地深生态系统中的病毒多样性:生态和方法考虑
Umberto Rosani1, Cinzia Corinaldesi2, Gabriella Luongo3
1Department of Biology, University of Padova, Via U. Bassi 58/b, 35121 Padova, Italy.
Viruses
|December 23, 2023
概括
研究深海病毒揭示了直接DNA测序提供了更广泛的病毒多样性见解. 然而,将放大和长读序列结合起来,可以通过减少错误来增强深海病毒组分析.
科学领域:
- 海洋微生物学 海洋微生物学
- 病毒学 病毒学
- 深海生态 深海生态
背景情况:
- 病毒在海洋中很丰富,但由于技术限制,深海病毒群多样性仍然不明.
- 底深生态系统为研究病毒群体带来了独特的挑战.
研究的目的:
- 为了比较放大与非放大病毒DNA用于猎枪测序的优点和局限性.
- 评估单分子长读测序对深海病毒组分析的有用性.
主要方法:
- 短枪测序-通过-合成被应用到来自底深样本的放大和非放大DNA.
- 对比分析包括一个放大样本的单分子长读序列测序.
- 病毒操作分类单位 (vOTU) 被确定并分类为病毒家族.
主要成果:
- 未放大DNA的直接测序揭示了更大的病毒多样性,并检测了放大样本中遗漏的病毒.
- 放大后的DNA样本显示病毒读数的丰度较高,但多样性较低.
- 11-16%的双链DNA (dsDNA) 病毒在放大样本中几乎无法检测到.
结论:
- 直接测序提供了更全面的病毒多样性的视图,包括单链 (ss) 和dsDNA病毒.
- 随机放大和长读技术,当在上下文中使用时,可以通过最大限度地减少非目标读取来改善深海病毒组评估.
- 方法选择对深海病毒组合的理解有重大影响.
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