Bringing the phenomics of aquatic embryos to key challenges in aquaculture

将水生胚胎的表型组学应用于水产养殖的关键挑战

• 批准号: BB/W017938/1
• 负责人: Oliver Tills
• 金额: $ 23.62万
• 依托单位: Plymouth University
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2023
• 资助国家: 英国
• 起止时间: 2023 至 无数据
• 项目状态: 未结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FW017938%2F1
• 关键词: Bringing; phenomics; aquatic; embryos; key

Phenomics is the acquisition of high-dimensional data describing an organisms' observable characteristics and can be considered a technology-enabled 21st century approach to measuring the phenotype. Phenomics has the potential to transform biological understanding and to make the phenome accessible to applications within both academia to industry, but a lack of necessary technologies beyond particular model species remains a serious bottleneck to realising this potential. The project team have developed two new instruments for phenomics of aquatic species during embryonic development - the most dynamic period of life, for use in laboratory (LabEP) and dynamic (FieldEP) environments. Both instruments use microscopy and automation to capture this period of rapid temporal, spatial and functional change, and employ computer vision to measure the phenome with high dimensionality, including growth, physiological performance, behaviour and new approaches pioneered by the team for measuring the phenome as spectra of energy values within pixel fluctuations. Aquaculture is a rapidly growing sector and one of strategic economic and health importance. During this project we will work with the aquaculture sector on both technical and business development for knowledge exchange and to establish key strategic directions for phenomics in the sector to support its resilience, sustainability, and growth. During an initial project meeting with aquaculture project partners (National Lobster Hatchery, RSP/LumpFish Dorset and Guernsey SeaFarms) we will showcase the technologies to establish strategic directions for the technical development and optimisation of the hardware and software configuration of the instruments for different project partners, depending on factors including facility requirements, addressing key operational challenges, species, developmental stages and particular biological endpoints of interest. Software (incl. computer vision pipelines including AI-trained predictive models) and hardware (incl. cameras, lenses, lighting and motorisation) will be tested in the team's laboratories prior to installation of the instruments in the facilities of key project partners, accompanied with the training of these partners' staff, providing opportunities for knowledge exchange in both directions. We will work with partners in assisting them to test the technologies alongside their workflows. The team will be supported by a project partner from the scientific instrumentation sector (Indigo Scientific) who will inform the sourcing of components and the team's business development plan.Via subsequent meetings with the aquaculture project partners, the team will write a whitepaper capturing the key strengths and opportunities of the instruments informed from the experiences and feedback of project partners. This will be circulated to both project partners, aquaculture networks and sector-specific publications. A business development plan will be produced by the team towards the conclusion of the project to support the identification and realisation of a strategic plan towards maximising the impact of these technologies within the sector.

表型组学是获取描述生物体的可观察特征的高维数据，并且可以被认为是测量表型的技术支持的21世纪世纪方法。表型组学有可能改变生物学的理解，并使表型组可用于学术界和工业界的应用，但缺乏超越特定模式物种的必要技术仍然是实现这一潜力的严重瓶颈。该项目团队开发了两种新的仪器，用于水生物种胚胎发育期间的表型学-生命中最具活力的时期，用于实验室（LabEP）和动态（FieldEP）环境。这两种仪器都使用显微镜和自动化技术来捕捉这一快速的时间、空间和功能变化时期，并采用计算机视觉来测量高维的表型组，包括生长、生理表现、行为和团队开创的新方法，用于测量表型组作为像素波动内能量值的光谱。水产养殖是一个快速增长的部门，具有战略性的经济和健康重要性。在该项目期间，我们将与水产养殖部门合作，开展技术和业务开发，以促进知识交流，并为该部门的表型组学制定关键战略方向，以支持其恢复力，可持续性和增长。在与水产养殖项目合作伙伴的初始项目会议期间（国家龙虾孵化场，RSP/LumpFish Dorset和根西岛海洋农场）我们将展示技术，为不同项目合作伙伴的技术开发和仪器硬件和软件配置优化制定战略方向，具体取决于设施要求，解决关键操作挑战，物种，发育阶段和感兴趣的特定生物学终点。软件（包括计算机视觉管道，包括人工智能训练的预测模型）和硬件（包括在将仪器安装到主要项目合作伙伴的设施之前，将在团队的实验室测试仪器（相机，镜头，照明和机动化），并对这些合作伙伴的工作人员进行培训，为双向知识交流提供机会。我们将与合作伙伴合作，帮助他们在工作流程中测试这些技术。该团队将得到科学仪器领域的项目合作伙伴（靛蓝Scientific）的支持，该合作伙伴将提供组件采购和团队业务发展计划的信息。通过与水产养殖项目合作伙伴的后续会议，该团队将根据项目合作伙伴的经验和反馈撰写一份白皮书，介绍仪器的主要优势和机遇。这将分发给项目合作伙伴、水产养殖网络和特定部门的出版物。该团队将在项目结束时制定业务发展计划，以支持确定和实现战略计划，以最大限度地发挥这些技术在该行业的影响。

项目成果

Thermodynamic effects drive countergradient responses in the thermal performance of Littorina saxatilis across latitude.

• DOI: 10.1016/j.scitotenv.2022.160877
• 发表时间: 2022-12
• 期刊: The Science of the total environment
• 作者: Christopher Dwane;E. Rezende;O. Tills;J. Galindo;E. Rolán-Alvarez;S. Rundle;M. Truebano

Phenomics enables measurement of complex responses of developing animals to global environmental drivers

表型组学能够测量发育中的动物对全球环境驱动因素的复杂反应

• DOI: 10.1016/j.scitotenv.2022.159555
• 发表时间: 2023
• 期刊: Science of The Total Environment
• 影响因子: 9.8
• 作者: Tills O

LabEmbryoCam: An opensource phenotyping system for developing aquatic animals

LabEmbryoCam：用于开发水生动物的开源表型系统

• DOI: 10.1101/2023.04.11.536373
• 发表时间: 2023
• 作者: Ibbini Z