Plants harbor diverse fungal communities both on their surfaces (epiphytic) and inside of plant tissues (endophytic), and these fungi play important roles in plant health and vigor. However, comparisons of epiphytes and endophytes have rarely been performed. In this study, the soil, epiphytic and endophytic fungal assemblages of greenhouse-grown tomato plants were extensively examined and compared by Illumina sequencing of 18S rRNA amplicons. The fungal communities differed in both size and composition. The soil communities were the richest and most abundant, while the endophytes showed the lowest richness and diversity. The diversity of endophytes also differed in different tissues, with the highest diversity occurring in the roots. In both the epiphytic and endophytic samples, the majority of fungi corresponded to ascomycetes, among which Sordariomycetes, Dothideomycetes and Eurotiomycetes were the most frequent classes. The major non-ascomycete fungi were associated only with the class Exobasidiomycetes (Basidiomycota). At the order level, the epiphytes showed similar distribution patterns in the stems and leaves, but among the endophytes, distinct fungal orders were enriched in different tissues. Capnodiales was recorded as a major fungal group in the stems, leaves and seeds, and Saccharomycetales was specifically enriched in the pericarp and jelly around seeds. The present data suggested that different drivers shaped epiphytic and endophytic fungi communities and deepened our knowledge of the complex plant-fungus interaction in tomato.

植物在其表面（表生的）和植物组织内部（内生的）都有各种真菌群落，这些真菌在植物健康和活力中起着重要的作用。然而，很少对附生植物和内生植物进行比较。在这项研究中，通过18S rRNA的Illumina测序，对温室种植的番茄植物的土壤，附生和内生真菌组合进行了广泛的检查和比较。扩增子。真菌群落的大小和组成都不同。土壤群落是最丰富，最丰富的，而内生植物的丰富度和多样性却最低。内生菌的多样性在不同的组织中也有所不同，其中最高的发生在根部。在附生和内生样品中，大多数真菌都与子囊菌相对应，其中Sordariomycetes，Dothideomycetes和Eurotiomycetes是最常见的。主要的非子囊真菌仅与Exobasidiomycetes（Basidiomycota）类相关。在有序水平上，附生植物在茎和叶中显示出相似的分布模式，但在内生植物中，不同组织中富集了明显的真菌有序。Capnodiales被记录为茎中的主要真菌类，叶子和种子，以及糖酵母在种子周围的果皮和果冻中特别丰富。目前的数据表明，不同的驱动因素塑造了附生和内生真菌群落，并加深了我们对番茄中复杂的植物-真菌相互作用的认识。