LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell
Pathogens secrete effector proteins and many operate inside plant cells to enable infection. Some effectors have been found to enter subcellular compartments by mimicking host targeting sequences. Although many computational methods exist to predict plant protein subcellular localization, they perfo...
| Main Authors: | , , , , , , , |
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| Format: | Journal Article |
| Published: |
Nature Publishing Group
2017
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| Online Access: | http://hdl.handle.net/20.500.11937/52131 |
| _version_ | 1848758854038323200 |
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| author | Sperschneider, J. Catanzariti, A. Deboer, K. Petre, B. Gardiner, D. Singh, Karam Dodds, P. Taylor, J. |
| author_facet | Sperschneider, J. Catanzariti, A. Deboer, K. Petre, B. Gardiner, D. Singh, Karam Dodds, P. Taylor, J. |
| author_sort | Sperschneider, J. |
| building | Curtin Institutional Repository |
| collection | Online Access |
| description | Pathogens secrete effector proteins and many operate inside plant cells to enable infection. Some effectors have been found to enter subcellular compartments by mimicking host targeting sequences. Although many computational methods exist to predict plant protein subcellular localization, they perform poorly for effectors. We introduce LOCALIZER for predicting plant and effector protein localization to chloroplasts, mitochondria, and nuclei. LOCALIZER shows greater prediction accuracy for chloroplast and mitochondrial targeting compared to other methods for 652 plant proteins. For 107 eukaryotic effectors, LOCALIZER outperforms other methods and predicts a previously unrecognized chloroplast transit peptide for the ToxA effector, which we show translocates into tobacco chloroplasts. Secretome-wide predictions and confocal microscopy reveal that rust fungi might have evolved multiple effectors that target chloroplasts or nuclei. LOCALIZER is the first method for predicting effector localisation in plants and is a valuable tool for prioritizing effector candidates for functional investigations. © The Author(s) 2017. |
| first_indexed | 2025-11-14T09:50:36Z |
| format | Journal Article |
| id | curtin-20.500.11937-52131 |
| institution | Curtin University Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-14T09:50:36Z |
| publishDate | 2017 |
| publisher | Nature Publishing Group |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | curtin-20.500.11937-521312017-10-10T06:04:26Z LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell Sperschneider, J. Catanzariti, A. Deboer, K. Petre, B. Gardiner, D. Singh, Karam Dodds, P. Taylor, J. Pathogens secrete effector proteins and many operate inside plant cells to enable infection. Some effectors have been found to enter subcellular compartments by mimicking host targeting sequences. Although many computational methods exist to predict plant protein subcellular localization, they perform poorly for effectors. We introduce LOCALIZER for predicting plant and effector protein localization to chloroplasts, mitochondria, and nuclei. LOCALIZER shows greater prediction accuracy for chloroplast and mitochondrial targeting compared to other methods for 652 plant proteins. For 107 eukaryotic effectors, LOCALIZER outperforms other methods and predicts a previously unrecognized chloroplast transit peptide for the ToxA effector, which we show translocates into tobacco chloroplasts. Secretome-wide predictions and confocal microscopy reveal that rust fungi might have evolved multiple effectors that target chloroplasts or nuclei. LOCALIZER is the first method for predicting effector localisation in plants and is a valuable tool for prioritizing effector candidates for functional investigations. © The Author(s) 2017. 2017 Journal Article http://hdl.handle.net/20.500.11937/52131 10.1038/srep44598 Nature Publishing Group unknown |
| spellingShingle | Sperschneider, J. Catanzariti, A. Deboer, K. Petre, B. Gardiner, D. Singh, Karam Dodds, P. Taylor, J. LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title | LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title_full | LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title_fullStr | LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title_full_unstemmed | LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title_short | LOCALIZER: Subcellular localization prediction of both plant and effector proteins in the plant cell |
| title_sort | localizer: subcellular localization prediction of both plant and effector proteins in the plant cell |
| url | http://hdl.handle.net/20.500.11937/52131 |