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PubPlant - 一个持续更新的在线资源,用于测序和发布植物基因组
Rainer Schwacke1, Marie E Bolger1, Björn Usadel1,2
1Forschungszentrum Jülich, Institute of Bio- and Geosciences, IBG-4 Bioinformatics, CEPLAS, BioSC, Jülich, Germany.
Frontiers in plant science
|July 9, 2025
概括
PubPlant在线资源目录有超过1800个已发表的植物基因组,通过跟踪测序工作和识别覆盖范围的差距来帮助研究人员,特别是对于粮食作物. 这有助于优先考虑未来的植物基因组测序项目.
科学领域:
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
- 植物科学 植物科学
背景情况:
- 下一代测序已经降低了测序植物基因组的成本和精力.
- 焦点已经从模型物种转移到更广泛的植物,包括那些具有复杂基因组的植物.
- 目前已公布了1800多种植物物种的基因组,在2024年将有500种新的基因组.
研究的目的:
- 为编目和可视化已发表的植物基因组序列提供可访问的在线资源.
- 追踪植物基因组测序的进展情况,并确定覆盖范围有限的区域.
- 在更广泛的植物基因组学景观中分析测序粮食作物的状态.
主要方法:
- 开发和维护PubPlant在线数据库.
- 包括基因组出版数据,家族遗传关系 (cladograms) 和分类学概述.
- 使用PubPlant数据来评估不同植物家族的粮食作物的测序状态.
主要成果:
- 目前,PubPlant已经对1800多种植物物种进行了基因组编目,在2024年将对370种新物种进行测序.
- 该资源提供了时间数据,遗传学可视化和分类学概述,突出显示了测序差距.
- 分析显示,拥有最多物种序列的植物家族也含有最多的粮食作物.
结论:
- 对于植物研究人员来说,PubPlant是一个宝贵的资源,它促进了对已公布的基因组数据的访问和理解.
- 该数据库通过识别代表性不足的植物群体,有助于为未来的测序工作进行战略规划.
- 目前的测序格局反映了对富含粮食作物的家庭的努力的集中,这表明需要更广泛的分类学覆盖范围.
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