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2020

Perez-Quintero AL, Ortiz-Castro M, Wu G, Lang JM, Liu S, Chapman TA, Chang C, Ziegle J, Peng Z, White FF, Plazas MC. 2020. Genomic acquisitions in emerging populations of Xanthomonas vasicola pv. vasculorum infecting corn in the U.S. and Argentina. Phytopathology. (revision resubmitted)

Read, A.C.,  Moscou, M.J.,  Zimin, A.V., Pertea, G., Meyer, R.S., Purugganan, M.D., Leach, J.E., Triplett, L.R., Salzberg, S.L., Bogdanove, A.J. 2020. Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing.  PLoS Genetics (in press).

Dundore-Arias, J.P., Eloe-Fadrosh, E.A., Schriml, L.M., Beattie, G.A., Brennan, F.P., Busby, P.E., Calderon, R.B.,   Castle, S.C., Emerson, J.B.,  Everhart, S.E.,  Eversole, K.,  Frost, K.E., Herr, J.R., Huerta, A.I., Iyer-Pascuzzi, A.S., Kalil, A.K., Leach, J.E., Leonard, J., Maul, J.E., Prithiviraj, B., Potrykus, M., Redekar, N.R., Rojas, J.A.,  Silverstein, K.A.T., Tomso, D.J., Tringe, S.G., Vinatzer, B.A., Kinkel, L.L. 2020. Community-driven metadata standards for agricultural microbiome research. Phytobiomes Journal. doi.org/10.1094/PBIOMES-09-19-0051-P

Mangalea, M.R., Luna, E.K., Ziegle, J., Chang, C., Bosco-Lauth, A.M, Bowen, R.A., Leach, J.E., Borlee, B.R., 2020. Complete Genome Sequence of Pandoraea pnomenusa TF-18, a Multidrug-Resistant Organism Isolated from the Rhizosphere of Rice (Oryza sativa L. subsp. japonica). Microbiology Resource Announcements 9 (1) doi.org/10.1128/MRA.01008-19

 

2019

Juanillas, V., Dereeper, A., Beaume, N., Droc, G., Dizon, J., Mendoza, J.R., Perdon, J.P., Mansueto, L., Triplett, L., Lang, J. and Zhou, G., 2019. Rice Galaxy: an open resource for plant science. GigaScience8(5), p.giz028. doi.org/10.1093/gigascience/giz028

Karim, S., McNally, R.R., Nasaruddin, A.S., DeReeper, A., Mauleon, R., Charkowski, A.O., Leach, J.E., Ben-Hur, A. and Triplett, L.R., 2019. Development of automated primer design workflow Uniqprimer and diagnostic primers for the broad host range plant pathogen Dickeya dianthicolaPlant Disease, (ja). doi.org/10.1094/PDIS-10-18-1819-RE

Carvajal-Yepes, M., Cardwell, K., Nelson, A., Garrett, K.A., Giovani, B., Saunders, D.G.O., Kamoun, S., Legg, J.P., Verdier, V., Lessel, J. and Neher, R.A., 2019. A global surveillance system for crop diseases. Science364(6447), pp.1237-1239. doi: 10.1126/science.aaw1572

Roman-Reyna, V., Luna, E.K., Pesce, C., Vancheva, T., Chang, C., Ziegle, J., Bragard, C., Koebnik, R., Lang, J.M., Leach, J.E. and Jacobs, J.M., 2019. Genome Resource of Barley Bacterial Blight and Leaf Streak Pathogen Xanthomonas translucens pv. translucens strain UPB886. Plant disease, pp.PDIS-05. doi: 10.1094/PDIS-05-19-1103-A

Cohen, S., Luna, E.K,  Lang, J.M., Ziegle, J., Chang, C., Leach, J.E., Le-Saux, M., Portier, P., Koebnik, R., Jacobs, J.M., 2020. High-quality complete genome resource of Xanthomonas hyacinthi generated via long-read sequencing. Plant Disease doi.org/10.1094/PDIS-11-19-2393-A

Lang, J.M., Pérez-Quintero, A.L., Koebnik, R., DuCharme, E., Sarra, S., Doucoure, H., Keita, I., Ziegle, J., Jacobs, J.M., Oliva, R. and Koita, O., 2019. A pathovar of Xanthomonas oryzae infecting wild grasses provides insight into the evolution of pathogenicity in rice agroecosystems. Frontiers in Plant Science, 10, p.507. doi.org/10.3389/fpls.2019.00507

Long, J.J., Luna, E.K., Jackson, M., Wheat, W., Jahn, C.E., Leach, J.E., Interactions of free-living amoebae with the rice fungal pathogen, Rhizoctonia solani. BMC research notes 12 (1), 1-7 doi.org/10.1186/s13104-019-4802-2

Cohen, S.P., Leach, J.E. 2019. Abiotic and biotic stresses induce a core transcriptome response in rice. Scientific Reports. 9:6273. doi.org/10.1038/s41598-019-42731-8

Huerta, A. I., Cohen, S. P., Verdier, V., and Leach, J. E. 2019. Molecular genetics of bacterial blight and bacterial leaf streak and their impact on future control strategies. in: Rice diseases: Biology and selected management practices. T. W. Mew, H. Hibino, S. Savary, C. M. Vera Cruz, R. Opulencia and G. P. Hettel, eds. International Rice Research Institute, Los Baños, Philippines. PDF E-book: http://rice-diseases.irri.org

Klessig DF, Manohar M, Baby S, Koch A, Danquah WB, Luna E, Park HJ, Kolkman JM, Turgeon BG, Nelson R, Leach JE. Nematode ascaroside enhances resistance in a broad spectrum of plant–pathogen systems. Journal of Phytopathology. 2019 May;167(5):265-72.

Tonnessen, B. W., Bossa-Castro, A. M., Mauleon, R., Alexandrov, N., & Leach, J. E. 2019. Shared cis-regulatory architecture identified across defense response genes is associated with broad-spectrum quantitative resistance in rice. Scientific reports, 9(1), 1536.

2018

Cohen S.P., J.M. Jacobs, J.E. Leach. 2018. Spotlight: In planta bacterial transcriptomics predict plant disease outcomes. Trends in Plant Science,  23(9), pp.751-753, doi.org/10.1016/j.tplants.2018.06.008

Zarei, I., Luna, E., Leach, J., McClung, A., Vilchez, S., Koita, O. and Ryan, E., 2018. Comparative Rice Bran Metabolomics across Diverse Cultivars and Functional Rice Gene–Bran Metabolite Relationships. Metabolites, 8(4), p.63. doi: 10.3390/metabo8040063

Luna, E., van Eck, L., Campillo, T., Weinroth, M., Metcalf, J., Perez-Quintero, A.L., Botha, A.M., Thannhauser, T.W., Pappin, D., Tisserat, N.A., Lapitan, N.L., Argueso, C.T., Ode, P.J., Heck, M.L., and Leach, J.E. 2018. Bacteria Associated with Russian Wheat Aphid (Diuraphis noxia) Enhance Aphid Virulence to Wheat. Phytobiomes, 2(3), pp.151-164. doi.org/10.1094/PBIOMES-06-18-0027-R 

Cohen, S.P., Jacobs, J.M. and Leach, J.E., 2018. In Planta Bacterial Transcriptomics Predict Plant Disease Outcomes. Trends in plant science, 23(9), pp.751-753.

Long, J.J., Jahn, C.E., Sánchez-Hidalgo, A., Wheat, W., Jackson, M., Gonzalez-Juarrero, M. and Leach, J.E., 2018. Interactions of free-living amoebae with rice bacterial pathogens Xanthomonas oryzae pathovars oryzae and oryzicola. PloS one, 13(8), p.e0202941.

Tran, T.T., Perez-Quintero, A.L., Wonni, I., Carpenter, S.C., Yu, Y., Wang, L., Leach, J.E., Verdier, V., Cunnac, S., Bogdanove, A.J. and Koebnik, R., 2018. Functional analysis of African Xanthomonas oryzae pv. oryzae TALomes reveals a new susceptibility gene in bacterial leaf blight of rice. PLoS pathogens14(6), p.e1007092.

Bossa-Castro A, C. Tekete, C. Raghavan, E. Delorean, A. Dereeper, K. Dagno, O. Koita, G. Mosquera, H. Leung, V. Verdier, J.E. Leach. 2018. Allelic variation for broad-spectrum resistance and susceptibility to bacterial pathogens identified in a rice MAGIC population. Plant Biotechnology J (Epub ahead of print). doi: 10.1111/pbi.12895

2017

Cohen S.P., Liu H., Argueso C.T., Pereira A., Vera Cruz C., Verdier V. and Leach, J.E. 2017. RNA-Seq analysis reveals insight into enhanced rice Xa7-mediated bacterial blight resistance at high temperature. PLoS ONE12(11): e0187625

Broadfoot, M. Building a Better Harvest. Scientific American. 317, 66 – 73 (2017). Published online: 16 July 2017 | doi:10.1038/scientificamerican0817-66

Lang, J.M., E. DuCharme, J. Ibarra Caballero, E. Luna, T. Hartman, M. Ortiz-Castro, K. Korus,3, J. Rascoe, T.A. Jackson-Ziems, K. Broders, and J.E. Leach. 2017. Detection and characterization of Xanthomonas vasicola pv. vasculorum (Cobb 1894) comb. nov. causing bacterial leaf streak of corn in the United States. Phytopathology. 107(11): 1312-1321.

Shidore T., Broeckling C.D., Kirkwood J.S., Long J.J., Miao J., Zhao B., Leach J.E., Triplett L.R. 2017. The effector AvrRxo1 phosphorylates NAD in planta. PLoS Pathogens. doi: 10.1371/journal.ppat.1006442

Leach JE, Triplett LR, Argueso CT, Trivedi P. 2017. Communication in the Phytobiome. Cell. 169(4):587-596.

Michelmore, R.W., Coaker, G., Bart, R., Beattie, G.A., Bent, A., Bruce, T., Cameron, D., Dangl, J., Dinesh-Kumar, S., Edwards, R., Eves-van den Akker, S., Gassmann, W., Greenberg, J., Harrison, R., He, P., Harvey, J., Huffaker, A., Hulbert, S., Innes, R., Jones, J.D., Kaloshian, I., Kamoun, S., Katagiri, F., Leach, J.E., Ma, W., McDowell, J.M., Medford, J., Meyers, B., Nelson, R., Oliver, R.P., Qi, Y., Saunders, D., Shaw, M., Subudhi, P., Torrance, L., Tyler, B.M., Walsh, J. 2017. Foundational and translational research opportunities to improve plant health. Molecular Plant Microbe Interactions. 30(7): 515-516.

Korus, K., J. M. Lang, A. O. Adesemoye, C. Block, N. Pal, J. E. Leach and T. A. Jackson-Ziems. 2017.  First Report of Xanthomonas vasicola Causing Bacterial Leaf Streak on Corn in the United States. Plant Disease. 101(6): 1030.

Langlois, P.A., J. Snelling, J.P. Hamilton, C. Bragard, R. Koebnik, V. Verdier, L.R. Triplett, J. Blom, N.A. Tisserat and J.E. Leach. 2017. Characterization of the Xanthomonas translucens complex using draft genomes, comparative genomics, phylogenetic analysis, and diagnostic LAMP assays. Phytopathology. 107(5):519-527.

Busby P.E., Soman C., Wagner M.R., Friesen M.L., Kremer J., Bennett, A, Morsy, M., Eisen, J. A., Leach, J.E., Dangl, J. 2017. Research priorities for harnessing plant microbiomes in sustainable agriculture. PLoS Biology. 15(3): e2001793.  doi: 10.1371/journal.pbio.2001793

Tanger P., S. Klassen, J.P. Mojica, J.T. Lovell, B.T. Moyers, M. Baraoidan, M.E. Naredo, K.L. McNally, J. Poland, D.R. Bush, H. Leung, J.E. Leach and J.K. McKay. 2017. Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice. Sci. Rep. 7, 42839. doi: 10.1038/srep42839.

Nagel R, Turrini PC, Nett RS, Leach JE, Verdier V, Van Sluys MA, Peters RJ. 2017. An operon for production of bioactive gibberellin A4 phytohormone with wide distribution in the bacterial rice leaf streak pathogen Xanthomonas oryzae pv. oryzicola. New Phytologist.  doi: 10.1111/nph.14441

Vera Cruz, C.M., B. Cottyn, M.H. Nguyen, J. Lang, V. Verdier, T.W. Mew, J.E. Leach. 2017. Detection of Xanthomonas oryzae pv. oryzae, and X. oryzae pv. oryzicola in rice seeds (Chapter 8). In APS Manual on Detection of Plant Pathogenic Bacteria in Seed and Other Planting Material. APS Press, Minneapolis, MN. ISBN 978-0-89054-539-3.

2016

Ghazi IA, Zarei I, Mapesa JO, Wilburn JR, Leach JE, Rao S., Broeckling C., McClung A. and Ryan EP. 2016. Rice bran extracts inhibit invasion and intracellular replication of Salmonella typhimurium in mouse and porcine intestinal epithelial cells. Med Aromat Plants (Los Angel) 5: 271. doi: 10.4172/2167-0412.1000271.

Triplett LR, Shidore T, Long J, Miao J, Wu S, Han, Zhou C, Ishihara H, Li J, Zhao B, Leach JE. 2016. AvrRxo1 is a bifunctional type III secreted effector and toxin-antitoxin system component with homologs in diverse environmental contexts. PLoS One. doi.org/10.1371/journal.pone.0158856.

Triplett LR, Cohen SP, Heffelfinger C, Schmidt CL, Huerta A, Tekete C, Verdier V, Bogdanove AJ, Leach JE. 2016. A resistance locus in the American heirloom rice variety Carolina Gold Select is triggered by TAL effectors with diverse predicted targets and is effective against African strains of Xanthomonas oryzae pv. oryzicola. The Plant Journal 87(5):472-83 doi: 10.1111/tpj.13212.

Triplett, L and Leach, JE 2016. Host mechanisms for resistance to TAL effectors: Thinking outside the UPT box. Physiological and Molecular Plant Pathologydoi:10.1016/j.pmpp.2016.02.002.

Liu Q, Yang J, Zhang S, Zhao J, Feng A, Yang T, Wang X, Mao X, Dong J, Zhu X, Leung H, Leach JE, Liu B. 2016. OsGF14e positively regulates panicle blast resistance in rice. 2016. Biochemical and Biophysical Research Communications 471: 247-252.

Liu, Q, Yang, J, Zhang, S, Zhao, J, Feng, A, Yang, T, Wang, X, Mao, X, Dong, J, Zhu, X, Leung, H, Leach, JE, and Liu, B. 2016. OsGF14b positively regulates panicle blast resistance but negatively regulates leaf blast resistance in rice. Molecular Plant Microbe Interactions29(1):46-56.

2015

Booher, N.J., Carpenter, S.C.D., Sebra, R.P., Wang, L., Salzberg, S.L., Leach, J.E., Bogdanove, A.J. 2015. Single molecule real-time sequencing of Xanthomonas oryzae genomes reveals a dynamic structure and complex TAL (transcription activator-like) effector gene relationships. Microbial Genomics 1(4): doi:10.1099/mgen.0.000032 

Han, Q., Zhou, C., Wu, S., Liu, Y., Triplett, L., Miao, J., Tokuhisa, J., Deblais, L., Robinson, H., Leach, J.E., Li, J., Zhao, B. 2015. Crystal structure of Xanthomonas AvrRxo1-ORF1, a type III effector with a polynucleotide kinase domain, and its interactor AvrRxo1-ORF2. Structure. 23(10):1900-9 doi: 10.1016/j.str.2015.06.030.

Campillo, T., Luna, E., Portier, P., Fischer-Le Saux, M., Lapitan, N., Tisserat, N.A., Leach, J.E. 2015. Erwinia iniecta sp. nov., isolated from Russian wheat aphids (Diuraphis noxia). International Journal of Systemic Evolutionary Microbiology. 65(10):3625-33 doi: 10.1099/ijsem.0.000466.

Triplett L., Verdier, V., Campillo, T., Van Malderghem, C., Maes, M., Deblais, L., Corral, R., Koita, O., Cottyn, B., Leach, J.E. 2015. Characterization of a novel clade of Xanthomonas isolated from rice leaves in Mali and proposal of Xanthomonas maliensis sp. nov. Antonie van Leeuwenhoek. 107(4):869-881.

Tanger, P., Vega-Sánchez, M.E., Fleming, M., Tran, K., Singh, S., Abrahamson, J.B., Jahn, C.E., Santoro, N., Naredo, E.B., Baraoidan, M., Danku, J.M.C., Salt, D.E., McNally, K.L., Leung, H., Ronald, P.C., Bush, D.R., McKay, J.K., Leach, J.E. 2015. Cell wall composition of rice straw varies among environments, varieties, and tissue types: impacts on bioenergy potential. BioEnergy Research. DOI: 10.1007/s12155-014-9573-y.

Yu, C., Chen, H., Tian, F., Bi, Y., Rothstein, S.J., Leach, J.E., He, C. 2015. Identification of differentially-expressed genes of rice in overlapping responses to bacterial infection by Xanthomonas oryzae pv. oryzae and nitrogen deficiency. Journal of Integrated Agriculture. 14(5):888-899.

Tonnessen, B., Manosalva, P., Lang, J.M., Baraoidan, M., Bordeos, A., Oard, J., Hulbert, S.H., Leung, H. and Leach, J.E. 2015. Rice phenylalanine ammonia lyase 4 gene (OsPAL4) is associated with broad spectrum disease resistance. Plant Molecular Biology87(3):273-286.

Wiersma, A.T., Gaines, T.A., Preston, C., Hamilton, J.P., Giacomini, D., Buell, C.R., Leach, J.E. and Westra, P. 2015. Gene amplification of 5-enol-pyruvylshikimate-3-phosphate synthase in glyphosate-resistant Kochia scoparia. Planta. 241(2):463-74.

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