Shaun Clare

Shaun is from the United Kingdom and has worked in barley research since 2015 having completed his MSc at the John Innes Centre/University of East Anglia/The Sainsbury Lab. He completed his PhD in Spring 2022 under Bob Brueggeman working on both barley and a pathogen that causes the barley disease known as spot form net blotch. After his PhD he ventured off to Oregon to develop his skills in clonal crops such as hops, raspberries and blueberries before returning to the lab in June 2023.

His main skills lie in bioinformatics that aides in marker development, mapping and gene validation to accelerate the breeding program. His research projects iaim to decipher complex genetic phenomena that include identifying a gene that results in extreme susceptibility in first generation seed and resistance/suspectbility gene cluster progeny lines from two resistant lines to be highly susceptible. Understanding these mechanisms will help us breed barley varieties that are more resistant to pests without the use of pesticides.


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  • Massman, C., Maughan, P. J., Nandety, R. S., Clare, S. J., Fielder, J. D., Hayes, P. M. (2024). Exploratory genomic sequence analysis reveals structural differences at key loci for growth habit, seed dormancy, and rust resistance in barley. Genet Resour Crop Evol. doi: 10.1007/s10722-024-01875-x
  • Clare, S. J., Driskill, M., Millar, T. R., Chagné, D., Montanari, S., Thomson, S., Espley, R. V., Muñoz, P., Benevenuto, J., Zhao, D, Sheehan, M. J., Mengist, M. F., Rowland, L. J., Ashrafi, H., Melmaiee, K., Kulkarni, K. P., Babiker, E., Main, D., Olmstead, J. W., Gilbert, J. L., Havlak, P., Hung, H., Kniskern, J., Percival, D., Edger, P., Iorizzo, M., Bassil, N. V. (2024). Development of a targeted genotyping platform for reproducible results within tetraploid and hexaploid blueberry. Front. Hortic. 2:1339310. doi: 10.3389/fhort.2023.1339310
  • Clare, S. J., King, R. M., Tawril, A., Havill, J. S., Muehlbauer, G. J., Carey, S. B., Harkess, A., Bassil, N., Altendorf, K. R. (2024). Affordable and convenient diagnostic marker to identify male and female hops. G3 Genes|Genomes|Genetics. doi: 10.1093/g3journal/jkad216
  • Bassil, N., King, R., Nyberg, A., Zurn, J., Clare, S., Reinhold, L., Postman, J., Gilmore, B., Flores, G., Volk, G. M., Jenderek, M., Montanari, S., Changé, D., Bus, V., Brewer, L., Dardick, C., Gottschalk, C., Durel, C.-E., Denancé, C. (2023). Progress on the molecular characterization of the USDA National Pear Collection. Acta Hortic. 1384: 273-280. doi: 10.17660/ActaHortic.2023.1384.36
  • Clare, S. J., King, R. M., Hardigan, M., Dossett, M., Montanari, S., Changé, D., Ochsenfeld, C., Britton, C., Bassil, N. (2023). Development of KASP fingerprinting panel for clonal identification in red raspberry (Rubus idaeus L.). Plant Breed. 1-11. doi: 10.1111/pbr.13141
  • Yuzon, J. D., Wyatt, N. A., Vasighzadeh, A., Clare, S. J., Navratil, E., Friesen, T. L., Stukenbrock, E. H. 2023. Hybrid inferiority and genetic incompatibilities drive divergence of fungal pathogens infecting the same host. Genetics. doi: 10.1093/genetics/iyad037
  • Clare, S.J., A. Çelik Oğuz, K. Effertz, A. Karakaya, M.R. Azamparsa, R.S. Brueggeman. 2023. Wild barley (Hordeum spontaneum) and landraces (Hordeum vulgare) from Turkey contain an abundance of novel Rhynchosporium commune resistance loci. Theor. Appl. Genet. 136: 15 doi: 10.1007/s00122-023-04245-w

↳ Research Square. doi: 10.21203/

  • Holden, S., Bergum, M., Green, P., Bettgenhaeuser, J., Hernández-Pinzón, I, Thind, A., Clare, S. J., Russell, J. M., Hubbard, A., Taylor, J., Smoker, M., Gardiner, M., Civolani, L., Cosenza, F., Rosignoli, S., Strugala, R., Molnár, I., Šimková, H., Doležel, J., Schaffrath, U., Barrett, M., Salvi, S., Moscou, M. J. 2022. A lineage-specific Exo70 is required for receptor kinase-mediated immunity in barley. Science Advances. 8 (27). doi: 10.1126/sciadv.abn7258

↳  BioRxiv: doi:10.1101/2021.12.19.473371

  • Clare, S. J., Duellman K. M., Richards, J. K., Sharma Poudel, R., Merrick, L. F., Friesen, T. L., Brueggeman, R. S. (2022). Association mapping reveals a reciprocal virulence/avirulence locus within diverse US Pyrenophora teres f. maculata isolates. BMC Genomics. 23 (1): 1-17. doi: 10.1186/s12864-022-08529-1
  • Effertz, K., S. J. Clare, S. M. Harkins, and R. S. Brueggeman. (2021). Understanding plant-pathogen interactions in net blotch infection of cereals. In Achieving Durable Disease Resistance in Cereals, R. Oliver, ed. (Cambridge, UK: Burleigh Dodds Science Publishing Limited), pp. 1-36.
  • Clare, S. J., Çelik Oğuz, A., Effertz, K., Sharma Poudel, R., See, D., Karakaya, A., Brueggeman, R. S. (2021). Genome wide association mapping of Pyrenophora teres f. maculata and Pyrenophora teres f. teres resistance loci utilizing natural Turkish wild and landrace barley populations. G3 Genes|Genomes|Genetics. doi: 10.1093/g3journal/jkab269

BioRxiv. doi: 10.1101/2021.06.07.447398

  • Smertenko, A., Clare, S. J., Effertz, K., Parish, A., Ross, A., Schmidt, S. (2021). A guide to plant TPX2-like and WAVE-DAMPENED2-like proteins. J. of Exp. Bot. doi: 10.1093/jxb/eraa513
  • Tamang, P., Richards, J. K., Solanki, S., Ameen, G., Sharma Poudel, R., Deka, P., Effertz, K., Clare, S., Hegsted, J., Bezbaruah, A. N., Li, X., Horsley, R. D. Friesen, T. L., Brueggeman, R. S. (2021). The barley HvWRKY6 transcription factor is required for resistance against Pyrenohpora teres f. teres. Front. Genet. doi: 0.3389/fgene.2020.601500
  • Carter, A. H., Allan, R. E., Shelton, G. B., Burke, A. B., Balow, K. A., Hagemeyer, K. E., X. M. Chen., X. M., Engle, D., Garland‐Campbell, K. A., Morris, C. F., Murray, T. D., Paulitz, T., Clare, S. J., Klarquist, E .F. (2020) How ‘Madsen’ has shaped Pacific Northwest wheat and beyond. J. of Plant Reg. 14 (3):223-233. doi: 10.1002/plr2.20049
  • Goodman, T., Nayar, S. G., Clare, S., Mikolajczak, M., Rice, R., Mansour, S., Bellusci, S., Hajihosseini, M. K. (2020) Fibroblast growth factor 10 is a negative regulator of postnatal neurogenesis in the mouse hypothalamus. Development. 147. 147: dev180950 doi: 10.1242/dev.180950
  • Clare, S. J., Wyatt, N. A., Brueggeman, R. S., Friesen, T. L. (2020) Research advances in the Pyrenophora teres-barley interaction. Mol. Plant. Pathol. 21(2): 272-288. doi: /10.1111/mpp.12896
  • Clare, S., Kitcher, W., Gardiner, M., Green, P., Hubbard, A., Moscou, M. (2016) Defining the genetic architecture of stripe rust resistance in the barley accession HOR 1428. BioRxiv. doi: 10.1101/093773