Morphological and chemical differences between plant genera influence phyllosphere microbial populations, but the factors driving within-species variation in phyllosphere populations are poorly understood. Twenty-six lettuce accessions were used to investigate factors controlling within-species variation in phyllosphere bacterial populations. Morphological and physiochemical characteristics of the plants were compared, and bacterial community structure and diversity were investigated using terminal restriction fragment length polymorphism (T-RFLP) profiling and 16S rRNA gene clone libraries. Plant morphology and levels of soluble carbohydrates, calcium, and phenolic compounds (which have long been associated with plant responses to biotic stress) were found to significantly influence bacterial community structure. Clone libraries from three representative accessions were found to be significantly different in terms of both sequence differences and the bacterial genera represented. All three libraries were dominated by Pseudomonas species and the Enterobacteriaceae family. Significant differences in the relative proportions of genera in the Enterobacteriaceae were detected between lettuce accessions. Two such genera (Erwinia and Enterobacter) showed significant variation between the accessions and revealed microbe-microbe interactions. We conclude that both leaf surface properties and microbial interactions are important in determining the structure and diversity of the phyllosphere bacterial community.The phyllosphere (the aerial parts of plants) is known to support large and diverse naturally occurring microbial communities (19, 51), of which bacteria, living both epiphytically and endophytically, are the most numerous and diverse (2,6,44). A range of environmental factors such as temperature, rainfall, wind, and solar radiation have been shown to play an important role in determining patterns of bacterial phyllosphere colonization (19). Much less is known of the role of plant factors in determining the diversity and dynamics of phyllosphere microbial communities. Plant species (20), gross plant morphology, the position and height of leaves (45), and leaf age (16) have all been associated with variation in the size of phyllosphere bacterial populations. Furthermore, various leaf surface features such epidermal cell wall junctions (12) and grooves along the veins, stomata, and the base of trichomes (29) and near hydathodes (32) have all been identified as preferential bacterial attachment sites, resulting in uneven bacterial distribution on leaf surfaces. The microbial population already resident in the phyllosphere is also likely to impact significantly on the ability of incoming organisms to successfully colonize the leaf surface. Variation in such resident populations between different plant species has been attributed to differences in a range of plant physiochemical characteristics, including the water and phosphorus contents of the leaves, levels of phenolic compounds (which may be inhibitory toward many b...