New comparative genomics tool from Haney Lab PDF Ryan Melnyk!: “PyParanoid: Scalable homolog detection from large genomic databases”


Haney Lab Publications

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(Haney Lab trainees underlined; *corresponding author)


Melnyk, R., A.#, Beskrovnaya, P.#, Liu, Z., Song, Y., and Haney, C. H*. (2019) Bacterially produced spermidine induces plant systemic susceptibility to pathogens. BioRxiv.   #equal contributions

Melnyk, R. A., Hossain, S. S., and Haney, C. H*. (2018). Convergent gain and loss of genomic islands drives lifestyle changes in plant-associated bacteria. BioRxiv.



Liu, Z. X., Beskrovnaya, P., Melnyk, R. A., Hossain, S. S.,  Khorasani, S., O’Sullivan, L.R., Wiesmann, C. L., Bush, J, Richard, J. D., and Haney, C. H*. (2018). A genome-wide screen identifies genes in rhizosphere-associated Pseudomonas required to evade plant defences.  mBioDOI: 10.1128/mBio.00433-18.   Liu et al. News Release

Lang, C, Smith, L., Haney, C. H., Long, S. R. (2018). Characterization of Novel Plant Symbiosis Mutants Using a New Multiple Gene-Expression Reporter Sinorhizobium meliloti Strain. Frontiers in Plant Science

Melnyk, R. A. and Haney, C. H*. (2018). Bacterial genomics of plant adaptation. Nature Genetics. 50 (2-4)

Melnyk, R. A. and Haney, C. H*. (2017). Plant Pathology: Plasmid powered evolutionary transitions.  eLife2017;6:e33383  DOI: 10.7554/eLife.33383.

Haney, C.H*., Weismann, C., Shapiro, L., Melnyk, R. A., O’Sullivan, L., Khorasani, S.,  Xiao, L., Han, J., Bush, J., Carillo, J, Pierce, N., Ausubel, F.M. (2017). Rhizosphere-associated Pseudomonas induce systemic resistance to herbivores at the cost of susceptibility to bacterial pathogens. Molecular Ecology. Oct 31. doi: 10.1111/mec.14400 

Haney, C. H. and Aususbel, F. M. (2015). Plant microbiome blueprints. Science. 349 (6250): 788-9.

Rellán-Álvarez, R., Lobet, G., Lindner, H., Pradier, P.L., Yee, M. C., Sebastian, J., Geng, Y., Trontin, C., LaRue, T., Schrager, A., Haney, C. H., Nieu, R., Maloof, J., Vogel, J., and Dinneny J. R. (2015) Multidimensional mapping of root system responses to soil environmental cues using a luminescence-based imaging system. Elife. doi: 10.7554/eLife.07597

Haney, C.H., Samuel, B. S., Bush, J and Ausubel, F.M. (2015). Associations with rhizosphere bacteria can confer an adaptive advantage to plants. Nature Plants. 1(6): 1-9

Haney, C.H., Urbach, J. and Ausubel, F.M. (2014). Innate Immunity in Plants and Animals. The Biochemist. 36(5):1-5.

Riely, B.K., Larrainzar, E., Haney, C.H., J.H., Gil-Quintana, E., González, E.M., Yu, H.J., David Tricoli, D., Ehrhardt, D.W., Long, S.R., and Cook, D.R. (2013). Development of tools for the biochemical characterization of the symbiotic receptor-like kinase DMI2. Molecular Plant-Microbe Interactions. 26(2):216-26.

Haney, C.H., Riely, B.K., Tricoli, D., Cook, D. R., Ehrhardt, D.W., and Long, S.R. (2011). Symbiotic rhizobia bacteria trigger a change in localization and dynamics of the Medicago truncatula receptor kinase LYK3. Plant Cell. 23(7):2774-87

Haney, C.H., and Long, S.R. (2010). Plant flotillins are required for infection by nitrogen-fixing bacteria. P.N.A.S. 107(1):478-83.