在入侵生物学当前的管理实践限制了基因组数据的价值和二次使用
Amy L Vaughan1, Elahe Parvizi2, Paige Matheson2
1Biocontrol & Molecular Ecology, Manaaki Whenua Landcare Research, Lincoln, New Zealand.
Molecular ecology resources
|August 30, 2023
概括
许多全基因组序列缺乏关键的时空数据,阻碍了入侵生物学研究. 提交标准化元数据对于有效利用基因组数据来研究入侵物种至关重要.
科学领域:
- 生态生态学 生态生态学
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 侵入性物种对本地生态系统和行业构成重大威胁.
- 全球贸易和气候变化加剧了物种入侵的风险.
- 全基因组序列为评估入侵物种潜力提供了潜在的可能性,但数据质量是一个问题.
研究的目的:
- 评估与侵袭性陆地无脊椎动物全基因组组合相伴随的时空元数据的质量和完整性.
- 为了确定入侵生物学研究的公开可用的基因组数据的局限性.
主要方法:
- 评估了来自89种入侵性陆地无脊椎动物物种的199个全基因组组的元数据.
- 分析了每个组件的起源,空间数据和时间收集信息.
- 与相关的科学文献交叉引用组装数据,以澄清样本来源.
主要成果:
- 只有38%的组件来自现场采集的样本,38%的样本有"未描述"的起源.
- 47个组件缺少空间数据,只有35%的现场采集样本提供了详细的位置数据.
- 在33%的实地采集样本中,采集日期信息不足.
结论:
- 大量的元数据缺口,特别是时空数据,限制了基因组资源对入侵生物学的有用性.
- 迫切需要标准化元数据提交实践,以提高基因组测序数据的价值.
- 大规模的联盟表明了改进元数据管理和跨机构合作的潜力.
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