bio

josie_2018

Email: j.r.paris@exeter.ac.uk

My interests are in the use of evolutionary genetics in understanding how species adapt, particularly in a conservation and management context. I am especially interested in the use of genome-wide signals generated by massive parallel sequencing applications (WGR, RADseq and RNAseq).

I am currently a research fellow in the Fraser Lab working on a NERC-NSF funded project investigating the ecological genomics of adaptive polymorphism in the Trinidadian guppy (Poecilia reticulata).

I completed my PhD at the University of Exeter, where I investigated aspects of local adaptation in brown trout (Salmo trutta L.)  to toxic metal pollution in Southwest England. I used a combination of genetic (microsats), genomic (RADseq & RNAseq) analyses, and physiology experiments to uncover the adaptive traits associated with metal tolerance. My PhD was supervised by Dr Jamie Stevens and Dr Eduarda Santos.

After my PhD, I worked on the tail-end of a Leverhulme Trust funded project assisting in the development of a rapid diagnostic test for Bd detection in amphibians using lateral flow technology. This project was in collaboration with Dr Michael Dillon, Dr Jamie Stevens, Prof Chris Thornton (Exeter), Dr Andrew Bowkett (Whitley Wildlife Conservation Trust and Paignton Zoo).

I am a reviewer for Ecology & Evolution, Evolutionary Applications, Molecular Ecology, Molecular Ecology Resources, and Gene.

Publications

Paris JR and Usher J. Functional genomic characterization of metallothioneins in brown trout (Salmo trutta L.) using synthetic genetic analysis (In Review).

Paris JR*, Sherman KD*, Bell E, Boulenger C, Delord C, El-Mahdi MBM, Fairfield EA, Griffiths AM, Gutmann Roberts C., Hedger RD, Holman LE, Hooper LH, Humphries NE, Katsiadaki I, King RA, Lemopoulos A, Payne CJ, Peirson G, Richter KK, Taylor MI, Trueman CN, Hayden B& Stevens JR (2018). Understanding and managing fish populations: keeping the toolbox fit for purpose. Journal of Fish Biology, 92(3): 727-751.

Ikediashi C*, Paris JR*, King RA, Beaumont WRC, Ibbotson A, Stevens JR (2018). Atlantic salmon Salmo salar in the chalk sreams of England are genetically unique. Journal of Fish Biology, 92(3): 621-641.

Paris JR, Stevens JR, Catchen JM (2017) Lost in parameter space: A road map for Stacks. Methods in Ecology and Evolution, 8(10): 1360-1373.

Paris JR, King RA, Stevens JR (2015) Human mining activity across the ages determines the genetic structure of modern brown trout (Salmo trutta L.) populations. Evolutionary Applications, 8(6):573-585.

Bio and qualifications

2017 – present       Research Fellow, University of Sussex, Brighton, UK. Relocation to University of Exeter, Exeter, UK.

PI: Dr Bonnie Fraser

Funded by NERC-NSF “Ecological genomics of adaptive polymorphism”

2017 – 2017            Research Assistant, University of Exeter, Devon, UK

Funded by The Leverhulme Trust

Funded by The Centre for Environment, Fisheries and Aquaculture Science (Cefas)

March- May 2016      Overseas lab visit, University of Illinois Urbana-Champaign

PI: Dr Julian Catchen, Catchen Lab

Funded by The Genetics Society, Santander

2012 – 2017           PhD Molecular Ecology and Evolution, University of Exeter, Devon, UK

Thesis title: ‘Brown trout and toxic metals: local adaptation to the legacy of Britain’s mining history’

Supervision of Dr Jamie Stevens (Associate Professor of Molecular Ecology) and Dr Eduarda Santos (Senior Lecturer in Environmental Biology)

Funded by Westcountry Rivers Trust, Environment Agency and University of Exeter

2009 – 2012            BSc Ecology and Conservation, University of Sussex, Brighton, UK

Final year project: ‘Genetic diversity and population structure of Bufo calamita in Poland’

Supervision of Professor Trevor Beebee 

Awards & Nominations

Linnean Society of London Nomination for The Bicentenary Medal (2015)

John Maynard Smith Award for Ecology & Conservation, University of Sussex (2012)

Grants & Funding

March 2019 Genetics Society Training Grant – £500

March 2016 FSBI Small Research Grant – £4900

March 2016 University of Exeter Postgraduate Research Enhancement Fund – £480

February 2016 Genetics Society Training Grant – £700

January 2016 Santander Postgraduate Research Award – £500

November 2014 FSBI Small Research Grant – £1000

October 2014 TGAC Genotyping-by-sequencing workshop Grant Funded – €800

August 2014 University of Exeter Postgraduate Research Enhancement Fund – £500

November 2013 Genetics Society Junior Scientist Travel Grant – £750

April 2013 NoWPas 2013 – as a committee sourced £21,000

Teaching and Workshops

2019 – present Co-director, Workshop on Genomics, evomics, Czech Republic

2014 – 2018 Teaching Assistant, Workshop on Genomics, evomics, Czech Republic

2014 – 2017 Co-organiser, Population Variation Genetics, Earlham Institute (formerly The Genome Analysis Centre), Norwich, UK

2013 – 2017 Graduate Teaching Assistant – University of Exeter BIO2081: Bahamas Coral Reef Field Trip

2017 & 2018 Co-organiser, RADseq Data Analysis, Physalia, Berlin, Germany

2016 Co-organiser, RAD-Sequencing analysis workshop, NTNU University Museum, Trondheim, Norway

2015 Co-organiser, Advanced course in RADSeq analyses and data interpretation, Lund University, GENECO, Sweden

2015 Teaching Assistant, Wellcome Trust Short Read Genomics Workshop, Exeter, Devon, UK

2014 Teaching Assistant, NERC Population Genomics and Metagenomics Workshop, Devon, UK

Talks

March 2019 Invited Research Seminar, University of Oxford, UK – “Metal trout, Nassau grouper and Colourful guppies”

March 2018 Research Seminar (Evolution, Behaviour and Environment Theme), University of Sussex, UK – “Genomic adaptation in fishes”

November 2017 Invited Research Seminar, University of Brighton, UK

July 2017 Presentation at BIAZA Native Species Conference ‘A new tool for screening chytrid’, Paignton Zoo, UK

May 2017 Research Seminar, The Earlham Institute, Norwich, UK

March 2016 Overseas lab meeting, University of Illinois, Urbana-Champaign, USA

February 2016 Invited Research Seminar, NTNU University Museum, Trondheim, Norway

February 2016 Invited Research Seminar, University of Sheffield, UK

October 2015 Invited Research Seminar, Lund University, GENECO, Sweden

June 2015 Invited Research Seminar, The Genome Analysis Centre, Norwich, UK

December 2013 GW4 Ecology and Conservation meeting, University of Bristol, UK

Conferences

November 2018 Genotype to Phenotype to Fitness, The Genetics Society, University of Exeter, UK

April 2018 Ecological Genetics Group 62nd Annual Meeting, Imperial College London, UK

December 2017 PopGroup, University of Bristol, UK

September 2017 Conservation of Adaptive Potential and Functional Diversity, University of Durham, UK

July 2017 FSBI 50th Anniversary Symposium: Understanding Fish Populations, University of Exeter, UK

July 2017 BIAZA Native Species Conference, Paington Zoo, UK

July 2017 Amphibian Conservation Research Symposium (ACRS), University of Kent, UK

July 2016 FSBI Symposium: Fish, Genes & Genomes,  Bangor University, UK

December 2013 GW4 Ecology and Conservation meeting, University of Bristol, UK

September 2013 iEOS 2013 conference, University of Cardiff, UK

April 2013 NoWPaS 2013 (nowpas.eu), Machynlleth, UK

Outreach

Coordinator for 500 Women Scientists Brighton Pod (https://sites.google.com/view/500womenscientistsbrightonpod/home)

Blog Post for International Women’s Day – Find Allies, Be Wise; Navigating Academia as a woman (https://sussexresearchhive.wordpress.com/2018/03/05/5167/)

Speaker at Evolving late: A night of Evolution, Booth Museum of Natural History, Brighton (7th June 2018)

News & Media

– ‘Genetic secret of English salmon’

http://www.bbc.co.uk/news/science-environment-42894161

– ‘UK chalk-stream salmon genetically unique’

https://www.exeter.ac.uk/news/research/title_636110_en.html

– ‘New RAD-seq Revolution: New Method Optimises Analysis’
Biosciences Research News, 2017

http://biosciences.exeter.ac.uk/news/research/title_591600_en.html

– ‘International Success for Six Early Career Researchers’ Biosciences Research News, 2016

http://biosciences.exeter.ac.uk/news/research/title_544925_en.html

– ‘Pollution Spurs Rapid Adaptation in Trout’ 4th August 2015, Scientific American

www.scientificamerican.com/article/pollution-spurs-rapid-adaptation-in-t…

– ‘Fish genetically mutated by Cornish mining’ 17th May 2015, ITV.com; ITV News West Country

www.itv.com/news/westcountry/update/2015-05-17/fish-genetically-mutated-…

– Interview with BBC Radio Cornwall, 19th May 2015

– ‘The effects of metal pollution on fish’ 11th November 2014, NERC Planet Earth Podcast

http://planetearth.nerc.ac.uk/multimedia/story.aspx?id=1769

– ‘Mining pollution alters fish genetics in south west England’, Biosciences Research News, 2015

http://biosciences.exeter.ac.uk/news/archive/2015/title_451730_en.html

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