Julian Parkhill

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Julian Parkhill
Dr Julian Parkhill FMedSci FRS.jpg
Julian Parkhill in 2015
Born
Julian Parkhill

(1964-09-23) 23 September 1964 (age 56)[1]
Alma mater
Known forARTEMIS[2][3][4]
Awards
Scientific career
Fields
Institutions
ThesisRegulation of transcription of the mercury resistance operon of Tn501 (1991)
Websitesanger.ac.uk/people/directory/parkhill-julian

Julian Parkhill (born 1964)[1] FRS[7] is a Professor in the Department of Veterinary Medicine[11] at the University of Cambridge. He was previously head of Pathogen Genomics at the Wellcome Trust Sanger Institute.[12][13][14][15][8][16][17]

Education[edit]

Parkhill was educated at Westcliff High School for Boys,[1] the University of Birmingham and the University of Bristol where he was awarded a PhD in 1991[18] for research into the regulation of transcription of the mercury resistance operon.[9][10][19]

Research[edit]

Parkhill uses high throughput sequencing and phenotyping to study pathogen diversity and variation, how they affect virulence and transmission, and what they tell us about the evolution of pathogenicity and host–pathogen interaction.[20][21][22][23][24][25][26][27][28][29][30][31][32] Research in the Parkill Laboratory has been funded the Wellcome Trust, the Biotechnology and Biological Sciences Research Council (BBSRC)[33] and the Medical Research Council (MRC).[34]

Awards and honours[edit]

Parkhill was elected a Fellow of the Academy of Medical Sciences (FMedSci) in 2009,[5] and a Fellow of the American Academy of Microbiology (FAAM) in 2012.

Dr. Julian Parkhill is currently Head of Pathogen Genomics at the Wellcome Trust Sanger Institute. Over the last decade or so, his group has analysed the genomes of many bacteria of fundamental importance for human health, including the causative agents of tuberculosis, plague, typhoid fever, whooping cough, leprosy, botulism, diphtheria and meningitis, as well as nosocomial pathogens such as Clostridium difficile and MRSA, and food-borne pathogens such as Campylobacter jejuni, Salmonella Typhimurium and Yersinia enterocolitica. Their current research focuses on the application of high-throughput sequencing techniques to microbiology. They are currently sequencing very large collections of bacterial isolates with broad geographic and temporal spreads, linking genomic variation to epidemiology, acquisition of drug resistance and recent evolution. In addition, they are working with local and national clinical microbiology groups to build the foundations for the transfer of microbial sequencing to clinical and public health investigations. They are also applying sequencing technologies to phenotypic investigations, particularly saturation transposon mutagenesis, transcriptomics and high-throughput phenotyping. They collaborate widely, particularly with groups in developing countries where infectious diseases are endemic.[6]

Parkhill was elected a Fellow of the Royal Society (FRS) in 2014,[7] his certificate of election reads:

Julian Parkhill has played a major role in determining the reference genome sequences of many key bacterial pathogens, including Mycobacterium tuberculosis, Yersinia pestis and Salmonella typhi. As well as providing complete catalogues of the arsenal of genes carried by each bacterium, Parkhill's work has led to important insights into how bacterial genomes evolve and the effect of variation within supposedly homogeneous bacterial populations. In parallel, tools to understand and visualise genomic data have been developed, and freely disseminated worldwide. Over a decade, Parkhill has been at the forefront of bacterial genomics, most recently using new high throughput sequencing technologies to explore evolution and transmission in bacterial pathogens, and enable the clinical use of these approaches.[7]

References[edit]

  1. ^ a b c d "PARKHILL, Dr Julian". Who's Who. ukwhoswho.com. 2015 (online Oxford University Press ed.). A & C Black, an imprint of Bloomsbury Publishing plc. (subscription or UK public library membership required) (subscription required)
  2. ^ Rutherford, K.; Parkhill, J.; Crook, J.; Horsnell, T.; Rice, P.; Rajandream, M.-A.; Barrell, B. (2000). "Artemis: Sequence visualization and annotation". Bioinformatics. 16 (10): 944–5. doi:10.1093/bioinformatics/16.10.944. PMID 11120685.
  3. ^ Carver, T; Berriman, M; Tivey, A; Patel, C; Böhme, U; Barrell, B. G.; Parkhill, J; Rajandream, M. A. (2008). "Artemis and ACT: Viewing, annotating and comparing sequences stored in a relational database". Bioinformatics. 24 (23): 2672–6. doi:10.1093/bioinformatics/btn529. PMC 2606163. PMID 18845581.
  4. ^ Carver, T.; Harris, S. R.; Berriman, M.; Parkhill, J.; McQuillan, J. A. (2011). "Artemis: An integrated platform for visualization and analysis of high-throughput sequence-based experimental data". Bioinformatics. 28 (4): 464–469. doi:10.1093/bioinformatics/btr703. PMC 3278759. PMID 22199388.
  5. ^ a b "Fellow | Academy of Medical Sciences". Acmedsci.ac.uk. Archived from the original on 18 November 2016. Retrieved 18 November 2016.
  6. ^ a b "Julian Parkhill". Academy.asm.org. Retrieved 18 November 2016.
  7. ^ a b c d Anon (2014). "Professor Julian Parkhill FMedSci FRS". London: Royal Society. Archived from the original on 17 November 2015. One or more of the preceding sentences incorporates text from the royalsociety.org website where:

    "All text published under the heading 'Biography' on Fellow profile pages is available under Creative Commons Attribution 4.0 International License." --"Royal Society Terms, conditions and policies". Archived from the original on 25 September 2015. Retrieved 9 March 2016.CS1 maint: bot: original URL status unknown (link)

  8. ^ a b Julian Parkhill publications indexed by Google Scholar Edit this at Wikidata
  9. ^ a b Parkhill, J; Brown, N. L. (1990). "Site-specific insertion and deletion mutants in the mer promoter-operator region of Tn501; the nineteen base-pair spacer is essential for normal induction of the promoter by MerR". Nucleic Acids Research. 18 (17): 5157–62. doi:10.1093/nar/18.17.5157. PMC 332137. PMID 2169606.
  10. ^ a b Brown, N. L.; Camakaris, J; Lee, B. T.; Williams, T; Morby, A. P.; Parkhill, J; Rouch, D. A. (1991). "Bacterial resistances to mercury and copper". Journal of Cellular Biochemistry. 46 (2): 106–14. doi:10.1002/jcb.240460204. PMID 1717500. S2CID 40277026.
  11. ^ "Professor Julian Parkhill — Research in the Department of Veterinary Medicine". www.research.vet.cam.ac.uk. Retrieved 7 August 2019.
  12. ^ "Professor Julian Parkhill, FRS, FMedSci, Senior Group Leader". Archived from the original on 15 March 2016.
  13. ^ Parkhill, J. (2013). "What has high-throughput sequencing ever done for us?". Nature Reviews Microbiology. 11 (10): 664–5. doi:10.1038/nrmicro3112. PMID 23979431. S2CID 28613490.
  14. ^ List of publications from Microsoft Academic
  15. ^ Julian Parkhill at DBLP Bibliography Server Edit this at Wikidata
  16. ^ 57212237926 Julian Parkhill's publications indexed by the Scopus bibliographic database. (subscription required)
  17. ^ Professor Julian Parkhill visits the Wellcome Collection in London to unravel the Science behind the genome on YouTube
  18. ^ Parkhill, Julian (1991). Regulation of transcription of the mercury resistance operon of Tn501 (PhD thesis). University of Bristol. OCLC 931563576. ProQuest 301408708.(subscription required)
  19. ^ Holden, M. T. G.; Feil, E.; Lindsay, J.; Peacock, S.; Day, N.; Enright, M.; Foster, T.; Moore, C.; Hurst, L.; Atkin, R.; Barron, A.; Bason, N.; Bentley, S. D.; Chillingworth, C.; Chillingworth, T.; Churcher, C.; Clark, L.; Corton, C.; Cronin, A.; Doggett, J.; Dowd, L.; Feltwell, T.; Hance, Z.; Harris, B.; Hauser, H.; Holroyd, S.; Jagels, K.; James, K. D.; Lennard, N.; Line, A. (2004). "Complete genomes of two clinical Staphylococcus aureus strains: Evidence for the rapid evolution of virulence and drug resistance". Proceedings of the National Academy of Sciences. 101 (26): 9786–9791. Bibcode:2004PNAS..101.9786H. doi:10.1073/pnas.0402521101. PMC 470752. PMID 15213324. open access
  20. ^ Parkhill, J; Birney, E; Kersey, P (2010). "Genomic information infrastructure after the deluge". Genome Biology. 11 (7): 402. doi:10.1186/gb-2010-11-7-402. PMC 2926780. PMID 20670392.
  21. ^ Cole, S. T.; Brosch, R.; Parkhill, J.; Garnier, T.; Churcher, C.; Harris, D.; Gordon, S. V.; Eiglmeier, K.; Gas, S.; Barry, C. E.; Tekaia, F.; Badcock, K.; Basham, D.; Brown, D.; Chillingworth, T.; Connor, R.; Davies, R.; Devlin, K.; Feltwell, T.; Gentles, S.; Hamlin, N.; Holroyd, S.; Hornsby, T.; Jagels, K.; Krogh, A.; McLean, J.; Moule, S.; Murphy, L.; Oliver, K.; et al. (1998). "Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence". Nature. 393 (6685): 537–44. Bibcode:1998Natur.393..537C. doi:10.1038/31159. PMID 9634230.
  22. ^ Bentley, S. D.; Chater, K. F.; Cerdeño-Tárraga, A. -M.; Challis, G. L.; Thomson, N. R.; James, K. D.; Harris, D. E.; Quail, M. A.; Kieser, H.; Harper, D.; Bateman, A.; Brown, S.; Chandra, G.; Chen, C. W.; Collins, M.; Cronin, A.; Fraser, A.; Goble, A.; Hidalgo, J.; Hornsby, T.; Howarth, S.; Huang, C. -H.; Kieser, T.; Larke, L.; Murphy, L.; Oliver, K.; O'Neil, S.; Rabbinowitsch, E.; Rajandream, M. -A.; et al. (2002). "Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2)". Nature. 417 (6885): 141–7. Bibcode:2002Natur.417..141B. doi:10.1038/417141a. PMID 12000953. S2CID 4430218.
  23. ^ Qin, J.; Li, R.; Raes, J.; Arumugam, M.; Burgdorf, K. S.; Manichanh, C.; Nielsen, T.; Pons, N.; Levenez, F.; Yamada, T.; Mende, D. R.; Li, J.; Xu, J.; Li, S.; Li, D.; Cao, J.; Wang, B.; Liang, H.; Zheng, H.; Xie, Y.; Tap, J.; Lepage, P.; Bertalan, M.; Batto, J. M.; Hansen, T.; Le Paslier, D.; Linneberg, A.; Nielsen, H. B. R.; Pelletier, E.; Renault, P. (2010). "A human gut microbial gene catalogue established by metagenomic sequencing". Nature. 464 (7285): 59–65. Bibcode:2010Natur.464...59.. doi:10.1038/nature08821. PMC 3779803. PMID 20203603.
  24. ^ Parkhill, J.; Wren, B. W.; Mungall, K.; Ketley, J. M.; Churcher, C.; Basham, D.; Chillingworth, T.; Davies, R. M.; Feltwell, T.; Holroyd, S.; Jagels, K.; Karlyshev, A. V.; Moule, S.; Pallen, M. J.; Penn, C. W.; Quail, M. A.; Rajandream, M. A.; Rutherford, K. M.; Van Vliet, A. H. M.; Whitehead, S.; Barrell, B. G. (2000). "The genome sequence of the food-borne pathogen Campylobacter jejuni reveals hypervariable sequences". Nature. 403 (6770): 665–8. Bibcode:2000Natur.403..665P. doi:10.1038/35001088. PMID 10688204.
  25. ^ Cole, S. T.; Eiglmeier, K.; Parkhill, J.; James, K. D.; Thomson, N. R.; Wheeler, P. R.; Honoré, N.; Garnier, T.; Churcher, C.; Harris, D.; Mungall, K.; Basham, D.; Brown, D.; Chillingworth, T.; Connor, R.; Davies, R. M.; Devlin, K.; Duthoy, S.; Feltwell, T.; Fraser, A.; Hamlin, N.; Holroyd, S.; Hornsby, T.; Jagels, K.; Lacroix, C.; MacLean, J.; Moule, S.; Murphy, L.; Oliver, K.; Quail, M. A. (2001). "Massive gene decay in the leprosy bacillus". Nature. 409 (6823): 1007–1011. Bibcode:2001Natur.409.1007C. doi:10.1038/35059006. PMID 11234002. S2CID 4307207.
  26. ^ Parkhill, J.; Wren, B. W.; Thomson, N. R.; Titball, R. W.; Holden, M. T. G.; Prentice, M. B.; Sebaihia, M.; James, K. D.; Churcher, C.; Mungall, K. L.; Baker, S.; Basham, D.; Bentley, S. D.; Brooks, K.; Cerdeño-Tárraga, A. M.; Chillingworth, T.; Cronin, A.; Davies, R. M.; Davis, P.; Dougan, G.; Feltwell, T.; Hamlin, N.; Holroyd, S.; Jagels, K.; Karlyshev, A. V.; Leather, S.; Moule, S.; Oyston, P. C. F.; Quail, M.; et al. (2001). "Genome sequence of Yersinia pestis, the causative agent of plague". Nature. 413 (6855): 523–7. Bibcode:2001Natur.413..523P. doi:10.1038/35097083. PMID 11586360.
  27. ^ Parkhill, J.; Dougan, G.; James, K. D.; Thomson, N. R.; Pickard, D.; Wain, J.; Churcher, C.; Mungall, K. L.; Bentley, S. D.; Holden, M. T. G.; Sebaihia, M.; Baker, S.; Basham, D.; Brooks, K.; Chillingworth, T.; Connerton, P.; Cronin, A.; Davis, P.; Davies, R. M.; Dowd, L.; White, N.; Farrar, J.; Feltwell, T.; Hamlin, N.; Haque, A.; Hien, T. T.; Holroyd, S.; Jagels, K.; Krogh, A.; et al. (2001). "Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18". Nature. 413 (6858): 848–52. Bibcode:2001Natur.413..848P. doi:10.1038/35101607. PMID 11677608.
  28. ^ Parkhill, J.; Achtman, M.; James, K. D.; Bentley, S. D.; Churcher, C.; Klee, S. R.; Morelli, G.; Basham, D.; Brown, D.; Chillingworth, T.; Davies, R. M.; Davis, P.; Devlin, K.; Feltwell, T.; Hamlin, N.; Holroyd, S.; Jagels, K.; Leather, S.; Moule, S.; Mungall, K.; Quail, M. A.; Rajandream, M. -A.; Rutherford, K. M.; Simmonds, M.; Skelton, J.; Whitehead, S.; Spratt, B. G.; Barrell, B. G. (2000). "Complete DNA sequence of a serogroup a strain of Neisseria meningitidis Z2491". Nature. 404 (6777): 502–6. Bibcode:2000Natur.404..502P. doi:10.1038/35006655. PMID 10761919. S2CID 4430718.
  29. ^ Parkhill, J.; Wren, B. W. (2011). "Bacterial epidemiology and biology - lessons from genome sequencing". Genome Biology. 12 (10): 230. doi:10.1186/gb-2011-12-10-230. PMC 3333767. PMID 22027015.
  30. ^ Garnier, T.; Eiglmeier, K.; Camus, J. -C.; Medina, N.; Mansoor, H.; Pryor, M.; Duthoy, S.; Grondin, S.; Lacroix, C.; Monsempe, C.; Simon, S.; Harris, B.; Atkin, R.; Doggett, J.; Mayes, R.; Keating, L.; Wheeler, P. R.; Parkhill, J.; Barrell, B. G.; Cole, S. T.; Gordon, S. V.; Hewinson, R. G. (2003). "The complete genome sequence of Mycobacterium bovis". Proceedings of the National Academy of Sciences. 100 (13): 7877–82. Bibcode:2003PNAS..100.7877G. doi:10.1073/pnas.1130426100. PMC 164681. PMID 12788972.
  31. ^ Parkhill, J.; Sebaihia, M.; Preston, A.; Murphy, L. D.; Thomson, N.; Harris, D. E.; Holden, M. T. G.; Churcher, C. M.; Bentley, S. D.; Mungall, K. L.; Cerdeño-Tárraga, A. M.; Temple, L.; James, K.; Harris, B.; Quail, M. A.; Achtman, M.; Atkin, R.; Baker, S.; Basham, D.; Bason, N.; Cherevach, I.; Chillingworth, T.; Collins, M.; Cronin, A.; Davis, P.; Doggett, J.; Feltwell, T.; Goble, A.; Hamlin, N.; et al. (2003). "Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica". Nature Genetics. 35 (1): 32–40. doi:10.1038/ng1227. PMID 12910271.
  32. ^ Field, D.; Garrity, G.; Gray, T.; Morrison, N.; Selengut, J.; Sterk, P.; Tatusova, T.; Thomson, N.; Allen, M. J.; Angiuoli, S. V.; Ashburner, M.; Axelrod, N.; Baldauf, S.; Ballard, S.; Boore, J.; Cochrane, G.; Cole, J.; Dawyndt, P.; De Vos, P.; Depamphilis, C.; Edwards, R.; Faruque, N.; Feldman, R.; Gilbert, J.; Gilna, P.; Glöckner, F. O.; Goldstein, P.; Guralnick, R.; Haft, D.; et al. (2008). "The minimum information about a genome sequence (MIGS) specification". Nature Biotechnology. 26 (5): 541–7. doi:10.1038/nbt1360. PMC 2409278. PMID 18464787.
  33. ^ Anon (2014). "Grants awarded to Julian Parkhill by the BBSRC". BBSRC. Archived from the original on 4 March 2016.
  34. ^ Anon (2014). "UK Government grants awarded to Julian Parhill". Swindon: Research Councils UK. Archived from the original on 21 April 2015.