Cohort-based learning for microbiome research community standards.
Cohort-based learning for microbiome research community standards.
复制标题
微生物组研究社区标准的基于队列的学习。
DOI：
10.1038/s41564-023-01361-7
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发表时间：
2023
影响因子：
28.3
通讯作者：
Rodriguez,Francis
中科院分区：
文献类型：
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作者：
Kelliher,JuliaM;Rudolph,Marisa;Vangay,Pajau;Abbas,Arwa;Borton,MikaylaA;Davenport,EmilyR;Davenport,KarenW;Erazo,NataliaG;Herman,Chloe;Karstens,Lisa;Kocurek,Brandon;Lutz,HollyL;Myers,KevinS;Ockert,Ingrid;Rodriguez,Francis
在过去的十年中，微生物组研究人员已经产生了丰富的序列数据以及相关的微生物输出和活动。迄今为止，大多数微生物组研究都是为了回答特定的研究问题而分析微生物组，很少强调数据的可重用性。然而，增加微生物组数据的重复使用将导致更好的投资回报，并增加无法生成自己的微生物组数据的研究人员对微生物组科学的可访问性。它还可以使研究人员能够解决超出原始研究范围的科学问题2。认识到这些优势，科学界一再倡导可查找、可访问、可互操作和可重用（FAIR）数据。我们于2021年4月启动了国家微生物组数据合作（NMDC）大使计划，以增加微生物组研究人员对FAIR数据的采用和元数据管理。在此，我们提供有关社区学习模式实施的信息和见解，以帮助推进此类计划的其他迭代。FAIR数据运动倡导为微生物组数据集提供足够的元数据（例如，地理位置，采样日期，宿主信息等），因为当关键元数据字段缺失，不足或格式不正确时，数据的实用性和可重用性急剧下降4，5。培训活动，最好是实用或动手的组件，对于提高元数据标准的认可和采用至关重要。NMDC成立于2019年，是能源部的一个项目，旨在使多组学微生物组数据公平并向所有6个国家开放。这一使命的核心是实现与微生物组数据集相关的标准化元数据字段，利用基因组标准联盟7开发的关于任何（x）序列（MIxS）标准的最小信息。在NMDC计划的初始阶段，已证实微生物组研究界对元数据标准的好处了解不一，或不了解
In the past decade, microbiome research-ers have produced a wealth of sequence data and associated microbial outputs and activity 1. Most microbiome studies to date have analysed microbiomes in order to answer a specific research question, with little emphasis placed on data reusability. However, increasing microbiome data reuse would result in a better return on investments and an increase in accessibility to microbiome science for researchers unable to generate their own microbiome data. It may also enable researchers to address scientific questions beyond the scope of the original study 2. Recognizing these advantages, the scientific community has repeatedly advocated for findable, accessible, interoperable and reusable (FAIR) data 3. We launched the National Microbiome Data Collaborative (NMDC) Ambassador Program in April 2021 to increase FAIR data adoption and metadata stewardship among microbiome researchers. Herein, we provide information and insights regarding the implementation of a community learning model to assist in the advancement of other iterations of this type of programme. The campaign for FAIR data advocates for sufficient metadata (for example, geographic location, sampling date, host information, and so on) to be available for microbiome datasets, because the utility and reusability of data sharply decrease when crucial metadata fields are missing, insufficient or improperly formatted 4, 5. Training events, ideally with a practical or hands-on component, are essential to increase recognition and adoption of metadata standards.The NMDC was founded in 2019 as a Department of Energy project with the intention of making multi-omics microbiome data FAIR and open to all 6. Core to this mission is the implementation of standardized metadata fields linked to microbiome datasets, leveraging the minimum information about any (x) sequence (MIxS) standards developed by the Genomic Standards Consortium 7. During the initial stages of the NMDC programme, it was confirmed that the microbiome research community had varied knowledge, or were unaware, of the benefits of metadata standards