Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species
Brassicaceae crops, including <i>Brassica</i>, <i>Camelina</i> and <i>Raphanus</i> species, are among the most economically important crops globally; however, their production is affected by several diseases. To predict cloned disease resistance (<i>R</i&...
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MDPI AG
2022-11-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/11/22/3010 |
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| author | Aldrin Y. Cantila William J. W. Thomas Philipp E. Bayer David Edwards Jacqueline Batley |
| author_facet | Aldrin Y. Cantila William J. W. Thomas Philipp E. Bayer David Edwards Jacqueline Batley |
| author_sort | Aldrin Y. Cantila |
| collection | DOAJ |
| description | Brassicaceae crops, including <i>Brassica</i>, <i>Camelina</i> and <i>Raphanus</i> species, are among the most economically important crops globally; however, their production is affected by several diseases. To predict cloned disease resistance (<i>R</i>) gene homologs (CDRHs), we used the protein sequences of 49 cloned <i>R</i> genes against fungal and bacterial diseases in Brassicaceae species. In this study, using 20 Brassicaceae genomes (17 wild and 3 domesticated species), 3172 resistance gene analogs (RGAs) (2062 nucleotide binding-site leucine-rich repeats (NLRs), 497 receptor-like protein kinases (RLKs) and 613 receptor-like proteins (RLPs)) were identified. CDRH clusters were also observed in <i>Arabis alpina</i>, <i>Camelina sativa</i> and <i>Cardamine hirsuta</i> with assigned chromosomes, consisting of 62 homogeneous (38 NLR, 17 RLK and 7 RLP clusters) and 10 heterogeneous RGA clusters. This study highlights the prevalence of CDRHs in the wild relatives of the Brassicaceae family, which may lay the foundation for rapid identification of functional genes and genomics-assisted breeding to develop improved disease-resistant Brassicaceae crop cultivars. |
| first_indexed | 2024-03-09T18:03:57Z |
| format | Article |
| id | doaj.art-642fb2be5aaf46e9bbd618105b9ad4ef |
| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-09T18:03:57Z |
| publishDate | 2022-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Plants |
| spelling | doaj.art-642fb2be5aaf46e9bbd618105b9ad4ef2023-11-24T09:38:13ZengMDPI AGPlants2223-77472022-11-011122301010.3390/plants11223010Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae SpeciesAldrin Y. Cantila0William J. W. Thomas1Philipp E. Bayer2David Edwards3Jacqueline Batley4School of Biological Sciences, The University of Western Australia, Perth 6009, AustraliaSchool of Biological Sciences, The University of Western Australia, Perth 6009, AustraliaSchool of Biological Sciences, The University of Western Australia, Perth 6009, AustraliaSchool of Biological Sciences, The University of Western Australia, Perth 6009, AustraliaSchool of Biological Sciences, The University of Western Australia, Perth 6009, AustraliaBrassicaceae crops, including <i>Brassica</i>, <i>Camelina</i> and <i>Raphanus</i> species, are among the most economically important crops globally; however, their production is affected by several diseases. To predict cloned disease resistance (<i>R</i>) gene homologs (CDRHs), we used the protein sequences of 49 cloned <i>R</i> genes against fungal and bacterial diseases in Brassicaceae species. In this study, using 20 Brassicaceae genomes (17 wild and 3 domesticated species), 3172 resistance gene analogs (RGAs) (2062 nucleotide binding-site leucine-rich repeats (NLRs), 497 receptor-like protein kinases (RLKs) and 613 receptor-like proteins (RLPs)) were identified. CDRH clusters were also observed in <i>Arabis alpina</i>, <i>Camelina sativa</i> and <i>Cardamine hirsuta</i> with assigned chromosomes, consisting of 62 homogeneous (38 NLR, 17 RLK and 7 RLP clusters) and 10 heterogeneous RGA clusters. This study highlights the prevalence of CDRHs in the wild relatives of the Brassicaceae family, which may lay the foundation for rapid identification of functional genes and genomics-assisted breeding to develop improved disease-resistant Brassicaceae crop cultivars.https://www.mdpi.com/2223-7747/11/22/3010Brassicaceae cultivated and weedy speciesresistance gene analogs and homologs |
| spellingShingle | Aldrin Y. Cantila William J. W. Thomas Philipp E. Bayer David Edwards Jacqueline Batley Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species Plants Brassicaceae cultivated and weedy species resistance gene analogs and homologs |
| title | Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species |
| title_full | Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species |
| title_fullStr | Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species |
| title_full_unstemmed | Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species |
| title_short | Predicting Cloned Disease Resistance Gene Homologs (CDRHs) in Radish, Underutilised Oilseeds, and Wild Brassicaceae Species |
| title_sort | predicting cloned disease resistance gene homologs cdrhs in radish underutilised oilseeds and wild brassicaceae species |
| topic | Brassicaceae cultivated and weedy species resistance gene analogs and homologs |
| url | https://www.mdpi.com/2223-7747/11/22/3010 |
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