从草药馆标本中检索长DNA的读数
Anne-Sophie Quatela1,2, Patrik Cangren1, Farzaneh Jafari3,4
1Department of Biological and Environmental Sciences, University of Gothenburg, Box 463, 405 30, Gothenburg, Sweden.
AoB PLANTS
|December 22, 2023
概括
草药馆标本可以产生长时间的DNA读数用于测序,特别是年轻的样本 (1990年后). 较老的标本显示DNA碎片化减少,测序成功率较低,需要进一步研究才能在遗传研究中得到最佳使用.
科学领域:
- 基因组学就是基因组学.
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
背景情况:
- 使用短读平台建立了草本DNA的高通量测序.
- 长期阅读的测序技术为遗传研究提供了新的可能性.
- 草药馆的标本代表了一种有价值的,历史性的DNA资源.
研究的目的:
- 评估使用草本体样本用于长读DNA测序的可行性.
- 研究样本年龄对DNA碎片化和测序成功的影响.
- 评估PacBio Sequel在分析古代DNA方面的潜力.
主要方法:
- 从12个*静态*草本馆标本 (1932-2019) 中目标捕获48个低复制核位点.
- 使用SMRT PacBio Sequel技术进行长读测序.
- 优化DNA大小选择协议用于碎片检索.
主要成果:
- 成功检索长DNA片段 (>1kb) 并从九个标本上进行目标读取.
- 年轻的标本 (1990年以后) 产生了显著更多的目标读数,并恢复了更多的位置.
- 较老的标本 (1990年以前) 显示DNA碎片化增加和测序成功率较低.
结论:
- 年轻的草本标本对长时间读取的测序应用有希望.
- 较老的标本中的DNA碎片化对长时间读取的测序构成了挑战.
- 需要进一步研究更大的样本大小和多样化的种类,才能充分理解旧的草本库材料对长期读取的基因组学的潜力.
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