Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat
Senescence is the final stage of leaf development and is critical for plants’ fitness as nutrient relocation from leaves to reproductive organs takes place. Although senescence is key in nutrient relocation and yield determination in cereal grain production, there is limited understanding of the gen...
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| Format: | Article |
| Language: | English |
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MDPI AG
2021-06-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/12/6/909 |
| _version_ | 1797530456210538496 |
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| author | Anyela Valentina Camargo Rodriguez |
| author_facet | Anyela Valentina Camargo Rodriguez |
| author_sort | Anyela Valentina Camargo Rodriguez |
| collection | DOAJ |
| description | Senescence is the final stage of leaf development and is critical for plants’ fitness as nutrient relocation from leaves to reproductive organs takes place. Although senescence is key in nutrient relocation and yield determination in cereal grain production, there is limited understanding of the genetic and molecular mechanisms that control it in major staple crops such as wheat. Senescence is a highly orchestrated continuum of interacting pathways throughout the lifecycle of a plant. Levels of gene expression, morphogenesis, and phenotypic development all play key roles. Yet, most studies focus on a short window immediately after anthesis. This approach clearly leaves out key components controlling the activation, development, and modulation of the senescence pathway before anthesis, as well as during the later developmental stages, during which grain development continues. Here, a computational multiscale modelling approach integrates multi-omics developmental data to attempt to simulate senescence at the molecular and plant level. To recreate the senescence process in wheat, core principles were borrowed from Arabidopsis Thaliana, a more widely researched plant model. The resulted model describes temporal gene regulatory networks and their effect on plant morphology leading to senescence. Digital phenotypes generated from images using a phenomics platform were used to capture the dynamics of plant development. This work provides the basis for the application of computational modelling to advance understanding of the complex biological trait senescence. This supports the development of a predictive framework enabling its prediction in changing or extreme environmental conditions, with a view to targeted selection for optimal lifecycle duration for improving resilience to climate change. |
| first_indexed | 2024-03-10T10:29:13Z |
| format | Article |
| id | doaj.art-5bc6637c89b942c0bf1a6a50188f6999 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-10T10:29:13Z |
| publishDate | 2021-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-5bc6637c89b942c0bf1a6a50188f69992023-11-21T23:45:51ZengMDPI AGGenes2073-44252021-06-0112690910.3390/genes12060909Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in WheatAnyela Valentina Camargo Rodriguez0The John Bingham Laboratory, NIAB, 93 Lawrence Weaver Road, Cambridge CB3 0LE, UKSenescence is the final stage of leaf development and is critical for plants’ fitness as nutrient relocation from leaves to reproductive organs takes place. Although senescence is key in nutrient relocation and yield determination in cereal grain production, there is limited understanding of the genetic and molecular mechanisms that control it in major staple crops such as wheat. Senescence is a highly orchestrated continuum of interacting pathways throughout the lifecycle of a plant. Levels of gene expression, morphogenesis, and phenotypic development all play key roles. Yet, most studies focus on a short window immediately after anthesis. This approach clearly leaves out key components controlling the activation, development, and modulation of the senescence pathway before anthesis, as well as during the later developmental stages, during which grain development continues. Here, a computational multiscale modelling approach integrates multi-omics developmental data to attempt to simulate senescence at the molecular and plant level. To recreate the senescence process in wheat, core principles were borrowed from Arabidopsis Thaliana, a more widely researched plant model. The resulted model describes temporal gene regulatory networks and their effect on plant morphology leading to senescence. Digital phenotypes generated from images using a phenomics platform were used to capture the dynamics of plant development. This work provides the basis for the application of computational modelling to advance understanding of the complex biological trait senescence. This supports the development of a predictive framework enabling its prediction in changing or extreme environmental conditions, with a view to targeted selection for optimal lifecycle duration for improving resilience to climate change.https://www.mdpi.com/2073-4425/12/6/909computational modellingphenomicstranscriptomics<i>Triticum aestivum</i>climate resilience |
| spellingShingle | Anyela Valentina Camargo Rodriguez Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat Genes computational modelling phenomics transcriptomics <i>Triticum aestivum</i> climate resilience |
| title | Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat |
| title_full | Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat |
| title_fullStr | Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat |
| title_full_unstemmed | Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat |
| title_short | Integrative Modelling of Gene Expression and Digital Phenotypes to Describe Senescence in Wheat |
| title_sort | integrative modelling of gene expression and digital phenotypes to describe senescence in wheat |
| topic | computational modelling phenomics transcriptomics <i>Triticum aestivum</i> climate resilience |
| url | https://www.mdpi.com/2073-4425/12/6/909 |
| work_keys_str_mv | AT anyelavalentinacamargorodriguez integrativemodellingofgeneexpressionanddigitalphenotypestodescribesenescenceinwheat |