The biogeography of Streptomyces in New Zealand enabled by high-throughput sequencing of genus-specific rpoB amplicons

Abstract

We evaluated Streptomyces biogeography in soils along a 1,200 km latitudinal transect across New Zealand (NZ). Streptomyces diversity was examined using high-throughput sequencing of rpoB amplicons generated with a Streptomyces specific primer set. We detected 1,287 StreptomycesrpoB operational taxonomic units (OTUs) with 159 ± 92 (average ± s.d.) rpoB OTUs per site. Only 12% (n = 149) of these OTUs matched rpoB sequences from cultured specimens (99% nucleotide identity cutoff). Streptomyces phylogenetic diversity (Faith′s PD) was correlated with soil pH, mean annual temperature, and plant community richness (Spearman′s r: 0.77, 0.64, and -0.79, respectively; p < 0.05), but not with latitude. In addition, soil pH and plant community richness both explained significant variation in Streptomyces beta diversity. Streptomyces communities exhibited both high dissimilarity and strong dominance of one or a few species at each site. Taken together, these results suggest that dispersal limitation due to competitive interactions limits the colonization success of spores that relocate to new sites. Cultivated Streptomyces isolates represent a major source of clinically useful antibiotics, but only a small fraction of extant diversity within the genus have been identified and most species of Streptomyces have yet to be described.

Molecular identification of streptomycetes by exploiting RNA polymerase beta-subunit (rpoB) gene in Saudi arabia

“…Such plasmids in Streptomyces are very important when employing cloning and integration vectors [21]. In previous studies, analysis of the rpoB gene has been proven functional in the identification and differentiation of streptomycetes species [12,22,23]. So, in our study, analysis of this gene was used in the molecular identification of our Streptomyces isolates.…”

An update about plant growth promoting Streptomyces species

“…The previous research suggests a strong relationship exists between the plant species, the community in which it is found, and the Streptomyces species present in the rhizosphere to support plant growth [46]. In addition, it was hypothesized that altering the native species in a plant's environment would impact the antagonistic behavior of various Streptomyces [46].…”

“…The previous research suggests a strong relationship exists between the plant species, the community in which it is found, and the Streptomyces species present in the rhizosphere to support plant growth [46]. In addition, it was hypothesized that altering the native species in a plant's environment would impact the antagonistic behavior of various Streptomyces [46]. For instance, a study used four distinct plant species: Andropogon gerardii, Schizachyrium scoparium, Lespedeza capitata, and Lupinus perennis, to highlight the reduced susceptibility of A. gerardii to the plant pathogens when grown in monoculture of Streptomyces species [47].…”