phlD-based genetic diversity and detection of genotypes of 2,4-diacetylphloroglucinol-producing Pseudomonas fluorescens.
Diversity within a worldwide collection of 2,4-diacetylphloroglucinol-producing Pseudomonas fluorescens strains was assessed by sequencing the phlD gene. Phylogenetic analyses based on the phlD sequences of 70 isolates supported the previous classification into 18 BOX-PCR genotypes (A-Q and T). Exploiting polymorphisms within the sequence of phlD, we designed and used allele-specific PCR primers with a PCR-based dilution endpoint assay to quantify the population sizes of A-, B-, D-, K-, L- and P-genotype strains grown individually or in pairs in vitro, in the rhizosphere of wheat and in bulk soil. Except for P. fluorescens Q8r1-96, which strongly inhibited the growth of P. fluorescens Q2-87, inhibition between pairs of strains grown in vitro did not affect the accuracy of the method. The allele-specific primer-based technique is a rapid method for studies of the interactions between genotypes of 2,4-diacetylphloroglucinol producers in natural environments.
De La Fuente
Leonardo
L
Department of Plant Pathology, Washington State University, Pullman, WA, USA.
Mavrodi
Dmitri V
DV
Landa
Blanca B
BB
Thomashow
Linda S
LS
Weller
David M
DM
D000483:Alleles; D001483:Base Sequence; D015169:Colony Count, Microbial; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D014644:Genetic Variation; D005838:Genotype; D010696:Phloroglucinol / Q000031:analogs & derivatives / Q000378:metabolism; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D011551:Pseudomonas fluorescens / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D012988:Soil Microbiology
D004269:DNA, Bacterial; C059817:2,4-diacetylphloroglucinol; D010696:Phloroglucinol