Use of species- and strain-specific PCR primers for identification of conifer root-associated Bacillus spp.

A polymerase chain reaction amplification of 23S rDNA was developed to identify Bacillus spp. recovered from roots, mycorrhizae, and rhizosphere soil of conifers. The polymerase chain reaction incorporated a conserved 23S rDNA forward primer in combination with a reverse primer designed to hybridize exclusively to nucleotide sequences of either B. polymyxa or B. mycoides. The amplification provided a rapid and simple means of identifying DNA from isolates of Bacillus, and could be used directly on whole Bacillus cells or mixed populations. The reaction was used to detect and differentiate these Gram-positive species from agar plates inoculated with samples from various conifer samples. A strain-specific primer was also synthesized and used to identify Bacillus which were established within conifer roots 4 weeks after inoculation.