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MBio Apr 2016We show that Streptomyces biogeography in soils across North America is influenced by the regional diversification of microorganisms due to dispersal limitation and...
UNLABELLED
We show that Streptomyces biogeography in soils across North America is influenced by the regional diversification of microorganisms due to dispersal limitation and genetic drift.Streptomyces spp. form desiccation-resistant spores, which can be dispersed on the wind, allowing for a strong test of whether dispersal limitation governs patterns of terrestrial microbial diversity. We employed an approach that has high sensitivity for determining the effects of genetic drift. Specifically, we examined the genetic diversity and phylogeography of physiologically similar Streptomyces strains isolated from geographically distributed yet ecologically similar habitats. We found that Streptomyces beta diversity scales with geographic distance and both beta diversity and phylogenetic diversity manifest in a latitudinal diversity gradient. This pattern of Streptomyces biogeography resembles patterns seen for diverse species of plants and animals, and we therefore evaluated these data in the context of ecological and evolutionary hypotheses proposed to explain latitudinal diversity gradients. The data are consistent with the hypothesis that niche conservatism limits dispersal, and historical patterns of glaciation have limited the time for speciation in higher-latitude sites. Most notably, higher-latitude sites have lower phylogenetic diversity, higher phylogenetic clustering, and evidence of range expansion from lower latitudes. In addition, patterns of beta diversity partition with respect to the glacial history of sites. Hence, the data support the hypothesis that extant patterns of Streptomyces biogeography have been driven by historical patterns of glaciation and are the result of demographic range expansion, dispersal limitation, and regional diversification due to drift.
IMPORTANCE
Biogeographic patterns provide insight into the evolutionary and ecological processes that govern biodiversity. However, the evolutionary and ecological processes that govern terrestrial microbial diversity remain poorly characterized. We evaluated the biogeography of the genus Streptomyces to show that the diversity of terrestrial bacteria is governed by many of the same processes that govern the diversity of many plant and animal species. While bacteria of the genus Streptomyces are a preeminent source of antibiotics, their evolutionary history, biogeography, and biodiversity remain poorly characterized. The observations we describe provide insight into the drivers of Streptomyces biodiversity and the processes that underlie microbial diversification in terrestrial habitats.
Topics: Altitude; Biodiversity; Biological Evolution; Genetic Speciation; Genetic Variation; Phylogeny; Phylogeography; Soil Microbiology; Streptomyces
PubMed: 27073097
DOI: 10.1128/mBio.02200-15 -
The Journal of Antibiotics Oct 1984From auxotrophic and idiotrophic mutants of Streptomyces fradiae (tylosin producer) and Streptomyces sp. AM 4900 (pikromycin producer) or Streptomyces narbonensis...
From auxotrophic and idiotrophic mutants of Streptomyces fradiae (tylosin producer) and Streptomyces sp. AM 4900 (pikromycin producer) or Streptomyces narbonensis (narbomycin producer), prototrophic fusants were obtained at a low frequency by the protoplast fusion technique. In the cross of S. fradiae 261-27E (mycaminose-idiotroph, ilv) and Streptomyces sp. AM 4900 N3-4, (pikronolide-idiotroph, arg), an unstable prototrophic fusant, strain No. 14, produced a macrolide antibiotic which was not produced by the wild type, parent strains, and the productivity was lost within a few times transfer. It was concluded that the fusant was not a recombinant, but a heterokaryon. On the other hand, relatively stable fusants were obtained from the cross of S. fradiae TBM (mycaminose-idiotroph, met) and S. narbonensis NA12US3 (narbonolide-idiotroph, his, str) at a frequency of 3.2 X 10(-5). One of the prototrophic fusants produced narbomycin, which is believed to be due to a result of interspecific recombination.
Topics: Anti-Bacterial Agents; Crosses, Genetic; Fermentation; Protoplasts; Recombination, Genetic; Streptomyces
PubMed: 6501093
DOI: 10.7164/antibiotics.37.1224 -
Journal of Bacteriology Jun 1968Streptomyces venezuelae is a filamentous bacterium with branching vegetative hyphae embedded in the substrate and aerial hyphae bearing spores. The exterior of the spore...
Streptomyces venezuelae is a filamentous bacterium with branching vegetative hyphae embedded in the substrate and aerial hyphae bearing spores. The exterior of the spore is inlaid with myriads of tiny rods which can be removed with xylene. The spore wall is approximately 30 nanometers thick. Occasionally, it can be seen that the plasma membrane and the membranous bodies within a spore are connected. The spore's germ plasm is not separated from the cytoplasm by a nuclear envelope. The cell walls of the vegetative hyphae, which are about 15 nanometers thick, are structurally and chemically similar to those of gram-positive bacteria. The numerous internal membranous bodies, some of which arise from the plasma membrane of the vegetative hypha, may be vesicular, whirled, or convoluted. Membranous bodies are usually prominent at the hyphal apices and are associated with septum formation. The germ plasm is an elongate, contorted, centrally placed area of lower electron density than the hyphal cytoplasm. The spores differ from the vegetative hyphae, not only in fine structure, but also in the arginine and leucine contents of their total cellular proteins.
Topics: Amino Acids; Amino Sugars; Cell Membrane; Cell Wall; Microscopy, Electron; Spores; Streptomyces
PubMed: 5669907
DOI: 10.1128/jb.95.6.2358-2364.1968 -
Microbial Genomics Jun 2023We delineate the evolutionary plasticity of the ecologically and biotechnologically important genus , by analysing the genomes of 213 species. Streptomycetes genomes...
We delineate the evolutionary plasticity of the ecologically and biotechnologically important genus , by analysing the genomes of 213 species. Streptomycetes genomes demonstrate high levels of internal homology, whereas the genome of their last common ancestor was already complex. Importantly, we identify the species-specific fingerprint proteins that characterize each species. Even among closely related species, we observed high interspecies variability of chromosomal protein-coding genes, species-level core genes, accessory genes and fingerprints. Notably, secondary metabolite biosynthetic gene clusters (smBGCs), carbohydrate-active enzymes (CAZymes) and protein-coding genes bearing the rare TTA codon demonstrate high intraspecies and interspecies variability, which emphasizes the need for strain-specific genomic mining. Highly conserved genes, such as those specifying genus-level core proteins, tend to occur in the central region of the chromosome, whereas those encoding proteins with evolutionarily volatile species-level fingerprints, smBGCs, CAZymes and TTA-codon-bearing genes are often found towards the ends of the linear chromosome. Thus, the chromosomal arms emerge as the part of the genome that is mainly responsible for rapid adaptation at the species and strain level. Finally, we observed a moderate, but statistically significant, correlation between the total number of CAZymes and three categories of smBGCs (siderophores, e-Polylysin and type III lanthipeptides) that are related to competition among bacteria.
Topics: Genomics; Streptomyces; Codon; Multigene Family
PubMed: 37266990
DOI: 10.1099/mgen.0.001028 -
Genome Biology Jun 2002The world's most creative producers of natural pharmaceutical compounds are soil-dwelling bacteria classified as Streptomyces. The availability of the recently completed... (Review)
Review
The world's most creative producers of natural pharmaceutical compounds are soil-dwelling bacteria classified as Streptomyces. The availability of the recently completed Streptomyces coelicolor genome sequence provides a link between the folklore of antibiotics and other bioactive compounds to underlying biochemical, molecular genetic and evolutionary principles.
Topics: Anti-Bacterial Agents; Gene Expression Regulation, Bacterial; Genome, Bacterial; Pigments, Biological; Streptomyces
PubMed: 12184813
DOI: 10.1186/gb-2002-3-7-reviews1020 -
FEMS Microbiology Ecology May 2014Although recent molecular techniques have greatly expanded our knowledge of microbial biogeography, the functional biogeography of soil microorganisms remains poorly...
Although recent molecular techniques have greatly expanded our knowledge of microbial biogeography, the functional biogeography of soil microorganisms remains poorly understood. In this work, we explore geographic variation in Streptomyces phenotypes that are critical to species interactions. Specifically, we characterize Streptomyces from different locations from multiple continents for antibiotic inhibition, resistance, and resource use phenotypes. Streptomyces from different locations varied significantly in antibiotic inhibition, resistance, and resource use indicating that communities vary in functional potential. Among all isolates, there were substantial differences in antibiotic inhibition, resistance, and resource use within and among and within Streptomyces species. Moreover, Streptomyces with near-identical 16S rRNA gene sequences from different locations sometimes differed significantly in inhibition, resistance, and resource use phenotypes, suggesting that these phenotypes may be locally adapted. Thus, in addition to a likely role of environmental filtering, variation in Streptomyces inhibitory, resistance, and resource use phenotypes among locations is likely to be a consequence of local selection mediated by species interactions.
Topics: Anti-Bacterial Agents; Drug Resistance, Bacterial; Phenotype; Phylogeny; Phylogeography; RNA, Ribosomal, 16S; Soil Microbiology; Streptomyces
PubMed: 24580017
DOI: 10.1111/1574-6941.12307 -
MicrobiologyOpen May 2019ε-Poly-L-lysine (ε-PL) is a food additive produced by Streptomyces and is widely used in many countries. Working with Streptomyces albulus FEEL-1, we established a...
ε-Poly-L-lysine (ε-PL) is a food additive produced by Streptomyces and is widely used in many countries. Working with Streptomyces albulus FEEL-1, we established a method to activate ε-PL synthesis by successive introduction of multiple antibiotic-resistance mutations. Sextuple mutant R6 was finally developed by screening for resistance to six antibiotics and produced 4.41 g/L of ε-PL in a shake flask, which is 2.75-fold higher than the level produced by the parent strain. In a previous study, we constructed a double-resistance mutant, SG-31, with high ε-PL production of 3.83 g/L and 59.50 g/L in a shake flask and 5-L bioreactor, respectively. However, we found that R6 did not show obvious advantages in fed-batch fermentation when compared with SG-31. For further activation of ε-PL synthesis ability, we optimized the fermentation process by using an effective acidic pH shock strategy, by which R6 synthetized 70.3 g/L of ε-PL, 2.79-fold and 1.18-fold greater than that synthetized by FEEL-1 and SG-31, respectively. To the best of our knowledge, this is the highest reported ε-PL production to date. This ε-PL overproduction may be due to the result of R99P and Q856H mutations in ribosomal protein S12 and RNA polymerase, respectively, which may be responsible for the increased transcription of the ε-poly-lysine synthetase gene (pls) and key enzyme activities in the Lys synthesis metabolic pathway. Consequently, ε-PL synthetase activity, intracellular ATP, and Lys concentrations were improved and directly contributed to ε-PL overproduction. This study combined ribosome engineering, high-throughput screening, and targeted strategy optimization to accelerate ε-PL production and probe the fermentation characteristics of hyperyield mutants. The information presented here may be useful for other natural products produced by Streptomyces.
Topics: Biosynthetic Pathways; Drug Resistance, Bacterial; Gene Expression Regulation, Bacterial; Metabolic Engineering; Mutagenesis; Polylysine; Streptomyces; Stress, Physiological; Transcription, Genetic
PubMed: 30298553
DOI: 10.1002/mbo3.728 -
PloS One 2020Resorting to a One Strain Many Compounds (OSMAC) approach, the marine Streptomyces sp. BRB081 strain was grown in six different media settings over 1, 2, 3 or 7 days....
Resorting to a One Strain Many Compounds (OSMAC) approach, the marine Streptomyces sp. BRB081 strain was grown in six different media settings over 1, 2, 3 or 7 days. Extractions of mycelium and broth were conducted separately for each media and cultivation period by sonication using methanol/acetone 1:1 and agitation with ethyl acetate, respectively. All methanol/acetone and ethyl acetate crude extracts were analysed by HPLC-MS/MS and data treatment was performed through GNPS platform using MZmine 2 software. In parallel, the genome was sequenced, assembled and mined to search for biosynthetic gene clusters (BGC) of secondary metabolites using the AntiSMASH 5.0 software. Spectral library search tool allowed the annotation of desferrioxamines, fatty acid amides, diketopiperazines, xanthurenic acid and, remarkably, the cyclic octapeptides surugamides. Molecular network analysis allowed the observation of the surugamides cluster, where surugamide A and the protonated molecule corresponding to the B-E isomers, as well as two potentially new analogues, were detected. Data treatment through MZmine 2 software allowed to distinguish that the largest amount of surugamides was obtained by cultivating BRB081 in SCB medium during 7 days and extraction of culture broth. Using the same data treatment, a chemical barcode was created for easy visualization and comparison of the metabolites produced overtime in all media. By genome mining of BRB081 four regions of biosynthetic gene clusters of secondary metabolites were detected supporting the metabolic data. Cytotoxic evaluation of all crude extracts using MTT assay revealed the highest bioactivity was also observed for extracts obtained in the optimal conditions as those for surugamides production, suggesting these to be the main active compounds herein. This method allowed the identification of compounds in the crude extracts and guided the selection of best conditions for production of bioactive compounds.
Topics: Antineoplastic Agents; Bacterial Proteins; Bacteriological Techniques; Biosynthetic Pathways; Marine Biology; Metabolomics; Multigene Family; Phylogeny; Secondary Metabolism; Streptomyces; Whole Genome Sequencing
PubMed: 33347500
DOI: 10.1371/journal.pone.0244385 -
Journal of Bacteriology Oct 1959
Topics: Streptomyces; Streptomyces coelicolor
PubMed: 14412998
DOI: 10.1128/jb.78.4.528-538.1959 -
Microbiological Research 2006The genus Streptomyces is represented in nature by the largest number of species and varieties among the family Actinomycetaceae. They differ greatly in their...
The genus Streptomyces is represented in nature by the largest number of species and varieties among the family Actinomycetaceae. They differ greatly in their morphology, physiology, and biochemical activities, producing the majority of known antibiotics. The morphological and biochemical characteristics of 71 Streptomyces spp. isolated from soil samples collected at different places of Venezuela, are presented. A comparative analysis using the statistical software Minitab shows that 67 of these isolates are presumably new strains, since they possess a very low percentage of similarity with other reported species. Only four isolates shared 100% identity with one, two or three reported Streptomyces spp.
Topics: Software; Soil Microbiology; Species Specificity; Streptomyces; Substrate Specificity; Venezuela
PubMed: 16765838
DOI: 10.1016/j.micres.2005.08.004