Dr. Ben Koop

Dr. Ben Koop
Office: PCH 041a

Areas of research focus

  • Genetic mechanisms of rediploidization in salmonids
  • Large scale genomics technologies
  • Fish  immune system systems
  • Transcriptomics and Bioinformatics
  • Diseases, particularly Sealice/Salmon genomic interactions

My interests lie in the fields of molecular biology, genetics and evolution of fish. Large multi-gene families and whole genome duplications from salmonid species are used to examine molecular mechanisms of change (gene conversion, duplication, deletion, mutation, etc.) as well as population genetic dynamics. Broad molecular evolutionary problems are examined using highly multidisciplinary laboratory and bioinformatic approaches.

  • Clinical Cancer
  • Advanced Cell Biology
  • Christensen, KA, EB Rondeau, DR Minkley, JS Leong, CM Nugent, RG Danzmann, MM Ferguson, A Stadnik, RH Devlin, R Muzzerall, M Edwards, WS Davidson, BF Koop. 2018. The Arctic charr (Salvelinus alpinus) genome and transcriptome. PLoS ONE 13(9): e0204076
  • Messmer, A, JS Leong, EB Rondeau, A Mueller, CA Despins, DR Minkley, MP Kent, S Lien, B Boyce, D Morrison, MD Fast, JD Norman, RG Danzmann, BF Koop. 2018. A 200K SNP chip reveals a novel Pacific salmon louse genotype linked to differential efficacy of emamectin benzoate. Marine Genomics 40; 45-57
  • Christensen KA, JS Leong, D Sakhrani1, CA Biagi1, DR Minkley, RE Withler, EB Rondeau, BF Koop and RH Devlin. 2018. Chinook salmon (Oncorhynchus tshawytscha) genome and transcriptome. PLoS ONE 13(4):e0195461
  • Le Luyer J, M Laporte, TD Beacham, KH Kaukinen, RE Withler, JS Leong, EB Rondeau, BF Koop, L Benatchez. 2017. Parallel epigenetic modifications induced by hatchery rearing in a Pacific Salmon. Proc Natl Acad Sci 114(49); 12964-12969.
  • Macqueen DJ*, CR Primmer*, RD Houston* … JM Yáñez. The FAASG Consortium, 2017. Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture. 2017. BMC Genomics 18:484
  • Lien S, BF Koop, SR Sandve, …, WS Davidson. 2016. Atlantic salmon genome evolution since ancestral whole-genome duplication. Nature 533:200-205 doi:10.1038/nature17164
  • Grimholt U., H Hauge, A Germundsson-Hauge, JS Leong and BF Koop. 2015. Chemokine receptors and their duplications in Atlantic salmon. Dev. Comp. Immunol. 49:79-95
  • Rondeau EB, DR Minkley, JS Leong, AM Messmer, JR Jantzen, KR von Schalburg, NH Bird, BF Koop. 2014. The genome and linkage map for the Northern pike (Esox lucius): conserved synteny revealed between the salmonid sister group and the Neoteleostei. PLoS ONE 9(7):e102089
  • Sutherland BJG, KC Hanson, JR Jantzen, BF Koop, CT Smith. 2014. Divergent immunity and energetic programs in the gills of migratory and resident Oncorhynchus mykiss. Molec. Ecol. 23(8):1952-1964