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Click to download pdf files 2024 Toghani, A., Frijters, R., Bozkurt, T.O., Terauchi, R., Kamoun, S. and Sugihara, Y. 2024. Can AI modelling of protein structures distinguish between sensor and helper NLR immune receptors? bioRxiv, doi: https://doi.org/10.1101/2024.11.24.625045. OpenPlantNLR dataset Madhuprakash, J., Toghani, A., Contreras, M.P., Posbeyikian, A., Richardson, J., Kourelis, J., Bozkurt, T.O., Webster, M.W., and Kamoun, S. 2024. A disease resistance protein triggers oligomerization of its NLR helper into a hexameric resistosome to mediate innate immunity. Science Advances, 10:eadr2594. bioRxiv preprint. Zenodo supplement.. Selvaraj, M., Toghani, A., Pai, H., Sugihara, Y., Kourelis, J., Yuen, E.L.H., Ibrahim, T., Zhao, H., Xie, R., Maqbool, A., De la Concepcion, J.C., Banfield, M.J., Derevnina, L., Petre, B., Lawson, D.M., Bozkurt, T.O., Wu, C.-H. Kamoun, S., and Contreras, M.P. 2024. Activation of plant immunity through conversion of a helper NLR homodimer into a resistosome. PLOS Biology, 22:e3002868. bioRxiv preprint. Yuen, E.L.H., Tumtas, Y., King, F., Ibrahim, T., Chan, L.I., Evangelisti, E., Tulin, F., Sklenar, J., Menke, F., Kamoun, S., Bubeck, D., Schornack, S., and Bozkurt, T.O. 2024. An oomycete effector co-opts a host RabGAP protein to remodel pathogen interface and subvert defense-related secretion. Science Advances, 10:eado9516. bioRxiv preprint. Srivastava, V., Patra, K., Pai, H., Aguilar-Pontes, M.V., Berasategui, A., Kamble, A., Di Pietro, A., and Redkar, A. 2024. Molecular dialogue during host manipulation by the vascular wilt fungus Fusarium oxysporum. Annual Review of Phytopathology, 62:97-126. [Lab member publication] Ibrahim, T., Yuen, E.L.H., Wang, H.Y., King, F.J., Toghani, A., Kourelis, J., Vuolo, C., Adamkova, V., Castel, B., Jones, J.D.G., Wu, C.-H., Kamoun, S. and Bozkurt, T.O. 2024. A helper NLR targets organellar membranes to trigger immunity. bioRxiv, doi: https://doi.org/10.1101/2024.09.19.613839. OpenPlantNLR dataset Huang, C.-Y., Huang, Y.-S., Sugihara, Y., Wang, H.-Y., Huang, L.T., Lopez-Agudelo, J.C., Chen, Y.-F., Lin, K.-Y., Chiang, B.-J., Toghani, A., Kourelis, J., Wang, C.-H., Derevnina, L., and Wu. C.-H. 2024. Subfunctionalization of NRC3 altered the genetic structure of the Nicotiana NRC network. PLOS Genetics 20:e1011402 bioRxiv preprint. [Lab member publication] Canham, J., Win, J., GetGenome Network, and Kamoun, S. 2024. GetGenome: Overcoming inequalities in access to genomics technology. PLOS Biology, 22:e3002804. Barragan, A.C., Latorre, S.M., Malmgren, A., Harant, A., Win, J., Sugihara, Y., Burbano, H.A., Kamoun, S., and Langner, T. 2024. Multiple horizontal mini-chromosome transfers drive genome evolution of clonal blast fungus lineages. Molecular Biology and Evolution, 41:msae164. bioRxiv preprint. Sakai, T., Toghani, A., and Adachi H. 2024. Phylogenomics of plant NLR immune receptors to identify functionally conserved sequence motifs. Bio-protocol, 14:e5023. [Lab member publication] Zdrzalek, R., Xi, Y., Langner, T., Bentham, A.R., Petit-Houdenot, Y., De la Concepcion, J.C., Harant, A., Shimizu, M., Were, V., Talbot, N.J., Terauchi, R., Kamoun, S., and Banfield, M.J. 2024. Bioengineering a plant NLR immune receptor with a robust binding interface towards a conserved fungal pathogen effector. Proceedings of the National Academy of Sciences USA, 121:e2402872121. bioRxiv preprint. Kourelis, J., Schuster, M., Demir, F., Mattinson, O., Krauter, S., Kahlon, P.S., O'Grady, R., Royston, S., Bravo-Cazar, A.L., Mooney, B.C., Huesgen, P.F., Kamoun, S., and van der Hoorn, R.A.L. 2024. Bioengineering secreted proteases converts divergent Rcr3 orthologs and paralogs into extracellular immune co-receptors. The Plant Cell, koae183. bioRxiv preprint. Sugihara, Y., Kourelis, J., Contreras, M.P., Pai, H., Selvaraj, M., Toghani, A., Martinez-Anaya, C., and Kamoun, S. 2024. Helper NLR immune protein NRC3 evolved to evade inhibition by a cyst nematode virulence effector. bioRxiv, doi: https://doi.org/10.1101/2024.06.16.598756. De la Concepcion, J.C., Langner, T., Fujisaki, K., Yan, X., Were, V., Lam, A.H.C., Saado, I., Brabham, H., Win, J., Yoshida, K., Talbot, N.J., Terauchi, R., Kamoun, S, and Banfield, M.J. 2024. Zinc-finger (ZiF) fold secreted effectors form a functionally diverse family across lineages of the blast fungus Magnaporthe oryzae. PLOS Pathogens, 20:e1012277. bioRxiv preprint. Sakai, T., Contreras, M.P., Martinez-Anaya, C., Luedke, D., Kamoun, S., Wu, C.-H., and Adachi, H. 2024. The NRC0 gene cluster of sensor and helper NLR immune receptors is functionally conserved across asterid plants. The Plant Cell, koae154. bioRxiv preprint. Contreras, M.P., Pai, H., Thompson, R., Marchal, C., Claeys, J., Adachi, H., and Kamoun, S. 2023. The nucleotide binding domain of NRC-dependent disease resistance proteins is sufficient to activate downstream helper NLR oligomerization and immune signaling. New Phytologist, https://doi.org/10.1111/nph.19818. bioRxiv preprint. Chia, K.S., Kourelis, J., Teulet, A., Vickers, M., Sakai, T., Walker, J.F., Schornack, S., Kamoun, S., and Carella, P. 2024. The N-terminal domains of NLR immune receptors exhibit structural and functional similarities across divergent plant lineages. The Plant Cell, koae113. bioRxiv preprint. Avissar-Whiting, M., Belliard, F., Bertozzi, S.M., Brand, A., Brown, K., Clement-Stoneham, G., Dawson, S., Dey, G., Ecer, D., Edmunds, S.C., Farley, A., Fischer, T.D., Franko, M., Fraser, J.S., Funk, K., Ganier, C., Harrison, M., Hatch, A., Hazlett, H., Hindle, S., Hook, D.W., Hurst, P., Kamoun, S., Kiley, R., Lacy, M.M., LaFlamme, M., Lawrence, R., Lemberger, T., Leptin, M., Lumb, E., MacCallum, C.J., Marcum, C.S., Marinello, G., Mendonca, A., Monaco, S., Neves, K., Pattinson, D., Polka, J.K., Puebla, I., Rittman, M., Royle, S.J., Saderi, D., Sever, R., Shearer, K., Spiro, J.E., Stern, B., Taraborelli, D., Vale, R., Vasquez, C.G., Waltman, L,, Watt, F.M., Weinberg, Z.Y., and Williams, M. 2024. Recommendations for accelerating open preprint peer review to improve the culture of science. PLOS Biology, 22:e3002502. Surovy, M.Z., Dutta, S., Mahmud, N.U., Gupta, D.R., Farhana, T., Paul, S.K., Win, J., Dunlap, C., Oliva, R., Rahman, M., Sharpe, A.G., and Islam, T. 2024. Biological control potential of worrisome wheat blast disease by the seed endophytic bacilli. Frontiers in Microbiology, 15:1336515. [Lab member publication] Oikawa, K., Fujisaki, K., Shimizu, M., Takeda, T., Nemoto, K., Saitoh, H., Hirabuchi, A., Hiraka, Y., Bialas, A., Langner, T., Kellner, R., Bozkurt, T.O., Cesari, S., Kroj, T., Banfield, M.J., Kamoun, S., and Terauchi, R. 2024. The blast pathogen effector AVR-Pik binds and stabilizes rice heavy metal-associated (HMA) proteins to co-opt their function in immunity. bioRxiv, doi: https://doi.org/10.1101/2020.12.01.406389. Were, V., Yan, X., Foster, A.J., Langner, T., Bentham, A., Zdrzalek, R., Ryder, L., Kaimenyi, D., Gomez De La Cruz, D., Gentle, A., Petit-Houdenot, Y., Bisola Eseola, A., Smoker, M., Bautista, M.J., Ma, W., Kourelis, J., Maclean, D., Banfield, M.J., Kamoun, S., Menke, F.L.H., Moscou, M.J., and Talbot, N.J. 2024. The blast effector Pwl2 is a virulence factor that modifies the cellular localisation of host protein HIPP43 to suppress immunity. bioRxiv, doi: https://doi.org/10.1101/2024.01.20.576406. Castle, M., and Luedke, D. 2024. Speedy benthi: Elongated photoperiods reduce generation times of the model plant species Nicotiana benthamiana. bioRxiv, doi: https://doi.org/10.1101/2024.01.18.576090. [Lab member publication] 2023 Luedke, D., Sakai, T., Kourelis, J., Toghani, A., Adachi, H., Posbeyikian, A., Frijters, R., Pai, H., Harant, A., Ernst, K., Ganal, M., Verhage, A.,Wu, C.-H., and Kamoun, S. 2023. A root-specific NLR network confers resistance to plant parasitic nematodes. bioRxiv, doi: https://doi.org/10.1101/2023.12.14.571630. Liu, Q., Maqbool, A., Mirkin, F.G., Singh, Y., Stevenson, C.E.M., Lawson, D.M., Kamoun, S., Huang, W., and Hogenhout, S.A. 2023. Bimodular architecture of bacterial effector SAP05 that drives ubiquitin-independent targeted protein degradation. Proceedings of the National Academy of Sciences USA, 120:e2310664120. Supplemental information. bioRxiv preprint. Schornack, S., and Kamoun, S. 2023. EVO-MPMI: From fundamental science to practical applications. Current Opinion in Plant Biology, 76:102469 . Medium blog. Torres Ascurra, Y.C., Zhang, L., Toghani, A., Hua, C., Rangegowda, N.J., Posbeyikian, A., Pai, H., Lin, X., Wolters, P.J., Wouters, D., de Blok, R., Steigenga, N., Paillart, M.J.M., Visser, R.G.F, Kamoun, S., Nuernberger, T., and Vleeshouwers, V.G.A.A. 2023. Functional diversification of a wild potato immune receptor at its center of origin. Science, 381:891-897. Supplemental material. Contreras, M.P., Luedke, D., Pai, H., Toghani, A., and Kamoun, S. 2023. NLR receptors in plant immunity: making sense of the alphabet soup. EMBO Reports, e57495. Zenodo preprint. Kourelis, J. 2023. Interplay between cell-surface receptor and intracellular NLR-mediated immune responses. New Phytolologist, 240:2218-2226, doi: 10.1111/nph.19212. [Lab member publication] Forderer, A. and Kourelis, J. 2023. NLR immune receptors: structure and function in plant disease resistance. Biochemical Society Transactions, 51:1473-1483. [Lab member publication] Bentham, A.R., De la Concepcion, J.C., Vega Benjumea, J., Kourelis, J., Jones, S., Mendel, M., Stubbs, J., Stevenson, C.E.M., Maidment, J.H.R., Youles, M., Zdrzalek, R., Kamoun, S, and Banfield, M.J. 2023. Allelic compatibility in plant immune receptors facilitates engineering of new effector recognition specificities. The Plant Cell, koad204. In brief article. bioRxiv preprint.
Maidment, J.H., Shimizu, M., Bentham A.R., Vera, S., Franceschetti, M., Longya, A., Stevenson, C.E., De la Concepcion, J.C., Bialas, A., Kamoun, S., Terauchi, R., Banfield, M.J. 2023. Effector target-guided engineering of an integrated domain expands the disease resistance profile of a rice NLR immune receptor. eLife, 12:e81123. bioRxiv preprint. Contreras, M.P., Pai, H., Selvaraj, M., Toghani, A., Lawson, D.M., Tumtas, Y., Duggan, C., Yuen, E.L.H., Stevenson, C.E.M., Harant, A., Maqbool, A., Wu, C.-H., Bozkurt, T.O., Kamoun, S., and Derevnina, L. 2023. Resurrection of plant disease resistance proteins via helper NLR bioengineering. Science Advances, 9: eadg3861. Supplemental material. Movie. bioRxiv preprint. Latorre, S.M., Were, V.M., Foster, A.J., Langner, T., Malmgren, A., Harant, A., Asuke, S., Reyes-Avila, S., Gupta, D.R., Jensen, C., Ma, W., Mahmud, N.U., Mehebub, S., Mulenga, R.M., Muzahid, A.N.M., Paul, S.K., Rabby, S.M.F., Rahat, A.A.M., Ryder, L., Shrestha, R.-K., Sichilima, S., Soanes, D.M., Singh, P.K., Bentley, A.R., Saunders, D.G.O., Tosa, Y., Croll, D., Lamour, K.H., Islam, T., Tembo, B., Win, J., Talbot, N.J., Burbano, H.A., and Kamoun, S. 2023. Genomic surveillance uncovers a pandemic clonal lineage of the wheat blast fungus. PLOS Biology, 21:e3002052. bioRxiv preprint. Oh, S., Kim, S., Park, H.J., Kim, M.S., Seo, M.K., Wu, C.H., Lee, H.A., Kim, H.S., Kamoun, S., and Choi, D. 2023. Nucleotide-binding leucine-rich repeat network underlies nonhost resistance of pepper against the Irish potato famine pathogen Phytophthora infestans. Plant Biotechnol Journal, doi: 10.1111/pbi.14039. Kourelis, J., Marchal, C., Posbeyikian, A., Harant, A., and Kamoun, S. 2023. NLR immune receptor-nanobody fusions confer plant disease resistance. Science, 379:934-939. Supplementary Material. bioRxiv preprint. Adachi, H., Sakai, T., Harant, A., Pai, H., Honda, K., Toghani, A., Claeys, J., Duggan, C., Bozkurt, T.O., Wu, C.-H., and Kamoun, S. 2023. An atypical NLR protein modulates the NRC immune receptor network in Nicotiana benthamiana. PLOS Genetics, 19:e1010500. bioRxiv preprint. Sugihara, Y., Abe, Y., Takagi, H., Abe, A., Shimizu, M., Ito, K., Kanzaki, E., Oikawa, K., Kourelis, J., Langner, T., Win, J., Bialas, A., Luedke, D., Contreras, M.P., Chuma, I., Saitoh, H., Kobayashi, M., Zheng, S., Tosa, Y., Banfield, M.J., Kamoun, S., Terauchi, R., and Fujisaki, K. 2023. Disentangling the complex gene interaction networks between rice and the blast fungus identifies a new pathogen effector. PLOS Biology, 21:e3001945. bioRxiv preprint. Ahn, H.-K., Lin, X., Olave-Achury, A.C., Derevnina, L., Contreras, M.P., Kourelis, J., Wu, C.-H., Kamoun, S., and Jones, J.D.G. 2023. Effector-dependent activation and oligomerization of plant NRC class helper NLRs by sensor NLR immune receptors Rpi-amr3 and Rpi-amr1. The EMBO Journal, 42:e111484. bioRxiv preprint. Contreras, M.P., Pai, H., Tumtas, Y., Duggan, C., Yuen, E.L.H., Vergara Cruces, A., Kourelis, J., Ahn, H.-K., Lee, K.T., Wu, C.-H., Bozkurt, T.O., Derevnina, L., and Kamoun, S. 2023. Sensor NLR immune proteins activate oligomerization of their NRC helper. The EMBO Journal, 42:e111519. bioRxiv preprint. 2022 Marchal, C., Pai, H., Kamoun, S., and Kourelis, J. 2022. Emerging principles in the design of bioengineered made-to-order plant immune receptors. Current Opinion in Plant Biology, 70:102311. Zenodo preprint. Zess, E.K., Dagdas, Y.F., Peers, E., Maqbool, A., Banfield, M.J., Bozkurt, T.O., and Kamoun, S. 2022. Regressive evolution of an effector following a host jump in the Irish potato famine pathogen lineage. PLOS Pathogens, 18:e1010918. bioRxiv preprint. De la Concepcion, J.C., Fujisaki, K., Bentham, A.R., Cruz Mireles, N., Sanchez de Medina Hernandez, V., Shimizu, M., Lawson, D.M., Kamoun, S., Terauchi, R., Banfield, M.J. 2022. A blast fungus zinc-finger fold effector binds to a hydrophobic pocket in host Exo70 proteins to modulate immune recognition in rice. Proceedings of the National Academy of Sciences USA, 119:e2210559119. bioRxiv preprint. Kourelis, J., Contreras, M.P., Harant, A., Pai, H., Luedke, D., Adachi, H., Derevnina, L., Wu, C.-H., and Kamoun, S. 2022. The helper NLR immune protein NRC3 mediates the hypersensitive cell death caused by the cell-surface receptor Cf-4. PLOS Genetics, 18:e1010414. bioRxiv preprint. Barragan, A.C, Latorre, S.M., Mock, P.G., Harant, A., Win, J., Malmgren, A., Burbano, H.A., Kamoun, S., and Langner, L. 2022. Wild grass isolates of Magnaporthe (Syn. Pyricularia) spp. from Germany can cause blast disease on cereal crops. bioRxiv, doi: https://doi.org/10.1101/2022.08.29.505667. Medium blog. Kourelis, J., and Adachi, H. 2022. Activation and regulation of NLR immune receptor networks. Plant & Cell Physiology, pcac116, https://doi.org/10.1093/pcp/pcac116. [Lab member publication] Lin, X., Olave-Achury, A., Heal, R., Pais, M., Witek, K., Ahn, H.-K., Zhao, H., Bhanvadia, S., Karki, H.S., Song, T., Wu, C.-H., Adachi, H., Kamoun, S., Vleeshouwers, V.G.A.A., and Jones, J.D.G. 2022. A potato late blight resistance gene protects against multiple Phytophthora species by recognizing a broadly conserved RXLR-WY effector. Molecular Plant, doi: https://doi.org/10.1101/2021.06.10.447899. bioRxiv preprint. Shimizu, M., Hirabuchi, A., Sugihara, Y., Abe, A., Takeda, T., Kobayashi, M., Hiraka, Y., Kanzaki, E., Oikawa, K., Saitoh, H., Langner, T., Banfield, M.J., Kamoun, S., and Terauchi, R. 2022. A genetically linked pair of NLR immune receptors show contrasting patterns of evolution. Proceedings of the National Academy of Sciences USA, 119:e2116896119. bioRxiv preprint. Bentley, A.R., Donovan, J., Sonder, K., Baudron, F., Lewis, J.M., Voss, R., Rutsaert, P., Poole, N., Kamoun, S., Saunders, D.G.O., Hodson, D., Hughes, D.P., Negra, C., Ibba, M.I., Snapp, S., Sida, T.S., Jaleta, M., Tesfaye, K., Becker-Reshef, I., Govaerts, B. 2022. Near- to long-term measures to stabilize global wheat supplies and food security. Nature Food, 3:483-486. Marchal, C., Michalopoulou, V.A., Zhou, Z., Cevik, V., and Sarris, P.F. 2022. Show me your ID: NLR immune receptors with integrated domains in plants. Essays in Biochemistry, EBC20210084 https://doi.org/10.1042/EBC20210084. [Lab member publication] Adachi, H., and Kamoun, S. 2022. NLR receptor networks in plants. Essays in Biochemistry, EBC20210075 https://doi.org/10.1042/EBC20210075. Medium blog. Kamikawa, R., Mochizuki, T., Sakamoto, M., Tanizawa, Y., Nakayama, T., Onuma, R., Cenci, U., Moog, D., Speak, S., Sarkozi, K., Toseland, A., van Oosterhout, C., Oyama, K., Kato, M., Kume, K., Kayama, M., Azuma, T., Ishii, K., Miyashita, H., Henrissat, B., Lombard, V., Win, J., Kamoun, S., Kashiyama, Y., Mayama, S., Miyagishima, S., Tanifuji, G., Mock, T., and Nakamura, Y. 2022. Genome evolution of a nonparasitic secondary heterotroph, the diatom Nitzschia putrida. Science Advances, 8:eabi5075. bioRxiv preprint. Latorre, S.M., Langner, T., Malmgren, A., Win, J., Kamoun, S., and Burbano, H.A. 2022. SNP calling parameters have minimal impact on population structure and divergence time estimates for the rice blast fungus. bioRxiv, doi: https://doi.org/10.1101/2022.03.06.482794. Harant, A., Pai, H., Sakai, T., Kamoun, S., and Adachi, H. 2022. A vector system for fast-forward studies of the HOPZ-ACTIVATED RESISTANCE1 (ZAR1) resistosome in the model plant Nicotiana benthamiana. Plant Physiology, 188:70-80. Request pZA plasmids from Addgene. bioRxiv preprint. 2021 Kamoun, S. 2021. 11 tips for choosing the right PhD. The Biologist. De la Concepcion, J.C., Benjumea, J.V., Bialas, A., Terauchi, R., Kamoun, S., and Banfield, M.J. 2021. Functional diversification gave rise to allelic specialization in a rice NLR immune receptor pair. eLife, 10:e71662. bioRxiv preprint. Bentham, A.R., Petit-Houdenot, Y., Win, J., Chuma, I., Terauchi, R., Banfield, M.J., Kamoun, S., and Langner T. 2021. A single amino acid polymorphism in a conserved effector of the multihost blast fungus pathogen expands host-target binding spectrum. PLOS Pathogens, 17:e1009957. bioRxiv preprint. Kourelis, J., Sakai, T., Adachi, H., and Kamoun, S. 2021. RefPlantNLR is a comprehensive collection of experimentally validated plant disease resistance proteins from the NLR family. PLOS Biology, 19:e3001124. bioRxiv preprint.
Pandey, P., Leary, A.Y., Tumtas, Y., Savage, Z., Dagvadorj, B., Duggan, C., Yuen, E.L., Sanguankiattichai, N., Tan, E., Khandare, V., Connerton, A.J., Yusunov, T., Madalinski, M., Gabriel Mirkin, F., Schornack, S., Dagdas, Y., Kamoun, S., and Bozkurt, T.O. 2021. An oomycete effector subverts host vesicle trafficking to channel starvation-induced autophagy to the pathogen interface. eLife, 10:e65285. bioRxiv preprint. Duggan, C., Moratto, E., Savage, Z., Hamilton, E., Adachi, H., Wu, C.-H., Leary, A.Y., Tumtas, Y., Rothery, S.M., Maqbool, A., Nohut, S., Martin, T.R., Kamoun, S., and Bozkurt T.O. 2021. Dynamic localization of a helper NLR at the plant-pathogen interface underpins pathogen recognition. Proceedings of the National Academy of Sciences USA, 118:e2104997118. Supplemental information and Movies. bioRxiv preprint. Bialas, A., Langner, T., Harant, A., Contreras, M.P., Stevenson, C.E.M., Lawson, D.M., Sklenar, J., Kellner, R., Moscou, M.J., Terauchi, R., Banfield, M.J., and Kamoun, S. 2021. Two NLR immune receptors acquired high-affinity binding to a fungal effector through convergent evolution of their integrated domain. eLife, 10:e66961. bioRxiv preprint. Corrigendum. Wu, C.-H., and Kamoun, S. 2021. Tomato Prf requires NLR helpers NRC2 and NRC3 to confer resistance against the bacterial speck pathogen Pseudomonas syringae pv. tomato. Acta Horticulturae, 1316:61-66. bioRxiv preprint. Ding, P., Sakai, T., Shrestha, R.K., Manosalva Perez, N., Guo, W., Pok Man Ngou, B., He, S., Liu, C., Feng, X., Zhang, R., Vandepoele, K., MacLean, D., and Jones, J.D.G. 2021. Chromatin accessibility landscapes activated by cell-surface and intracellular immune receptors. Journal of Experimental Botany, erab373. [Lab member publication] Monino-Lopez, D., Nijenhuis, M., Kodde, L., Kamoun, S., Salehian, H., Schentsnyi, K., Stam, R., Lokossou, A., Abd-El-Haliem, A., Visser, R.G.F., and Vossen, J.H. 2021. Allelic variants of the NLR protein Rpi-chc1 differentially recognise members of the Phytophthora infestans PexRD12/31 effector superfamily through the leucine-rich repeat domain. Plant Journal, doi: https://doi.org/10.1111/tpj.15284. bioRxiv preprint. Petre, B., Contreras, M.P., Bozkurt, T.O., Schattat, M.H., Sklenar, J., Schornack, S., Abd-El-Haliem, A., Castells-Graells, R., Lozano-Duran, R., Dagdas, Y.F., Menke, F.L.H., Jones, A.M.E., Vossen, J.H., Robatzek, S., Kamoun, S., and Win, J. 2021. Host-interactor screens of Phytophthora infestans RXLR proteins reveal vesicle trafficking as a major effector-targeted process. The Plant Cell, koab069. In brief article. Raw data. bioRxiv preprint. Langner, T., Harant, A., Gomez-Luciano, L.B., Shrestha, R.K., Malmgren, A., Latorre, S.M., Burbano, H.A., Win, J., and Kamoun, S. 2021. Genomic rearrangements generate hypervariable mini-chromosomes in host-specific lineages of the blast fungus. PLOS Genetics, 17:e1009386. bioRxiv preprint. Witek, K., Lin, X., Karki, H.S., Jupe, F., Witek, A.I., Steuernagel, B., Stam, R., van Oosterhout, C., Fairhead, S., Heal, R., Cocker, J.M., Bhanvadia, S., Barrett, W., Wu, C.H., Adachi, H., Song, T., Kamoun, S., Vleeshouwers, V.G.A.A., Tomlinson, L., Wulff, B.B.H., and Jones, J.D.G. 2021. A complex resistance locus in Solanum americanum recognizes a conserved Phytophthora effector. Nature Plants, 7:198-208. bioRxiv preprint. Duxbury, Z., Wu, C.-H., and Ding, P. 2021. A comparative overview of the intracellular guardians of plants and animals: NLRs in innate immunity and beyond. Annual Review of Plant Biology, 72:154-184. [Lab member publication] Maidment, J.H.R., Franceschetti, M., Maqbool, A., Saitoh, H., Jantasuriyarat, C., Kamoun, S., Terauchi, R., and Banfield, M.J. 2021. Multiple variants of the fungal effector AVR-Pik bind the HMA domain of the rice protein OsHIPP19, providing a foundation to engineer plant defence. Journal of Biological Chemistry, 3:100371. bioRxiv preprint. 2020 Win, J., Harant, A., Malmgren, A., Langner, T., Shrestha, R.K., Latorre, S.M., Were, V., Talbot, N.J., Burbano, H.A., Picco, A.M., and Kamoun, S. 2019. Large scale genome assemblies of Magnaporthe oryzae rice isolates from Italy. Zenodo, http://doi.org/10.5281/zenodo.4326823. Sang, Y., Yu, W., Zhuang, H., Wei, Y., Derevnina, L., Yu, G., Luo, J., and Macho, A.P. 2020. Intra-strain elicitation and suppression of plant immunity by Ralstonia solanacearum Type-III effectors in Nicotiana benthamiana. Plant Communications. 1, 100025. 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Supplementary Material. bioRxiv preprint. Petre, B., Kopischke, M., Evrard, A., Robatzek, S., and Kamoun, S. 2016. Cell re-entry assays do not support models of pathogen-independent translocation of AvrM and AVR3a effectors into plant cells. bioRxiv, doi: http://dx.doi.org/10.1101/038232. Dagdas, Y.F., Belhaj, K., Maqbool, A., Chaparro-Garcia, A., Pandey, P., Petre, B., Tabassum, N., Cruz-Mireles, N., Hughes, R.K., Sklenar, J., Win, J., Menke, F., Findlay, K., Banfield, M.J., Kamoun, S., and Bozkurt, T.O. 2016. An effector of the Irish potato famine pathogen antagonizes a host autophagy cargo receptor. eLife, 5:e10856. Wu, C.-H., Belhaj, K., Bozkurt, T.O., Birk, M.S., and Kamoun, S. 2016. Helper NLR proteins NRC2a/b and NRC3 but not NRC1 are required for Pto-mediated cell death and resistance in Nicotiana benthamiana. New Phytologist, 209:1344-1352. bioRxiv preprint. 2015 Momany, M., Di Pietro, A., Alexander, W.G., Barker, B.M., Harb, O.S., Kamoun, S., Martin, F., Pires, J.C., Stajich, J.E., Thomma, B.P.H.J., and Unruh, S. 2015. Meeting Report: Fungal Genomics Meets Social Media: Highlights of the 28th Fungal Genetics Conference at Asilomar. G3, 5:2523-2525. Selosse, M., Strullu-Derrien, C., Martin, F.M., Kamoun,S., and Kenrick, P. 2015. Plants, fungi and oomycetes: a 400-million year affair that shapes the biosphere. New Phytologist, 206:501-506. Dagdas, Y.F., and Bozkurt, T.O. 2015. Fungal sex receptors recalibrated to detect host plants. Cell Host & Microbe, 18:637-638. [Lab member publication] Chaparro-Garcia, A., Kamoun, S., and Nekrasov, V. 2015. Boosting plant immunity with CRISPR/Cas. Genome Biology, 16:254. Dong, S., Raffaele, S., and Kamoun, S. 2015. The two-speed genomes of filamentous pathogens: waltz with plants. Current Opinion in Genetics and Development, 35:57-65. bioRxiv preprint. Erratum. Sharma, R., Xia, X., Cano, L.M., Evangelisti, E., Kemen, E., Judelson, H., Oome, S., Sambles, C., van den Hoogen, D.J., Kitner, M., Klein, J., Meijer, H.J., Spring, O., Win, J., Zipper, R., Bode, H.B., Govers, F., Kamoun, S., Schornack, S., Studholme, D.J., Van den Ackerveken, G., and Thines, M. 2015. Genome analyses of the sunflower pathogen Plasmopara halstedii provide insights into effector evolution in downy mildews and Phytophthora. BMC Genomics, 16:741. Rickett, L.M., Pullen, N., Hartley, M., Zipfel, C., Kamoun, S., Baranyi, J., and Morris, R.J. 2015. Incorporating prior knowledge improves detection of differences in bacterial growth rate. BMC Systems Biology, 9:60. Giannakopoulou, A., Steele, J.F., Segretin, M.E., Bozkurt, T., Zhou, J., Robatzek, S., Banfield, M.J., Pais, M., and Kamoun, S. 2015. Tomato I2 immune receptor can be engineered to confer partial resistance to the oomycete Phytophthora infestans in addition to the fungus Fusarium oxysporum. Molecular Plant-Microbe Interactions, 12:1316-1329. Supplementary Material. bioRxiv preprint. Chaparro-Garcia, A., Schwizer, S., Sklenar, J., Yoshida, K., Petre, B., Bos, J.I., Schornack, S., Jones, A.M., Bozkurt, T.O., Kamoun, S. 2015. Phytophthora infestans RXLR-WY effector AVR3a associates with Dynamin-Related Protein 2 required for endocytosis of the plant pattern recognition receptor FLS2. PLOS ONE, 10:e0137071. bioRxiv preprint. Yoshida, Y., Sasaki, E., and Kamoun, S. 2015. Computational analyses of ancient pathogen DNA from herbarium samples: challenges and prospects. Frontiers in Plant Science, 6:771. Terauchi, R., Abe, A., Takagi, H., Tamiru, M., Fekih, R., Natsume, S., Yaegashi, H., Kosugi, S., Kanzaki, H., Matsumura, H., Saitoh, H., Yoshida, K., Cano, L., and Kamoun, S. 2015. Whole genome sequencing to identify genes and QTL in rice. In Advances in the Understanding of Biological Sciences Using Next Generation Sequencing (NGS) Approaches, pp. 33-41. Maqbool, A., Saitoh, H., Franceschetti, M., Stevenson, C.E.M., Uemura, A., Kanzaki, H., Kamoun, S., Terauchi, R., and Banfield, M.J. 2015. Structural basis of pathogen recognition by an integrated HMA domain in a plant NLR immune receptor. eLife, 4:e08709. Ilyas, M., Horger, A.C., Bozkurt, T.O., van den Burg, H.A., Kaschani, F., Kaiser, M., Belhaj, K., Smoker, M., Joosten, M.H.A.J., Kamoun, S., and van der Hoorn, R.A.L. 2015. Functional divergence of two secreted immune proteases of tomato. Current Biology, 25:2300-2306. Rallapalli G., Fraxinus Players, Saunders, D.G., Yoshida, K., Edwards, A., Lugo, C.A., Collin, S., Clavijo, B., Corpas, M., Swarbreck, D., Clark, M., Downie, J.A., Kamoun, S., Team Cooper, and MacLean, D. 2015. Lessons from Fraxinus, a crowd-sourced citizen science game in genomics. eLife, 4:e07460. Riess, K., Bauer, R., Kellner, R., Kemler, M., Piqtek, M., Vanky, K., and Begerow, D. 2015. Identification of a new order of root-colonising fungi in the Entorrhizomycota: Talbotiomycetales ord. nov. on eudicotyledons. IMA Fungus, 6:129-133. [Lab member publication] Fujisaki, K., Abe, Y., Ito, A., Saitoh, H., Yoshida, K., Kanzaki, H., Kanzaki, E., Utsushi, H., Yamashita, T., Kamoun, S., and Terauchi, R. 2015. Rice Exo70 interacts with a fungal effector, AVR-Pii and is required for AVR-Pii-triggered immunity. Plant Journal, 83:875-887. Patron, N.J., Orzaez, D., Marillonnet, S., Warzecha, H., Matthewman, C., Youles, M., Raitskin, O., Leveau, A., Farre, G., Rogers, C., Smith, A., Hibberd, J., Webb, A.A., Locke, J., Schornack, S., Ajioka, J., Baulcombe, D.C., Zipfel, C., Kamoun, S., Jones, J.D., Kuhn, H., Robatzek, S., Van Esse, H.P., Sanders, D., Oldroyd, G., Martin, C., Field, R., O'Connor, S., Fox, S., Wulff, B., Miller, B., Breakspear, A., Radhakrishnan, G., Delaux, P.M., Loque, D., Granell, A., Tissier, A., Shih, P., Brutnell, T.P., Quick, W.P., Rischer, H., Fraser, P.D., Aharoni, A., Raines, C., South, P.F., Ane, J.M., Hamberger, B.R., Langdale, J., Stougaard, J., Bouwmeester, H., Udvardi, M., Murray, J.A., Ntoukakis, V., Schafer, P., Denby, K., Edwards, K.J., Osbourn, A., Haseloff, J. 2015. Standards for plant synthetic biology: a common syntax for exchange of DNA parts. New Phytologist, 208:13-19. Solovyeva, I., Schmuker, A., Cano, L.M., van Damme, M., Ploch, S., Kamoun, S., and Thines, M. 2015. Evolution of Hyaloperonospora effectors: ATR1 effector homologs from sister species of the downy mildew pathogen H. arabidopsidis are not recognised by RPP1WsB. Mycological Progress, 14:53-62. Oliva, R.F., Cano, L., Raffaele, S., Win, J., Bozkurt, T.O., Belhaj, K., Oh, S., Thines, M., and Kamoun, S. 2015. A recent expansion of the RXLR effector gene Avrblb2 is maintained in global populations of Phytophthora infestans indicating different contributions to virulence. Molecular Plant-Microbe Interactions, 28:901-912. Du, J., Verzaux, E., Chaparro-Garcia, A., Bijsterbosch, G., Keizer, L.C.P., Zhou, J., Liebrand, T.W.H., Xie, C., Govers, F., Robatzek, S., van der Vossen, E.A.G., Jacobsen, E., Visser, R.G.F., Kamoun, S., and Vleeshouwers, V.G.A.A. 2015. Elicitin recognition confers enhanced resistance to Phytophthora infestans in potato. Nature Plants, 1:15034. Supplementary Material. Takagi, H., Tamiru, M., Abe, A., Yoshida, K., Uemura, A., Yaegashi, H., Obara, T., Oikawa, K., Utsushi, H., Kanzaki, E., Mitsuoka, C., Natsume, S., Kosugi, S., Kanzaki, H., Matsumura, H., Urasaki, N., Kamoun, S., and Terauchi, R. 2015. MutMap accelerates breeding of a salt-tolerant rice cultivar. Nature Biotechnology, 33:445-449. Supplementary Material. Hubbard, A., Lewis, C.M., Yoshida, K., Ramirez-Gonzalez, R.H., de Vallavieille-Pope, C., Thomas, J., Kamoun, S., Bayles, R., Uauy, C., and Saunders, D.G.O. 2015. Field pathogenomics reveals the emergence of a diverse wheat yellow rust population. Genome Biology, 16:23. Wu, C.-H., Krasileva, K.V., Banfield, M.J., Terauchi, R.T., and Kamoun, S. 2015. The sensor domains of plant NLR proteins: more than decoys? Frontiers in Plant Science, 6:134. Kamoun, S. 2015. Be positive! From witch hunts to the new reward culture. lushgreengrass atafridayafternoon. PubPeer post. [Blog post] Petre, P., Saunders, D.G.O, Sklenar, J., Lorrain, C., Win, J., Duplessis, S., and Kamoun, S. 2015. Candidate effector proteins of the rust pathogen Melampsora larici-populina target diverse plant cell compartments. Molecular Plant-Microbe Interactions, 28:689-700. Wittulsky, S., Pellegrin, C., Giannakopoulou, A., and Boni, R. 2015. A snapshot of molecular plant-microbe interaction research. New Phytologist, 205:468-471. [Lab member publication] Bozkurt, T.O., Belhaj, K., Dagdas, Y.F., Chaparro-Garcia, A., Wu, C.-H., Cano, L.M., and Kamoun, S. 2015. Rerouting of plant late endocytic trafficking towards a pathogen interface. Traffic, 16:204-226.
2014 Belhaj, K., Chaparro-Garcia, A., Kamoun, S., Patron, N.J., and Nekrasov, V. 2014. Engineering plant genomes with CRISPR/Cas9. Current Opinion in Biotechnology, 32:76-84. Brooks, C., Nekrasov, V., Lippman, Z., and Van Eck, J. 2014. Efficient gene editing in tomato in the first generation using the CRISPR/Cas9 system. Plant Physiology, 166:1292-1297. [Lab member publication] Giannakopoulou, A., Schornack, S., Bozkurt, T.O., Haart, D., Ro, D.K., Faraldos, J.A., Kamoun, S., and O'Maille, P.E. 2014. Variation in capsidiol sensitivity between Phytophthora infestans and Phytophthora capsici is consistent with their host range. PLOS ONE, 9:e107462. Petre, B., Joly, D.L., and Duplessis, S. 2014. Effector proteins of rust fungi. Frontiers in Plant Science, 5:416. [Lab member publication] Lorrain, C., Kamoun, S. and Petre, B. 2014. Populus trichocarpa Coproporphyrinogen III oxidase (PtCPO) localizes in sub-chloroplastic structures. Figshare. Kamoun, S. 2014. Wonders of the plant-microbe interactions world. IS-MPMI Reporter, 2014:2. Alfred, J., Dangl, J.L., Kamoun, S., and McCouch, S.R. 2014. New horizons for plant translational research. PLOS Biology, 12:e1001880. Lee, H.A., Kim, S.Y., Oh, S.K., Yeom, S.I., Kim, S.B., Kim, M.S., Kamoun, S., and Choi, D. 2014. Multiple recognition of RXLR effectors is associated with nonhost resistance of pepper against Phytophthora infestans. New Phytologist, 203:926-938. Bozkurt, T.O., Richardson, A., Dagdas, Y.F., Mongrand, S., Kamoun, S., and Raffaele, S. 2014. The plant membrane-associated REM1.3 remorin accumulates in discrete perihaustorial domains and enhances susceptibility to Phytophthora infestans. Plant Physiology, 165:1005-1018. Kamoun, S. 2014. Keeping up with the plant destroyers. PlantVillage. [Blog post] Yoshida, K., Burbano, H.A., Krause, J., Thines, M., Weigel, D., and Kamoun, S. 2014. Mining herbaria for plant pathogen genomes: back to the future. PLOS Pathogens, 10:e1004028. Saunders, D., Yoshida, K., Sambles, C., Glover, R., Clavijo, B., Corpas, M., Bunting, D., Dong, S., Clark, M., Swarbreck, D., Ayling, S., Bashton, M., Collin, S., Hosoya, T., Edwards, A., Crossman, L., Etherington, G., Win, J., Cano, L., Studholme, D., Downie, J.A., Caccamo, M., Kamoun, S., and MacLean, D. 2014. Crowdsourced analysis of ash and ash dieback through the Open Ash Dieback project: A year 1 report on datasets and analyses contributed by a self-organising community. bioRxiv, doi: http://dx.doi.org/10.1101/004564. Petre, B. 2014. Agrobacterium tumefaciens does not transform guard cells in Nicotiana benthamiana. Figshare. [Lab member post] Segretin, M.E., Pais, M., Franceschetti, M., Chaparro-Garcia, A., Bos, J.I., Banfield, M.J., and Kamoun, S. 2014. Single amino acid mutations in the potato immune receptor R3a expand response to Phytophthora effectors. Molecular Plant-Microbe Interactions, 27:624-637. Saunders, D.G., Win, J., Kamoun, S., and Raffaele, S. 2014. Two-dimensional data binning for the analysis of genome architecture in filamentous plant pathogens and other eukaryotes. In "Plant-Pathogen Interactions: Methods and Protocols", P. Birch, J. Jones, and J. Bos, eds. Methods in Molecular Biology, 1127:29-51. Kamoun, S. 2014. Gained in translation. IS-MPMI Reporter, 2014:1. Nemri, A., Saunders, D.G., Anderson, C., Upadhyaya, N.M., Win, J., Lawrence, G., Jones, D., Kamoun, S., Ellis, J., and Dodds, P. 2014. The genome sequence and effector complement of the flax rust pathogen Melampsora lini. Frontiers in Plant Science, 5:98. King, S.R.F., McLellan, H., Boevink, P.C., Armstrong, M.R., Bukharova, B., Sukarta, O., Win, J., Kamoun, S., Birch, P.R.J., and Banfield, M.J. 2014. Phytophthora infestans RXLR effector PexRD2 interacts with host MAPKKKe to suppress plant immune signaling. The Plant Cell, 26:1345-1359. Supplementary Material. Petre, B., and Kamoun, S. 2014. Unsolved mystery - How do filamentous pathogens deliver effector proteins into plant cells? PLOS Biology, 12:e1001801. Dong, S., Stam, R., Cano, L.M., Song, J., Sklenar, J., Yoshida, K., Bozkurt, T.O., Oliva, R., Liu, Z., Tian, M., Win, J., Banfield, M.J., Jones, A.M.E., van der Hoorn, R.A.L., and Kamoun, S. 2014. Effector specialization in a lineage of the Irish potato famine pathogen. Science, 343:552-555. Supplementary Material. Perspective. Nature Reviews Microbiology Highlight. Faculty of 1000 Evaluation. Gro Malinovsky, F., Batoux, M., Schwessinger, B., Youn, J.H., Stransfeld, L., Win, J., Kim, S.K. and Zipfel, C. 2014. Antagonistic regulation of growth and immunity by the Arabidopsis bHLH transcription factor HBI1. Plant Physiology, 164:1443-1455. [Lab member publication] Lin, K., Limpens, E., Zhang, Z., Ivanov, S., Saunders, D.G.O., Mu, D., Pang, E., Cao, H., Cha, H., Lin, T., Zhou, Q., Shang, Y., Li, Y., Sharma, T., van Velzen, R., de Ruijter, N., Aanen, D.K., Win, J., Kamoun, S., Bisseling, T., Geurts, R., and Huang, S. 2014. Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus. PLOS Genetics, 10:e1004078. Faculty of 1000 Evaluation. 2013 Saunders, D.G.O. and Yoshida, K. 2013. Harnessing the collective intelligence in response to Chalara dieback of ash. Microbiologist, 14:8-11. [Lab member publication] Belhaj, K., Chaparro-Garcia, A., Kamoun, S. and Nekrasov, V. 2013. Plant genome editing made easy Q&A. Biome. [Blog post] Kamoun, S. 2013. A most honorable legacy. IS-MPMI Reporter, 2013:3. Qi, J., Liu, X., Shen, D., Miao, H., Xie, B., Li, X., Zeng, P., Wang, S., Shang, Y., Gu, X., Du, Y., Li, Y., Lin, T., Yuan, J., Yang, X., Chen, J., Chen, H., Xiong, X., Huang, K., Fei, Z., Mao, L., Tian, L., Stadler, T., Renner, S.S,, Kamoun, S., Lucas, W.J., Zhang, Z., Huang, S. 2013. A genomic variation map provides insights into the genetic basis of cucumber domestication and diversity. Nature Genetics, 45:1510-1515. Supplementary Material. Faculty of 1000 Evaluation. Kosugi, S., Natsume, S., Yoshida, K., MacLean, D., Cano, L., Kamoun, S., and Terauchi, R. 2013. Coval: Improving alignment quality and variant calling accuracy for next-generation sequencing data. PLOS ONE, 8:e75402. Belhaj, K., Chaparro-Garcia, A., Kamoun, S. and Nekrasov, V. 2013. Plant genome editing made easy: targeted mutagenesis in model and crop plants using the CRISPR/Cas system. Plant Methods, 9:39. Request plasmids from Addgene. Cano, L.M., Raffaele, S., Haugen, R.H., Saunders, D.G.O., Leonelli, L., MacLean, D., Hogenhout, S.A., and Kamoun, S. 2013. Major transcriptome reprogramming underlies floral mimicry induced by the rust fungus Puccinia monoica in Boechera stricta. PLOS ONE, 8:e75293. Nekrasov, V., Staskawicz, B., Weigel, D., Jones, J.D.G., and Kamoun, S. 2013. Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease. Nature Biotechnology, 31:691-693. Supplementary Material. Request plasmids from Addgene. Kamoun, S. 2013. Science on the Med. IS-MPMI Reporter, 2013:2. Fekih, R., Takagi, H., Tamiru, M., Abe, A., Natsume, S., Yaegashi, H., Sharma, S., Sharma, S., Kanzaki, H., Matsumura, H., Saitoh, H., Mitsuoka, C., Utsushi, H., Uemura, A., Kanzaki, E., Kosugi, S., Yoshida, K., Cano. L., Kamoun, S., and Terauchi, R. 2013. MutMap+: Genetic mapping and mutant identification without crossing in rice. PLOS ONE, 8:e68529. Rey, T., and Schornack, S. 2013. Interactions of beneficial and detrimental root-colonizing filamentous microbes with plant hosts. Genome Biology, 14:121. Pais, M., Win, J., Yoshida, K., Etherington, G.J., Cano, L.M., Raffaele, S., Banfield, M.J., Jones, A., Kamoun, S., and Saunders, D.G.O. 2013. From pathogen genomes to host plant processes: the power of plant parasitic oomycetes. Genome Biology, 14:211. Takagi, H., Uemura, A., Yaegashi, H., Tamiru, M., Abe, A., Mitsuoka, C., Utsushi, H., Natsume, S., Kanzaki, H., Matsumura, H., Saitoh, H., Yoshida, K., Cano, L.M., Kamoun, S., Terauchi, R. 2013. MutMap-Gap: whole-genome resequencing of mutant F2 progeny bulk combined with de novo assembly of gap regions identifies the rice blast resistance gene Pii. New Phytologist, 200:276-283. Banfield, M.J., and Kamoun, S. 2013. Hooked and cooked: A fish killer genome exposed. PLOS Genetics, 9:e1003590. Xia, S., Cheng, Y.T., Huang, S., Win, J., Soards, A., Jinn, T.L., Jones, J., Kamoun, S., Chen, S., Zhang, Y., Li, X. 2013. Regulation of transcription of NB-LRR-encoding genes SNC1 and RPP4 via H3K4 tri-methylation. Plant Physiology, 162:1694-1705. Yoshida, K., Schuenemann, V., Cano, C., Pais, P, Mishra, B., Sharma, R., Lanz, C., Martin, F., Kamoun, S., Krause, J., Thines, M., Weigel, D., and Burbano, H. 2013. The rise and fall of the Phytophthora infestans lineage that triggered the Irish potato famine. eLife, 2:e00731. arXiv preprint. Faculty of 1000 Evaluation. Cantu, D., Segovia, V., Maclean, D., Bayles, R., Chen, X., Kamoun, S., Dubcovsky, J., Saunders, D.G., and Uauy, C. 2013. Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors. BMC Genomics, 14:270. Sharma, S., Sharma, S., Hirabuchi, A., Yoshida, K., Fujisaki, K., Ito, A., Uemura, A., Terauchi, R., Kamoun, S., Sohn, K.H., Jones, J.D., and Saitoh, H. 2013. Deployment of Burkholderia glumae type III secretion system as an efficient tool for translocating pathogen effectors to monocot cells. Plant Journal, 74:701-712. MacLean, D., Yoshida, K., Edwards, A., Crossman, L., Clavijo, B., Clark, M., Swarbreck, D., Bashton, M., Chapman, P., Gijzen, M., Caccamo, M., Downie, A., Kamoun, S., and Saunders, D. 2013. Crowdsourcing genomic analyses of ash and ash dieback -- power to the people. GigaScience, 2:2. Kamoun, S. 2013. Trees and trends. IS-MPMI Reporter, 2013:2. Takagi, H., Abe, A., Yoshida, K., Kosugi, S., Natsume, S., Mitsuoka, C., Uemura, A., Utsushi, H., Tamiru, M., Takuno, S., Innan, H., Cano, L.M., Kamoun, S., and Terauchi, R. 2013. QTL-seq: Rapid mapping of quantitative trait loci in rice by whole genome resequencing of DNA from two bulked populations. Plant Journal, 74:74-183. 2012 Win, J., Chaparro-Garcia, A., Belhaj, K., Saunders, D.G.O., Yoshida, K., Dong, S., Schornack, S., Zipfel, C., Robatzek, S., Hogenhout, S.A., and Kamoun, S. 2012. Effector Biology of Plant-associated Organisms: Concepts and Perspectives. Cold Spring Harbor Symposium on Quantitative Biology, 77:235-247. Download animated slides. Wang, E., Schornack, S., Marsh, J.F., Gobbato, E., Schwessinger, B., Eastmond, P., Schultze, M., Kamoun, S., and Oldroyd, G.E.D. 2012. A common signaling process that promotes mycorrhizal and oomycete colonization of plants. Current Biology, 22:2242-2246. Commentary. Cooke, D.E.L., Cano, L.M., Raffaele, S., Bain, R.A., Cooke, L.R., Etherington, G.J., Deahl, K.L., Farrer, R.A., Gilroy, E.M., Goss, E.M., Grunwald, N.J., Hein, I., MacLean, D., McNicol, J.W., Randall, E., Oliva, R.F., Pel, M.A., Shaw, D.S., Squires, J.N., Taylor, M.C., Vleeshouwers, V.G.A.A., Birch, P.R.J., Lees, A.K., and Kamoun, S. 2012. Genome Analyses of an Aggressive and Invasive Lineage of the Irish Potato Famine Pathogen. PLoS Pathogens, 8:e1002940. van Damme, M., Bozkurt, T.O., Cakir, C., Schornack, S., Sklenar, J., Jones, A.E.M., and Kamoun, S. 2012. The Irish potato famine pathogen Phytophthora infestans translocates the CRN8 Kinase into host plant cells. PLoS Pathogens, 8:e1002875. Correction. Nature Reviews Microbiology Highlight. Saunders, D.G.O., Breen, S., Win, J., Schornack, S., Hein, I., Bozkurt, T.O., Champouret, N., Vleeshouwers, V.G.A.A., Birch, P.R.J., Gilroy, E.M., and Kamoun, S. 2012. Host protein BSL1 associates with Phytophthora infestans RXLR effector AVR2 and the Solanum demissum immune receptor R2 to mediate disease resistance. The Plant Cell, 24:3420-3434. Youle, M., Rohwer, F., Whiteley, M., Steel, B.C., Delalez, N.J., Nord, A.L., Berry, R.M., Armitage, J.P., Kamoun, S., Hogenhout, S., Diggle, S. P., Gurney, J., Pollitt, E. J. G., Boetius, A. and Cary, S. C. 2012. Microbial Olympics. Nature Reviews Microbiology, 10:583-588. Lamour, K., Mudge, J., Gobena, D., Hurtado-Gonzales, O.P., Schmutz, J., Kuo, A., Miller, N.A., Rice, B.J., Raffaele, S., Cano, L., Bharti, A.K., Donahoo, R.S., Finley, S.L., Huitema, E., Hulvey, J., Platt, D., Salamov, A., Savidor, A., Sharma, R., Stam, R., Storey, D., Thines, M., Win, J., Haas, B., Dinwiddie, D., Jenkins, J., Knight, J., Affourtit, J., Han, C.S., Chertkov, O., Lindquist, E.A., Detter, C., Grigoriev, I.V., Kamoun, S., Kingsmore, S.F. 2012. Genome sequencing and mapping reveal loss of heterozygosity as a mechanism for rapid adaptation in the vegetable pathogen Phytophthora capsici. Molecular Plant-Microbe Interactions, 25:1350-1360. Kamoun, S., and Ward, E. 2012. Next-generation disease resistance breeding: Crop plants with DNA deletions are not GMOs. Biofortified. [Blog post] Kamoun, S. 2012. Genomics of emerging plant pathogens: too little, too late. Microbiology Today, 39:140. Saitoh, H., Fujisawa, S., Mitsuoka, C., Ito, A., Hirabuchi, A., Ikeda, K., Irieda, H., Yoshino, K., Yoshida, K., Matsumura, H., Tosa, Y., Win, J., Kamoun, S., Takano, Y., and Terauchi, R. 2012. Large-scale gene disruption in Magnaporthe oryzae identifies MC69, a secreted protein required for infection by monocot and dicot fungal pathogens. PLoS Pathogens, 8:e1002711. Raffaele, S., and Kamoun, S. 2012. Genome evolution in filamentous plant pathogens: why bigger can be better. Nature Reviews Microbiology, 10:417-430. Bozkurt, T.O., Schornack, S., Banfield, M.J., and Kamoun, S. 2012. Oomycetes, effectors, and all that jazz. Current Opinion in Plant Biology, 15:483-492. Supplementary Material. Rietman, H., Bijsterbosch, G., Cano, L.M., Lee, H.-R., Vossen, J.H., Jacobsen, E., Visser, R.G.F., Kamoun, S., and Vleeshouwers, V.G.A.A. 2012. Qualitative and quantitative late blight resistance in the potato cultivar Sarpo Mira is determined by the perception of five distinct RXLR effectors. Molecular Plant-Microbe Interactions, 25:910-919. Abe, A., Kosugi, S., Yoshida, K., Natsume, S., Takagi, H., Kanzaki, H., Matsumura, H., Yoshida, K., Mitsuoka, C., Tamiru, M., Innan, H., Cano, L., Kamoun, S., and Terauchi, R. 2012. Genome sequencing reveals agronomically important loci in rice using MutMap. Nature Biotechnology, 30:174-178. Faculty of 1000 Evaluation. Win, J., Krasileva, K.V., Kamoun, S., Shirasu, K., Staskawicz, B.J., and Banfield, M.J. 2012. Sequence divergent RXLR effectors share a structural fold conserved across plant pathogenic oomycete species. PLoS Pathogens, 8:e1002400.
MacLean, D., and Kamoun, S. 2012. Big data in small places. Nature Biotechnology, 30:33-34. Saunders, D.G.O., Win, J., Cano, L.M., Szabo, L.J., Kamoun, S., and Raffaele, S. 2012. Using hierarchical clustering of secreted protein families to classify and rank candidate effectors of rust fungi. PLoS ONE, 6:e16608. Faculty of 1000 Evaluation. 2011 Bozkurt, T.O., Schornack, S., Win, J., Shindo, T., Ilyas, M., Oliva, R., Cano, L.M., Jones, A.M.E., Huitema, E., van der Hoorn, R.A.L., and Kamoun, S. 2011. Phytophthora infestans effector AVRblb2 prevents secretion of a plant immune protease at the haustorial interface. Proceedings of the National Academy of Sciences USA, 108:20832-20837. Yaeno, T., Li, H., Chaparro-Garcia, A., Schornack, S., Koshiba, S., Watanabe, S., Kigawa, T., Kamoun, S., and Shirasu, K. 2011. Phosphatidylinositol monophosphate-binding interface in the oomycete RXLR effector AVR3a is required for its stability in host cells to modulate plant immunity. Proceedings of the National Academy of Sciences USA, 108:14682-14687. Commentary. Boutemy, L.S., King, S.R.F., Win, J., Hughes, R.K., Clarke, T.A., Blumenschein, T.M.A., Kamoun, S., and Banfield, M.J. 2011. Structures of Phytophthora RXLR effector proteins: a conserved but adaptable fold underpins functional diversity. Journal of Biological Chemistry, 41:35834-35842. Supplementary Material. Vleeshouwers, V.G.A.A., Raffaele, R., Vossen, J., Champouret, N., Oliva, R., Segretin, M.E., Rietman, H., Cano, L.M., Lokossou, A., Kessel, G., Pel, M.A., and Kamoun, S. 2011. Understanding and exploiting late blight resistance in the age of effectors. Annual Review of Phytopathology, 49:507-531. Win, J., Kamoun, S., and Jones, A.M. 2011. Purification of effector-target protein complexes via transient expression in Nicotiana benthamiana. In "Plant Immunity: Methods and Protocols", J.M. McDowell, ed. Methods in Molecular Biology, 712:181-194. Huitema, E., Smoker, M., and Kamoun S. 2011. A straightforward protocol for electro-transformation of Phytophthora capsici zoospores. In "Plant Immunity: Methods and Protocols", J.M. McDowell, ed. Methods in Molecular Biology, 712:129-135. Gilroy, E.M., Breen, S., Whisson, S.C., Squires, J., Hein, I., Kaczmarek, M., Turnbull, D., Boevink, P.C., Lokossou, A., Cano, L.M., Morales, J., Avrova, A.O., Pritchard, L., Randall, E., Lees, A., Govers, F., van West, P., Kamoun, S., Vleeshouwers, V.G.A.A., Cooke, D.E.L. and Birch, P.R.J. 2011. Presence/absence, differential expression and sequence polymorphisms between PiAVR2 and PiAVR2-like in Phytophthora infestans determine virulence on R2 plants. New Phytologist, 191:763-776. Supplementary Material Chaparro-Garcia, A., Wilkinson, R.C., Gimenez-Ibanez, S., Findlay, K., Coffey, M.D., Zipfel, C., Rathjen, J.P., Kamoun, S., and Schornack, S. 2011. The receptor-like kinase SERK3/BAK1 is required for basal resistance against the late blight pathogen Phytophthora infestans in Nicotiana benthamiana. PLoS One, 6:e16608. Tian, M., Win, J., Savory, E., Burkhardt, A., Held, M., Brandizzi, F., Day, B. 2011. 454 genome sequencing of Pseudoperonospora cubensis reveals effector proteins with a putative QXLR translocation motif. Molecular Plant-Microbe Interactions, 24:543-553. [Lab member publication] 2010
Raffaele, S., Win, J., Cano, L.M., Kamoun, S. 2010. Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans. BMC Genomics, 11:637. Bos, J.I.B., Prince, D., Pitino, M., Maffei, M.E., Win, J., and Hogenhout, S.A. 2010. A functional genomics approach identifies candidate effectors from the aphid species Myzus persicae (green peach aphid). PLoS Genetics, 6:e1001216. [Lab member publication] Kaschani, F., Shabab, M., Bozkurt, T., Shindo, T., Schornack, S., Gu, C., Ilyas, M., Win, J., Kamoun, S., van der Hoorn, R.A. 2010. An effector-targeted protease contributes to defense against Phytophthora infestans and is under diversifying selection in natural hosts. Plant Physiology, 154:1794-1804. Supplementary Material Schornack, S., van Damme, M., Bozkurt, T.O., Cano, L.M., Smoker, M., Thines, M., Gaulin, E., Kamoun S., and Huitema, E. 2010. Ancient class of translocated oomycete effectors targets the host nucleus. Proceedings of the National Academy of Sciences USA, 107:17421-17426. Supplementary Material Oh, S.-K., Kamoun S., and Choi, D. 2010. Oomycete RXLR effectors function as both activator and suppressor of plant immunity. Plant Pathology Journal, 26:209-215. Romer, P., Recht, S., Strauss, T., Elsaesser, J., Schornack, S., Boch, J., Wang, S., Lahaye, T. 2010. Promoter elements of rice susceptibility genes are bound and activated by specific TAL effectors from the bacterial blight pathogen, Xanthomonas oryzae pv. oryzae. New Phytologist, 187:1048-1057. [Lab member publication] Levesque, C.A., Brouwer, H., Cano, L., Hamilton, J.P., Holt, C., Huitema, E., Raffaele, S., Robideau, G.P., Thines, M., Win, J., Zerillo, M.M., Beakes, G.W., Boore, J.L., Busam, D., Dumas, B., Ferriera, S., Fuerstenberg, S.I., Gachon, C.M., Gaulin, E., Govers, F., Grenville-Briggs, L., Horner, N., Hostetler, J., Jiang, R.H., Johnson, J., Krajaejun, T., Lin, H., Meijer, H.J., Moore, B., Morris, P., Phuntmart, V., Puiu, D., Shetty, J., Stajich, J.E., Tripathy, S., Wawra, S., van West, P., Whitty, B.R., Coutinho, P.M., Henrissat, B., Martin, F., Thomas, P.D., Tyler, B.M., De Vries, R.P., Kamoun, S., Yandell, M., Tisserat, N., Buell, C.R. 2010. Genome sequence of the necrotrophic plant pathogen, Pythium ultimum, reveals original pathogenicity mechanisms and effector repertoire. Genome Biology, 11:R73. Studholme, D.J., Kemen, E., MacLean, D., Schornack, S., Aritua, V., Thwaites, R., Grant, M., Smith, J., Jones, J.D. 2010. Genome-wide sequencing data reveals virulence factors implicated in banana Xanthomonas wilt. FEMS Microbiol Letters, 310:182-192. [Lab member publication] Bogdanove, A.J., Schornack, S., Lahaye, T. 2010. TAL effectors: finding plant genes for disease and defense. Current Opinion in Plant Biology, 13:394-401. [Lab member publication] Bos, J.I.B., Armstrong, M.R., Gilroy, E.M., Boevink, P.C., Hein, I., Taylor, R.M., Zhendong, T., Engelhardt, S., Vetukuri, R.R., Harrower, B., Dixelius, C., Bryan, G., Sadanandom, A., Whisson, S.C., Kamoun, S., and Birch, P.R.J. 2010. Phytophthora infestans effector AVR3a is essential for virulence and manipulates plant immunity by stabilizing host E3 ligase CMPG1. Proceedings of the National Academy of Sciences USA, 107:9909-14. Supplementary Material Thines, M., and Kamoun, S. 2010. Oomycete-plant coevolution: recent advances and future prospects. Current Opinion in Plant Biology, 13:427-433. Oliva, R., Win, J., Raffaele, S., Boutemy, L., Bozkurt, T.O., Chaparro-Garcia, A., Segretin, M.E., Stam, R., Schornack, S., Cano, L.M., van Damme, M., Huitema, E., Thines, M., Banfield, M.J., and Kamoun, S. 2010. Recent developments in effector biology of filamentous plant pathogens. Cellular Microbiology, 12:705-715. Corrigendum Green, S., Studholme, D.J., Laue, B.E., Dorati, F., Lovell, H., Arnold, D., Cottrell, J.E., Bridgett, S., Blaxter, M., Huitema, E., Thwaites, R., Sharp, P.M., Jackson, R.W., and Kamoun, S. 2010. Comparative genome analysis provides insights into the evolution and adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum. PLoS ONE, 5:e10224. Supplementary Material Lebrun, M.H. and Kamoun, S. 2010. Effectors, effectors et toujours des effectors. New Phytologist, 186:290-292. 2009 Schornack, S., Huitema, E., Cano, L.M., Bozkurt, T.O., Oliva, R., van Damme, M., Schwizer, S., Raffaele, S., Chaparro-Garcia, A., Farrer, R., Segretin, M.E., Bos, J., Haas, B.J., Zody, M.C., Nusbaum, C., Win, J., Thines, M., and Kamoun, S. 2009. Ten things to know about oomycete effectors. Molecular Plant Pathology, 10:795-803. Oh, S.-K., Young, C., Lee, M., Oliva, R., Bozkurt, T., Cano, L.M., Win, J., Bos, J.I.B., Liu, H.,-Y., van Damme, M., Morgan, W., Choi, D., van der Vossen, E.A.G., Vleeshouwers, V., and Kamoun, S. 2009. In planta expression screens of Phytophthora infestans RXLR effectors reveal diverse phenotypes, including activation of the Solanum bulbocastanum disease resistance protein Rpi-blb2. The Plant Cell, 21:2028-2947. Supplementary Material
Schornack, S., Fuchs, R., Huitema, E., Rothbauer, U., Lipka, V., and Kamoun, S. 2009. Protein mislocalization in plant cells using a GFP-binding chromobody. Plant Journal, 60:744-754. Supplementary Material Jagdale, G.B., Kamoun, S., and Grewal, P.S. 2009. Entomopathogenic nematodes induce components of systemic resistance in plants: Biochemical and molecular evidence. Biological Control, 51:102-109. Yoshida, K., Saitoh, H., Fujisawa, S., Kanzaki, H., Matsumura, H., Yoshida, K., Tosa, Y., Chuma, I., Takano, Y., Win, J., Kamoun, S., and Terauchi, R. 2009. Association genetics reveals three novel avirulence genes from the rice blast fungal pathogen Magnaporthe oryzae. The Plant Cell, 21:1573-1591. Supplementary Material Kawamura, Y., Hase, S., Takenaka, S., Kanayama, Y., Yoshioka, H., Kamoun, S., Takahashi, H. 2009. INF1 elicitin activates jasmonic acid- and ethylene-mediated signalling pathways and induces resistance to bacterial wilt disease in tomato. Journal of Phytopathology, 157:287-297. Kamoun, S. 2009. The secretome of plant-associated fungi and oomycetes. In 'Plant Relationships, 2nd Edition, The Mycota V' H. Deising (Ed.), Springer-Verlag Berlin Heidelberg. Birch, P.R.J., Armstrong, M., Bos, J., Boevink, P., Gilroy, E.M., Taylor, R.M., Wawra, S., Pritchard, L., Conti, L., Ewan, R., Whisson, S.C., van West, P., Sadanandom, A., and Kamoun, S. 2009. Towards understanding the virulence functions of RXLR effectors of the oomycete plant pathogen Phytophthora infestans. Journal of Experimental Botany, 60:1133-1140. Bos, J..I.B., Chaparro-Garcia, A., Quesada-Ocampo, L.M., McSpadden-Gardener, B.B., and Kamoun, S. 2009. Distinct amino acids of the Phytophthora infestans effector AVR3a condition activation of R3a hypersensitivity and suppression of cell death. Molecular Plant-Microbe Interactions, 22:269-281. Supplementary Material Song, J., Win, J., Tian, M., Schornack, S., Kaschani, F., Ilyas, M., van der Hoorn, R.A.L., and Kamoun, S. 2009. Two effectors secreted by unrelated eukaryotic plant pathogens target the tomato defense protease Rcr3. Proceedings of the National Academy of Sciences USA, 106:1654-1659. Supplementary Material Hogenhout, S.A., Van der Hoorn, R.A.L., Terauchi, R., and Kamoun, S. 2009. Emerging concepts in effector biology of plant-associated organisms. Molecular Plant-Microbe Interactions, 22:115-122. Fast Breaking Paper. Bai, X., Correa, V.R., Toruno, T.Y., Ammar, E.-D., Kamoun, S., and Hogenhout, S.A. 2009. AY-WB phytoplasma secretes a protein that targets plant cell nuclei. Molecular Plant-Microbe Interactions, 22:18-30. Supplementary Material 2008 Cheung, F., Win,
J., Lang, J.M., Hamilton, J., Vuong, H., Leach, J.E., Kamoun, S.,
Levesque, C.A., Tisserat, N., and Buell, C.R. 2008. Analysis of
the Pythium ultimum transcriptome using Sanger and Pyrosequencing
approaches. BMC Genomics, 9:542. van der Hoorn, R.A.L. and Kamoun, S. 2008. From guard to decoy: a new model for perception of plant pathogen effectors. The Plant Cell, 20:2009-2017. Kanzaki, H., Saitoh, H., Takahashi, Y., Berberich, T., Ito, A., Kamoun, S., Terauchi, R. 2008. NbLRK1, a lectin-like receptor kinase protein of Nicotiana benthamiana, interacts with Phytophthora infestans INF1 elicitin and mediates INF1-induced cell death. Planta, 228:977-987. Vleeshouwers,
V.G.A.A., Rietman, H., Krenek, P., Champouret, N., Young, C., Oh, S.-K.,
Wang, M., Bouwmeester, K., Vosman, B., Visser, R.G.F., Jacobsen, E.,
Gover, F., Kamoun, S., and van der Vossen, E.A.G. 2008. Effector
genomics accelerates discovery and functional profiling of potato
disease resistance and Phytophthora infestans avirulence genes.
PLoS ONE, 3:e2875. Supplementary
Material
Shabab, M., Shindo, T., Gu, C., Kaschani, F., Pansuriya, T., Chintha, R., Harzen, A., Colby, T., Kamoun, S., and van der Hoorn, R.A.L. 2008. Fungal effector protein AVR2 targets diversifying defense-related Cys proteases of tomato. The Plant Cell, 20:1169-1183. Supplementary Material
Judelson, H.S., Ah-Fong, A.M., Aux, G., Avrova, A.O., Bruce, C., Cakir, C., da Cunha, L., Grenville-Briggs, L., Latijnhouwers, M., Ligterink, W., Meijer, H.J., Roberts, S., Thurber, C.S., Whisson, S.C., Birch, P.R., Govers, F., Kamoun, S., van West, P., Windass, J. 2008. Gene expression profiling during asexual development of the late blight pathogen Phytophthora infestans reveals a highly dynamic transcriptome. Molecular Plant-Microbe Interactions, 21:433-447. Oh, S.-K., Baek, K.-H., Park, J.M., Yi, S.Y., Yu, S.H., Kamoun, S., and Choi, D. 2008. Capsicum annuum WRKY protein CaWRKY1 is a negative regulator of pathogen defense. New Phytologist, 177:977-989. Morgan, W., Bos, J., Bruce, C., Lee, M., Liu, H.-Y., Oh, S.-K., Song, J., Win, J., Young, C., and Kamoun, S. 2008. Structure and function of RXLR effectors of plant pathogenic oomycetes. In "Genomics of Disease", J.P. Gustafson, ed. Springer. 2007 Coemans, B., Takahashi, Y., Berberich, T., Ito, A., Kanzaki, H., Matsumura, H., Saitoh, H., Tsuda, S., Kamoun, K., Sagi, L., Swennen, R., and Terauchi, R. 2007. High-throughput in planta expression screening identifies an ADP-ribosylation factor (ARF1) that is involved in non-host resistance and R gene mediated resistance. Molecular Plant Pathology, 9:25-36. Morgan, W., and Kamoun, S. 2007. RXLR effectors of plant pathogenic oomycetes. Current Opinion in Microbiology, 10:332-338.
Kamoun, S. 2007. Groovy times: filamentous pathogen effectors revealed. Current Opinion in Plant Biology, 10:358-365. Supplementary Material. iTunes iMix companion playlist. Lamour, K, Win, J., and Kamoun, S. 2007. Oomycete genomics: new insights and future directions. FEMS Microbiology Letters, 274:1-8. Kamoun, S, and Goodwin, S.B.. 2007. Fungal and oomycete genes galore. New Phytologist, 173:713-717. Alfano, G., Lewis Ivey, M.L., Cakir, C., Bos, J.I.B., Miller, S.A., Madden, L.V., Kamoun, S., and Hoitink, H.A.J. 2007. Systemic modulation of gene expression in tomato by Trichoderma hamatum 382. Phytopathology, 97:429-437. Kanneganti, T. -D., Bai, X., Tsai, C.-W., Win, J., Meulia, T., Goodin, M., Kamoun, S., and Hogenhout, S.A. 2007. A functional genetic assay for nuclear trafficking in plants. Plant Journal, 50:149-158. Takahashi, Y., Bin Nasir, K. H., Ito, A., Kanzaki, H., Matsumura, H., Saitoh, H., Fujisawa, S., Kamoun, S., and Terauchi, R. 2007. A high-throughput screen of cell-death-inducing factors in Nicotiana benthamiana identifies a novel MAPKK that mediates INF1-induced cell death signaling and nonhost resistance to Pseudomonas cichorii. Plant Journal, 49:1030-1040. Addendum. Tian, M., Win, J., Song, J., van der Hoorn, R., van der Knaap, E., and Kamoun, S. 2007. A Phytophthora infestans cystatin-like protein targets a novel tomato papain-like apoplastic protease. Plant Physiology, 143:364-377. Supplementary Material. Kanneganti, T.-D., Huitema, E., and Kamoun, S. 2007. In planta expression of fungal and oomycete effectors. In 'Plant-Pathogen Interactions' P. Ronald, ed. Humana Press, 35-43 2006 Haldar, K., Kamoun, S., Hiller, L. N., Bhattacharjee, S., and and van Ooij, C. 2006. Common infection strategies of pathogenic eukaryotes. Nature Reviews Microbiology, 4:922-931. Tyler, B.M., Tripathy, S., Zhang, X., Dehal, P., Jiang, R.H., Aerts, A., Arredondo, F.D., Baxter, L., Bensasson, D., Beynon, J.L., Chapman, J., Damasceno, C.M., Dorrance, A.E., Dou, D., Dickerman, A.W., Dubchak, I.L., Garbelotto, M., Gijzen, M., Gordon, S.G., Govers, F., Grunwald, N.J., Huang, W., Ivors, K.L., Jones, R.W., Kamoun, S., Krampis, K., Lamour, K.H., Lee, M.K., McDonald, W.H., Medina, M., Meijer, H.J., Nordberg, E.K., Maclean, D.J., Ospina-Giraldo, M.D., Morris, P.F., Phuntumart, V., Putnam, N.H., Rash, S., Rose, J.K., Sakihama, Y., Salamov, A.A., Savidor, A., Scheuring, C.F., Smith, B.M., Sobral, B.W., Terry, A., Torto-Alalibo, T.A., Win, J., Xu, Z., Zhang, H., Grigoriev, I.V., Rokhsar, D.S., Boore, J.L. 2006. Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis. Science, 313:1261-1266. Supplementary Material. Vleeshouwers, V.G.A.A., Driesprong, J.-D., Kamphuis, L.G., Torto-Alalibo, T., van't Slot, K.A.E., Govers, F., Visser, R.G.F., Jacobsen, E., and Kamoun, S. 2006. Agroinfection-based high throughput screening reveals specific recognition of INF elicitins in Solanum. Molecular Plant Pathology, 7:499-510.
Pons, J., Barraclough, T. G., Gomez-Zurita, J., Cardoso, A., Duran, D. P., Hazell, S., Kamoun, S., Sumlin, W. D., Vogler, A. P. 2006. Sequence-based species delimitation for the DNA taxonomy of undescribed insects. Systematic Biology, 55:595-609. Kanneganti, T. -D., Huitema, E., Cakir, C., and Kamoun, S. 2006. Synergistic interactions of the plant cell death pathways induced by Phytophthora infestans Nep1-like protein PiNPP1.1 and INF1 elicitin. Molecular Plant-Microbe Interactions, 19:854-863. Supplementary Material. Gaulin, E., Drame, N., Lafitte, C., Torto-Alalibo, T., Martinez, Y., Ameline-Torregrosa, C., Khatib, M., Mazarguil, H., Villalba-Mateos, F., Kamoun, S., Mazars, C., Dumas, B., Bottin, A., Esquerre-Tugaye, M.T., and Rickauer, M. 2006. Cellulose-binding domains of a Phytophthora cell wall protein are novel pathogen-associated molecular patterns. The Plant Cell, 18:1766-1777. Bhattacharjee, S., Hiller, L. N., Liolios, K., Win, J., Kanneganti, T. -D., Young, C., Kamoun, S., and Haldar, K. 2006. The malarial host-targeting signal is conserved in the Irish potato famine pathogen. PLoS Pathogens, 2:e50. Faculty of 1000 Evaluation. Kamoun, S. 2006. A catalogue of the effector secretome of plant pathogenic oomycetes. Annual Review of Phytopathology, 44: 41-60. Birch, P. R. J., Rehmany, A. P., Pritchard, L., Kamoun, S., and Beynon, J. L. 2006. Trafficking arms: oomycete effectors enter host plant cells. Trends in Microbiology, 14:8-11. Win, J., Kanneganti, T. -D., Torto-Alalibo, T., and Kamoun, S. 2006. Computational and comparative analyses of 150 full-length cDNA sequences from the oomycete plant pathogen Phytophthora infestans. Fungal Genetics and Biology, 43:20-33. GenBank accessions. Gajendran K, Gonzales MD, Farmer A, Archuleta E, Win J, Waugh ME, Kamoun S. 2006. Phytophthora functional genomics database (PFGD): functional genomics of Phytophthora-plant interactions. Nucleic Acids Research, 34:D465-470. 2005 Tian, M. and Kamoun, S. 2005. A two disulfide bridge Kazal domain from Phytophthora exhibits stable inhibitory activity against serine proteases of the subtilisin family. BMC Biochemistry, 6:15. Torto-Alalibo, T., Tian, M.,
Gajendran, K., Waugh, M. E., van West, P., and Kamoun, S. 2005. Expressed sequence tags
from the oomycete fish pathogen Saprolegnia parasitica reveal putative virulence factors. BMC
Microbiology, 5:46. Bin Nasir, K. H., Takahashi, Y., Ito, A., Saitoh, H., Matsumura, H., Kanzaki, H., Shimizu, T., Ito, M., Fujisawa, S., Sharma, P. C., Ohme-Takagi, M., Kamoun, S., and Terauchi, R. 2005. High-throughput in planta expression screening identifies a class II ethylene responsive element binding factor-like protein that regulates plant cell death and nonhost resistance. Plant Journal, 43:491-505. Tian, M., Benedetti, B., and Kamoun, S. 2005. A second Kazal-like protease inhibitor from Phytophthora infestans inhibits and interacts with the apoplastic pathogenesis-related protease P69B of tomato. Plant Physiology, 138:1785-93. Kim, K. J. , Eom, S. H., Lee, S. P., Jung, H. S., Kamoun, S., Lee, Y. S. 2005. A genetic marker associated with the A1 mating type locus in Phytophthora infestans. Journal of Microbiology and Biotechnology, 15:502-509. Armstrong, M.R., Whisson, S.C., Pritchard, L., Bos, J.I.B., Venter, E., Avrova, A.O., Rehmany, A.P., Bohme, U., Brooks, K., Cherevach, I., Hamlin, N., White, B., Fraser, A., Lord, A., Quail, M.A., Churcher, C., Hall, N., Berriman, M., Huang, S., Kamoun, S., Beynon, J.L., and Birch, P.R.J. 2005. An ancestral oomycete locus contains late blight avirulence gene Avr3a, encoding a protein that is recognized in the host cytoplasm. Proceedings of the National Academy of Sciences USA, 102:7766-7771. Supplementary Material. Rehmany, A. P., Gordon, A., Rose, L.E., Allen, R.L., Armstrong, M.R., Whisson, S.C., Kamoun, S., Tyler, B.M., Birch, P.R.J., and Beynon, J.L. 2005. Differential recognition of highly divergent downy mildew avirulence gene alleles by RPP1 genes from two Arabidopsis lines. The Plant Cell, 17:1839-1850. Kamoun, S., and Smart, C.D. 2005. Late blight of potato and tomato in the genomics era. Plant Disease, 89:692-699. Saint-Jean, S., Testa, A., Kamoun, S., and Madden, L.V. 2005. Use of a green fluorescent protein marker for studying splash dispersal of sporangia of Phytophthora infestans. European Journal of Plant Pathology, 112:391-394. Huitema, E., Vleeshouwers, V.G.A.A., Cakir, C., Kamoun, S., and Govers, F. 2005. Differences in intensity and specificity of hypersensitive response induction in Nicotiana spp. by INF1, INF2A and INF2B of Phytophthora infestans. Molecular Plant-Microbe Interactions, 18:183-193. Randall, T.A., Dwyer, R.A., Huitema, E., Beyer, K., Cvitanich, C., Kelkar, H., Ah Fong, A.M.V., Gates, K., Roberts, S., Yatzkan, E., Gaffney, T., Law, M., Testa, A., Torto-Alalibo, T., Zhang, M., Zheng, L., Mueller, E., Windass, J., Binder, A., Birch, P.R.J., Gisi, U., Govers, F., Gow, N.A., Mauch, F., van West, P., Waugh, M.E., Yu, J., Boller, T., Kamoun, S., Lam, S.T., and Judelson, H.S. 2005. Large-scale gene discovery in the oomycete Phytophthora infestans reveals likely components of phytopathogenicity shared with true fungi. Molecular Plant-Microbe Interactions, 18:229-243. Liu, Z., Bos, J.I.B., Armstrong, M., Whisson, S.C., da Cunha, L., Torto-Alalibo, T., Win, J., Avrova, A.O., Wright, F., Birch P.R.J., and Kamoun, S. 2005. Patterns of diversifying selection in the phytotoxin-like scr74 gene family of Phytophthora infestans. Molecular Biology and Evolution, 22:659-672. Supplementary Material. GenBank accessions. 2004 Kamoun, S. 2004. Foreword. In 'Fungal Disease Resistance in Plants: Biochemistry, Molecular Biology, and Genetic Engineering' Z.K. Punja, ed. Haworth Press, xvii-xviii. Yang, W., Bai, X., Kabelka, E., Eaton, C., Kamoun, S., van der Knaap, E., and Francis, D. 2004. Discovery of single nucleotide polymorphisms in Lycopersicon esculentum by computer aided analysis of expressed sequence tags. Molecular Breeding, 14:21-34. Tian, M., Huitema, E., da Cunha, L., Torto-Alalibo, T., and Kamoun, S. 2004. A Kazal-like extracellular serine protease inhibitor from Phytophthora infestans targets the tomato pathogenesis-related protease P69B. Journal of Biological Chemistry, 279:26370-26377. GenBank accessions. Huitema, E., Bos, J.I.B., Tian, M., Win, J., Waugh, M.E., and Kamoun, S. 2004. Linking sequence to phenotype in Phytophthora-plant interactions. Trends in Microbiology, 12:193-200. Kamoun, S. 2004. Pet breeding has a long and colourful history. Nature, 427:485. 2003 Matsumura, H., Reich, S., Ito, A., Saitoh, H., Kamoun, S., Winter, P., Kahl, G., Reuter, M., Kruger, D. H., and Terauchi, R. 2003. Gene expression analysis of plant host-pathogen interactions by SuperSAGE. Proceedings of the National Academy of Sciences USA, 100:15718-15723. Huitema, E., Vleeshouwers, V. G. A. A., Francis, D. M., and Kamoun, S. 2003. Active defence responses associated with non-host resistance of Arabidopsis thaliana to the oomycete pathogen Phytophthora infestans. Molecular Plant Pathology, 4:487-500. Kanzaki, H., Saitoh, H., Ito, A., Fujisawa, S., Kamoun, S., Katou, S., Yoshioka, Y., and Terauchi, R. 2003. Cytosolic HSP90 and HSP70 are essential components of INF1-mediated hypersensitive response and non-host resistance to Pseudomonas cichorii in Nicotiana benthamiana. Molecular Plant Pathology, 4:383-391. Sharma, P. C., Ito, A., Shimizu, T., Terauchi, R., Kamoun, S., and Saitoh, H. 2003. Virus-induced silencing of WIPK and SIPK genes in Nicotiana benthamiana cause reduced resistance against an incompatible bacterial pathogen but no effect on HR triggered by INF1. Molecular Genetics and Genomics, 269:583-591. Torto, T., Li, S., Styer, A., Huitema, E., Testa, A., Gow, N.A.R., van West, P., and Kamoun, S. 2003. EST mining and functional expression assays identify extracellular effector proteins from the plant pathogen Phytophthora. Genome Research, 13:1675-1685. Supplementary Information. GenBank accessions. Huitema, E., Torto, T.A., Styer, A., and Kamoun, S. 2003. Combined ESTs from plant-microbe interactions: Using GC counting to determine the species of origin. In "Plant Functional Genomics: Methods and Protocols" E. Grotewold, ed. Humana Press, 79-83. Supplementary Information Bos, J. I. B., Armstrong, M., Whisson, S. C., Torto, T., Ochwo, M., Birch, P. R. J., and Kamoun, S. 2003. Intraspecific comparative genomics to identify avirulence genes from Phytophthora. New Phytologist, 159:63-72. Lee, S.A., Wormsley, S., Kamoun, S., Joiner, K., and Wong, B. 2003. An analysis of the Candida albicans genome database for soluble secreted proteins using computer-based prediction algorithms. Yeast, 20:595-610. Supplementary Information Kamoun, S. 2003. Molecular genetics of pathogenic oomycetes. Eukaryotic Cell, 2:191-199. Qutob, D., Huitema, E., Gijzen, M., and Kamoun, S. 2003. Variation in structure and activity among elicitins from Phytophthora sojae. Molecular Plant Pathology, 4:119-124. GenBank accessions.
2002 Ochwo, M.K.N., Kamoun, S., Adipala, E. , Rubaihayo, P.R., Lamour, K., Olanya, M. 2002. Genetic Diversity of Phytophthora infestans (Mont.) de Bary in the Eastern and Western Highlands of Uganda. Journal of Phytopathology, 150:541-542.
Kamoun, S. 2002. Basic biology: What makes Phytophthora infestans a pathogen?. In "Late Blight: Managing the Global Threat. Proceedings of the Global Initiative on late Blight Conference, Hamburg, Germany, 11-13 July 2002" C. Lizarraga, ed. The International Potato Center, Lima, Peru, pp. 11-12. Kamoun, S., Dong, S., Hamada, W., Huitema, E., Kinney, D., Morgan, W.R., Styer, A., Testa, A., and Torto, T. 2002. From sequence to phenotype: Functional genomics of Phytophthora. Canadian Journal of Plant Pathology, 24:6-9. Torto, T.A., Rauser, L., Kamoun, S. 2002. The pipg1 gene of the oomycete Phytophthora infestans encodes a fungal-like endopolygalacturonase. Current Genetics, 40:385-390. GenBank accessions. The original publication is available on LINK. 2001 Vleeshouwers, V.G.A.A., Martens, A., van Dooijeweert, Colon, L.T., Govers, F., Kamoun, S. 2001. Ancient diversification of the Pto kinase family preceded speciation in Solanum. Molecular Plant-Microbe Interactions, 14:996-1005. Kamoun, S. 2001. Nonhost resistance to Phytophthora: novel prospects for a classical problem. Current Opinion in Plant Biology, 4:295-300. Kamoun, S., Hogenhout, S.A. 2001. Agricultural Microbes Genome 2. First glimpses into the genomes of plant-associated microbes. The Plant Cell, 13:451-458. 2000 Birch, P, and Kamoun, S. 2000. Studying interaction transcriptomes: coordinated analyses of gene expression during plant-microorganism interactions. In: New Technologies for Life Sciences: A Trends Guide (supplement to Elsevier Trends Journals, Dec. 2000), pp. 77-82. Sasabe, M., Takeuchi, K., Kamoun, S., Ichinose, Y., Govers, F., Kazuhiro, T., Shiraishi, T., Yamada, T. 2000. Independent pathways leading to apoptotic cell death, oxidative burst and defense gene expression in response to elicitin in tobacco cell suspension culture. European Journal of Biochemistry, 267:5005-5013. Vleeshouwers, V.G.A.A., van Dooijeweert, Govers, F., Kamoun, S., Colon, L.T. 2000. Does basal PR gene expression in Solanum species contribute to nonspecific resistance to Phytophthora infestans? Physiological and Molecular Plant Pathology, 57:35-42. Vleeshouwers, V.G.A.A., van Dooijeweert, Govers, F., Kamoun, S., Colon, L.T. 2000. The hypersensitive response is associated with host and nonhost resistance to Phytophthora infestans. Planta, 210:853-864. Kamoun, S. 2000. Phytophthora in "Fungal Pathology", J. Kronstad, ed. Kluwer Academic Publishers. 1999 Kamoun, S., Dong, S., Huitema, E., Torto, G.A., van West, P., Vleeshouwers, V.G.A.A. and Govers, F. 2000. Dissection of nonhost resistance of Nicotiana to Phytophthora infestans. In: Proceedings the 9th International Congress for Molecular Plant-Microbe Interactions, de Wit, P.J.G.M., Bisseling, T., Stiekema, W. eds, Amsterdam, 180-185. Kamoun, S., Hraber, P., Sobral, B., Nuss, D., Govers, F. 1999. Initial assessement of gene diversity for the oomycete pathogen Phytophthora infestans based on expressed sequences. Fungal Genetics and Biology, 28:94-106. van West, P., Kamoun, S., van’t Klooster, J.W., Govers, F. 1999. Ric1, a Phytophthora infestans gene with homology to stress-induced genes. Current Genetics, 36:310-315. van West, P., Reid, B., Campbell, T., Sandrock, R., Fry, W.E., Kamoun, S., Gow, N.A.R.G. 1999. Green Fluorescent Protein (GFP) as a reporter gene for the plant pathogenic oomycete Phytophthora palmivora. FEMS Letters, 178:71-80. Kamoun, S., Huitema, E., Vleeshouwers, V.G.A.A. 1999. Resistance to oomycetes: A general role for the hypersensitive response? Trends in Plant Sciences, 4:196-200. Kamoun, S., Honee, G., Weide, R., Lauge, R., Kooman-Gersmann, M., de Groot, K., Govers, F., de Wit, P.J.G.M. 1999. The fungal gene Avr9 and the oomycete gene inf1 confer avirulence to potato virus X on tobacco. Molecular Plant-Microbe Interactions, 12: 459-462. van West, P., Kamoun, S., van’t Klooster, J.W., Govers, F. 1999. Internuclear gene silencing in Phytophthora. Molecular Cell, 3: 339-348. 1998 Kamoun, S., T. van der Lee, G. van den Berg-Velthuis, K. de Groot, and F. Govers. 1998. Loss of Production of the Elicitor Protein INF1 in the Clonal Lineage US-1 of Phytophthora infestans. Phytopathology. 88: 1315-1323. Kamoun, S., P. van West, and F. Govers. 1998. Quantification of late blight resistance of potato using transgenic Phytophthora infestans expressing beta-glucuronidase. European Journal of Plant Pathology. 104:521-525. Kamoun, S., P. van West, V.G.A.A. Vleeshouwers, K. de Groot, and F. Govers. 1998. Resistance of Nicotiana benthamiana to Phytophthora infestans is Mediated by the Recognition of the Elicitor Protein INF1. Plant Cell. 10:1413-1425. 1997 Kamoun, S., H. Lindqvist, and F. Govers. 1997. A novel class of elicitin-like genes from Phytophthora infestans. Molecular Plant-Microbe Interactions. 10:1028-1030. Kamoun, S. and F. Govers. 1997. Phytophthora Diseases Worldwide (Book Review). European Journal of Plant Pathology. 103: 491-492. Kamoun, S., P. van West, A.J. de Jong, V.G.A.A. Vleeshouwers, and F. Govers. 1997. A gene encoding a protein elicitor of Phytophthora infestans is down-regulated during infection of potato. Molecular Plant-Microbe Interactions. 10:13-20. Supplementary Information 1994 Kamoun, S., M. Young, H. Forster, M.D. Coffey, and B.M. Tyler. 1994. Potential role of elicitins in the interaction between Phytophthora species and tobacco. Applied and Environmental Microbiology. 60:1593- 1598. 1993 Kamoun, S., K.M. Klucher, M.D. Coffey, and B.M. Tyler. 1993. A Gene encoding a host-specific elicitor protein of Phytophthora parasitica Molecular Plant-Microbe Interactions. 6:573-581. Kamoun, S., M. Young, C.B. Glascock, and B.M. Tyler. 1993. Extracellular protein elicitors from Phytophthora: Host-specificity and induction of resistance to bacterial and fungal pathogens. Molecular Plant- Microbe Interactions. 6:15-25. Kamoun, S., and C.I. Kado. 1993. Genetic Engineering for Plant Disease Resistance. p. 120. In: Advanced Engineered Pesticides, L. Kim, ed. Marcel Dekker Inc. 1992 Kamoun, S., E. Tola, H.V. Kamdar, and C.I. Kado. 1992. Rapid generation of directed and unmarked chromosomal deletions in Xanthomonas. Molecular Microbiology. 6:809-816. Kamoun, S., H.V. Kamdar, E. Tola, and C.I. Kado. 1992. Incompatible interactions between crucifers and Xanthomonas campestris involve a vascular-hypersensitive response: Role of the hrpX locus. Molecular Plant-Microbe Interactions. 5:22-33. 1990 Kamoun, S., and C.I. Kado. 1990. Phenotypic switching in Xanthomonas campestris affecting chemotaxis, xanthan production, and virulence. Applied and Environmental Microbiology. 56:3855-3860. Kamoun, S., and C.I. Kado. 1990. A plant-inducible gene of Xanthomonas campestris pv. campestris encodes an exocellular component required for growth in the host and hypersensitivity on nonhosts. Journal of Bacteriology. 172:5165-5172. |
