Julian Parkhill

Julian Parkhill
Born Julian Parkhill
September 23, 1964[1]
Leigh-on-Sea[1]
Fields
Institutions
Alma mater
Thesis Regulation of transcription of the mercury resistance operon of Tn501 (1991)
Known for ARTEMIS[5][6][7]
Notable awards
Website
www.sanger.ac.uk/research/faculty/jparkhill

Julian Parkhill (born 1964)[1] FRS[10] is a Head of Pathogen Genomics at the Wellcome Trust Sanger Institute in Cambridge, UK.[11][12][13][14][2][15][16]

Education

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[17] for research into bacterial resistance to mercury and copper.[3][4][18]

Research

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.[19][20][21][22][23][24][25][26][27][28][29][30][31] Research in the Parkill Laboratory has been funded the Wellcome Trust and the BBSRC.[32]

Awards and honours

Parkhill was elected a Fellow of the Academy of Medical Sciences (FMedSci) in 2009,[8] 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.[9] ”

Parkhill was elected a Fellow of the Royal Society (FRS) in 2014, his nomination 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.[10] ”

References

  1. ↑ 1.0 1.1 1.2 1.3 PARKHILL, Dr Julian. Who's Who 2015 (online Oxford University Press ed.). A & C Black, an imprint of Bloomsbury Publishing plc. (subscription required)
  2. ↑ 2.0 2.1 Julian Parkhill's publications indexed by Google Scholar, a free service provided by Google
  3. ↑ 3.0 3.1 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.
  4. ↑ 4.0 4.1 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.
  5. ↑ Rutherford, K.; Parkhill, J.; Crook, J.; Horsnell, T.; Rice, P.; Rajandream, M. A.; Barrell, B. (2000). "Artemis: Sequence visualization and annotation". Bioinformatics (Oxford, England) 16 (10): 944–945. doi:10.1093/bioinformatics/16.10.944. PMID 11120685.
  6. ↑ 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.
  7. ↑ 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.
  8. ↑ 8.0 8.1 Professor Julian Parkhill FRS FMedSci
  9. ↑ 9.0 9.1 Julian Parkhill AAM Fellow
  10. ↑ 10.0 10.1 10.2 "Dr Julian Parkhill FMedSci FRS". London: The Royal Society. Archived from the original on 2014-06-06.
  11. ↑ https://www.sanger.ac.uk/research/faculty/jparkhill/
  12. ↑ 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.
  13. ↑ List of publications from Microsoft Academic Search
  14. ↑ Julian Parkhill's publications indexed by the DBLP Bibliography Server at the University of Trier
  15. ↑ Julian Parkhill's publications indexed by the Scopus bibliographic database, a service provided by Elsevier.
  16. ↑ Professor Julian Parkhill visits the Wellcome Collection in London to unravel the Science behind the genome on YouTube
  17. ↑ Parkhill, Julian (1991). Regulation of transcription of the mercury resistance operon of Tn501 (PhD thesis). University of Bristol.(subscription required)
  18. ↑ 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. doi:10.1073/pnas.0402521101. PMC 470752. PMID 15213324.
  19. ↑ 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.
  20. ↑ 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. doi:10.1038/31159. PMID 9634230.
  21. ↑ 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. doi:10.1038/417141a. PMID 12000953.
  22. ↑ 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. doi:10.1038/nature08821. PMC 3779803. PMID 20203603.
  23. ↑ 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. doi:10.1038/35001088. PMID 10688204.
  24. ↑ 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. doi:10.1038/35059006. PMID 11234002.
  25. ↑ 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. doi:10.1038/35097083. PMID 11586360.
  26. ↑ 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. doi:10.1038/35101607. PMID 11677608.
  27. ↑ 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. doi:10.1038/35006655. PMID 10761919.
  28. ↑ 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.
  29. ↑ 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. doi:10.1073/pnas.1130426100. PMC 164681. PMID 12788972.
  30. ↑ 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.
  31. ↑ 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.
  32. ↑ Grants awarded to Julian Parkhill by the BBSRC