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Luo D, Guo Y, Liu Z, Guo L, Wang H, Tang X, Xu Z, Wu Y, Sun X. Endocrine-Disrupting Chemical Exposure Induces Adverse Effects on the Population Dynamics of the Indo-Pacific Humpback Dolphin. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:9102-9112. [PMID: 38752859 DOI: 10.1021/acs.est.4c00618] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2024]
Abstract
Cetaceans play a pivotal role in maintaining the ecological equilibrium of ocean ecosystems. However, their populations are under global threat from environmental contaminants. Various high levels of endocrine-disrupting chemicals (EDCs) have been detected in cetaceans from the South China Sea, such as the Indo-Pacific humpback dolphins in the Pearl River Estuary (PRE), suggesting potential health risks, while the impacts of endocrine disruptors on the dolphin population remain unclear. This study aims to synthesize the population dynamics of the humpback dolphins in the PRE and their profiles of EDC contaminants from 2005 to 2019, investigating the potential role of EDCs in the population dynamics of humpback dolphins. Our comprehensive analysis indicates a sustained decline in the PRE humpback dolphin population, posing a significant risk of extinction. Variations in sex hormones induced by EDC exposure could potentially impact birth rates, further contributing to the population decline. Anthropogenic activities consistently emerge as the most significant stressor, ranking highest in importance. Conventional EDCs demonstrate more pronounced impacts on the population compared to emerging compounds. Among the conventional pollutants, DDTs take precedence, followed by zinc and chromium. The most impactful emerging EDCs are identified as alkylphenols. Notably, as the profile of EDCs changes, the significance of conventional pollutants may give way to emerging EDCs, presenting a continued challenge to the viability of the humpback dolphin population.
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Affiliation(s)
- Dingyu Luo
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Yongwei Guo
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Zhiwei Liu
- School of Ecology, Sun Yat-sen University, Guangzhou 510275, China
| | - Lang Guo
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Hongri Wang
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Xikai Tang
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Zhuo Xu
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Yuping Wu
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - Xian Sun
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-sen University; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
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2
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Neira C, Mendoza GF, Bradley A, Gossett R, Rouse GW, Levin LA. Waste barrel contamination and macrobenthic communities in the San Pedro Basin DDT dumpsite. MARINE POLLUTION BULLETIN 2024; 203:116463. [PMID: 38776641 DOI: 10.1016/j.marpolbul.2024.116463] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2024] [Revised: 05/02/2024] [Accepted: 05/03/2024] [Indexed: 05/25/2024]
Abstract
Industrial waste barrels were discarded from 1947 to 1961 at a DDT dumpsite in the San Pedro Basin (SPB) in southern California, USA at ~890 m. The barrels were studied for effects on sediment concentrations of DDX, PCBs, PAHs and sediment properties, and on benthic macrofaunal assemblages, including metazoan meiofaunal taxa >0.3 mm. DDX concentration was highest in the 2-6 cm fraction of the 10-cm deep cores studied but exhibited no correlation with macrofaunal density, composition or diversity. Macrofaunal diversity was lowest and distinct in sediments within discolored halos surrounding the barrels. Low macrobenthos density and diversity, high dominance by Entoprocta, and numerical prevalence of large nematodes may result from the very low oxygen concentrations in bottom waters (< 4.4 μM). There is potential for macrofauna to remobilize DDX into the water column and ultimately the food web in the SPB.
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Affiliation(s)
- Carlos Neira
- Integrative Oceanography Division, Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0206, United States of America.
| | - Guillermo F Mendoza
- Integrative Oceanography Division, Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0206, United States of America
| | - Angelica Bradley
- Integrative Oceanography Division, Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0206, United States of America
| | - Richard Gossett
- Physis Environmental Laboratories, 1904 E. Wright Circle, Anaheim, CA 92806-6028, United States of America
| | - Greg W Rouse
- Marine Biology Research Division, Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0202, United States of America
| | - Lisa A Levin
- Integrative Oceanography Division, Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0206, United States of America
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Danil K, Colegrove KM, Delaney MA, Mena A, Stedman N, Wurster E. Systemic Erysipelas Outbreak among Free-Ranging Bottlenose Dolphins, San Diego, California, USA, 2022. Emerg Infect Dis 2023; 29:2561-2563. [PMID: 37987589 PMCID: PMC10683814 DOI: 10.3201/eid2912.230811] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2023] Open
Abstract
We diagnosed fatal Erysipelothrix rhusiopathiae sepsis in 3 stranded bottlenose dolphins (Tursiops truncatus) during summer 2022, in San Diego, California, USA. The previously undetected disease in this relatively small, regional population of dolphins most likely indicates an environmental or biological change in the coastal ocean or organisms.
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Guo Y, Sun X, Shi W, Liu Z, Wu Y. Cetaceans as Bioindicators to Assess Alkylphenol Exposure and Hormone-Disrupting Effects in the South China Sea. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023. [PMID: 37315293 DOI: 10.1021/acs.est.3c01381] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Alkylphenols (APs) represent one of the highest exposure levels among endocrine disrupting chemicals (EDCs) in the South China Sea (SCS) due to their extensive use as plastic additives. The concerns about EDCs, including APs, have been reiterated since the surge in plastic waste from the COVID-19 response, but far less is known about the response of AP loadings in the SCS to emerging public policies and activities, including the COVID-19 pandemic. Here, we used cetaceans as bioindicators for monitoring two major APs, 4-nonylphenol (4-NP) and 4-tert-octylphenol (4-t-OP), in nine stranded cetacean species (n = 110) in the SCS between 2004 and 2021. Prior to the COVID-19, APs loads showed decreasing temporal trends for finless porpoises and humpback dolphins, most likely due to China's restrictions on AP use or a shift in dominant prey species. Unexpectedly, AP loads continued to decline after the COVID-19 outbreak, probably due to a temporal-lag response of marine AP fluxes to the pandemic. The health risk assessments based on hormone biomarkers and toxicity thresholds suggest the potential adverse effects of APs on cetaceans, while recent declines in APs, though limited, may mitigate the detrimental impacts.
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Affiliation(s)
- Yongwei Guo
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Xian Sun
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Wei Shi
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Zhiwei Liu
- School of Ecology, Sun Yat-Sen University, Guangzhou 510275, China
| | - Yuping Wu
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
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5
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Wilson PW, Cho C, Allsing N, Khanum S, Bose P, Grubschmidt A, Sant KE. Tris(4-chlorophenyl)methane and tris(4-chlorophenyl)methanol disrupt pancreatic organogenesis and gene expression in zebrafish embryos. Birth Defects Res 2023; 115:458-473. [PMID: 36470842 DOI: 10.1002/bdr2.2132] [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: 10/03/2022] [Revised: 11/08/2022] [Accepted: 11/21/2022] [Indexed: 12/12/2022]
Abstract
OBJECTIVES Tris(4-chlorophenyl) methane (TCPM) and tris(4-chlorophenyl)methanol (TCPMOH) are anthropogenic environmental contaminants believed to be manufacturing byproducts of the organochlorine pesticide dichlorodiphenyltrichloroethane (DDT) due to environmental co-occurrence. TCPM and TCPMOH are persistent, bioaccumulate in the environment, and are detected in human breast milk and adipose tissues. DDT exposures have been previously shown to disrupt insulin signaling and glucoregulation, increasing risk for diabetes. We have previously shown that embryonic exposures organochlorines such as polychlorinated biphenyls disrupted pancreatic development and early embryonic glucoregulatory networks. Here, we determined the impacts of the similar compounds TCPM and TCPMOH on zebrafish pancreatic growth and gene expression following developmental exposures. METHODS Zebrafish embryos were exposed to 50 nM TCPM or TCPMOH beginning at 24 hr postfertilization (hpf) and exposures were refreshed daily. At 96 hpf, pancreatic growth and islet area were directly visualized in Tg(ptf1a::GFP) and Tg(insulin::GFP) embryos, respectively, using microscopy. Gene expression was assessed at 100 hpf with RNA sequencing. RESULTS Islet and total pancreas area were reduced by 20.8% and 13% in embryos exposed to 50 nM TCPMOH compared to controls. TCPM did not induce significant morphological changes to the developing pancreas, indicating TCPMOH, but not TCPM, impairs pancreatic development despite similarity in molecular responses. Transcriptomic responses to TCPM and TCPMOH were correlated (R2 = .903), and pathway analysis found downregulation of processes including retinol metabolism, circadian rhythm, and steroid biosynthesis. CONCLUSION Overall, our data suggest that TCPM and TCPMOH may be hazardous to embryonic growth and development.
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Affiliation(s)
- Peyton W Wilson
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Christine Cho
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Nicholas Allsing
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Saleha Khanum
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Pria Bose
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Ava Grubschmidt
- School of Public Health, San Diego State University, San Diego, California, USA
| | - Karilyn E Sant
- School of Public Health, San Diego State University, San Diego, California, USA
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6
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Guo Y, Shi W, Liu Z, Sun X, Wu J, Wu Y. Bisphenol A alternatives continuously contribute to the endocrine disruption in cetaceans. ENVIRONMENT INTERNATIONAL 2023; 171:107679. [PMID: 36493609 DOI: 10.1016/j.envint.2022.107679] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Revised: 12/01/2022] [Accepted: 12/05/2022] [Indexed: 06/17/2023]
Abstract
The bans on bisphenol A (BPA) have facilitated the widespread use of BPA alternatives and shifted environmental contamination profiles of bisphenols (BPs). However, the continued reports of toxicities of emerging BPA alternatives have raised questions about whether the shifting profiles are contributed to mitigate BPs-mediated endocrine-disruption effects (EDEs). Cetaceans are commonly used as the ideal sentinel species for monitoring marine pollutants of concern and determining potential health effects, but far less is known about BP loads and BPs-mediated EDEs in cetaceans. Here we measured the hepatic concentrations of six BPs in eight stranded cetacean species (n = 41) in the South China Sea, between 2007 and 2020. The large-bodied whales generally showed higher ∑BPs concentrations than the small-bodied dolphins. In Indo-Pacific finless porpoises (Neophocaena phocaenoides) (n = 33), BPA concentrations first increased (2007-2014) and then decreased (2014-2020), while ∑BPAlternatives concentrations increased from 2007 to 2020. It appears that the alternatives gradually replaced BPA, probably due to the BPA-related bans in China. In order to examine the hormone disruption of BPA and its alternatives in finless porpoises, five blubber hormones (cortisol, progesterone, testosterone, triiodothyronine and tetraiodothyronine), which are proven to be validated endocrine biomarkers, were measured in 21 samples. Tetraiodothyronine, testosterone, and cortisol were significantly and positively correlated with BPA and its alternatives, suggesting that the interference of endocrine hormone homeostasis may continue to occur despite the changes of BP profiles in finless porpoises. This is the first investigation of the relationship between hormone and BP concentrations in cetaceans and represents a substantial advance in understanding BPs-mediated endocrine effects on cetaceans.
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Affiliation(s)
- Yongwei Guo
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Wei Shi
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Zhiwei Liu
- School of Ecology, Sun Yat-sen University, Guangzhou 510275, China
| | - Xian Sun
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China.
| | - Jiaxue Wu
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
| | - Yuping Wu
- School of Marine Sciences, Zhuhai Key Laboratory of Marine Bioresources and Environment, Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, Pearl River Estuary Marine Ecosystem Research Station, Ministry of Education, Sun Yat-Sen University, Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai 519082, China
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7
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Linsky JMJ, Dunlop RA, Noad MJ, McMichael LA. A mammalian messenger RNA sex determination method from humpback whale ( Megaptera novaeangliae) blubber biopsies. ROYAL SOCIETY OPEN SCIENCE 2022; 9:220556. [PMID: 36016912 PMCID: PMC9399696 DOI: 10.1098/rsos.220556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Accepted: 08/01/2022] [Indexed: 06/15/2023]
Abstract
The large size of free-ranging mysticetes, such as humpback whales (Megaptera novaeangliae), make capture and release health assessments unfeasible for conservation research. However, individual energetic condition or reproductive health may be assessed from the gene expression of remotely biopsied tissue. To do this, researchers must reliably extract RNA and interpret gene expression measurements within the context of an individual's sex. Here, we outline an RNA extraction protocol from blubber tissue and describe a novel mammalian RNA sex determination method. Our method consists of a duplex reverse transcription-quantitative (real-time) polymerase chain reaction (RT-qPCR) with primer sets for a control gene (ACTB) and the X-chromosome inactivation gene (XIST). Products of each RT-qPCR had distinct melting temperature profiles based on the presence (female) or absence (male) of the XIST transcript. Using high-resolution melt analysis, reactions were sorted into one of two clusters (male/female) based on their melting profiles. We validated the XIST method by comparing results with a standard DNA-based method. With adequate quantities of RNA (minimum of approx. 9 ng µl-1), the XIST sex determination method shows 100% agreement with traditional DNA sex determination. Using the XIST method, future cetacean health studies can interpret gene expression within the context of an individual's sex, all from a single extraction.
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Affiliation(s)
- Jacob M. J. Linsky
- School of Biological Sciences The University of Queensland, St Lucia, Queensland 4072, Australia
- Centre for Marine Science, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Rebecca A. Dunlop
- School of Biological Sciences The University of Queensland, St Lucia, Queensland 4072, Australia
- Centre for Marine Science, The University of Queensland, St Lucia, Queensland 4072, Australia
| | - Michael J. Noad
- Centre for Marine Science, The University of Queensland, St Lucia, Queensland 4072, Australia
- School of Veterinary Science, The University of Queensland, Gatton, Queensland 4343, Australia
| | - Lee A. McMichael
- School of Veterinary Science, The University of Queensland, Gatton, Queensland 4343, Australia
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8
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Navarrete J, Wilson P, Allsing N, Gordon C, Margolis R, Schwartz AV, Cho C, Rogowski B, Topps J, George UZ, Sant KE. The ecotoxicological contaminant tris(4-chlorophenyl)methanol (TCPMOH) impacts embryonic development in zebrafish (Danio rerio). AQUATIC TOXICOLOGY (AMSTERDAM, NETHERLANDS) 2021; 235:105815. [PMID: 33838494 PMCID: PMC8113121 DOI: 10.1016/j.aquatox.2021.105815] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2020] [Revised: 03/15/2021] [Accepted: 03/19/2021] [Indexed: 06/12/2023]
Abstract
Tris(4-chlorophenyl)methanol (TCPMOH) is a water contaminant with unknown etiology, but is believed to be a byproduct of DDT manufacturing. It is highly persistent in the environment, and bioaccumulates in marine species. TCPMOH has also been measured in human breast milk, which poses a risk for developing infants. However, almost no toxicity data is currently available. In this study, we investigate the hazard posed by developmental TCPMOH exposures using the zebrafish model (Danio rerio). Zebrafish (Danio rerio) embryos were exposed to 0, 0.1, 0.5, 1, or 5 µM TCPMOH beginning at 24 h post fertilization (hpf). Embryonic mortality and incidence of morphological deformities increased in a concentration-dependent manner with TCPMOH exposure. RNA sequencing assessed changes in gene expression associated with acute (4 hour) exposures to 50 nM TCPMOH. Developmental exposure to TCPMOH decreased expression of ahr2, as well as metabolic enzymes cyp1a1, cyp1b1, cyp1c1, cyp1c2, and cyp2y3 (p<0.05). These findings were concordant with decreased Cyp1a1 induction measured by the ethoxyresorufin-O-deethylase (EROD) assay (p<0.05). Pathways associated with xenobiotic metabolism, lipid metabolism, and transcriptional and translational regulation were decreased. Pathways involved in DNA replication and repair, carbohydrate metabolism, and endocrine function were upregulated. Overall, this study demonstrates that TCPMOH is acutely toxic to zebrafish embryos at elevated concentrations.
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Affiliation(s)
- Julian Navarrete
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Peyton Wilson
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Nicholas Allsing
- San Diego State University Biology Department, San Diego, CA, 92182, USA
| | - Chandi Gordon
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Rachel Margolis
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Ashley V Schwartz
- San Diego State University Department of Mathematics, San Diego, CA, 92182, USA
| | - Christine Cho
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Brynn Rogowski
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Jennifer Topps
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA
| | - Uduak Z George
- San Diego State University Department of Mathematics, San Diego, CA, 92182, USA
| | - Karilyn E Sant
- San Diego State University School of Public Health, 5500 Campanile Dr., Hardy Tower 119, San Diego, CA, 92182, USA.
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9
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Banerjee SM, Stoll JA, Allen CD, Lynch JM, Harris HS, Kenyon L, Connon RE, Sterling EJ, Naro-Maciel E, McFadden K, Lamont MM, Benge J, Fernandez NB, Seminoff JA, Benson SR, Lewison RL, Eguchi T, Summers TM, Hapdei JR, Rice MR, Martin S, Jones TT, Dutton PH, Balazs GH, Komoroske LM. Species and population specific gene expression in blood transcriptomes of marine turtles. BMC Genomics 2021; 22:346. [PMID: 33985425 PMCID: PMC8117300 DOI: 10.1186/s12864-021-07656-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Accepted: 04/23/2021] [Indexed: 12/13/2022] Open
Abstract
BACKGROUND Transcriptomic data has demonstrated utility to advance the study of physiological diversity and organisms' responses to environmental stressors. However, a lack of genomic resources and challenges associated with collecting high-quality RNA can limit its application for many wild populations. Minimally invasive blood sampling combined with de novo transcriptomic approaches has great potential to alleviate these barriers. Here, we advance these goals for marine turtles by generating high quality de novo blood transcriptome assemblies to characterize functional diversity and compare global transcriptional profiles between tissues, species, and foraging aggregations. RESULTS We generated high quality blood transcriptome assemblies for hawksbill (Eretmochelys imbricata), loggerhead (Caretta caretta), green (Chelonia mydas), and leatherback (Dermochelys coriacea) turtles. The functional diversity in assembled blood transcriptomes was comparable to those from more traditionally sampled tissues. A total of 31.3% of orthogroups identified were present in all four species, representing a core set of conserved genes expressed in blood and shared across marine turtle species. We observed strong species-specific expression of these genes, as well as distinct transcriptomic profiles between green turtle foraging aggregations that inhabit areas of greater or lesser anthropogenic disturbance. CONCLUSIONS Obtaining global gene expression data through non-lethal, minimally invasive sampling can greatly expand the applications of RNA-sequencing in protected long-lived species such as marine turtles. The distinct differences in gene expression signatures between species and foraging aggregations provide insight into the functional genomics underlying the diversity in this ancient vertebrate lineage. The transcriptomic resources generated here can be used in further studies examining the evolutionary ecology and anthropogenic impacts on marine turtles.
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Affiliation(s)
- Shreya M Banerjee
- Department of Environmental Conservation, University of Massachusetts, Amherst, MA, USA
| | - Jamie Adkins Stoll
- Department of Environmental Conservation, University of Massachusetts, Amherst, MA, USA
| | - Camryn D Allen
- Marine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA.,Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | - Jennifer M Lynch
- Chemical Sciences Division, National Institute of Standards and Technology, Hawai'i Pacific University, Waimanalo, HI, USA
| | - Heather S Harris
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | - Lauren Kenyon
- Department of Environmental Conservation, University of Massachusetts, Amherst, MA, USA
| | - Richard E Connon
- Department of Anatomy, Physiology and Cell Biology, University of California, Davis, Davis, CA, USA
| | - Eleanor J Sterling
- Center for Biodiversity and Conservation, American Museum of Natural History, New York, NY, USA
| | | | - Kathryn McFadden
- School of Agricultural, Forest, and Environmental Sciences, Clemson University, Clemson, SC, USA
| | - Margaret M Lamont
- United States Geological Survey, Wetland and Aquatic Research Center, Gainesville, FL, USA
| | - James Benge
- Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA, USA
| | - Nadia B Fernandez
- Department of Environmental Conservation, University of Massachusetts, Amherst, MA, USA
| | - Jeffrey A Seminoff
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | - Scott R Benson
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Moss Landing, CA, 95039, USA.,Moss Landing Marine Laboratories, San Jose State University, Moss Landing, CA, 95039, USA
| | - Rebecca L Lewison
- Department of Biology, San Diego State University, San Diego, CA, USA
| | - Tomoharu Eguchi
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | | | - Jessy R Hapdei
- Jessy's Tag Services, Saipan, Commonwealth of the Northern Mariana Islands, USA
| | - Marc R Rice
- Hawai'i Preparatory Academy, Kamuela, HI, USA
| | - Summer Martin
- Marine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA
| | - T Todd Jones
- Marine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA
| | - Peter H Dutton
- Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA
| | | | - Lisa M Komoroske
- Department of Environmental Conservation, University of Massachusetts, Amherst, MA, USA. .,Marine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA.
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Teehan P, Schall MK, Blazer VS, Gruber B, Dorman FL. Modified QuEChERS extraction for the analysis of young-of-year smallmouth bass using GC × GC-TOFMS. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2020; 12:3697-3704. [PMID: 32691775 DOI: 10.1039/d0ay00880j] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Signs of disease, such as external lesions, have been prevalent in smallmouth bass throughout the Susquehanna River Basin, USA. Previous targeted chemical studies in this system have identified known persistent organic pollutants, but a common explanatory link across multiple affected sites remains undetermined. A fast and robust extraction method that can be applied to young-of-year fish is needed to effectively screen for target and non-target compounds that may be impacting organism health. The quick, easy, cheap, effective, rugged, and safe (QuEChERS) extraction methodology was optimized to perform both targeted and non-targeted chemical analyses from a single extraction of whole young-of-year fish. Comprehensive two-dimensional gas chromatography coupled with time-of-flight mass spectrometry (GC × GC-TOFMS) was used for extract analysis. Sample extraction was performed using the solvent ethyl acetate, followed by a two-step cleanup in which samples were frozen for lipid removal and subjected to dispersive solid phase extraction using Florisil. A sample of 21 young-of-year smallmouth bass collected from areas with disease and exhibiting different types of external lesions were evaluated for 233 target compounds. A total of 34 organic contaminants, including polychlorinated biphenyls, brominated diphenyl ethers, organochlorinated pesticides, and personal care products, were detected. Data from this sample set was then analyzed for non-targets. Using the Fisher ratio method and multivariate analysis, an additional 10 significant features were identified specific to either fish with visible lesions or with no visible disease characteristics.
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Affiliation(s)
- Paige Teehan
- Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA.
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Trego ML, Whitehead A, Kellar NM, Lauf M, Lewison RL. Tracking transcriptomic responses to endogenous and exogenous variation in cetaceans in the Southern California Bight. CONSERVATION PHYSIOLOGY 2019; 7:coz018. [PMID: 31110768 PMCID: PMC6518923 DOI: 10.1093/conphys/coz018] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/02/2018] [Revised: 01/26/2019] [Accepted: 04/09/2019] [Indexed: 06/09/2023]
Abstract
Marine wildlife populations are adapted to survive in highly dynamic environments. However, identifying the effects of endogenous versus exogenous variables on marine mammal physiology remains a substantial challenge in part because of the logistical constraints that limit the collection of physiological data in free-ranging animals. Measuring genome-wide gene expression is one minimally invasive method that can be used to elucidate how free-ranging cetaceans' physiological responses shift with changing environmental conditions or demographic states, i.e. reproductive status and maturity. We identified transcriptomic differences among bottlenose dolphins (Tursiops truncatus) from the Southern California Bight using RNAseq data from the skin of 75 individuals to examine gene expression associated with sex, pregnancy status, sea surface temperature, geographic location and ecotype. We identified transcriptomic variation between two genetically distinct ecotypes as well as variation related to environmental conditions among groups that exhibit little evidence of genetic divergence. Specifically, we found differential expression of genes associated with structural development, cellular starvation and immune response. Sex and pregnancy status explained a small proportion of the observed variation, in contrast to sea surface temperature, which explained a substantial amount of transcriptomic variation. However, these measured variables did not account for all of the differential expression observed between ecotypes and among geographically distinct groups. Additional research is needed to identify other endogenous or exogenous factors that may be contributing to observed transcriptomic differences among ecotypes.
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Affiliation(s)
- Marisa L Trego
- Department of Biology, San Diego State University, San Diego, CA, USA
- Department of Environmental Toxicology, University of California Davis, Davis, CA, USA
| | - Andrew Whitehead
- Department of Environmental Toxicology, University of California Davis, Davis, CA, USA
| | - Nicholas M Kellar
- Ocean Associates, Inc., under contract to the Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Arlington, VA, USA
| | - Morgane Lauf
- Ocean Associates, Inc., under contract to the Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Arlington, VA, USA
| | - Rebecca L Lewison
- Department of Biology, San Diego State University, San Diego, CA, USA
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