Pathogen-Host Interactions Database: PHI Database [2012-2017]
Project (past)
| Researchers | |
|---|---|
| Principal Investigator | Kim Hammond-Kosack |
| Funder | Biotechnology and Biological Sciences Research Council |
| Project number | S5192 |
| 5192 | |
| Department | Plant Biology and Crop Science (PBCS) |
| Research fish code | BBS/E/C/00005192 |
| Grant ID | BBS/E/C/00005192 |
Outputs
Sort by: Date Title
Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species
A - Papers appearing in refereed journals
Kersey, P. J., Allen, J. E., Allot, A., Barba, M., Boddu, S., Bolt, B. J., Carvalho-Silva, D., Christensen, M., Davis, P., Grabmueller, C., Kumar, N., Liu, Z., Maurel, T., Moore, B., Mcdowall, M. D., Maheswari, U., Naamati, G., Newman, V., Ong, C. K., Paulini, M., Pedro, H., Perry, E., Russell, M., Sparrow, H., Tapanari, E., Taylor, K., Vullo, A., Williams, G., Zadissia, A., Olson, A., Stein, J., Wei, S., Tello-Ruiz, M., Ware, D., Luciani, A., Potter, S., Finn, R. D., Urban, M., Hammond-Kosack, K. E., Bolser, D. M., De Silva, N., Howe, K. L., Langridge, N., Maslen, G., Staines, D. M. and Yates, A. 2018. Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species. Nucleic Acids Research. 46 (D1), pp. D802-D808. https://doi.org/10.1093/nar/gkx1011
PHI-base: a new interface and further additions for the multi-species pathogen–host interactions database
A - Papers appearing in refereed journals
Urban, M., Cuzick, A., Rutherford, K., Irvine, A. G., Pedro, H., Pant, R., Sadanadan, V., Khamari, L., Billal, S., Mohanty, Sagar and Hammond-Kosack, K. E. 2017. PHI-base: a new interface and further additions for the multi-species pathogen–host interactions database. Nucleic Acids Research. 45 (D1), pp. D604-D610. https://doi.org/10.1093/nar/gkw1089
Searching for novel targets to control wheat head blight disease—I-Protein identification,3D modeling and virtual screening
A - Papers appearing in refereed journals
Martens, N. F., Bresso, E., Togawa, R. C., Urban, M., Antoniw, J. F., Maigret, B. and Hammond-Kosack, M. 2016. Searching for novel targets to control wheat head blight disease—I-Protein identification,3D modeling and virtual screening. Advances in Microbiology. 6 (11), pp. 811-830. https://doi.org/10.4236/aim.2016.611079
Using the phenotypic information in the pathogen-host interactions database (PHI-BASE) to explore Fusarium and Magnaporthe genomes, transcriptomes and proteomes
C1 - Edited contributions to conferences/learned societies
Urban, M., Irvine, A., Cuzick, A. and Hammond-Kosack, K. E. 2016. Using the phenotypic information in the pathogen-host interactions database (PHI-BASE) to explore Fusarium and Magnaporthe genomes, transcriptomes and proteomes. Proceedings 5th ISFHB - 2nd IWWB Symposium, 5-10, Florianopolis, Brasil.
The genome of the emerging barley pathogen Ramularia collo-cygni
A - Papers appearing in refereed journals
McGrann, G. R. D., Andongabo, A. E., Sjokvist, E., Trivedi, U., Dussart, F., Kaczmarek, M., Mackenzie, A., Fountaine, J. M., Taylor, J. M. G., Paterson, L. J., Gorniak, K., Burnett, F., Kanyuka, K., Hammond-Kosack, K. E., Rudd, J. J., Blaxter, M. and Havis, N. D. 2016. The genome of the emerging barley pathogen Ramularia collo-cygni. BMC Genomics. 17 (1), p. 584. https://doi.org/10.1186/s12864-016-2928-3
RNAseq reveals hydrophobins that are involved in the adaptation of Aspergillus nidulans to lignocellulose
A - Papers appearing in refereed journals
Brown, N. A., Ries, L. N. A., Reis, T. F., Rajendran, R., Correa dos Santos, R. A., Ramage, G., Riano-Pachon, D. M. and Goldman, G. H. 2016. RNAseq reveals hydrophobins that are involved in the adaptation of Aspergillus nidulans to lignocellulose. Biotechnology for Biofuels. 9, p. 145. https://doi.org/10.1186/s13068-016-0558-2
Structure-based virtual screening of hypothetical inhibitors of the enzyme longiborneal synthase - a potential target to reduce Fusarium head blight disease
A - Papers appearing in refereed journals
Bresso, E., Leroux, V., Urban, M., Hammond-Kosack, K. E., Maigret, B. and Martins, N. F. 2016. Structure-based virtual screening of hypothetical inhibitors of the enzyme longiborneal synthase - a potential target to reduce Fusarium head blight disease. Journal Of Molecular Modeling. 22, p. 163. https://doi.org/10.1007/s00894-016-3021-1
Publishing FAIR data: an exemplar methodology utilizing PHI-base
A - Papers appearing in refereed journals
Rodriguez-Iglesias, A., Rodriguez-Gonzales, A., Irvine, A. G., Sesma, A., Urban, M., Hammond-Kosack, K. E. and Wilkinson, M. D. 2016. Publishing FAIR data: an exemplar methodology utilizing PHI-base. Frontiers in Plant Science. 7, p. 641. https://doi.org/10.3389/fpls.2016.00641
The contribution of Aspergillus fumigatus stress responses to virulence and antifungal resistance
A - Papers appearing in refereed journals
Brown, N. A. and Goldman, G. H. 2016. The contribution of Aspergillus fumigatus stress responses to virulence and antifungal resistance. Journal of Microbiology. 54, pp. 243-253. https://doi.org/10.1007/s12275-016-5510-4
PhytoPath: an integrative resource for plant pathogen genomics
A - Papers appearing in refereed journals
Pedro, H., Maheswari, U., Urban, M., Irvine, A. G., Cuzick, A., Mcdowall, M. D., Staines, D. M., Kulesha, E., Hammond-Kosack, K. E. and Kersey, P. J. 2016. PhytoPath: an integrative resource for plant pathogen genomics. Nucleic Acids Research. 44 (D1), pp. D688-D693. https://doi.org/10.1093/nar/gkv1052
The trans-kingdom identification of negative regulators of pathogen hypervirulence
A - Papers appearing in refereed journals
Brown, N. A., Urban, M. and Hammond-Kosack, K. E. 2016. The trans-kingdom identification of negative regulators of pathogen hypervirulence. FEMS Microbiology Reviews. 40 (1), pp. 19-40. https://doi.org/10.1093/femsre/fuv042
Secreted biomolecules in fungal plant pathogenesis
B - Book chapters etc edited externally
Brown, N. A. and Hammond-Kosack, K. E. 2015. Secreted biomolecules in fungal plant pathogenesis. in: Gupta, V. K., Sreenivasaprasad, S. and Mach, R. L. (ed.) Fungal biomolecules: sources, applications and recent developments John Wiley & Sons Chichester, West Sussex. pp. 263-310
The Aspergillus fumigatus pkcA G579R mutant is defective in the activation of the cell wall integrity pathway but is dispensable for virulence in a neutropenic mouse infection model
A - Papers appearing in refereed journals
Rocha, M. C., De Godoy, K. F., De Castro, P. A., Hori, J. I., Bom, V. L. P., Brown, N. A., Da Cunha, A. F., Goldman, G. H. and Malavazi, I. 2015. The Aspergillus fumigatus pkcA G579R mutant is defective in the activation of the cell wall integrity pathway but is dispensable for virulence in a neutropenic mouse infection model. PLOS ONE. 10, p. e0135195. https://doi.org/10.1371/journal.pone.0135195
G‐protein coupled receptor‐mediated nutrient sensing and developmental control in Aspergillus nidulans
A - Papers appearing in refereed journals
Brown, N. A., Dos Reis, T. F., Ries, L. N. A., Caldana, C., Mah, J-H., Yu, J-H., Macdonald, J. M. and Goldman, G. H. 2015. G‐protein coupled receptor‐mediated nutrient sensing and developmental control in Aspergillus nidulans. Molecular Microbiology. 98 (3), pp. 420-439. https://doi.org/10.1111/mmi.13135
Using the pathogen-host interactions database (PHI-base) to investigate plant pathogen genomes and genes implicated in virulence
A - Papers appearing in refereed journals
Urban, M., Irvine, A. G., Cuzick, A. and Hammond-Kosack, K. E. 2015. Using the pathogen-host interactions database (PHI-base) to investigate plant pathogen genomes and genes implicated in virulence. Frontiers in Plant Science. 6, p. 605. https://doi.org/10.3389/fpls.2015.00605
The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum
A - Papers appearing in refereed journals
King, R., Urban, M., Hammond-Kosack, M. C. U., Hassani-Pak, K. and Hammond-Kosack, K. E. 2015. The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum. BMC Genomics. 16, p. 544. https://doi.org/10.1186/s12864-015-1756-1
The Pathogen-Host Interactions database (PHI-base): additions and future developments
A - Papers appearing in refereed journals
Urban, M., Pant, R., Raghunath, A., Irvine, A. G., Pedro, H. and Hammond-Kosack, K. E. 2015. The Pathogen-Host Interactions database (PHI-base): additions and future developments. Nucleic Acids Research. 43, pp. D645-D655. https://doi.org/10.1093/nar/gku1165
Biotechnology: plant protection
B - Book chapters etc edited externally
Hammond-Kosack, K. E. 2014. Biotechnology: plant protection. in: Vanalfen, N. K. (ed.) Encyclopedia of agriculture and food systems, Vol. 2 Elsevier, San Diego. pp. 134-152
Development of a female attractant for the click beetle pest Agriotes brevis
A - Papers appearing in refereed journals
Vuts, J., Furlan, L., Csonka, E. B., Woodcock, C. M., Caulfield, J. C., Mayon, P., Pickett, J. A., Birkett, M. A. and Toth, M. 2014. Development of a female attractant for the click beetle pest Agriotes brevis. Pest Management Science. 70 (4), pp. 610-614. https://doi.org/10.1002/ps.3589
Network-based data integration for selecting candidate virulence associated proteins in the cereal infecting fungus Fusarium graminearum
A - Papers appearing in refereed journals
Lysenko, A., Urban, M., Bennett, L., Tsoka, S., Janowska-Sejda, E., Rawlings, C. J., Hammond-Kosack, K. E. and Saqi, M. 2013. Network-based data integration for selecting candidate virulence associated proteins in the cereal infecting fungus Fusarium graminearum. PLOS ONE. 8, p. e67926. https://doi.org/10.1371/journal.pone.0067926
Estudos avancados para deteccao de genes diferencialmente expressos em trigo infectado por Fusarium graminearum
C2 - Non-edited contributions to conferences
Martins, N. F. and Hammond-Kosack, K. E. 2012. Estudos avancados para deteccao de genes diferencialmente expressos em trigo infectado por Fusarium graminearum. Abstracts 1st Meeting EMBRAPA Researchers and Engineers in Europe, Montpellier, 18 October 2012 .
Phytopath - A new bioinformatics resource for plant pathogens
C2 - Non-edited contributions to conferences
Pedro, H., Grzebyta, J., Urban, M., Saqi, M., Kerhornou, A., Maheswari, U., Kersey, P. and Hammond-Kosack, K. E. 2012. Phytopath - A new bioinformatics resource for plant pathogens. Abstracts 11th European Conference on Fungal Genetics, Marburg, 30 March - 2 April 2012 . pp. 138