CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts
Testa, Alison C, Hane, James K, Ellwood, Simon R, Oliver, Richard P
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Published in BMC genomics (11.03.2015)
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The Molecular Docking of MAX Fungal Effectors with Plant HMA Domain-Binding Proteins
Rozano, Lina, Hane, James K, Mancera, Ricardo L
Published in International journal of molecular sciences (01.10.2023)
Published in International journal of molecular sciences (01.10.2023)
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Accessories make the outfit: Accessory Chromosomes and other dispensable DNA regions in plant-pathogenic Fungi
Bertazzoni, Stefania, Williams, Angela, Jones, Darcy A B, Syme, Robert A, Tan, Kar-Chun, Hane, James Kyawzwar
Published in Molecular plant-microbe interactions (01.08.2018)
Published in Molecular plant-microbe interactions (01.08.2018)
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An automated and combinative method for the predictive ranking of candidate effector proteins of fungal plant pathogens
Jones, Darcy A. B., Rozano, Lina, Debler, Johannes W., Mancera, Ricardo L., Moolhuijzen, Paula M., Hane, James K.
Published in Scientific reports (05.10.2021)
Published in Scientific reports (05.10.2021)
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Genome sequencing and comparative genomics of the broad host-range pathogen Rhizoctonia solani AG8
Hane, James K, Anderson, Jonathan P, Williams, Angela H, Sperschneider, Jana, Singh, Karam B
Published in PLoS genetics (01.05.2014)
Published in PLoS genetics (01.05.2014)
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Template-Based Modelling of the Structure of Fungal Effector Proteins
Rozano, Lina, Jones, Darcy A. B., Hane, James K., Mancera, Ricardo L.
Published in Molecular biotechnology (01.04.2024)
Published in Molecular biotechnology (01.04.2024)
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Ab Initio Modelling of the Structure of ToxA-like and MAX Fungal Effector Proteins
Rozano, Lina, Mukuka, Yvonne M, Hane, James K, Mancera, Ricardo L
Published in International journal of molecular sciences (26.03.2023)
Published in International journal of molecular sciences (26.03.2023)
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Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity
Moolhuijzen, Paula, See, Pao Theen, Hane, James K, Shi, Gongjun, Liu, Zhaohui, Oliver, Richard P, Moffat, Caroline S
Published in BMC genomics (23.04.2018)
Published in BMC genomics (23.04.2018)
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Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations
Rouxel, Thierry, Grandaubert, Jonathan, Hane, James K, Hoede, Claire, van de Wouw, Angela P, Couloux, Arnaud, Dominguez, Victoria, Anthouard, Véronique, Bally, Pascal, Bourras, Salim, Cozijnsen, Anton J, Ciuffetti, Lynda M, Degrave, Alexandre, Dilmaghani, Azita, Duret, Laurent, Fudal, Isabelle, Goodwin, Stephen B, Gout, Lilian, Glaser, Nicolas, Linglin, Juliette, Kema, Gert H. J, Lapalu, Nicolas, Lawrence, Christopher B, May, Kim, Meyer, Michel, Ollivier, Bénédicte, Poulain, Julie, Schoch, Conrad L, Simon, Adeline, Spatafora, Joseph W, Stachowiak, Anna, Turgeon, B. Gillian, Tyler, Brett M, Vincent, Delphine, Weissenbach, Jean, Amselem, Joëlle, Quesneville, Hadi, Oliver, Richard P, Wincker, Patrick, Balesdent, Marie-Hélène, Howlett, Barbara J
Published in Nature communications (15.02.2011)
Published in Nature communications (15.02.2011)
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Reactive Oxygen Species Play a Role in the Infection of the Necrotrophic Fungi, Rhizoctonia solani in Wheat
Foley, Rhonda C, Kidd, Brendan N, Hane, James K, Anderson, Jonathan P, Singh, Karam B
Published in PloS one (31.03.2016)
Published in PloS one (31.03.2016)
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"CATAStrophy," a Genome-Informed Trophic Classification of Filamentous Plant Pathogens - How Many Different Types of Filamentous Plant Pathogens Are There?
Hane, James K, Paxman, Jonathan, Jones, Darcy A B, Oliver, Richard P, de Wit, Pierre
Published in Frontiers in microbiology (21.01.2020)
Published in Frontiers in microbiology (21.01.2020)
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Highly Repetitive Genome of Coniella granati (syn. Pilidiella granati ), the Causal Agent of Pomegranate Fruit Rot, Encodes a Minimalistic Proteome with a Streamlined Arsenal of Effector Proteins
Zambounis, Antonios, Maniatis, Elisseos I, Mincuzzi, Annamaria, Gray, Naomi, Hossain, Mohitul, Tsitsigiannis, Dimitrios I, Paplomatas, Epaminondas, Ippolito, Antonio, Schena, Leonardo, Hane, James K
Published in International journal of molecular sciences (17.09.2024)
Published in International journal of molecular sciences (17.09.2024)
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Evolution of linked avirulence effectors in Leptosphaeria maculans is affected by genomic environment and exposure to resistance genes in host plants
Van de Wouw, Angela P, Cozijnsen, Anton J, Hane, James K, Brunner, Patrick C, McDonald, Bruce A, Oliver, Richard P, Howlett, Barbara J
Published in PLoS pathogens (01.11.2010)
Published in PLoS pathogens (01.11.2010)
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Chromosome-level genome assembly and manually-curated proteome of model necrotroph Parastagonospora nodorum Sn15 reveals a genome-wide trove of candidate effector homologs, and redundancy of virulence-related functions within an accessory chromosome
Bertazzoni, Stefania, Jones, Darcy A. B, Phan, Huyen T, Tan, Kar-Chun, Hane, James K
Published in BMC genomics (25.05.2021)
Published in BMC genomics (25.05.2021)
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Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors
Williams, Angela H, Sharma, Mamta, Thatcher, Louise F, Azam, Sarwar, Hane, James K, Sperschneider, Jana, Kidd, Brendan N, Anderson, Jonathan P, Ghosh, Raju, Garg, Gagan, Lichtenzveig, Judith, Kistler, H Corby, Shea, Terrance, Young, Sarah, Buck, Sally-Anne G, Kamphuis, Lars G, Saxena, Rachit, Pande, Suresh, Ma, Li-Jun, Varshney, Rajeev K, Singh, Karam B
Published in BMC genomics (05.03.2016)
Published in BMC genomics (05.03.2016)
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A whole genome scan of SNP data suggests a lack of abundant hard selective sweeps in the genome of the broad host range plant pathogenic fungus Sclerotinia sclerotiorum
Derbyshire, Mark Charles, Denton-Giles, Matthew, Hane, James K, Chang, Steven, Mousavi-Derazmahalleh, Mahsa, Raffaele, Sylvain, Buchwaldt, Lone, Kamphuis, Lars G
Published in PloS one (28.03.2019)
Published in PloS one (28.03.2019)
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The Arabidopsis KH-Domain RNA-Binding Protein ESR1 Functions in Components of Jasmonate Signalling, Unlinking Growth Restraint and Resistance to Stress
Thatcher, Louise F, Kamphuis, Lars G, Hane, James K, Oñate-Sánchez, Luis, Singh, Karam B
Published in PloS one (18.05.2015)
Published in PloS one (18.05.2015)
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Publisher Correction: An automated and combinative method for the predictive ranking of candidate effector proteins of fungal plant pathogens
Jones, Darcy A. B., Rozano, Lina, Debler, Johannes W., Mancera, Ricardo L., Moolhuijzen, Paula M., Hane, James K.
Published in Scientific reports (13.12.2021)
Published in Scientific reports (13.12.2021)
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Prediction of pathogenicity genes involved in adaptation to a lupin host in the fungal pathogens Botrytis cinerea and Sclerotinia sclerotiorum via comparative genomics
Mousavi-Derazmahalleh, Mahsa, Chang, Steven, Thomas, Geoff, Derbyshire, Mark, Bayer, Phillip E, Edwards, David, Nelson, Matthew N, Erskine, William, Lopez-Ruiz, Francisco J, Clements, Jon, Hane, James K
Published in BMC genomics (17.05.2019)
Published in BMC genomics (17.05.2019)
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