Deciphering and engineering of the final step halogenase for improved chlortetracycline biosynthesis in industrial Streptomyces aureofaciens

Chlortetracycline (CTC) is an important member from antibiotics tetracycline (TC) family, which inhibits protein synthesis in bacteria and is widely involved in clinical therapy, animal feeds and aquaculture. Previous works have reported intricately the biosynthesis of CTC from the intermediates in random mutants of Streptomyces aureofaciens and the crucial chlorination remained unclear. We have developed the genetic manipulation in an industrial producer, in which about 15.0 g/l CTC predominated along with 1.2 g/l TC, and discovered that chlorination by ctcP (an FADH₂-dependent halogenase gene) is the last inefficient step during CTC biosynthesis. Firstly, the ΔctcP strain accumulated about 18.9 g/l “clean” TC without KBr addition and abolished the production of CTC. Subsequently, CtcP was identified to exhibit a substrate stereo-specificity to absolute TC (4S) rather than TC (4R), with low k_cat of 0.51±0.01 min⁻¹, while it could halogenate several TC analogs. Accordingly, we devised a strategy for overexpression of ctcP in S. aureofaciens and improved CTC production to a final titer of 25.9 g/l. We anticipate that our work will provide a biotechnological potential of enzymatic evolution and strain engineering towards new TC derivatives in microorganisms.     

Molecular cloning of chlortetracycline resistance gene from chlortetracycline producer Streptomyces aureofaciens

The chlortetracycline (CT) resistance gene ctr was cloned from S. aureofaciens 633, a strain producing the antibiotic. The 6.6-kb DNA Bam HI fragment containing the resistance gene was cloned with the plasmid vector pIJ699. Comparison of the restriction maps of the cloned gene and the oxytetracycline (OT) resistance gene otrA from S. rimosus revealed their similarity which enabled identification of the cloned resistance gene as otrA. Investigation of the resistance determinants in S. aureofaciens 633 made it possible to identify a mtr gene(s). It was demonstrated that introduction of a ctrA gene into S. lividance provided a simultaneous increase in the resistance of the recipient strain to CT and a number of macrolide antibiotics. The CT resistance determinants in S. lividans TK64 showed properties of exogenous induction by CT and the macrolide antibiotics similar to the properties of the mtr gene(s) of S. aureofaciens. Possible adaptation properties of mtr genes are discussed.     

Subcellular organization of Streptomyces aureofaciens and overproduction of chlortetracycline

Biosynthesis of chlortetracycline is localized differently under low- and high-production conditions (standard low-production strain and its high-production variant). The experimental evidence was based on the assay of anhydrotetracycline oxygenase in subcellular fractions, ultracytochemical localization and electron-probe X-ray microanalysis of the product in the mycelium. Overproduction of chlortetracycline is closely associated with compartmentation of biosynthetic enzymes and with an efficient export of the antibiotic out of the cell.     

The possible role of high molecular weight polyphosphates in chlortetracycline biosynthesis by Streptomyces aureofaciens]

The content of condensed inorganic polyphosphates in high productive and low productive Streptomyces aureofaciens strains has been determined. At all the stages of growing the quantity of these compounds in low productive strain is 8-10-fold higher than in high productive strains. Maximum accumulation of condensed inorganic polyphosphates in both the strains Str. aureofaciens corresponds to the end of logarithmic phase of growth. In both strains the presence of two enzymes of polyphosphate biosynthesis -- ATP:polyphosphate-phosphotransferase and 1.3-diphosphoglycerate:polyphosphate-phosphotransferase has been revealed as well as the presence of the enzymes of their utilisation -- polyphosphate:D-glucose-6-phosphotransferase, polyphosphate-phosphohydrolase, tripolyphosphosphate-phosphohydrolase and pyrophosphate-phosphohydrolase. The difference in the activity of 1.3 diphosphoglycerate: polyphosphate-phosphotransferase and polyphosphate-phosphohydrolase has been revealed in both strains studied. On the basis of the data obtained it is supposed that there is a possibility of using phosphorus and energy of high molecular inorganic polyphosphate in the biosynthesis of so called products of "secondary metabolism".     

Role of phosphatases in the biosynthesis of chlortetracycline inStreptomyces aureofaciens

ATP diphosphohydrolase activity and inorganic pyrophosphatase reached two maxima during cultivation of the low- and high-producing variant ofStreptomyces aureofaciens under conditions of phosphate limitation,i.e. after 30 and 70 h of cultivation. Increased levels of inorganic phosphate in a medium inhibitory to biosynthesis of chlortetracycline markedly decreased the levels of both enzymes. The ATP diphosphohydrolase activity was detected both in the supernatant and membrane fractions of the cell-free preparation of the mycelium.     

Morphological examination of immobilized Streptomyces aureofaciens during chlortetracycline fermentation

Summary Immobilized spores of Streptomyces aureofaciens ATCC 10762 were grown in situ and formed micropellets under the gel surface. The latter was covered with a membrane-like coat of alginate material, while the bead interior was almost completely free of mycelial growth.High spore concentrations caused a decrease in antibiotic production which might be correlated with the morphological development of cells in the gel.Scanning electron micrographs showed the morphological development of the immobilized cells.     

Major proteins related to chlortetracycline biosynthesis in a Streptomyces aureofaciens production strain studied by quantitative proteomics

Changes in synthesis and abundance of proteins associated with chlortetracycline (CTC) production in Streptomyces aureofaciens were investigated by two-dimensional polyacrylamide gel electrophoresis of proteins pulse-labelled in vivo with L-[35S]methionine. Eleven individual protein spots were selected as being related to formation of the antibiotic. Expression of these prominent proteins was not observed in the non-producing mutant; moreover, they were overexpressed in cultures grown in the presence of benzyl thiocyanate, a specific stimulator of CTC biosynthesis used in industrial fermentations. The expression kinetics of the selected proteins was assessed using the technique of computer-assisted image analysis with the EQIAS software and the elongation factor Tu as an internal standard. Interestingly, the kinetic profiles were generally not identical. including those of anhydrotetracycline monooxygenase and the 13-kDa subunit of tetracycline dehydrogenase, two enzymes involved, in the terminal sequential steps of the CTC biosynthetic pathway. The presence of more forms of these enzymes with different charge characteristics was observed. The data presented demonstrated how dramatically the industrial microorganism can change its protein repertoire during the production phase; at least five proteins were nearly comparable in level to the most prominent proteins, exemplified by elongation factor Tu.     

Relationship between the carbohydrate metabolism ofStreptomyces aureofaciens and the biosynthesis of chlortetracycline

The effect of interrupted aeration on the biosynthesis of chlortetracycline (CTC) was investigated. The culture is most sensitive to interruption in aeration when between the 6th and 12th hour of growth. Then even short interruptions will result in a pronounced suppression of CTC biosynthesis. Using glucose labelled at carbon 1 and at carbon 6 with¹⁴C it could be demonstrated that the interruption in aeration brings about a decrease in the activity of the pentose shunt during breakdown of sugar in the course of subsequent cultivation. A similar effect can be induced by increasing the level of inorganic phosphate in the medium. It was shown by studying the interaction of benzyl thiocyanate and interruption of aeration on the biosynthesis of CTC that benzyl thiocyanate antagonizes the unfavourable effect of interrupted aeration. Its presence will prevent a drop in CTC production by a culture aerated with interruptions. The relationship between the enzymatic reactions of the pentose shunt and the mechanism of chlortetracycline biosynthesis is discussed.     

Identification, cloning and sequencing the aceA gene involved in acetan biosynthesis in Acetobacter xylinum

Abstract The aceA gene from Acetobacter xylinum was identified and cloned from a genomic DNA library. The complete DNA sequence was determined and computer analysis of the translated gene sequence revealed homology with the deduced amino acid sequence of gumD from Xanthomonas campestris . Therefore aceA is likely to encode the phosphate-prenyl glucose I -phosphate transferase catalyzing the first step in acetan biosynthesis in A. xylinum .     

Identification of a Saccharopolyspora erythraea gene required for the final hydroxylation step in erythromycin biosynthesis.

In analyzing the region of the Saccharopolyspora erythraea chromosome responsible for the biosynthesis of the macrolide antibiotic erythromycin, we identified a gene, designated eryK, located about 50 kb downstream of the erythromycin resistance gene, ermE. eryK encodes a 44-kDa protein which, on the basis of comparative analysis, belongs to the P450 monooxygenase family. An S. erythraea strain disrupted in eryK no longer produced erythromycin A but accumulated the B and D forms of the antibiotic, indicating that eryK is responsible for the C-12 hydroxylation of the macrolactone ring, one of the last steps in erythromycin biosynthesis.     

Identification of the gene cluster involved in muraymycin biosynthesis from Streptomyces sp. NRRL 30471

Muraymycin, a potent translocase I inhibitor with clinical potential, is produced by Streptomyces sp. NRRL 30471. The structure of muraymycin is highly unusual and contains the hexahydro-2-imino-4-pyrimidylglycyl moiety (epicapreomycidine) and an ureido bond. Here we report the identification of the muraymycin gene cluster from Streptomyces sp. NRRL 30471. Sequencing analysis of a 43.4-kb contiguous region revealed 33 ORFs, 26 of which were proposed to be involved in muraymycin biosynthesis. Independent targeted inactivation of mur16 and mur17 directly abolished muraymycin production, demonstrating the role of the genes essential for muraymycin biosynthesis. These data provide insights into the molecular mechanisms for muraymycin biosynthesis, and lay a foundation for the generation of muraymycin derivatives with enhanced bioactivity via the strategies of combinatorial biosynthesis.     

Determinants of resistance to chlortetracycline and other antibiotics in chlortetracycline-producing strain of Streptomyces aureofaciens

Data are presented on resistance of Streptomyces aureofaciens strain TB-633 FU--the producer of chlortetracycline (CTC) to autogenous antibiotics and a number of other antibiotics. It is demonstrated that resistance to CTC is specified by ctr genes of constitutive expression as well as by inducible genes. CTC and ethidium bromide may serve as efficient inductors of inducible ctr genes. The induction process is accompanied by increase in antibiotic biosynthesis level. Genes responsible for strain resistance to a number of macrolide antibiotics and thiostrepton are inducible and only function in the presence of appropriate antibiotics in the medium. The action of inducible mtr gene(s) is described in detail. The gene(s) simultaneously ensure increase in resistance to CTC and a number of macrolide antibiotics in the presence of exogenous inductors in media, such as both CTC and macrolide antibiotics. Mutants have been isolated which provide constitutive level of resistance to these antibiotics. A series of ctr and mtr mutants have increased CTC biosynthesis as compared to the initial level. Data on comparative analysis of the results obtained from hybridization of fragments of S. aureofaciens and S. rimosus DNAs to actI and actIII genes, responsible for polyketide synthases' synthesis, demonstrate that genes for CTC and OTC biosynthesis are situated on DNA fragments of similar size. This determines the strategy for cloning ctr and mtr genes as well as genes for CTC biosynthesis from S. aureofaciens.     

Action of chlortetracycline on the enzymes of the producer itself, Streptomyces aureofaciens]

When preparing a cell-free extract of Streptomyces aureofaciens from the culture to which chlortetracycline (1000 gamma/ml) was added before disintegration with alumina, a considerable decrease in the enzyme activity was reached. The presence of chlortetracycline during disintegration of the cells by means of glass beads did not substantially affect the enzyme activity of the cell-free extract. Addition of chlortetracycline directly to the reaction mixture for the enzyme assay (up to a concentration of 200 gamma/ml) did not induce any inhibition effect. The results suggested that during studying enzyme systems of organisms producing secondary metabolites, the product might distort the results on the use of an inconvenient method.