What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions
What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions
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DOI：
10.3897/mycokeys.20.11265
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发表时间：
2017-02
期刊：
影响因子：
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通讯作者：
A. Siddique;A. M. Khokon;M. Unterseher
中科院分区：
文献类型：
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作者：
A. Siddique;A. M. Khokon;M. Unterseher
过去几年很少进行环境高通量测序（HTS）和植物相关真菌培养的比较同步研究。在目前的贡献中，高温超导和灭绝培养应用于欧洲山毛榉（Fagus sylvatica）的相同叶子样本，以追踪“真实”环境驱动因素以及观察到的真菌生物组的方法依赖性信号。两种方法都产生了不重叠的群落组成以及分类学分类和营养阶段的显着差异。然而，两种方法都揭示了真菌群落与当地环境条件的相似相关性。我们的结果表明，在揭示叶栖真菌主要功能群、稀有类群和生物多样性信号的良好代表性方面，HTS 相对于栽培具有不可否认的优势。另一方面，我们的结果表明，有关可培养内生真菌的大量文献可以而且应该用于解释从 HTS 研究中获得的群落信号和环境相关性，并且培养研究应该以最高标准继续进行，例如当测序设施不可用或此类调查通过活体分离物实验扩展到功能方面时。
Comparative simultaneous studies of environmental high-throughput sequencing (HTS) and cultivation of plant-associated fungi have rarely been conducted in the past years. For the present contribution, HTS and extinction culturing were applied for the same leaf samples of European beech (Fagus sylvatica) in order to trace both “real” environmental drivers as well as method-dependent signals of the observed mycobiomes. Both approaches resulted in non-overlapping community composition and pronounced differences in taxonomic classification and trophic stages. However, both methods revealed similar correlations of the fungal communities with local environmental conditions. Our results indicate undeniable advantages of HTS over cultivation in terms of revealing a good representation of the major functional guilds, rare taxa and biodiversity signals of leaf-inhabiting fungi. On the other hand our results demonstrate that the immense body of literature about cultivable endophytic fungi can and should be used for the interpretation of community signals and environmental correlations obtained from HTS studies and that cultivation studies should be continued at the highest standards, e.g. when sequencing facilities are not available or if such surveys are expanded into functional aspects with experiments on living isolates.