A human body map of bisphenol-A (BPA) exposure: Systems level analysis of genomic and epigenomic alterations in primary human cells
Bisphenol-A (BPA) is a chemical building block used to strengthen polycarbonate plastic products , that binds and activates the estrogen receptors (ESR1 and ESR2) [2,3]. Additionality, BPA can stimulate other nuclear hormone receptors [4-10]; and can interfere with endocannabinoid receptors CNR1 and CNR2 [11,12]. The primary source of BPA exposure in humans is dietary, as BPA has been extensively used in food packaging since the 1960s . In the United States, BPA has been detected in 93% of 2,517 urine samples collected from both adults and children [1,14,15]. BPA continuous exposure causes adverse health effects [16-28].
The primary objective of this project will be to perform a systems level analysis of the effects of environmentally relevant doses of BPA on the transcriptome and epigenome of healthy primary human cells and model the data using the adverse outcomes pathway framework with the ultimate goal of developing a human body map of BPA exposure. This will include cells derived from key body tissues where BPA elicits adverse health effects, namely prostate, gut, liver, blood, brain and testes. This will be the first in vitro study that (1) examines the effects of low dose BPA exposure jointly on the healthy human cell transcriptomes and epigenomes using a systems level approach, and (2) defines the difference between low (5 nM) and higher doses (25 nM and 100 nM) of BPA on primary cells (PrECs), and (3) specifically examines the effects of BPA on the expression of genes encoding histone and DNA methylation modifying enzymes.
All applicants must meet the academic entry requirements: https://www.qub.ac.uk/courses/postgraduate-research/biological-sciences-phd.html#entry
1.Kang, J.H.; Kondo, F.; Katayama, Y. Human exposure to bisphenol a. Toxicology 2006, 226, 79-89.
2.Li, Y.; Burns, K.A.; Arao, Y.; Luh, C.J.; Korach, K.S. Differential estrogenic actions of endocrine-disrupting chemicals bisphenol a, bisphenol af, and zearalenone through estrogen receptor alpha and beta in vitro. Environ Health Perspect 2012, 120, 1029-1035.
3.Matthews, J.B.; Twomey, K.; Zacharewski, T.R. In vitro and in vivo interactions of bisphenol a and its metabolite, bisphenol a glucuronide, with estrogen receptors α and β. Chemical Research in Toxicology 2001, 14, 149-157.
4.Tohme, M.; Prud'homme, S.M.; Boulahtouf, A.; Samarut, E.; Brunet, F.; Bernard, L.; Bourguet, W.; Gibert, Y.; Balaguer, P.; Laudet, V. Estrogen-related receptor gamma is an in vivo receptor of bisphenol a. FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2014, 28, 3124-3133.
5.Sohoni, P.; Sumpter, J.P. Several environmental oestrogens are also anti-androgens. J Endocrinol 1998, 158, 327-339.
6.Zoeller, R.T. Environmental chemicals as thyroid hormone analogues: New studies indicate that thyroid hormone receptors are targets of industrial chemicals? Mol Cell Endocrinol 2005, 242, 10-15.
7.Bouskine, A.; Nebout, M.; Brucker-Davis, F.; Benahmed, M.; Fenichel, P. Low doses of bisphenol a promote human seminoma cell proliferation by activating pka and pkg via a membrane g-protein-coupled estrogen receptor. Environ Health Perspect 2009, 117, 1053-1058.
8.Sargis, R.M.; Johnson, D.N.; Choudhury, R.A.; Brady, M.J. Environmental endocrine disruptors promote adipogenesis in the 3t3-l1 cell line through glucocorticoid receptor activation. Obesity (Silver Spring) 2010, 18, 1283-1288.
9.Birceanu, O.; Mai, T.; Vijayan, M.M. Maternal transfer of bisphenol a impacts the ontogeny of cortisol stress response in rainbow trout. Aquatic Toxicology 2015, 168, 11-18.
10.Sui, Y.; Park, S.-H.; Helsley, R.N.; Sunkara, M.; Gonzalez, F.J.; Morris, A.J.; Zhou, C. Bisphenol a increases atherosclerosis in pregnane x receptor-humanized apoe deficient mice. Journal of the American Heart Association 2014, 3.
11.Forner-Piquer, I.; Mylonas, C.C.; Calduch-Giner, J.; Maradonna, F.; Gioacchini, G.; Allarà, M.; Piscitelli, F.; Di Marzo, V.; Pérez-Sánchez, J.; Carnevali, O. Endocrine disruptors in the diet of male sparus aurata: Modulation of the endocannabinoid system at the hepatic and central level by di-isononyl phthalate and bisphenol a. Environment International 2018, 119, 54-65.
12.Martella, A.; Silvestri, C.; Maradonna, F.; Gioacchini, G.; Allarà, M.; Radaelli, G.; Overby, D.R.; Di Marzo, V.; Carnevali, O. Bisphenol a induces fatty liver by an endocannabinoid-mediated positive feedback loop. Endocrinology 2016, 157, 1751-1763.
13.Rubin, B.S. Bisphenol a: An endocrine disruptor with widespread exposure and multiple effects. The Journal of steroid biochemistry and molecular biology 2011, 127, 27-34.
14.Schug, T.T.; Janesick, A.; Blumberg, B.; Heindel, J.J. Endocrine disrupting chemicals and disease susceptibility. J Steroid Biochem Mol Biol 2011, 127, 204-215.
15.Calafat, A.M.; Ye, X.; Wong, L.Y.; Reidy, J.A.; Needham, L.L. Exposure of the u.S. Population to bisphenol a and 4-tertiary-octylphenol: 2003–2004. Environ Health Perspect 2008, 116, 39-44.
16.Howdeshell, K.L.; Hotchkiss, A.K.; Thayer, K.A.; Vandenbergh, J.G.; vom Saal, F.S. Environmental toxins: Exposure to bisphenol a advances puberty. Nature 1999, 401, 763-764.
17.Cabaton, N.J.; Wadia, P.R.; Rubin, B.S.; Zalko, D.; Schaeberle, C.M.; Askenase, M.H.; Gadbois, J.L.; Tharp, A.P.; Whitt, G.S.; Sonnenschein, C.; Soto, A.M. Perinatal exposure to environmentally relevant levels of bisphenol a decreases fertility and fecundity in cd-1 mice. Environ Health Perspect 2011, 119, 547-552.
18.Salian, S.; Doshi, T.; Vanage, G. Neonatal exposure of male rats to bisphenol a impairs fertility and expression of sertoli cell junctional proteins in the testis. Toxicology 2009, 265, 56-67.
19.Vitku, J.; Heracek, J.; Sosvorova, L.; Hampl, R.; Chlupacova, T.; Hill, M.; Sobotka, V.; Bicikova, M.; Starka, L. Associations of bisphenol a and polychlorinated biphenyls with spermatogenesis and steroidogenesis in two biological fluids from men attending an infertility clinic. Environ Int 2016, 89-90, 166-173.
20.Manikkam, M.; Tracey, R.; Guerrero-Bosagna, C.; Skinner, M.K. Plastics derived endocrine disruptors (bpa, dehp and dbp) induce epigenetic transgenerational inheritance of obesity, reproductive disease and sperm epimutations. PLoS One 2013, 8, e55387.
21.Ahmed, S.; Atlas, E. Bisphenol s- and bisphenol a-induced adipogenesis of murine preadipocytes occurs through direct peroxisome proliferator-activated receptor gamma activation. International journal of obesity (2005) 2016.
22.Grun, F.; Blumberg, B. Perturbed nuclear receptor signaling by environmental obesogens as emerging factors in the obesity crisis. Reviews in endocrine & metabolic disorders 2007, 8, 161-171.
23.Ohlstein, J.F.; Strong, A.L.; McLachlan, J.A.; Gimble, J.M.; Burow, M.E.; Bunnell, B.A. Bisphenol a enhances adipogenic differentiation of human adipose stromal/stem cells. Journal of molecular endocrinology 2014, 53, 345-353.
24.vom Saal, F.S.; Myers, J. Bisphenol a and risk of metabolic disorders. JAMA 2008, 300, 1353-1355.
25.Doherty, L.F.; Bromer, J.G.; Zhou, Y.; Aldad, T.S.; Taylor, H.S. In utero exposure to diethylstilbestrol (des) or bisphenol-a (bpa) increases ezh2 expression in the mammary gland: An epigenetic mechanism linking endocrine disruptors to breast cancer. Hormones and Cancer 2010, 1, 146-155.
26.Prins, G.S.; Birch, L.; Tang, W.-Y.; Ho, S.-M. Developmental estrogen exposures predispose to prostate carcinogenesis with aging. Reproductive Toxicology 2007, 23, 374-382.
27.Cuomo, D.; Porreca, I.; Cobellis, G.; Tarallo, R.; Nassa, G.; Falco, G.; Nardone, A.; Rizzo, F.; Mallardo, M.; Ambrosino, C. Carcinogenic risk and bisphenol a exposure: A focus on molecular aspects in endoderm derived glands. Mol Cell Endocrinol 2017.
28.Gomez, A.L.; Delconte, M.B.; Altamirano, G.A.; Vigezzi, L.; Bosquiazzo, V.L.; Barbisan, L.F.; Ramos, J.G.; Luque, E.H.; Munoz-de-Toro, M.; Kass, L. Perinatal exposure to bisphenol a or diethylstilbestrol increases the susceptibility to develop mammary gland lesions after estrogen replacement therapy in middle-aged rats. Hormones & ca
Professor Gary Hardiman
Full-time: 3 years
Biological Sciences overview
The School of Biological Sciences provides PhD and MPhil (research degree) programmes in subjects ranging from basic biochemistry, molecular genetics and cancer research, to agricultural science, marine ecology and the economic evaluation of ecosystem services and food retailing. If you have a topic or research question in mind, please use the Find a Supervisor link (see Apply tab) to identify the most appropriate member of staff to support your idea. If not, don't worry, we regularly advertise funded projects and there is no harm in browsing our academic staff profiles for inspiration and then contacting whoever seems best: we are very open to applications from suitably qualified people interested in scientific research. In every case, a PhD or MPhil course provides the means of being part of a cutting edge scientific research team and contributing to genuine new discoveries or the development of new methods for practical use. If you cannot study full time, we offer pro-rata part time research degree programmes as well.
There are three broad themes to research at the School:
- Agri-Food Systems and Human Nutrition
- Understanding Health and Disease
- Sustaining Ecosystems and Biodiversity
Agri-Food Systems and Human Nutrition:
This theme focuses on how Agri-Food systems can be better positioned to provide safe and healthy diets and high quality of animal products and support human and animal health in a way that is environmentally sustainable and resilient to climate change.
Underpinning these goals, the disciplinary expertise of the theme integrates basic and applied research from animal health and welfare, nutrition, performance and environmental impact (e.g. greenhouse gas emissions from livestock) to chemical contaminant detection, food microbiology, fraud detection and food systems traceability and transparency.
Supported by underpinning technological expertise in cutting edge molecular, genomic, transcriptomic/proteomic and metabolomic methods, the goal of the theme is to transform Agri-Food systems so that they benefit both human nutrition and health while simultaneously reducing the greenhouse gases emissions from livestock production systems, protecting ecological resources, supporting livelihoods and affordable foods, and upholding social, cultural, and ethical values.
Understanding Health and Disease:
The Understanding Health and Disease research theme covers humans, plants, and animals with research strengths in prevention, diagnostics, surveillance, epidemiology, and treatments. We study how health can be improved through food and nutrition and how diseases can be tackled by understanding their fundamental molecular mechanisms, including those underpinning the biology of pathogens and parasites. Our researchers work in human cancer and genetic diseases, in infections caused by bacteria, fungi, viruses, and parasites, and in how global health and disease will be affected by global warming and climate change.
We recognize that the only way to tackle the problems we face as a society is to take an interdisciplinary approach to our research. This means we have expertise in broad areas including molecular biology, biochemistry, bioinformatics, genomics, transcriptomics, modelling, bioanalytical chemistry, proteomics, metabolomics, microbiology, parasitology, and plant biology. We work internationally with researchers and partners in universities, charities, non-governmental organisations, industry, and government agencies to tackle local and global challenges.
Sustaining Ecosystems and Biodiversity:
This theme covers research in biodiversity and ecosystem services for environments ranging from tropical forests to deep oceans, using field techniques and skills such as wildlife tracking, taxonomy, geostatistics, molecular and genetic ecology, environmental microbiology, microbial ecology, food web analysis, microcosm and mesocosm experiments, and mathematical/computational methods. Within this theme we also study the behaviour and temperament of wild, agricultural or domestic animals and their implications for welfare and ability to respond to environmental change.
Potential research projects include phylogenetic analysis of rare and newly discovered species, examination of ecological interactions in tropical systems, agricultural soils, or marine communities, using state-of-the-art genetic analysis, surveys using drones or satellite tagging, or experiments in tanks and field plots, including careful and ethical examinations of animal behaviour. Projects range from theoretical analysis of stability in ecosystems, through discovery of new species and mechanisms of interaction, or responses to climate change, to the assessment of agri-environment schemes, development of new methods for commercial fisheries management and economic evaluations of conservation measures. Projects very often have an international dimension and include collaboration with other researchers worldwide.
Biological Sciences Highlights
- The School has a wide range of strong, international links with governments, academia and industry, into which postgraduate research students are integrated.
World Class Facilities
- Research students will have access to laboratory space as required (in our state-of-the-art research laboratories) and where relevant, also a range of field study sites and equipment (e.g. remote sensing drone equipment). They also have access to local and campus-wide high performance computing facilities and the full strength of our world-class library. Many students also benefit from the strong collaboration network maintained by our academic staff, which could result in working in the laboratories of partner organisations in industry and government as well as in the University, under specific arrangements.
- Students studying in the Food Safety and Nutrition programme will gain excellent practical experience of advanced technology and bioanalytical techniques for food safety analysis and monitoring, including:
1. GC, HPLC and UPLC separation platforms;
2. ICP, IR, qToF and QqQ mass spectrometers;
3. Microbiological research facilities;
4. Antibody production and biomolecule binder development;
5. Cell culture suite and bioanalytical assay detection systems;
6. NMR, NIR and Raman spectrometers;
7. Proteomic and metabolomic profiling tools RT-PCR;
8. Transcriptomic profiling;
9. Next-generation sequencing;
10. Multiplex biosensor platforms and LFD development.
Internationally Renowned Experts
- Research at Institute for Global Food Security and the School of Biological Sciences was rated 1st in the UK in the latest Research Exercise Framework (REF) – an independent assessment of research quality, impact and environment at UK universities.
IGFS/Biological Sciences topped the national league table for Agriculture, Veterinary and Food Science, with 94% of research in those areas deemed “world-leading” or “internationally excellent”.
Additionally, the research environment at IGFS/SBS scored a phenomenal 100%.
- Most of the critical problems facing humanity - disease, climate change and food security - require biological understanding to solve them.
I can honesty say that studying a PhD was the right choice for me. It has enabled me to improve my self-management, critical thinking and problem-solving skills. In today's competitive job market, having a PhD does open doors for you both academically and in the industry sector. I was previously working in the financial sector and wanted to pursue a more fulfilling career where I wasn't just counting down the days until the weekend or payday. The friends and networking opportunities I have made while studying a PhD made it even more worthwhile. A PhD means you are your own boss and you are the one who decides in which direction to take your work.
Dr Eileen Mitchell, Biological Sciences PhD
Information on the research interests and activities of academics in Biological Sciences can be accessed via the School website and the Find a Supervisor facility (see Apply tab).
Queen's postgraduates reap exceptional benefits. Unique initiatives, such as Degree Plus and Researcher Plus bolster our commitment to employability, while innovative leadership and executive programmes alongside sterling integration with business experts helps our students gain key leadership positions both nationally and internationally. Career prospects in the biological sciences are exceptionally good. To some extent it depends on the specific topic, of course, but laboratory-based and especially quantitative skills and the proven innovation of a PhD or MPhil are highly sought after. Degrees are very much in demand, both in commercial science and public sector research and development (e.g. drug discovery and development, crop and animal improvements and welfare, sustainable agriculture and resource use, human nutrition and health, animal health, ecological management, food safety and technology, scientific communications, regulation, and many more fields).
Employment after the Course
Graduates have gone on to be professional research scientists, consultants, or hold technical and junior executive positions in commerce and government.
People teaching you
Dr Gareth Arnott
Postgraduate Research Director
School of Biological Sciences
For a PhD you will have a principal and second supervisor who advise your independent studies and will be supported by a wider team from the academic staff - who they are, of course, depends on your project. For further details on any aspect of postgraduate research degrees within the School of Biological Sciences, contact: firstname.lastname@example.org. Research degrees are overseen by the School of Biological Sciences Director of Postgraduate Research, who currently is Dr Gareth Arnott.
Learning OutcomesA postgraduate research degree involves the undertaking of independent research under the guidance of a professional academic supervisory team, typically using the laboratory facilities on offer in one or more of the teams' labs. The student will be expected to develop their own ideas and learn the methods needed to test them empirically and theoretically. This usually involves learning and practising both laboratory (and or field) skills as well as developing a strong theoretical background in the relevant subject.
As well as practical work, all the activities of independent academic scholarship, such as literature searching and critical appraisal, written and verbal communications and academic networking will be developed during a research degree. Independence and innovation will be strongly encouraged, but the student will be supported by regular supervisory guidance and a wide range of courses will also be on offer, both in subject specific skills and generic skills, especially supported by the Graduate School (https://www.qub.ac.uk/graduate-school/).
Students are encouraged to interact with one another and with members of academic staff and postdoctoral scientists to build confidence and informal learning, through a range of ‘research culture’ activities, including peer groups where students get together to discuss topical research papers, or methods, or just chat about their interests.
Course structureResearch degrees vary in length, but typically for a PhD they are three or four years long (full-time) and double that for part-time studies. They follow an annual cycle of progress with formal panel-based appraisals of the progress, the outcome of which is typically practical and academic advice about how to overcome problems encountered and how to move to the next stage. During each year, students are expected to supplement their studies with some tailored courses, ranging from highly specific (e.g. learning to use a piece of apparatus or technique) to generic (e.g. developing oral presentation or leadership skills). Every stage is supported by the supervisory team, augmented by an independent panel of progress monitors as well as the full support of the Graduate School.
Assessment processes for the Research Degree differ from taught degrees. Students will be expected to present drafts of their work at regular intervals to their supervisor who will provide written and oral feedback; a formal assessment process takes place annually.
This Annual Progress Review requires students to present their work in writing and orally to a panel of academics from within the School. Successful completion of this process will allow students to register for the next academic year.
The final assessment of the doctoral degree is both oral and written. Students will submit their thesis to an internal and external examining team who will review the written thesis before inviting the student to orally defend their work at a Viva Voce.
Supervisors will offer feedback on draft work at regular intervals throughout the period of registration on the degree.
Full-time research students will have access to a desk in a shared office space.
The minimum academic requirement for admission to a research degree programme is normally an Upper Second Class Honours degree from a UK or ROI HE provider, or an equivalent qualification acceptable to the University. Further information can be obtained by contacting the School.
For information on international qualification equivalents, please check the specific information for your country.
English Language Requirements
Evidence of an IELTS* score of 6.5, with not less than 5.5 in any component, or an equivalent qualification acceptable to the University is required (*taken within the last 2 years).
International students wishing to apply to Queen's University Belfast (and for whom English is not their first language), must be able to demonstrate their proficiency in English in order to benefit fully from their course of study or research. Non-EEA nationals must also satisfy UK Visas and Immigration (UKVI) immigration requirements for English language for visa purposes.
For more information on English Language requirements for EEA and non-EEA nationals see: www.qub.ac.uk/EnglishLanguageReqs.
If you need to improve your English language skills before you enter this degree programme, INTO Queen's University Belfast offers a range of English language courses. These intensive and flexible courses are designed to improve your English ability for admission to this degree.
|Northern Ireland (NI) 1||£4,596|
|Republic of Ireland (ROI) 2||£4,596|
|England, Scotland or Wales (GB) 1||£4,596|
|EU Other 3||£23,850|
1 EU citizens in the EU Settlement Scheme, with settled or pre-settled status, are expected to be charged the NI or GB tuition fee based on where they are ordinarily resident, however this is provisional and subject to the publication of the Northern Ireland Assembly Student Fees Regulations. Students who are ROI nationals resident in GB are expected to be charged the GB fee, however this is provisional and subject to the publication of the Northern Ireland Assembly student fees Regulations.
2 It is expected that EU students who are ROI nationals resident in ROI will be eligible for NI tuition fees. The tuition fee set out above is provisional and subject to the publication of the Northern Ireland Assembly student fees Regulations.
3 EU Other students (excludes Republic of Ireland nationals living in GB, NI or ROI) are charged tuition fees in line with international fees.
All tuition fees quoted are for the academic year 2021-22, and relate to a single year of study unless stated otherwise. Tuition fees will be subject to an annual inflationary increase, unless explicitly stated otherwise.
More information on postgraduate tuition fees.
Biological Sciences costs
Students may incur additional costs for small items of clothing and/or equipment necessary for lab or field work
Additional course costs
Depending on the programme of study, there may also be other extra costs which are not covered by tuition fees, which students will need to consider when planning their studies . Students can borrow books and access online learning resources from any Queen's library. If students wish to purchase recommended texts, rather than borrow them from the University Library, prices per text can range from £30 to £100. Students should also budget between £30 to £100 per year for photocopying, memory sticks and printing charges. Students may wish to consider purchasing an electronic device; costs will vary depending on the specification of the model chosen. There are also additional charges for graduation ceremonies, and library fines. In undertaking a research project students may incur costs associated with transport and/or materials, and there will also be additional costs for printing and binding the thesis. There may also be individually tailored research project expenses and students should consult directly with the School for further information.
Some research programmes incur an additional annual charge on top of the tuition fees, often referred to as a bench fee. Bench fees are charged when a programme (or a specific project) incurs extra costs such as those involved with specialist laboratory or field work. If you are required to pay bench fees they will be detailed on your offer letter. If you have any questions about Bench Fees these should be raised with your School at the application stage. Please note that, if you are being funded you will need to ensure your sponsor is aware of and has agreed to fund these additional costs before accepting your place.
How do I fund my study?1.PhD Opportunities
Find PhD opportunities and funded studentships by subject area.2.Funded Doctoral Training Programmes
We offer numerous opportunities for funded doctoral study in a world-class research environment. Our centres and partnerships, aim to seek out and nurture outstanding postgraduate research students, and provide targeted training and skills development.3.PhD loans
The Government offers doctoral loans of up to £26,445 for PhDs and equivalent postgraduate research programmes for English- or Welsh-resident UK and EU students.4.International Scholarships
Information on Postgraduate Research scholarships for international students.
Funding and Scholarships
The Funding & Scholarship Finder helps prospective and current students find funding to help cover costs towards a whole range of study related expenses.
How to Apply
Apply using our online Postgraduate Applications Portal and follow the step-by-step instructions on how to apply.
Find a supervisor
If you're interested in a particular project, we suggest you contact the relevant academic before you apply, to introduce yourself and ask questions.
To find a potential supervisor aligned with your area of interest, or if you are unsure of who to contact, look through the staff profiles linked here.
You might be asked to provide a short outline of your proposal to help us identify potential supervisors.