Lahiri Anindita, Murphy Brian R, Hodkinson Trevor R
Botany Department, School of Natural Sciences, Trinity College Dublin, The University of Dublin, Dublin D2, Ireland.
J Fungi (Basel). 2021 Jul 15;7(7):565. doi: 10.3390/jof7070565.
populations are in decline due to the ash dieback disease . It is important to understand genotypic and environmental effects on its fungal microbiome to develop disease management strategies. To do this, we used culture dependent and culture independent approaches to characterize endophyte material from contrasting ash provenances, environments, and tissues (leaves, roots, seeds). Endophytes were isolated and identified using nrITS, LSU, or DNA loci in the culture dependent assessments, which were mostly Ascomycota and assigned to 37 families. Few taxa were shared between roots and leaves. The culture independent approach used high throughput sequencing (HTS) of nrITS amplicons directly from plant DNA and detected 35 families. Large differences were found in OTU diversity and community composition estimated by the contrasting approaches and these data need to be combined for estimations of the core endophyte communities. Species richness and Shannon index values were highest for the leaf material and the French population. Few species were shared between seed and leaf tissue. PCoA and NMDS of the HTS data showed that seed and leaf microbiome communities were highly distinct and that there was a strong influence of species identity on their fungal community composition. The results will facilitate a better understanding of ash fungal ecology and are a step toward identifying microbial biocontrol systems to minimize the impact of the disease.
由于灰树枯梢病，相关种群数量正在减少。了解基因型和环境对其真菌微生物组的影响对于制定疾病管理策略很重要。为此，我们采用了依赖培养和不依赖培养的方法，对来自不同灰树种源、环境和组织（叶、根、种子）的内生菌材料进行表征。在依赖培养的评估中，利用nrITS、LSU或DNA基因座分离和鉴定内生菌，这些内生菌大多为子囊菌门，分属于37个科。根和叶之间共有的分类单元很少。不依赖培养的方法直接对植物DNA中的nrITS扩增子进行高通量测序（HTS），检测到35个科。通过对比方法估计的OTU多样性和群落组成存在很大差异，这些数据需要结合起来以估计核心内生菌群落。叶材料和法国种群的物种丰富度和香农指数值最高。种子和叶组织之间共有的物种很少。HTS数据的主坐标分析（PCoA）和非度量多维尺度分析（NMDS）表明，种子和叶微生物组群落高度不同，物种身份对其真菌群落组成有很大影响。这些结果将有助于更好地理解灰树真菌生态学，是朝着识别微生物生物防治系统以尽量减少疾病影响迈出的一步。
