Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Key Laboratory of Horticultural Crop Biology and Germplasm Innovation, Ministry of Agriculture, Beijing, P.R. China.
PLoS One. 2019 Nov 8;14(11):e0223847. doi: 10.1371/journal.pone.0223847. eCollection 2019.
Plants harbor diverse bacterial communities, which play crucial roles in plant health and growth, in their rhizosphere, phyllosphere and endosphere. Tomato is an important model for studying plant-microbe interactions, but comparison of its associated bacterial community is still lacking. In this study, using Illumina sequencing of 16S rRNA amplicons, we characterized and compared the bacterial size and community from rootzone soil as well as the rhizosphere, phyllosphere and endosphere of roots, stems, leaves, fruits and seeds of tomato plants that were grown in greenhouse conditions. Habitat (soil, phyllospheric, and endophytic) structured the community. The bacterial communities from the soil-type samples (rootzone soil and rhizosphere) showed the highest richness and diversity. The lowest bacterial diversity occurred in the phyllospheric samples, while the lowest richness occurred in the endosphere. Among the endophytic samples, both bacterial diversity and richness varied in different tissues, with the highest values in roots. The most abundant phyla in the tomato-associated community was Proteobacteria, with the exception of the seeds and jelly, where both Proteobacteria and Firmicutes were dominant. At the genus level, the sequences of Pseudomonas and Acinetobacter were prevalent in the rhizosphere, and in the phyllosphere, more than 97% of the sequences were assigned to Acinetobacter. For the endophytes, Acinetobacter, Enterobacter, and Pseudomonas were the abundant genera in the roots, stems and leaves. In the fruits, the bacterial endophytes varied in different compartments, with Enterobacter being enriched in the pericarp and seeds, Acinetobacter in the placenta, and Weissella in the jelly. The present data provide a comprehensive description of the tomato-associated bacterial community and will be useful for better understanding plant-microbe interactions and selecting suitable bacterial taxa for tomato production.
植物根际、叶际和内生环境中蕴藏着丰富多样的细菌群落，这些细菌群落对植物的健康和生长起着至关重要的作用。番茄是研究植物-微生物相互作用的重要模式植物，但对其相关细菌群落的比较研究仍较为缺乏。本研究采用 Illumina 测序 16S rRNA 扩增子的方法，对在温室条件下生长的番茄植株的根际土壤以及根、茎、叶、果实和种子的根际、叶际和内生细菌的大小和群落进行了特征描述和比较。生境（土壤、叶际和内生）结构了群落。土壤型样本（根际土壤和根际）的细菌群落具有最高的丰富度和多样性。叶际样本的细菌多样性最低，内生样本的丰富度最低。在内生样本中，细菌多样性和丰富度在不同组织中均存在差异，其中根中的值最高。在番茄相关群落中，丰度最高的菌门是变形菌门，除了种子和胶状物质，这两个样本中丰度最高的菌门是变形菌门和厚壁菌门。在属水平上，假单胞菌和不动杆菌的序列在根际中普遍存在，而在叶际中，超过 97%的序列被归为不动杆菌属。对于内生菌，根、茎和叶中的丰度较高的属是不动杆菌属、肠杆菌属和假单胞菌属。在果实中，内生细菌在不同部位存在差异，肠杆菌属在果皮和种子中富集，不动杆菌属在胎座中富集，魏斯氏菌属在胶状物质中富集。本研究数据为番茄相关细菌群落提供了全面的描述，将有助于更好地理解植物-微生物相互作用，并选择适合番茄生产的合适细菌类群。
