Developing an integrative approach to phenomics for industrial biomedical and environmental applications

开发用于工业生物医学和环境应用的表型组学综合方法

• 批准号: MR/Y011724/1
• 负责人: Oliver Tills
• 金额: $ 75.88万
• 依托单位: Plymouth University
• 依托单位国家: 英国
• 项目类别: Fellowship
• 财政年份: 2024
• 资助国家: 英国
• 起止时间: 2024 至 无数据
• 项目状态: 未结题
• 来源: https://gtr.ukri.org/projects?ref=MR%2FY011724%2F1
• 关键词: Developing; integrative; approach; phenomics; industrial

Advances in understanding complex biological responses have never been so urgent given the unprecedented rates of local and global environmental change, and the increasing pressures on biological systems. Embryos are extremely sensitive to environmental change and exhibit incredible diversity and dynamism in spatial, functional and temporal phenotypic change. They therefore present a unique system for pushing the boundaries of how we measure complex biological responses to an increasingly complex and anthropogenically impacted natural world. The first four years of my FLF supported the development of entirely new technologies and approaches for measuring environmental sensitivity during the earliest stages of life, in marine and freshwaters. The Fellowship supported moving research away from traditional manual phenotypic approaches to measuring the biology of developing animals at their most dynamic, and moving towards integrative, data-rich and scalable methods of measuring whole-organismal biological responses. I will use a three year extension to my FLF, broadly in line with my initial Fellowship, to drive impact from the innovation to date by: i) Establishing the capability for predictive phenomics in developing organisms, to enable biological responses to be predicted via timeseries models trained using deep learning on the basis of the previous developmental phenotype. This will have broad relevance for predicting sensitivity, artificially selecting for particular outcomes in later life and enabling dynamic feedback loops within experiments to assess the time-specific effects of different environmental drivers. ii) Creating digital twinning between laboratory and field instruments to enable dynamic environmental synchronisation of field conditions in the laboratory to assess the real-time biological impacts of simulated environmental events in the field. iii) Extending the user base of the EmbryoPhenomics instrumentation and research approaches to different research areas, continents and sectors. Working with local user groups and the open-source hardware community we will extend the applicability of these approaches to the challenges of different stakeholders. Establishing a global community of users will support environmental sensitivity experiments being run in parallel globally, but will also enable a concerted effort to document the visible physiological diversity of organisms during their early life, via timelapse bioimaging. The resulting video will be maintained in the first open-source repository of developing organisms and will be invaluable to both researchers, but also as a resource for shining a light on the hidden world of biological development, within the context of global environmental change.

鉴于当地和全球环境变化的空前速度以及生物系统面临的日益增加的压力，理解复杂生物反应的进展从未如此紧迫。胚胎对环境变化极其敏感，在空间、功能和时间表型变化方面表现出令人难以置信的多样性和活力。因此，他们提出了一个独特的系统，可以突破我们测量复杂生物反应的界限，以适应日益复杂和受到人为影响的自然世界。我的 FLF 的前四年支持了全新技术和方法的开发，用于测量生命早期阶段（海洋和淡水）的环境敏感性。该奖学金支持将研究从传统的手工表型方法转移到测量发育中动物最动态的生物学，并转向综合的、数据丰富的和可扩展的方法来测量整个有机体的生物反应。我将利用我的 FLF 延期三年，与我最初的奖学金基本一致，通过以下方式推动创新迄今为止的影响： i) 在发育中的生物体中建立预测表型组学的能力，使生物反应能够通过时间序列进行预测基于先前的发育表型使用深度学习训练的模型。这对于预测敏感性、人为地选择晚年的特定结果以及在实验中启用动态反馈循环以评估不同环境驱动因素的特定时间影响具有广泛的相关性。 ii) 在实验室和现场仪器之间创建数字孪生，实现实验室现场条件的动态环境同步，以评估现场模拟环境事件的实时生物影响。 iii) 将 EmbryoPhenomics 仪器和研究方法的用户群扩展到不同的研究领域、大陆和部门。通过与本地用户团体和开源硬件社区合作，我们将扩展这些方法的适用性，以应对不同利益相关者的挑战。建立全球用户社区将支持在全球范围内并行进行的环境敏感性实验，同时也将能够共同努力，通过延时生物成像记录生物体早期生命中可见的生理多样性。由此产生的视频将保存在第一个发育中生物体的开源存储库中，对于研究人员来说都是无价的，而且也可以作为在全球环境变化的背景下揭示生物发育的隐藏世界的资源。