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OprF polymorphism as a marker of ecological niche in Pseudomonas
Author(s) -
Bodilis Josselin,
Hedde Mickaël,
Orange Nicole,
Barray Sylvie
Publication year - 2006
Publication title -
environmental microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.954
H-Index - 188
eISSN - 1462-2920
pISSN - 1462-2912
DOI - 10.1111/j.1462-2920.2006.01045.x
Subject(s) - biology , pseudomonas fluorescens , porin , polymorphism (computer science) , genetics , botany , microbiology and biotechnology , bacteria , gene , escherichia coli , bacterial outer membrane , genotype
Summary OprF is the major outer‐membrane protein of Pseudomonas sensu stricto (rRNA group I). In addition to playing a role as porin, membrane structural protein and root adhesion, this pleiotropic protein shows a length polymorphism corresponding to two types of OprF, termed OprF type 1 and OprF type 2. In a previous work, all the P. fluorescens isolated from bulk soil (non‐rhizospheric) were shown to possess oprF type 1, while all the clinical P. fluorescens isolates and most rhizospheric strains corresponded to type 2. In this study, we further investigated the relation between the OprF polymorphism and the ecological niche by developing a culture‐independent approach (a ratio polymerase chain reaction) to measure the percentage of each oprF type in environmental DNA samples, including two different soils and three different cultured plants (flax, wheat and grassland). Although the proportions of oprF type 2 between rhizospheric samples were quite variable, they were always very significantly higher ( P < 0.001) than the proportions of oprF type 2 of the adjacent bulk soil where the vast majority of oprF (> 95%) corresponded to type 1. We discuss the potential applications of this ecological fingerprint in an agronomic and taxonomic point of view.