Ziad Ibbini , Maria Bruning , Sakina Allili , Luke A Holmes , Ellen Tully , Jamie McCoy , Benjamin Larsen , Tony Wilson , Guy Ludford , Jack Barrett-Kelly , John I. Spicer , Oliver Tills
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引用次数: 0
摘要
表型组学是在整个个体范围内获取高维数据的方法,在与人类健康有关的生物研究领域,包括医学和作物科学领域,表型组学被证明具有变革性意义。然而,从更广泛的意义上讲,缺乏可获得的可转移技术和研究方法严重阻碍了表型组学的应用,这与分子组学形成了鲜明对比,后者的可转移技术一直是重要的推动因素。水生胚胎是表型组学的天然模型,因为它们体积小、分类多样、与生态相关,而且在时间、空间和功能上变化很大。在这里,我们展示了 LabEmbryoCam,这是一个自主表型平台,用于对以多孔板格式培养的发育中的水生胚胎进行延时成像。LabEmbryoCam 利用 3D 打印、单板计算机、消费电子产品和步进电机实现运动。我们将这些技术结合到一个紧凑的模块化实验室设备中,提供相机和镜头的 X、Y 和 Z 运动、一个用于快速设置实验的精简网络应用程序、用户电子邮件通知和一个用于减少长时间采集时蒸发的加湿器。该系统还提供下游分析功能,可自动进行胚胎分割、心率测量、运动跟踪和能量代理性状(EPT)测量。LabEmbryoCam 是一种可扩展、灵活的实验室仪器,可利用胚胎和生命早期阶段的生物体来应对关键的全球性挑战,包括生物敏感性评估、毒理学筛选,同时也支持更广泛地参与生命的最初阶段。
LabEmbryoCam: An opensource phenotyping system for developing aquatic animals
Phenomics is the acquisition of high-dimensional data on an individual-wide scale and is proving transformational in areas of biological research related to human health including medicine and the crop sciences. However, more broadly, a lack of accessible transferrable technologies and research approaches is significantly hindering the uptake of phenomics, in contrast to molecular-omics for which transferrable technologies have been a significant enabler. Aquatic embryos are natural models for phenomics, due to their small size, taxonomic diversity, ecological relevance, and high levels of temporal, spatial and functional change. Here, we present LabEmbryoCam, an autonomous phenotyping platform for timelapse imaging of developing aquatic embryos cultured in a multiwell plate format, and while optimised for embryos, the instrument is extremely versatile. The LabEmbryoCam capitalises on 3D printing, single board computers, consumer electronics and stepper motor enabled motion. We combine these into a compact and modular laboratory insturment to provide X, Y and Z motion of a camera and lens, a web application streamlined for rapid setup of experiments, user email notifications and a humidification chamber to reduce evaporation over prolonged acquisitions. Downstream analyses are provided, enabling automated embryo segmentation, heartrate measurement, motion tracking, and energy proxy trait (EPT) measurement. The LabEmbryoCam is a scalable, and flexible laboratory instrument, that leverages embryonic and early life stage organisms to tackle key global challenges including biological sensitivity assessment, toxicological screening, but also to support broader engagement with the earliest stages of life.
HardwareXEngineering-Industrial and Manufacturing Engineering
CiteScore
4.10
自引率
18.20%
发文量
124
审稿时长
24 weeks
期刊介绍:
HardwareX is an open access journal established to promote free and open source designing, building and customizing of scientific infrastructure (hardware). HardwareX aims to recognize researchers for the time and effort in developing scientific infrastructure while providing end-users with sufficient information to replicate and validate the advances presented. HardwareX is open to input from all scientific, technological and medical disciplines. Scientific infrastructure will be interpreted in the broadest sense. Including hardware modifications to existing infrastructure, sensors and tools that perform measurements and other functions outside of the traditional lab setting (such as wearables, air/water quality sensors, and low cost alternatives to existing tools), and the creation of wholly new tools for either standard or novel laboratory tasks. Authors are encouraged to submit hardware developments that address all aspects of science, not only the final measurement, for example, enhancements in sample preparation and handling, user safety, and quality control. The use of distributed digital manufacturing strategies (e.g. 3-D printing) is encouraged. All designs must be submitted under an open hardware license.