Comparative Analysis of Microbial Communities in Diseased and Healthy Sweet Cherry Trees (Prunus avium L.)

The European sweet cherry <i>Prunus avium</i> (L.), a member of the Rosaceae family, is one of the most popular and economically valuable fruits. However, the rapid spread of gummosis and poor management practices have become the major obstacles to their production. To identify pathogenic microorganisms responsible for gummosis disease, we conducted observations comparing the garden of Bailuyuan, which heavily suffered from gummosis disease and horn beetle damage, with the orchard of Mayuhe, which only suffered from gummosis disease, both from Xi'an, Shaanxi, China. Samples were obtained from the healthy tissues and gummosis disease tissues that used the Illumina sequence of 16S rRNA and the internal transcribed spacer region (ITS) to identify bacterial and fungal communities in these samples. An alpha diversity analysis revealed a significantly higher fungal diversity of disease than in healthy tissue in the gummosis period. The results suggested that an imbalance in the fungal genera may be associated with gummosis disease. Species relative analyses showed some bacterial genera (<i>Pelagibacterium</i>, <i>Halomonas</i>, <i>Azospirillum</i>, <i>Aquabacterium</i> and <i>Alistipes</i>) and fungal genera (<i>Penicillium</i>, <i>Alternaria</i> and <i>Rhodotorula</i>) in the diseased tissues of gummosis. Among these, the increased relative abundance of the bacteria genes <i>Halomonas</i>, <i>Pelagibacterium</i>, <i>Chelativorans</i>, <i>Pantoea</i>, <i>Aquabacterium</i>, <i>Alternaria</i> and fungi genes <i>Penicillium</i>, <i>Cystobasidium</i>, <i>Rhodotorula</i> may be associated with gummosis of <i>P. avium</i>. The bacterial genera <i>Methylobacterium</i>, <i>Psychroglaciecola</i>, <i>Aeromonas</i>, <i>Conexibacter</i> and fungal genera <i>Didymella</i>, <i>Aureobasidium</i>, <i>Mycosphaerella</i>, <i>Meyerozyma</i> are probably antagonists of the pathogen of gummosis. These findings are an initial step in the identification of potential candidates for the biological control of the disease.