Spores in situ and problems of the classification of Mesozoic tree ferns

Although tree ferns dominated the Mesozoic flora, their taxonomic relationships are poorly understood at the generic level, and next to nothing can be said of evolutionary trends within the group. At least five genera are recognized based on the remains of spore-bearing structures. However, the dispersed spores belong to the same generalized morphotype, and cannot be assigned to genera based on macroscopic remains of fertile leaves. Electron microscopy of spores in situ may partly resolve these problems providing additional criteria for classification of spore-bearing structures and disperse spores. We studied in situ spores of the Early Cretaceous Alsophilites nipponensis (Oishi) Krassilov, which are comparable to dispersed spores Cyathidites minor Coup. Spore wall micromorphology and ultrastructure indicate their affinities with the modern genus Alsophila R. Brown. Only occasional poorly preserved striate sculptures survive the standard treatment of maceration of the perispore. Our data confirm the primitive status of the species with a great number of spores per sporangium, thick unsculptured exospore consisting of two ultrastructural layers, and the possibility that whole sporangia with unshed spores can function as dispersal units.     

Folded chromosome structure and DNA-binding protein of Streptomyces hygroscopicus

The isolation of the folded chromosomal structure from a Streptomyces strain is described. It is shown that the compact DNA structure of Streptomyces hygroscopicus is stabilized by DNA-RNA interactions. Nucleolytic cleavage decreases the sedimentation rate of the originally isolated (membrane-free) folded Streptomyces chromosome from 1500 S to 800 S or 300 S and finally to completely unfolded DNA. Data on ethidium bromide intercalation suggest a dye-induced relaxation and reintroduction of DNA supertwisting. Like naturally occurring covalently closed circular DNA and like the Escherichia coli chromosome, the folded chromosomal DNA of S. hygroscopicus has about one negative superhelix turn per 200 bp. The results further demonstrate that the isolated Streptomyces nucleoid contains a characteristic S protein which exhibits gel electrophoretic properties of a histone-like component similar to that found in E. coli or Thermoplasma acidophilum. Digestion of the nucleoid with proteinase K at 37°C causes elimination of the S protein and unfolding of the compact structure. The S protein is also present in other species of the genus Streptomyces.     

Restriction of streptomyces phage SH5 by endonuclease ShyI from Streptomyces hygroscopicus 0477

Summary DNA of the temperate Streptomyces phage SH5 (DNA molecular weight 27x10⁶) is subject to restriction-modification mediated by S. hygroscopicus 0477, S. levoris 1331 and 2340. The restriction endonuclease ShyI (isoschizomeric with SacII) isolated from S. hygroscopicus 0477 is involved in restriction of SH5·1331 and SH5·2340 DNAs in S. hygroscopicus 0477.     

Enhanced rapamycin production in <Emphasis Type="Italic">Streptomyces hygroscopicus</Emphasis> by integrative expression of <Emphasis Type="Italic">aveR</Emphasis>, a LAL family transcriptional regulator

Rapamycin produced by Streptomyces hygroscopicus displays immunosuppressive, antifungal, anti-tumor, anti-inflammatory and neuro-regenerative properties. To enhance production of rapamycin, aveR, a stimulator in Streptomyces avermitilis, was integrated into the chromosome of S. hygroscopicus TYQ0915. This resulted in a 274.9% increase of rapamycin production in an exconjugant S. hygroscopicus AVH1124. Introduction of aveR acts pleiotropically by affecting growth and sporulation of S. hygroscopicus AVH1124, although aveR is verified to be a pathway-specific regulator in S. avermitilis. This study proved that introduction of a homologous regulatory gene from the same protein family enhanced rapamycin production.     

Structural organization and phase behavior of phospholipid fractions of actinobacteria in relation to storage conditions

X-ray diffraction analysis provided information on structural organization, phase behavior, and stability of the major parameters of phospholipid fractions of the cell membranes of actinobacteria strains Streptomyces hygroscopicus RIA 1433, Nonomuraea roseoviolacea subsp. carminata INA 4281, and Nonomuraea sp. INA 34-06 depending on the storage conditions and hydration level. Phospholipids of S. hygroscopicus were shown to form densely packed multilamellar layers. The phospholipid fraction of this microorganism was notable for homogeneity and stability of its structural organization upon storage at 4°C during 10 months. On the contrary, lipids of the phospholipid fractions of N. roseoviolacea subsp. carminata INA 4281 and Nonomuraea sp. INA 34-06 formed lamellar and inverted hexagonal (H_II) phases. The phase depended on hydration level and changed in the course of storage. We assume that the revealed differences in phase structural organization of actinobacterial phospholipid fractions may indicate long-term stability of their membrane structures.     

The <Emphasis Type="Italic">Streptomyces violaceusniger</Emphasis> clade: a home for streptomycetes with rugose ornamented spores

The taxonomic status of 16 strains received as Streptomyces hygroscopicus, Streptomyces melanosporofaciens, Streptomyces sparsogenes, Streptomyces sporoclivatus and Streptomyces violaceusniger was evaluated in a polyphasic study. Eleven of the organisms formed a distinct clade in the Streptomyces 16S rRNA gene tree with the type strains of Streptomyces asiaticus, Streptomyces cangkringensis, Streptomyces indonesiensis, Streptomyces javensis, Streptomyces malaysiensis, Streptomyces rhizosphaericus, Streptomyces yatensis and Streptomyces yogyakartensis, the members of this group produced rugose ornamented spores in spiral spore chains. The eleven strains were assigned to three established and four novel species, namely Streptomyces albiflaviniger sp. nov., Streptomyces demainii sp. nov., Streptomyces geldanamycininus sp. nov., Streptomyces griseiniger sp. nov., and Streptomyces hygroscopicus, Streptomyces melanosporofaciens and Streptomyces violaceusniger. It is also proposed that S. sporoclivatus becomes a subjective synonym of S. melanosporofaciens. S. sparsogenes NRRL 2940^T, which produced ridged ornamented spores in spiral spore chains, formed a distinct phyletic line in the Streptomyces 16S rRNA gene tree and was readily distinguished from the other strains using a range of phenotypic properties. S. violaceusniger strains NRRL 8097, NRRL B-5799, NRRL 2834 and ISP 5182 fell outside the S. violaceusniger 16S rRNA gene clade and formed either smooth or ridged ornamented spores in either flexuous or spiral spore chains. These organisms were distinguished from one another and from their closest phylogenetic neighbors and were considered to merit species status as Streptomyces auratus sp. nov., Streptomyces phaeoluteichromatogenes sp. nov., Streptomyces phaeogriseichromatogenes sp. nov., and Streptomyces phaeoluteigriseus sp. nov., respectively. The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequences of the tested strains are S. albiflaviniger NRRL B-1356^T (AJ391812), S. auratus NRRL 8097^T (AJ391816), S. geldanamycininus NRRL 3602^T (DQ334781), S. griseiniger NRRL B-1865^T (AJ391818), S. hygroscopicus NRRL 2387^T (AJ391820), NRRL 2339 (AJ391821) and NRRL B-1477 (AJ391819), S. demainii NRRL B-1478^T (DQ334782), S. melanosporofaciens NRRL B-12234^T (AJ391837), S. phaeogriseichromatogenes NRRL 2834^T (AJ391813), S. phaeoluteichromatogenes NRRL B-5799^T (AJ391814), S. phaeoluteigriseus ISP 5182^T (AJ391815), S. sparsogenes NRRL 2940^T (AJ391817), S. sporoclivatus NRRL B-24330^T (AJ 781369), S. violaceusniger ISP 5563^T (AJ 391823) and NRRL B-1476^T (AJ 391822).     

Identification and Isolation of Two Ascomycete Fungi from Spores of the Arbuscular Mycorrhizal Fungus Scutellospora castanea

Two filamentous fungi with different phenotypes were isolated from crushed healthy spores or perforated dead spores of the arbuscular mycorrhizal fungus (AMF) Scutellospora castanea. Based on comparative sequence analysis of 5.8S ribosomal DNA and internal transcribed spacer fragments, one isolate, obtained from perforated dead spores only, was assigned to the genus Nectria, and the second, obtained from both healthy and dead spores, was assigned to Leptosphaeria, a genus that also contains pathogens of plants in the Brassicaceae. PCR and randomly amplified polymorphic DNA-PCR analyses, however, did not indicate similarities between pathogens and the isolate. The presence of the two isolates in both healthy spores and perforated dead spores of S. castanea was finally confirmed by transmission electron microscopy by using distinctive characteristics of the isolates and S. castanea. The role of this fungus in S. castanea spores remains unclear, but the results serve as a strong warning that sequences obtained from apparently healthy AMF spores cannot be presumed to be of glomalean origin and that this could present problems for studies on AMF genes.     

Identification of AHBA Biosynthetic Genes Related to Geldanamycin Biosynthesis in Streptomyces hygroscopicus 17997

To clone and study the geldanamycin biosynthetic gene cluster in Streptomyces hygroscopicus 17997, we designed degenerate primers based on the conserved sequence of the ansamycin 3-amino-5-hydroxybenzoic acid (AHBA) synthase gene. A 755-bp polymerase chain reaction product was obtained from S. hygroscopicus 17997 genomic DNA, which showed high similarity to ansamycin AHBA synthase genes. Through screening the cosmid library of S. hygroscopicus 17997, two loci of separated AHBA biosynthetic gene clusters were discovered. Comparisons of sequence homology and gene organization indicated that the two AHBA biosynthetic gene clusters could be divided into a benzenic and a naphthalenic subgroup. Gene disruption demonstrated that the benzenic AHBA gene cluster is involved in the biosynthesis of geldanamycin. However, the naphthalenic AHBA genes in the genome of Streptomyces hygroscopicus 17997 could not complement the deficiency of the benzenic AHBA genes. This is the first report on the AHBA biosynthetic gene cluster in a geldanamycin-producing strain. W. He and L. Wu contributed equally to this work.     

Evaluation of Streptomyces for Biocontrol of Bipolaris sorokiniana and Sclerotinia homoeocarpa on the Phylloplane of Poa pratensis1

Several species of Streptomyces were evaluated for their ability to control Sclerotinia homoeocarpa (dollar spot) and Bipolaris sorokiniana (leaf spot) on the phylloplane of Poa pratensis (Kentucky bluegrass). Species evaluated included S. diastaticus (S32), S. galbus (S35), and S. hygroscopicus (isolates S13, S28). All evaluations were conducted on the upper epidermis of intact attached leaves of P. pratensis, and antagonism was measured as the ability of Streptomyces isolates to prevent chlorophyll loss from leaves inoculated with B. sorokiniana or S. homoeocarpa during pathogenesis. Only S. hygroscopicus (S13) effectively prevented infection and subsequent chlorophyll loss from leaves inoculated with B. sorokiniana or S. homoeocarpa. Isolate S28 of S. hygroscopicus showed erratic antagonism of both pathogens, depending upon how the isolate was prepared for use. Streptomyces diastaticus and S. galbus were antagonistic to S. homoeocarpa only in whole culture form.     

Anionic carbohydrate-containing cell wall polymers of <Emphasis Type="Italic">Streptomyces melanosporofaciens</Emphasis> and related species

The structures of cell wall anionic carbohydrate-containing polymers in Streptomyces melanosporofaciens VKM Ac-1864^T and phylogenetically close organisms—S. hygroscopicus subsp. hygroscopicus VKM Ac-831^T, S. violaceusniger VKM Ac-583^T, S. endus VKM Ac-1331^T, S. endus VKM Ac-129, and S. rutgersensis subsp. castelarensis VKM Ac-832^T—have been comparatively studied by chemical and NMR spectroscopic methods. The natural polymer of a new, previously unknown structure, Kdn (3-deoxy-D-glycero-D-galacto-non-2-ulopyranosonic acid) with β-galactose residues at C-9, has been found in the cell walls of all the strains under study. The cell walls of all the studied organisms contain three teichoic acids (TA): a predominant TA (1,3-poly(glycerol phosphate) with N-acetylated α-glucosaminyl substitutes by C-2 of glycerol, and minor TAs, 1,3-and 2,3-poly(glycerol phosphate) polymers without substitution. Their chains have O-acetyl and O-lysyl groups. Microorganisms of the above-mentioned species differ in the number of α-glucosaminyl substitutes and in the degree of their acetylation in the predominant teichoic acid.     

Reduction of Pulmonary Toxicity of Stachybotrys chartarum Spores by Methanol Extraction of Mycotoxins

The fungus Stachybotrys chartarum has been implicated in cases of nonspecific indoor air quality complaints in adults and in cases of pulmonary hemorrhaging in infants. The effects that have been described have been attributed to mycotoxins. Previous dose-effect studies focused on exposure to a single mycotoxin in a solvent, a strategy which is unlikely to accurately characterize the effects of inhaled spores. In this study we examined the role of mycotoxins in the pulmonary effects caused by S. chartarum spores and the dose dependency of these effects. S. chartarum spores were extracted in methanol to reduce the mycotoxin content of the spores. Then either untreated (toxin-containing) or methanol-extracted S. chartarum spores were intratracheally instilled into male 10-week-old Charles River-Dawley rats. After 24 h, the lungs were lavaged, and the bronchoalveolar lavage fluid was analyzed to determine differences in lactic dehydrogenase, albumin, hemoglobin, myeloperoxidase, and leukocyte differential counts. Weight change was also monitored. Our data show that methanol extraction dramatically reduced the toxicity of S. chartarum spores. No statistically significant effects were observed in the bronchoalveolar lavage fluids of the animals that were treated with methanol-extracted spores at any dose. Conversely, dose-dependent effects of the toxin-containing spores were observed when we examined the lactic dehydrogenase, albumin, and hemoglobin concentrations, the polymorphonuclear leukocyte counts, and weight loss. Our findings show that a single, intense exposure to toxin-containing S. chartarum spores results in pulmonary inflammation and injury in a dose-dependent manner. Importantly, the effects are related to methanol-soluble toxins in the spores.     

Scanning Electron Microscopy of Ascospores of Schwanniomyces

Ascospores of the four recognized species of Schwanniomyces were examined by scanning electron microscopy. Spores of S. alluvius, S. castellii, and S. occidentalis, which were essentially identical, had abundant, long protuberances and wide, thin equatorial rings. The two known strains of S. persoonii differed from the other species as well as from each other. One strain had spores with a wide ring but only a few short protuberances; spores from the second strain were covered with craterlike depressions and had a narrow ring. Also examined were spores of Schwanniomyces hominis (=Saccharomyces rosei) which lacked a ring and were covered with short irregularly shaped protuberances, a finding consistent with the morphology of spores from other strains of S. rosei.     

In vitro and in vivo antagonism of pathogenic turfgrass fungi by Streptomyces hygroscopicus strains YCED9 and WYE53

Disease prevention is a current practice used to minimize fungal diseases of turfgrasses in lawns and golf greens. Prevention is accomplished through fungicide applications, and by periodic thatch removal. During the development of a microbial biodethatch product utilizing the lignocellulose-degrading Streptomyces hygroscopicus strains YCED9 and WYE53, we demonstrated using in vitro plate antagonism bioassays that both strains are antagonists of various turfgrass fungal pathogens. These activities were present when the cultures were growing on thatch, as demonstrated by antifungal antagonism bioassays with culture filtrates. Experiments conducted using a growth chamber demonstrated that a bio-dethatch formulation containing spores of strains YCED9 and WYE53 in a zeolite carrier, provided protection for Kentucky bluegrass seedlings against turfgrass pathogens, including Pythium ultimum, Fusarium oxysporum, Rhizoctonia solani, Sclerotinia homeocarpa, Gaeumannomyces graminis and Microdochium nivale. Results showed that by integrating the use of the S. hygroscopicus YCED9/WYE53 bio-dethatch formulation into routine turf management practices, it should be possible to both minimize thatch build-up while also controlling fungal turfgrass diseases by way of the antifungal biocontrol activity of these strains. This in turn would help control fungal pathogens in turfgrass while minimizing the need for routine chemical fungicide applications. Received 19 October 1998/ Accepted in revised form 19 March 1999     

Rapid Characterization of Spores of Bacillus cereus Group Bacteria by Matrix-Assisted Laser Desorption-Ionization Time-of-Flight Mass Spectrometry

Matrix-assisted laser desorption-ionization (MALDI) time-of-flight mass spectrometry was used to characterize the spores of 14 microorganisms of the Bacillus cereus group. This group includes the four Bacillus species B. anthracis, B. cereus, B. mycoides, and B. thuringiensis. MALDI mass spectra obtained from whole bacterial spores showed many similarities between the species, except for B. mycoides. At the same time, unique mass spectra could be obtained for the different B. cereus and B. thuringiensis strains, allowing for differentiation at the strain level. To increase the number of detectable biomarkers in the usually peak-poor MALDI spectra of spores, the spores were treated by corona plasma discharge (CPD) or sonicated prior to MALDI analysis. Spectra of sonicated or CPD-treated spores displayed an ensemble of biomarkers common for B. cereus group bacteria. Based on the spectra available, these biomarkers differentiate B. cereus group spores from those of Bacillus subtilis and Bacillus globigii. The effect of growth medium on MALDI spectra of spores was also explored.     

Characterization of Deoxyribonucleic Acids from Streptomycetes and Nocardiae

The relationships among selected streptomycetes, nocardiae, and mycobacteria have been determined, based upon the base composition of their deoxyribonucleic acid (DNA) and upon the ability of their denatured DNA to anneal with single-stranded reference DNA. The streptomycetes constituted a homogeneous group whose DNA contained between 69 and 73 mole% guanine + cytosine (% GC). Moreover, the streptomycetes examined showed 37 to 88% homology with the Streptomyces venezuelae and S. rimosus reference DNA. The nocardial and mycobacterial DNA both contained 62 to 69% GC. The nocardial strains studied fell into either a 62 to 64% GC group or a 68 to 69% GC group, indicating that they should not be assigned to a single species. The nocardiae having 68 to 69% GC showed 24 to 44% homology with S. venezuelae reference DNA. In competition experiments, wherein unlabeled heterologous DNA interfered with binding of labeled homologous DNA, the nocardial DNA with 68 to 69% GC showed a greater degree of homology with the streptomycetes than did the nocardial DNA with 62 to 64% GC. In addition, the DNA from spores of S. venezuelae was cursorily examined, and interactions between S. venezuelae denatured DNA and polyribonucleotides were sought. The buoyant density of the DNA from S. venezuelae spores was distinctly less than that from mycelia. Moreover, denatured S. venezuelae DNA formed a dense complex with polyriboguanylate.     

Significance of oxygen carriers and role of liquid paraffin in improving validamycin A production

Validamycin A (Val-A) synthesized by Streptomyces hygroscopicus 5008 is widely used as a high-efficient antibiotic to protect plants from sheath blight disease. A novel fermentation strategy was introduced to stimulate Val-A production by adding oxygen carriers. About 58 % increase in Val-A production was achieved using liquid paraffin. Further, biomass, carbon source, metabolic genes, and metabolic enzymes were studied. It was also found that the supplementation of liquid paraffin increased the medium dissolved oxygen and intracellular oxidative stress level. The expression of the global regulators afsR and soxR sensitive to ROS, ugp catalyzing synthesis of Val-A precursor, and Val-A structural genes was enhanced. The change of the activities of glucose-6-phosphate dehydrogenase and glyceraldehyde 3-phosphate dehydrogenase was observed, which reflected the redirection of carbon metabolic flux. Based on these results, liquid paraffin addition as an oxygen carrier could be a useful technique in industrial production of Val-A and our study revealed a redox-based secondary metabolic regulation in S. hygroscopicus 5008, which provided a new insight into the regulation of the biosynthesis of secondary metabolites.     

Cloning and analysis of geldanamycin partial biosynthetic gene cluster of streptomyces hygroscopicus 17997

A geldanamycin (GDM)-producing strain, Streptomyces hygroscopicus 17997, was isolated from the soil of Yunnan, China, by the researchers of the Institute of Medicinal Biotechnology, CAMS & PUMC. GDM is an ansamycin antibiotic, which has the ability to bind with Hsp90 (heat shock protein 90) and alter its function. Hsp90 plays a key role in regulating the physiology of cells exposed to environmental stress and in maintaining the malignant phenotype of tumor cells. As an inhibitor of Hsp90, GDM possesses potent antitumoral and antiviral bioactivity, but the hypatotoxicity and poor solubility in water limit its clinical use. To accomplish the structural modification of GDM by genetic means, an attempt to obtain the biosynthetic gene cluster of GDM from S. hygroscopicus 17997 was made. In this study, a pair of primers was designed according to a conserved sequence of one of the possible post-PKS (polyketides synthase) modification genes, the carbamoyltransferase (CT) gene (gdmN) in GDM biosynthesis. The 732-bp PCR product was obtained from the S. hygroscopicus 17997 genomic DNA. Through the colony-PCR Binary Search Method, using the CT gene primers, six positive cosmid clones, CT1-6, were identified from the S. hygroscopicus 17997 cosmid genomic library. The CT-4 positive cosmid was then sub-cloned and sequenced. Approximately 28.356 kb of foreign gene sequence from CT-4 cosmid and by further PCR extension reaction was obtained. According to BLAST analysis, this sequence contains 13 possible ORFs, and they are believed to be involved in GDM production. The obtained possible GDM biosynthetic gene cluster in S. hygroscopicus 17997 will facilitate the further functional analysis of the genes and the modification of the structure of GDM through combinatorial biosynthesis.     

New subtilisin-trypsin inhibitors produced by Streptomyces: primary structures and their relationship to other proteinase inhibitors from Streptomyces

Three new proteinaceous inhibitors of trypsin and subtilisin of the Streptomyces subtilisin inhibitor (SSI)-like (SIL) protein family were isolated and purified from culture media of Streptomyces strains; SIL5 from S. fradiae, SIL7 from S. ambofaciens and SIL12 from S. hygroscopicus. Their complete amino-acid sequences were determined by sequence analysis of the intact SIL proteins and peptides obtained by enzymatic digestion of S-pyridylethylated proteins. SIL7 showed high sequence analysis of the intact SIL proteins and peptides inhibitors at the P1 site. SIL12 is unique in having a two-residue insertion in the flexible loop region. Based on the amino-acid sequences of these inhibitors and other SSI-family inhibitors whose sequences have already been determined, the phylogenetic relationship of SSI-family inhibitors and Streptomyces strains was considered. Among about 110 amino-acid residues possessed by SSI-family inhibitors, 28 are completely conserved. The contribution of these conserved residues to the function and stability of the inhibitor molecules is discussed on the basis of the results obtained from mutational analysis of SSI and its crystal structure.