expression of steroidogenesis-related molecules as well as the serum steroid levels. Our data point to cimetidine as a reproductive disruptor and elucidate a role for histamine in the gonad of this hermaphrodite fish species through Hr signalling.
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MESH Headings
- Animals
- Cimetidine/toxicity
- Dose-Response Relationship, Drug
- Endocrine Disruptors/toxicity
- Fish Proteins/drug effects
- Fish Proteins/genetics
- Fish Proteins/metabolism
- Gene Expression Regulation/drug effects
- Gonadal Steroid Hormones/biosynthesis
- Hermaphroditic Organisms
- Histamine H2 Antagonists/toxicity
- Male
- Receptors, Histamine H1/drug effects
- Receptors, Histamine H1/genetics
- Receptors, Histamine H1/metabolism
- Receptors, Histamine H2/drug effects
- Receptors, Histamine H2/genetics
- Receptors, Histamine H2/metabolism
- Receptors, Histamine H3/drug effects
- Receptors, Histamine H3/genetics
- Receptors, Histamine H3/metabolism
- Regeneration/drug effects
- Sea Bream/genetics
- Sea Bream/growth & development
- Sea Bream/metabolism
- Signal Transduction/drug effects
- Testis/drug effects
- Testis/metabolism
- Testis/physiopathology
- Time Factors
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Affiliation(s)
- María García-García
- Sección de Microscopía, Servicio de Apoyo a la Investigación, University of Murcia, Murcia 30100, Spain
| | - Sergio Liarte
- Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, IMIB-Arrixaca, 30100 Murcia, Spain
| | - Nuria E Gómez-González
- Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, IMIB-Arrixaca, 30100 Murcia, Spain
| | - Alicia García-Alcázar
- Centro Oceanográfico de Murcia, Instituto Español de Oceanografía (IEO), Carretera de la Azohía s/n. Puerto de Mazarrón, 30860 Murcia, Spain
| | - Jaume Pérez-Sánchez
- Nutrigenomics and Fish Growth Endocrinology Group, Institute of Aquaculture of Torre la Sal, IATS-CSIC, 12595 Ribera de Cabanes, Castellón, Spain
| | - José Meseguer
- Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, IMIB-Arrixaca, 30100 Murcia, Spain
| | - Victoriano Mulero
- Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, IMIB-Arrixaca, 30100 Murcia, Spain
| | - Alfonsa García-Ayala
- Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, IMIB-Arrixaca, 30100 Murcia, Spain
| | - Elena Chaves-Pozo
- Centro Oceanográfico de Murcia, Instituto Español de Oceanografía (IEO), Carretera de la Azohía s/n. Puerto de Mazarrón, 30860 Murcia, Spain.
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8
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Daphnia magna transcriptome by RNA-Seq across 12 environmental stressors. Sci Data 2016; 3:160030. [PMID: 27164179 PMCID: PMC4862326 DOI: 10.1038/sdata.2016.30] [Citation(s) in RCA: 76] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2015] [Accepted: 04/19/2016] [Indexed: 11/08/2022] Open
Abstract
The full exploration of gene-environment interactions requires model organisms with well-characterized ecological interactions in their natural environment, manipulability in the laboratory and genomic tools. The waterflea Daphnia magna is an established ecological and toxicological model species, central to the food webs of freshwater lentic habitats and sentinel for water quality. Its tractability and cyclic parthenogenetic life-cycle are ideal to investigate links between genes and the environment. Capitalizing on this unique model system, the STRESSFLEA consortium generated a comprehensive RNA-Seq data set by exposing two inbred genotypes of D. magna and a recombinant cross of these genotypes to a range of environmental perturbations. Gene models were constructed from the transcriptome data and mapped onto the draft genome of D. magna using EvidentialGene. The transcriptome data generated here, together with the available draft genome sequence of D. magna and a high-density genetic map will be a key asset for future investigations in environmental genomics.
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