Josephine Paris

j.r.paris@exeter.ac.uk              @josephine_paris

(I am now a member of the Fraser Lab at the University of Exeter - https://biosciences.exeter.ac.uk/staff/profile/index.php?web_id=Josephin...)

My interests are in the use of molecular ecology and population genetics in understanding how species adapt to novel environments, particularly in a conservation and management context. I am especially interested in the use of genome-wide signals generated by next generation sequencing applications.

Current research

Many rivers in southwest England have high levels of toxic metals due to a long history of mining in the region. Metal naïve fish do not fare well in such waters and yet many of rivers harbour apparently healthy and numerous populations of brown trout (Salmo trutta L.). I am undertaking genetic analyses to uncover the adaptive traits associated with the metal tolerance ecotype using microsatellites, RADSeq and RNASeq.

Publications

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 L. 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.

Media & Press

'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

Qualifications and Awards

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

John Maynard Smith Award for Ecology & Conservation (2012)

BSc Ecology and Conservation (Hons) University of Sussex (First Class)

Small Grants

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

January 2018 Workshop on Genomics 2017, Cesky Krumlov, CZ

2012-2017 Graduate Teaching Assistant - University of Exeter BIO2081: Bahamas Coral Reef Field Trip

December 2017 RADseq Data Analysis, Physalia, Berlin, Germany

May 2017 Population Variation Genetics, Earlham Institute, Norwich, UK

January 2017 Workshop on Genomics 2017, Cesky Krumlov, CZ

May 2016 Population Variation Genetics: Experimental Strategies and Analysis, The Genome Analysis Centre (TGAC), Norwich, UK

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

January 2016 Workshop on Genomics 2016, Cesky Krumlov, CZ

October 2015 Advanced course in RADSeq analyses and data interpretation, Lund University, GENECO, Sweden

June 2015  Genotyping-by-sequencing, The Genome Analysis Centre (TGAC), Norwich, UK

February 2015 Wellcome Trust Short Read Genomics Workshop, Exeter, Devon, UK

January 2015 Workshop on Genomics 2015, Cesky Krumlov, CZ

October 2014 Genotyping-by-sequencing, The Genome Analysis Centre (TGAC), Norwich, UK

February 2014 NERC Population Genomics and Metagenomics Workshop, Devon, UK

Talks

January 2018 Talk at Popgroup51, University of Bristol

November 2017 Invited seminar at the University of Brighton

July 2017 Talk at FSBI 50th Anniversary Symposium, Understanding Fish Populations

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

May 2017 Seminar on RAD-seq in brown trout tolerance to metals, The Earlham Institute

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

February 2016 Invited talk at NTNU University Museum, Trondheim, Norway

February 2016 Invited seminar at Sheffield University EEE Theme - "Brown trout and heavy metals: the genetic basis of adaptation to Britain's mining history"

October 2015 Invited lecture at 'Advanced course in RADSeq analyses and data interpretation', Lund University, GENECO

June 2015 Invited speaker at TGAC Genotyping-by-sequencing course - "RADSeq: Identifying the genetic effects of metal toxicity in brown trout populations"

Workshops and Conferences

January 2018 Popgroup51, University of Bristol

September 2017 Conservation of Adaptive Potential and Functional Diversity

July 2017 FSBI 50th Anniversary Symposium, Understanding Fish Populations

July 2017 BIAZA Native Species Conference, Paington Zoo

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

July 2016 FSBI Symposium Fish, Genes & Genomes

January 2014 Workshop on Genomics, 2014 (evomics.org)

December 2013 GW4 Ecology and Conservation meeting

September 2013 iEOS 2013 conference (environmentalomics.org/ieos2013)

April 2013 NoWPaS 2013 (nowpas.eu)

Other responsibilities

BYOB: Bring Your Own Bioinformatics - Committee member

Early Career Research Network - Committee member

Biosciences Athena Swan - Past committee member

NoWPaS 2013 - Conference organiser

Previous work
I used microsatellites to characterise the genetic diversity of two Polish populations of the natterjack toad (Bufo calamita), supervised by Professor Trevor Beebee. My results were consistent with previous studies, confirming that B. Calamita survived in an ice-age refugium in Iberia, from which the population dispersed in a leptokurtic fashion, spreading north and east during the last interstadial.