The family of Deg/HtrA proteases in plants
<p>Abstract</p> <p>Background</p> <p>The Deg/HtrA family of ATP-independent serine endopeptidases is present in nearly all organisms from bacteria to human and vascular plants. In recent years, multiple deg/htrA protease genes were identified in various plant genomes. D...
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| Format: | Article |
| Language: | English |
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BMC
2012-04-01
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| Series: | BMC Plant Biology |
| Online Access: | http://www.biomedcentral.com/1471-2229/12/52 |
| _version_ | 1811318973485023232 |
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| author | Schuhmann Holger Huesgen Pitter F Adamska Iwona |
| author_facet | Schuhmann Holger Huesgen Pitter F Adamska Iwona |
| author_sort | Schuhmann Holger |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The Deg/HtrA family of ATP-independent serine endopeptidases is present in nearly all organisms from bacteria to human and vascular plants. In recent years, multiple deg/htrA protease genes were identified in various plant genomes. During genome annotations most proteases were named according to the order of discovery, hence the same names were sometimes given to different types of Deg/HtrA enzymes in different plant species. This can easily lead to false inference of individual protease functions based solely on a shared name. Therefore, the existing names and classification of these proteolytic enzymes does not meet our current needs and a phylogeny-based standardized nomenclature is required.</p> <p>Results</p> <p>Using phylogenetic and domain arrangement analysis, we improved the nomenclature of the Deg/HtrA protease family, standardized protease names based on their well-established nomenclature in <it>Arabidopsis thaliana</it>, and clarified the evolutionary relationship between orthologous enzymes from various photosynthetic organisms across several divergent systematic groups, including dicots, a monocot, a moss and a green alga. Furthermore, we identified a “core set” of eight proteases shared by all organisms examined here that might provide all the proteolytic potential of Deg/HtrA proteases necessary for a hypothetical plant cell.</p> <p>Conclusions</p> <p>In our proposed nomenclature, the evolutionarily closest orthologs have the same protease name, simplifying scientific communication when comparing different plant species and allowing for more reliable inference of protease functions. Further, we proposed that the high number of Deg/HtrA proteases in plants is mainly due to gene duplications unique to the respective organism.</p> |
| first_indexed | 2024-04-13T12:35:09Z |
| format | Article |
| id | doaj.art-2f29d082ad3d41d5bd58e27ecc36fa79 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-04-13T12:35:09Z |
| publishDate | 2012-04-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-2f29d082ad3d41d5bd58e27ecc36fa792022-12-22T02:46:41ZengBMCBMC Plant Biology1471-22292012-04-011215210.1186/1471-2229-12-52The family of Deg/HtrA proteases in plantsSchuhmann HolgerHuesgen Pitter FAdamska Iwona<p>Abstract</p> <p>Background</p> <p>The Deg/HtrA family of ATP-independent serine endopeptidases is present in nearly all organisms from bacteria to human and vascular plants. In recent years, multiple deg/htrA protease genes were identified in various plant genomes. During genome annotations most proteases were named according to the order of discovery, hence the same names were sometimes given to different types of Deg/HtrA enzymes in different plant species. This can easily lead to false inference of individual protease functions based solely on a shared name. Therefore, the existing names and classification of these proteolytic enzymes does not meet our current needs and a phylogeny-based standardized nomenclature is required.</p> <p>Results</p> <p>Using phylogenetic and domain arrangement analysis, we improved the nomenclature of the Deg/HtrA protease family, standardized protease names based on their well-established nomenclature in <it>Arabidopsis thaliana</it>, and clarified the evolutionary relationship between orthologous enzymes from various photosynthetic organisms across several divergent systematic groups, including dicots, a monocot, a moss and a green alga. Furthermore, we identified a “core set” of eight proteases shared by all organisms examined here that might provide all the proteolytic potential of Deg/HtrA proteases necessary for a hypothetical plant cell.</p> <p>Conclusions</p> <p>In our proposed nomenclature, the evolutionarily closest orthologs have the same protease name, simplifying scientific communication when comparing different plant species and allowing for more reliable inference of protease functions. Further, we proposed that the high number of Deg/HtrA proteases in plants is mainly due to gene duplications unique to the respective organism.</p>http://www.biomedcentral.com/1471-2229/12/52 |
| spellingShingle | Schuhmann Holger Huesgen Pitter F Adamska Iwona The family of Deg/HtrA proteases in plants BMC Plant Biology |
| title | The family of Deg/HtrA proteases in plants |
| title_full | The family of Deg/HtrA proteases in plants |
| title_fullStr | The family of Deg/HtrA proteases in plants |
| title_full_unstemmed | The family of Deg/HtrA proteases in plants |
| title_short | The family of Deg/HtrA proteases in plants |
| title_sort | family of deg htra proteases in plants |
| url | http://www.biomedcentral.com/1471-2229/12/52 |
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