Micropropagation and Cryoconservation of the Endangered Plant Species Artemisia laciniata (Asteraceae).

BACKGROUND: Artemisia laciniata, mainly distributed in Siberia and Central Asia, is classified as critically endangered in Europe. OBJECTIVES: This study developed a protocol for its micropropagation and cryopreservation. MATERIALS AND METHODS: In vitro cultures from fresh seed and in vivo shoots were initiated. Micropropagation and cryopreservation protocols were developed. Bacteria detected after cryopreservation were investigated using 16S rRNA analysis. Genome size measurements of regenerated plants after cryopreservation using flow cytometry and carbon isotope measurements to evaluate stress status were also carried out. RESULTS: A. laciniata from both starting materials could be successfully propagated on MS medium with 0.5 uM BAP. Material initiated from in vivo shoots yielded lower regeneration percentages (16%) after cryopreservation than material generated from seed (57 and 63%) using the droplet-vitrification method and PVS3. Bacteria occurring after cryopreservation belonged to the genera Sphingomonas, Staphylococcus, Curtobacterium and Gordonia. There was no significant difference in the genome size and stress status between non-cryopreserved and cryopreserved plants. CONCLUSION: A. laciniata could be readily micropropagated and cryopreserved. No negative effects of cryopreservation on plant water use efficiency or on genetic stability were found.

[Computer-aided design of polyketides with the required properties].

We propose an approach to rational design of new polyketides with the required spectrum of biological activity. We developed BioGenPharm software for generation of polyketide combinatorial libraries, prediction of activity spectra for the generated structures and selection of molecules with the required properties on the basis of user defined input parameters and selection criteria. For prediction of polyketide activity spectra we used PASS algorithm (http://www.ibmc.msk.ru/PASS). Validation of PASS prediction ability for polyketides was performed vs. the evaluation set containing 242 natural macrolides from the Dictionary of Natural Products. The mean prediction accuracy was 75,5%. The problem of choice of cutting points for probability of the presence of activity (Pa), which provide optimal combination of such parameters as sensitivity, specificity, concordance was considered. Applicability of the described method has been illustrated by generation of a virtual library of the erythromycin analogues and selection substances for which the probability of hepatotoxic action is low.

[Comparative analysis of in vitro antifungal activity and in vivo acute toxicity of the nystatin analogue S44HP produced via genetic engineering].

New polyene macrolide S44HP was purified from the culture of recombinant Streptomyces noursei strain with engineered nystatin polyketide synthase. S44HP, nystatin (NYS), and amphotericin B (Amph-B) were tested against 19 clinical fungal isolates in agar diffusion assay, which demonstrated clear differences in antifungal activities of these antibiotics. Sodium deoxycholate suspensions of all three antibiotics were subjected to acute toxicity studies in vivo upon intravenous administration in mice. NYS exhibited the lowest acute toxicity in mice in these experiments, while both Amph-B and S44HP were shown to be 4 times more toxic as judged from the LD50 values. While the acute toxicity of S44HP was higher than that of Amph-B, the data analysis revealed a significantly increased LD10 to LD50 dose interval for S44HP compared to Amph-B. The data revealed structural features of polyene macrolides, which might have an impact on both the activity and toxicity profiles of these antibiotics. These results represent the first example of preclinical evaluation of an "engineered" polyene macrolide, and can be valuable for rational design of novel antifungal drugs with improved pharmacological properties.

Biosynthesis of deoxyaminosugars in antibiotic-producing bacteria.

Deoxyaminosugars comprise an important class of deoxysugars synthesized by a variety of different microorganisms; they can be structural components of lipopolysaccharides, extracellular polysaccharides, and secondary metabolites such as antibiotics. Genes involved in the biosynthesis of the deoxyaminosugars are often clustered and are located in the vicinity of other genes required for the synthesis of the final compound. Most of the gene clusters for aminosugar biosynthesis have common features, as they contain genes encoding dehydratases, isomerases, aminotransferases, methyltransferases, and glycosyltransferases. In the present mini-review, the proposed biosynthetic pathways for deoxyaminosugar components of both macrolide and non-macrolide antibiotics are highlighted. The possibilities for genetic manipulations of the deoxyaminosugar biosynthetic pathways aimed at production of novel secondary metabolites are discussed.

Polyene antibiotic biosynthesis gene clusters.

Over the past 15 years the biosynthetic gene clusters for numerous bioactive polyketides have been intensively studied and recently this work has been extended to the antifungal polyene macrolides. These compounds consist of large macrolactone rings that have a characteristic series of conjugated double bonds, as well as an exocyclic carboxyl group and an unusual mycosamine sugar. The biosynthetic gene clusters for nystatin, pimaricin, amphotericin and candicidin have been investigated in detail. These clusters contain the largest modular polyketide synthase genes reported to date. This body of work also provides insights into the enzymes catalysing the unusual post-polyketide modifications, and the genes regulating antibiotic biosynthesis. The sequences also provide clues about the evolutionary origins of polyene biosynthetic genes. Successful genetic manipulation of the producing organisms leading to production of polyene analogues indicates good prospects for generating improved antifungal compounds via genetic engineering.

p53 C-terminal interaction with DNA ends and gaps has opposing effect on specific DNA binding by the core.

In addition to binding DNA in a sequence-specific manner, the p53 tumour suppressor protein can interact with damaged DNA. In order to understand which structural features in DNA the C-teminal domain recognises we have studied the interaction of p53 protein with different types of DNA oligonucleotides imitating damaged DNA. Here we show that one unpaired nucleotide within double-stranded (ds)DNA is sufficient for recognition by the p53 C-terminus, either as a protruding end or as an internal gap in dsDNA. C-terminal interaction with DNA ends facilitated core domain binding to DNA, whereas interaction with gaps prevented core domain-DNA complexing, implying that p53 might adopt distinct conformations upon binding to different DNA lesions. These observations suggest that both single-strand and double-strand breaks can serve as a target for p53 C-terminal recognition in vivo and indicate that p53 might recruit different repair factors to the sites of damaged DNA depending on the type of lesion.

Biosynthesis of the polyene antifungal antibiotic nystatin in Streptomyces noursei ATCC 11455: analysis of the gene cluster and deduction of the biosynthetic pathway.

BACKGROUND: The polyene macrolide antibiotic nystatin produced by Streptomyces noursei ATCC 11455 is an important antifungal agent. The nystatin molecule contains a polyketide moiety represented by a 38-membered macrolactone ring to which the deoxysugar mycosamine is attached. Molecular cloning and characterization of the genes governing the nystatin biosynthesis is of considerable interest because this information can be used for the generation of new antifungal antibiotics. RESULTS: A DNA region of 123,580 base pairs from the S. noursei ATCC 11455 genome was isolated, sequenced and shown by gene disruption to be involved in nystatin biosynthesis. Analysis of the DNA sequence resulted in identification of six genes encoding a modular polyketide synthase (PKS), genes for thioesterase, deoxysugar biosynthesis, modification, transport and regulatory proteins. One of the PKS-encoding genes, nysC, was found to encode the largest (11,096 amino acids long) modular PKS described to date. Analysis of the deduced gene products allowed us to propose a model for the nystatin biosynthetic pathway in S. noursei. CONCLUSIONS: A complete set of genes responsible for the biosynthesis of the antifungal polyene antibiotic nystatin in S. noursei ATCC 11455 has been cloned and analyzed. This represents the first example of the complete DNA sequence analysis of a polyene antibiotic biosynthetic gene cluster. Manipulation of the genes identified within the cluster may potentially lead to the generation of novel polyketides and yield improvements in the production strains.

Identification of a methyl-specific restriction system mediated by a conjugative element from Streptomyces bambergiensis.

pBL2 was identified genetically but not physically in Streptomyces lividans after its mating with S. bambergiensis. During conjugation, pBL2 was transferred at high frequency to S. lividans and S. coelicolor. pBL2.1 DNA isolated from S. coelicolor exconjugants as a circular plasmid was shown to derive from the genome of S. bambergiensis. S. lividans carrying pBL2 or pBL2.1 acquired a methyl-specific restriction (MsrA+) phenotype. The corresponding enzyme was partially purified and shown to resemble a class II endonuclease which cleaves Dam-methylated DNA preferentially.

Cloning and heterologous expression of the genes encoding nonspecific electron transport components for a cytochrome P450 system of Saccharopolyspora erythraea involved in erythromycin production.

The forA gene encoding a protein that can function as a NADH:ferredoxin oxidoreductase (For) has been cloned from Saccharopolyspora erythraea, the erythromycin A (ErA) producer. In a previous study For protein, together with the FdxA ferredoxin from the same organism, was shown to be able to reconstitute the cytochrome P450 system responsible for the hydroxylation of 6-deoxyerythronolide B, an intermediate of ErA biosynthesis. Nucleotide sequence data suggest that the cloned forA gene codes for For, the putative pyruvate dehydrogenase component, dihydrolipoamide dehydrogenase, or its close homolog. Overexpression of forA appeared to be toxic to Escherichia coli.

The linear Streptomyces plasmid pBL1: analyses of transfer functions.

pBL1 is a conjugative linear extrachromosomal element of 43 kb previously isolated after interspecific mating between Streptomyces bambergiensis and S. lividans. Cloning experiments using the non-conjugative, circular Streptomyces vector pIJ702 allowed the identification of a 5.74 kb region from pBL1 which facilitates plasmid transfer. Insertion and deletion mutagenesis, gene disruptions, and sequence data suggest that at least five previously unknown genes of pBL1 are required for efficient plasmid transfer and its regulation.

Characterization of a linear extrachromosomal DNA element (pBL1) isolated after interspecific mating between Streptomyces bambergiensis and S. lividans.

Streptomyces bambergiensis S712 harbours a giant linear plasmid PSB1 of 640 kb. After mating with the plasmidless S. lividans strain TK64, conjugants carrying a smaller extrachromosomal DNA element, pBL1, were identified. pBL1 is a 43-kb linear DNA molecule bound to a protein which protects it from attack by both 3'- and 5'-exonucleases. The absence of this protein drastically reduces the transforming efficiency of pBL1. pBL1 shares homology with linear plasmids and chromosomal DNA from S. bambergiensis strains.

[Effect of plasmid pIJ350 on genetic stability of antibiotic production by Streptomyces bambergiensis]. / Vliianie plazmidy pIJ350 na geneticheskuiu stabil'nost' priznaka antibiotikoobrazovaniia u Streptomyces bambergiensis.

It was shown that S. bambergiensis S800 was genetically instable with respect to the property of the antibiotic production (Ant) while in strain S712 of S. bambergiensis this property was stable. Transformation of S. bambergiensis protoplasts with pIJ350 plasmid DNA and analysis of the transformants screening revealed induction of the Ant instability in both the strains. In case of plasmids pVG101 and pIJ943 this effect was not shown. Analysis of the S800 (pIJ350) transformant screening revealed five groups of mutants differing in the antibiotic production level and the presence of pIJ350 plasmid. Restriction analysis of the total DNA of the mutants showed that there were large deletions in the genome of two of them. Retransformation of the mutants with pIJ350 plasmid DNA showed that in all the cases induction of the instability was lacking. The behaviour of the spontaneous mutants Ant- of strain S800 with respect to pIJ350 plasmid was analogous to that of the mutants Ant- from the transformant S800 (pIJ350) screening. A hypothetic model for the determinant incompatibility with pIJ350 plasmid genetically linked to the Ant property in the genome of S. bambergiensis and unstable in strain S800 was proposed.

[Transformation of Streptomyces bambergiensis S712 by plasmid DNA]. / Transformatsiia protoplastov Streptomyces bambergiensis S712 plazmidnoi DNK.

Optimal conditions for protoplast formation in the moenomycin-producing strain S712 of S. bambergiensis were developed. The protoplasts of this strain were transformed with DNA of plasmids pVG101 and pIJ350. The plasmids isolated from the transformants and designated as pVG101SB and pIJ350SB respectively were used for transformation of the initial culture protoplasts. No significant increase in the transformation efficiency was observed. Studies with the plasmid retransformation from S. bambergiensis S712 to S. lividans 66 and vice verse were conducted. Limitation of the plasmid replication during the retransformation in these strains was not detected. Partial restriction analysis of plasmids pVG101 and pVG101SB as well as pIJ350 and pIJ350SB showed that the used restriction enzymes had the same effect on the respective plasmids. Genetic stability of the plasmids in S. bambergiensis S712 was studied. It is concluded that plasmids pVG101 and pIJ350 can be used as vector molecules for this strain.