Metatranscriptomics reveals unsuspected protistan diversity in leaf litter across temperate beech forests, with Amoebozoa the dominating lineage.
Metatranscriptomics reveals unsuspected protistan diversity in leaf litter across temperate beech forests, with Amoebozoa the dominating lineage.
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DOI：
10.1093/femsec/fiz142
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发表时间：
2019-10
影响因子：
4.2
通讯作者：
C. Voß;A. Fiore-Donno;M. Guerreiro;Derek Peršoh;M. Bonkowski
中科院分区：
文献类型：
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作者：
C. Voß;A. Fiore-Donno;M. Guerreiro;Derek Peršoh;M. Bonkowski
森林凋落物蕴藏着复杂的微生物网络，其主要成分是细菌、真菌和原生生物。原生生物作为细菌和真菌的高度选择性消费者，可以通过改变竞争性微生物相互作用来影响分解过程。采用基于RNA的高通量测序技术，对18份一年生山毛榉凋落叶真核生物多样性进行了研究。通过应用元转录组学方法，我们避免了基于pcr方法固有的偏见，因此可以专注于难以捉摸的原原虫群。我们获得了14589个真核生物组装序列（contigs），代表2223个独特的分类群。真菌在真核生物组合中占主导地位，其次是同等比例的原生生物和植物。在原生生物中，变形虫门明显占主导地位，其所占比例是Alveolata（主要是纤毛虫）和Rhizaria（主要是Cercozoa）的两倍以上，这两种生物通常被认为是土壤中主要的原生生物类群，这揭示了潜在的引物偏差。通过对原生生物功能性状的划分，我们可以评估出自由生活和异养生物的比例远高于寄生虫和自养生物，这为更好地理解原生生物群落的作用以及生物多样性如何与分解过程相互作用开辟了道路。
Forest litter harbors complex networks of microorganisms whose major components are bacteria, fungi and protists. Protists, being highly selective consumers of bacteria and fungi could influence decomposition processes by shifting competitive microbial interactions. We investigated the eukaryotic diversity from 18 samples of one-year beech (Fagus sylvatica) leaf litter by RNA-based high-throughput sequencing of the small-subunit ribosomal RNA gene. By applying a metatranscriptomics approach, we avoided biases inherent to PCR-based methods, and could therefore focus on elusive protistan groups. We obtained 14 589 eukaryotic assembled sequences (contigs) representing 2223 unique taxa. Fungi dominated the eukaryotic assemblage, followed by an equal proportion of protists and plants. Among protists, the phylum Amoebozoa clearly dominated, representing more than twice the proportion of Alveolata (mostly ciliates) and Rhizaria (mostly Cercozoa), which are often retrieved as the dominant protistan groups in soils, revealing potential primer biases. By assigning functional traits to protists, we could assess that the proportion of free-living and heterotrophs was much higher than that of parasites and autotrophs, opening the way to a better understanding of the role played by the protistan communities and how biodiversity interacts with decomposition processes.