Metabarcoding read abundances of orchid mycorrhizal fungi are correlated to copy numbers estimated using ddPCR

IF 8.3 1区生物学 Q1 PLANT SCIENCES

New Phytologist Pub Date : 2023-11-06 DOI:10.1111/nph.19385

Deyi Wang, Krijn B. Trimbos, Sofia I. F. Gomes, Hans Jacquemyn, Vincent S. F. T. Merckx

引用次数: 0

Abstract

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兰花菌根真菌的代谢编码读数丰度与使用ddPCR估计的拷贝数相关。

量化真菌的丰度是理解菌根群落与植物生态生理学和环境异质性之间的自然变化的关键。高通量代谢编码方法改变了我们表征和比较复杂菌根群落的能力。然而，目前尚不清楚代谢条形码读取计数与样本中实际读取丰度的相关性，这可能会限制它们作为物种丰度指标的使用。在这里，我们使用液滴数字PCR（ddPCR）来评估ITS2代谢编码数据的可靠性，该数据用于定量评估在多个地点采样的兰花Neottia ovata的菌根群落。我们对8个兰花菌根真菌家族进行了特异性ddPCR检测，并将结果与从代谢条形码中获得的读数进行了比较。我们的结果表明，通过ddPCR测定测得的DNA拷贝数与N.ovata主要菌根伴侣的代谢条形码读取计数之间存在显著相关性，突出了代谢条形码对量化兰花菌根真菌丰度的有用性。然而，这两种方法之间的相关性水平和假零值的数量在真菌家族中各不相同，这需要谨慎评估低丰度家族的可靠性。这项研究强调了代谢条形码数据对菌根群落进行更定量分析的潜力，并提出了代谢条形码和ddPCR的实用工作流程，以实现对兰花菌根群落的更全面了解。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

New Phytologist 生物-植物科学

自引率

5.30%

发文量

728

期刊介绍： New Phytologist is an international electronic journal published 24 times a year. It is owned by the New Phytologist Foundation, a non-profit-making charitable organization dedicated to promoting plant science. The journal publishes excellent, novel, rigorous, and timely research and scholarship in plant science and its applications. The articles cover topics in five sections: Physiology & Development, Environment, Interaction, Evolution, and Transformative Plant Biotechnology. These sections encompass intracellular processes, global environmental change, and encourage cross-disciplinary approaches. The journal recognizes the use of techniques from molecular and cell biology, functional genomics, modeling, and system-based approaches in plant science. Abstracting and Indexing Information for New Phytologist includes Academic Search, AgBiotech News & Information, Agroforestry Abstracts, Biochemistry & Biophysics Citation Index, Botanical Pesticides, CAB Abstracts®, Environment Index, Global Health, and Plant Breeding Abstracts, and others.