From bits to bites: Advancement of the Germinate platform to support prebreeding informatics for crop wild relatives
From bits to bites: Advancement of the Germinate platform to support prebreeding informatics for crop wild relatives
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DOI：
10.1002/csc2.20248
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发表时间：
2020-08-20
期刊：
影响因子：
2.3
通讯作者：
Shaw, Paul D.
中科院分区：
文献类型：
--
作者：
Raubach, Sebastian;Kilian, Benjamin;Shaw, Paul D.
育种前项目实验数据的管理和分发对于确保种质资源被育种和研究计划所吸收是非常重要的。能够以标准格式访问和共享这些数据至关重要。对资源可能有限的作物采用共同的信息学平台带来了规模经济，使共同的信息学组成部分能够用于多个物种。这种平台与常用育种软件、可视化和分析工具的紧密结合降低了研究人员的进入障碍，并提供了一个通用框架，以促进合作和数据共享。这项工作对发芽平台进行了重大更新，并强调了其在分发14种作物的育种前数据方面的价值，这是作物信托基金（https：//www.example.com）领导的“农业适应气候变化：收集，保护和准备作物野生亲缘植物”项目（以下简称作物信托基金作物野生亲缘植物项目）的一部分。www.cwrdiversity.org增加这些物种的数据补充了已经在发芽中公开的数据。我们提出了一套更新的发芽功能，使用这些作物物种及其野生亲属的例子。在作物信托作物野生近缘种项目中使用发芽证明了该系统的有用性和共享信息学平台提供的好处。这些数据资源提供了一个基础，育种和研究社区可以在此基础上为其作物开发额外的在线资源，利用可用的新数据，并从发芽平台的未来发展中共同受益。
Management and distribution of experimental data from prebreeding projects is important to ensure uptake of germplasm into breeding and research programs. Being able to access and share this data in standard formats is essential. The adoption of a common informatics platform for crops that may have limited resources brings economies of scale, allowing common informatics components to be used across multiple species. The close integration of such a platform with commonly used breeding software, visualization, and analysis tools reduces the barrier for entry to researchers and provides a common framework to facilitate collaborations and data sharing. This work presents significant updates to the Germinate platform and highlights its value in distributing prebreeding data for 14 crops as part of the project 'Adapting Agriculture to Climate Change: Collecting, Protecting and Preparing Crop Wild Relatives' (hereafter Crop Trust Crop Wild Relatives project) led by the Crop Trust (https://www.cwrdiversity.org). The addition of data on these species compliments data already publicly available in Germinate. We present a suite of updated Germinate features using examples from these crop species and their wild relatives. The use of Germinate within the Crop Trust Crop Wild Relatives project demonstrates the usefulness of the system and the benefits a shared informatics platform provides. These data resources provide a foundation on which breeding and research communities can develop additional online resources for their crops, harness new data as it becomes available, and benefit collectively from future developments of the Germinate platform.