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PUBMED results for "Bogdanove AJ[Author]"

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Primary articles

Cernadas, R.A., Doyle, E.L., Nino-Liu, D.O., Wilkins, K.E., Bancroft, T., Wang, L., Schmidt, C.L., Yang, B., White, F.F., Nettleton, D., Wise, R.P., and Bogdanove, A.J. (2014) Code-assisted discovery of TAL effector targets in bacterial leaf streak of rice reveals contrast with bacterial blight and a novel susceptibility gene. PLOS Pathogens 10: e1003972.

Doyle E.L., Hummel, A.W., Demorest Z.L., Starker .C.G, Voytas D.F., Bradley P., and Bogdanove A.J. (2013) TAL effector specificity for base 0 of the DNA target is altered in a complex, effector- and assay-dependent manner by substitutions for the tryptophan in cryptic repeat -1. PLOS ONE 2013, 8:e82120.

Wang H., Hu Y.-C., Markoulaki S., Welstead G.G., Cheng A.W., Shivalila, C.S., Pyntikova, T., Dadon, D.B., Voytas, D.F., Bogdanove, A.J., Page, D.C., and Jaenisch, R. (2013) TALEN-mediated editing of the mouse Y chromosome. Nat. Biotech. 31, 530–532.

Pogorelko, G., Lionetti, V., Fursova, O., Sundaram, R.M., Qi, M., Whitham, S.A., Bogdanove, A.J., Bellincampi, D., and Zabotina, O.A. (2013) Arabidopsis and Brachypodium transgenic plants expressing A. Nidulans acetylesterases have decreased degree of polysaccharide acetylation and increased resistance to pathogens. Plant Physiology 162:19-23.

Pliego, C., Nowara, D., Bonciani, G., Gheorghe, D.M., Xu, R., Surana, P., Whigham, E., Nettleton, D., Bogdanove, A.J., Wise, R.P., Schweizer, P., Bindschedler, L.V., and Spanu, P.D. (2013) Host-Induced Gene Silencing in barley powdery mildew reveals a class of ribonuclease-like effectors. Mol. Plant-Microbe Interact. 26:633-642.

Wang, L., Vinogradov, E., and Bogdanove, A.J. (2013) Requirement of the lipopolysaccharide O-chain biosynthesis gene wxocB for type III secretion and virulence of Xanthomonas oryzae pv. oryzicola. J. Bacteriol.195:1959-1969.

Zhang, Y., Zhang, F., Li, X., Baller, J.A., Qi, Y., Starker, C.G., Bogdanove, A.J., Voytas, D.F. (2013) Transcription activator-like effector nucleases enable efficient plant genome engineering. Plant Physiology 161:20-27. OPEN ACCESSopen access

Verdier, V., Triplett, L.R., Hummel, A.W., Corral, R., Cernadas, R.A., Schmidt, C.L., Bogdanove, A.J., and Leach, J.E. (2012). Transcription activator-like (TAL) effectors targeting OsSWEET genes enhance virulence on diverse rice (Oryza sativa) varieties when expressed individually in a TAL effector-deficient strain of Xanthomonas oryzae. New Phytologist 196, 1197-1207.

Christian, M.L., Demorest, Z.L., Starker, C.G., Osborn, M.J., Nyquist, M.D., Zhang, Y., Carlson, D.F., Bradley, P., Bogdanove, A.J. and Voytas, D.F. (2012) Targeting G with TAL effectors: a comparison of activities of TALENs constructed with NN and NK repeat variable di-residues. PLoS ONE, 7, e45383. OPEN ACCESS

Doyle, E.L., Booher, N.J., Standage, D.S., Voytas, D.F., Brendel, V.P., VanDyk, J.K., and Bogdanove, A.J. (2012) TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction. Nucl. Acids Res. 40(W1): W11-W122. OPEN ACCESScreative commons logo

Hummel, A.W., Doyle, E.L., and Bogdanove, A.J. (2012) Addition of TAL effector binding sites to a pathogen strain-specific rice bacterial blight resistance gene makes it effective against additional strains and against bacterial leaf streak. New Phytologist 195: 883-893.

Mak, A.S., Bradley, P., Cernadas, R. A., Bogdanove, A.J., and Stoddard, B.S. (2012) The crystal structure of TAL effector PthXo1 bound to its DNA target. Science 335:716-719.

See also DeFrancesco, L. (2012). TAL effector-DNA structure. Nat. Biotech. 30, 158-158.

Bogdanove, A.J.,Koebnik, R., Lu, H., Furutani, A., Angiuoli, S.V., Patil, P.B., Van Sluys, M.A., Ryan, R.P., Meyer, D.F., Han, S.W., Aparna, G., Rajaram, M., Delcher, A.L., Phillippy, A.M., Puiu, D., Schatz, M.C., Shumway, M., Sommer, D.D., Trapnell, C., Benahmed, F., Dimitrov, G., Madupu, R., Radune, D., Sullivan, S., Jha, G., Ishihara, H., Lee, S.W., Pandey, A., Sharma, V., Sriariyanun, M., Szurek, B., Vera-Cruz, C.M., Dorman, K.S., Ronald, P.C., Verdier, V., Dow, J.M., Sonti, R.V., Tsuge, S., Brendel, V.P., Rabinowicz, P.D., Leach, J.E., White, F.F., and Salzberg, S.L. (2011). Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp. J. Bacteriol. 193:5450-5464.

Cermak, T., Doyle, E.L., Christian, M., Wang, L., Zhang, Y., Schmidt, C., Baller, J.A., Somia, N.V., Bogdanove, A.J., and Voytas, D.F. (2011) Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting. Nucleic Acids Res. 39:e82.OPEN ACCESScreative commons logo

Christian, M., Cermak, T., Doyle, E.L., Schmidt, C., Zhang, F., Hummel, A., Bogdanove, A.J. and Voytas, D.F. (2010). Targeting DNA double-strand breaks with TAL effector nucleases. Genetics 186: 757-761.

Moscou, M.J. and Bogdanove, A.J. (2009). A simple cipher governs DNA recognition by TAL effectors. Science 326: 1501 (or pdf - no subscription required)

See also
About the Cover, Science 326 (5959)
Voytas, D.J. and Joung, J.K. (2009) DNA binding made easy. Science 326 (5959):1491-1492.
Pennisi, E. (2010). Sowing the seeds for the ideal crop. Science 327, 802-803.

Lu, H., Patil, P., Van Sluys, M.-A., White, F.F., Ryan, R.P., Dow, J.M., Rabinowicz, P., Salzberg, S.L., Leach, J.E., Sonti, R., Brendel, V., and Bogdanove, A.J. (2008). Acquisition and evolution of plant pathogenesis-associated gene clusters and candidate determinants of tissue-specificity in Xanthomonas. PLoS ONE 3:e3828.

Seo, Y.-S., Sriariyanun, M., Wang, L., Pfeiff, J., Phetsom, J., Lin, Y., Jung, K.-H., Chou, H.-H., Bogdanove, A.J., and Ronald, P.C. (2008). A two-genome microarray for the rice pathogens Xanthomonas oryzae pv. oryzae and X. oryzae pv. oryzicola and its use in the discovery of a difference in their regulation of hrp genes. BMC Microbiology 8:99.

Salzberg, S.L., Sommer, D.D., Schatz, M.C., Phillippy, A.M., Rabinowicz, P.D., Tsuge, S., Furutani, A., Ochiai, H., Delcher, A.L., Kelley, D., Madupu, R., Puiu, D., Radune, D., Shumway, M., Trapnell, C., Aparna, G., Jha, G., Pandey, A., Patil, P.B., Ishihara, H., Meyer, D.F., Szurek, B., Verdier, V., Koebnik, R., Dow, J.M., Ryan, R.P., Hirata, H., Tsuyumu, S., Lee, S.W., Ronald, P.C., Sonti, R.V., Van Sluys, M.-A., Leach, J.E., White, F.F., and Bogdanove, A.J. (2008) Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A. BMC Genomics 9:204.

See also Petty, N.K. (2008). Genome watch: Crops and robbers. Nat. Rev. Micro. 6, 716-717.

Patil, P.B., Bogdanove, A.J., and Sonti, R.V. (2007) The role of horizontal transfer in the evolution of a highly variable lipopolysaccharide biosynthesis locus in xanthomonads that infect rice, citrus and crucifers. BMC Evol. Biol. 7:243.

Wang, L. Makino, S., Subedee, A. and Bogdanove, A.J. (2007) Novel candidate virulence factors in rice pathogen Xanthomonas oryzae pv. oryzicola revealed by mutational analysis. Applied Env. Microbiol. 73:8023-8027).

Nissinen, R. M, Ytterberg, A. J., Bogdanove, A. J., van Wijk, K. J., and Beer, S. V. (2007) Analyses of the secretomes of Erwinia amylovora and selected hrp mutants reveal novel type III secreted proteins and an effect of HrpJ on extracellular harpin levels. Molecular Plant Pathol.8:55-67.

Wang, L., Eggenberger, A.L., Hill, J., and Bogdanove, A.J. (2006). Pseudomonas syringae effector avrB confers soybean cultivar-specific avirulence on Soybean mosaic virus adapted for transgene expression but effector avrPto does not. Mol. Plant-Microbe Interact.19:304-312.

Makino, S., Sugio, A., White, F.F., and Bogdanove, A.J. (2006). Inhibition of resistance gene mediated defense in rice by Xanthomonas oryzae pv. oryzicola. Mol. Plant-Microbe Interact.19:240-249.

Nino-Liu, D.O., Darnielle, L., and Bogdanove, A.J. (2005) A simple method of mass inoculation of rice effective for both pathovars of Xanthomonas oryzae, and the construction of comparable sets of host cDNA libraries spanning early stages of bacterial leaf blight and bacterial leaf streak. J. Phytopathol. 153:500-504.

Bogdanove, A.J. and Martin, G.B. (2000) AvrPto-dependent Pto-interacting proteins and AvrPto-interacting proteins in tomato. Proc. Natl. Acad. Sci. 97:8836-8840.

Bogdanove, A.J., Bauer, D.W., and Beer, S.V. (1998) Erwinia amylovora secretes DspE, a pathogenicity factor and functional AvrE homolog, through the Hrp (type III secretion) pathway. J. Bacteriol. 180:2244-2247.

Bogdanove, A.J., Kim, J.F., Wei Z.-M., Kolchinsky, P., Charkowski, A.O., Conlin, A.K., Collmer, A., and Beer, S.V. (1998) Homology and functional similarity of an hrp-linked pathogenicity locus, dspEF, of Erwinia amylovora and the avirulence locus avrE of Pseudomonas syringae pathovar tomato. Proc. Natl. Acad. Sci. 95:1325-1330.

Bogdanove, A.J., Wei, Z.-M., Zhao, L., and Beer, S.V. (1996) Erwinia amylovora secretes harpin via a Type III pathway and contains a homolog of yopN of Yersinia spp. J. Bacteriol. 178:1720-1730.

Bauer, D.W., Bogdanove, A.J., Beer, S.V., and Collmer. A. (1994) Erwinia chrysanthemi hrp genes and their involvement in soft rot pathogenesis and elicitation of the hypersensitive response. Mol. Plant-Microbe Interact. 7:573-581.

 

Review articles (return to top)

Doyle, E.L., Stoddard, B.L., Voytas, D.F., and Bogdanove, A.J. (2013) TAL effectors: highly adaptable phytobacterial virulence factors and readily engineered DNA targeting proteins. Trends Cell Biology 23:390-398.

Mak, A.N.-S., Bradley, P., Bogdanove, A.J., and Stoddard, B.L. (2012) TAL effectors: function, structure, engineering and applications. Curr. Opin. Struct. Biol. 23: 93 - 99.

Bogdanove, A.J. and Voytas, D.J. (2011) TAL effectors: customizable proteins for DNA targeting. Science 33:1843-1846 html or pdf (no subscription required)

Ryan, R.P., Vorhölter, F.-J., Potnis, N., Jones, J.B., Van Sluys, M.-A., Bogdanove, A.J., and Dow, J.M. (2011). Pathogenomics of Xanthomonas: understanding bacterial–plant interactions. Nat. Rev. Microbiol. 9:344-355.

Bogdanove, A.J., Schornack, S. and Lahaye, T. (2010). TAL effectors: finding plant genes for disease and defense. Curr. Opin. Plant Biol.13:394-401.

Ryan, R.P., Koebnik, R., Szurek, B., Boureau, T., Bernal, A., Bogdanove, A.J., and Dow, J.M. (2009). Passing GO (gene ontology) in plant pathogen biology: a report from the Xanthomonas Genomics Conference. Cell. Microbiol. 11:1689-1696.

Wise, R.P., Moscou, M.J., Bogdanove, A.J., and Whitham, S.A. (2007). Transcript profiling in host-pathogen interactions. Ann. Rev. Phytopathol. 45:329-369.

Niño-Liu, D. O., Ronald, P. C., and Bogdanove, A. J. (2006) Xanthomonas oryzae pathovars: model pathogens of a model crop. Molecular Plant Pathol. 7:303-324.

Martin, G.B., Bogdanove, A.J., Sessa, G. (2003) Understanding the functions of plant disease resistance proteins. Annu. Rev. Plant Biol. 54: 23-61.

Bogdanove, A.J. (2002) Pto update: recent progress on an ancient plant defense signaling pathway. Molecular Plant Pathol. 3: 283-288.

Bogdanove, A.J. (2002) Protein-protein interactions in pathogen recognition by plants. Plant Mol. Biol. 50:981-989.

 

Book chapters and conference proceedings (return to top)

Wilkins, K.E., Doyle, E.L., and Bogdanove, A.J. (2014). TAL effectors. In McGraw Hill Yearbook of Science and Technology 2014, J. Rennie. et al., eds (New York: McGraw Hill Education, pp. 375-378.

)Yang, B., and Bogdanove, A.J. (2013). Inoculation and virulence assay for bacterial blight and bacterial leaf streak of rice. In Methods in Molecular Biology, Vol. 956: Rice Protocols, Y. Yang, ed (New York Heidelberg Dordrecht London: Humana Press), pp. 249-255. doi: 10.1007/978-1-62703-194-3_18

Hummel, A.W., and Bogdanove, A.J. (2012). The roles of transcription activator–like (TAL) effectors in virulence and avirulence of Xanthomonas. In Molecular Plant Immunity, G. Sessa, ed (Oxford, UK: Wiley-Blackwell), pp. 107-122. doi: 10.1002/9781118481431.ch6

Niño-Liu, D.O., Bancroft, T., Rajaram, M.L., Moscou, M.J., Caldo, R., Schmidt, C.L., Dorman, K.S., Yang,B. Patil, P.B., Szurek,B., Koebnik, R., Van Sluys, M.-A., Leach, J.E., Salzberg, S.L., White, F.F., Nettleton, D., Wise, R.P., and Bogdanove, A.J. (2011). Targeting of the rice transcriptome by TAL effectors of Xanthomonas oryzae. Proceedings of the 10th Japan-US Seminar, Genome-Enabled Integration of Research in Plant Pathogen Systems, Oregon State University, Corvallis, Oregon, January 24-28, 2010. Wolpert, T., Shiraishi, T., Collmer, A.,Akimitsu, K., Glazebrook, J., eds. (St. Paul, MN, APS Press) pp. 193-206.

Meyer, D.F., and Bogdanove, A.J. (2009). Genomics-driven advances in Xanthomonas biology. In Plant Pathogenic Bacteria: Genomics and Molecular Biology, R.W. Jackson, ed. (Norwich, UK, Horizon Scientific Press), pp. 147-161.

Wang, L., Mahama, A., Darnielle, L., Eggenberger, A., Hill, J., and Bogdanove, A.J. (2005) Recognition of the bacterial effector protein AvrPto in soybean - a case of HR-independent resistance, in Genomic and Genetic Analysis of Plant Parasitism and Defense, Proceedings of the 9th Japan-US Seminar on Plant-Pathogen Interactions, Shizuoka, Japan, November 1-7, 2003 (St. Paul, MN: APS Press) pp. 103-114.

Devarenne, T.P., Riely, B.K., Lin, N.-C., Kim, Y.-J., Cohn, J., Mysore, K., Charkravarthy, S., Bogdanove, A.J., D'Ascenzo, M., Debbie, P., Tuori, B., Martin, G.B. (2002) Recognition of Pseudomonas effector proteins by tomato and profiling of plant gene expression changes that occur during plant-pathogen interactions, in Biology of Plant-Microbe Interactions, Vol. 3: Proceedings of the 10th International Symposium on Molecular Plant-Microbe Interactions, Madison, Wisconsin, USA, July 10-14, 2001 (St. Paul, MN: IS-MPMI) pp. 58-63.

Bogdanove, A.J., Gu, Y.-Q., Nakajima, Y. , Sessa, G. , and Martin, G.B. (1999) Early events in AvrPto/Pto-mediated activation of defense responses,   in Biology of Plant-Microbe Interactions: Proceedings of the 9th International Symposium on Molecular Plant-Microbe Interactions, Amsterdam, The Netherlands, July 25-30, 1999 (St. Paul, MN: IS-MPMI) pp. 238-242.

Bogdanove, A.J., Kim, J.F., and Beer, S.V. (1999) Disease-specific genes of Erwinia amylovora: keys to understanding pathogenesis and potential targets for disease control in Fire Blight and Its Causative Agent, Erwinia amylovora. J. L. Vanneste, ed. (Wallingford, UK:CAB International) pp. 163-177.

 

Letters (return to top)

Tremblay, J.P., Xiao, X., Aartsma-Rus, A., Barbas, C., Blau, H.M., Bogdanove, A.J., Boycott, K., Braun, S., Breakefield, X.O., Bueren, J.A., Buschmann, M., Byrne, B.J., Calos, M., Cathomen, T., Chamberlain, J., Chuah, M., Cornetta, K., Davies, K.E., Dickson, J.G., Duchateau, P., Flotte, T.R., Gaudet, D., Gersbach, C.A., Gilbert, R., Glorioso, J., Herzog, R.W., High, K.A., Huang, W., Huard, J., Joung, J.K., Liu, D., Liu, D., Lochmuller, H., Lustig, L., Martens, J., Massie, B., Mavilio, F., Mendell, J.R., Nathwani, A., Ponder, K., Porteus, M., Puymirat, J., Samulski, J., Takeda, S.i., Thrasher, A., VandenDriessche, T., Wei, Y., Wilson, J.M., Wilton, S.D., Wolfe, J.H., and Gao, G. (2013). Translating the genomics revolution: the need for an international gene therapy consortium for monogenic diseases. Mol. Ther. 21, 266-268.

Bogdanove, A.J., Beer, S.V., Bonas, U., Boucher, C.A., Collmer, A., Coplin, D.L., Cornelis, G.R., Huang, H.-C., Hutcheson, S.W., Panopoulos, N.J., and Van Gijsegem, F. (1996) Unified nomenclature for broadly conserved hrp genes of phytopathogenic bacteria. Mol. Microbiol 20:681-683.

 

Websites and web-based resources (return to top)

Doyle, E.L., Mistry, D., VanDyk, J., and Bogdanove, A.J. (2010 onward). “TAL Effector Nucleotide Targeter” at http://tale-nt.cac.cornell.edu.

Darnielle, L., Vogel, K., and Bogdanove, A.J. (2002 onward) "Functional genomics of rice susceptibility to bacterial pathogens" at www.public.iastate.edu/~ajbog/nsf.

Vogel, K., Darnielle, L., and Bogdanove, A.J. (2001 onward) "Bogdanove laboratory" at www.public.iastate.edu/~ajbog .

 


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