Highlighting the Biotechnological Potential of Deep Oceanic Crust Fungi through the Prism of Their Antimicrobial Activity

Among the different tools to address the antibiotic resistance crisis, bioprospecting in complex uncharted habitats to detect novel microorganisms putatively producing original antimicrobial compounds can definitely increase the current therapeutic arsenal of antibiotics. Fungi from numerous habitats have been widely screened for their ability to express specific biosynthetic gene clusters (BGCs) involved in the synthesis of antimicrobial compounds. Here, a collection of unique 75 deep oceanic crust fungi was screened to evaluate their biotechnological potential through the prism of their antimicrobial activity using a polyphasic approach. After a first genetic screening to detect specific BGCs, a second step consisted of an antimicrobial screening that tested the most promising isolates against 11 microbial targets. Here, 12 fungal isolates showed at least one antibacterial and/or antifungal activity (static or lytic) against human pathogens. This analysis also revealed that Staphylococcus aureus ATCC 25923 and Enterococcus faecalis CIP A 186 were the most impacted, followed by Pseudomonas aeruginosa ATCC 27853. A specific focus on three fungal isolates allowed us to detect interesting activity of crude extracts against multidrug-resistant Staphylococcus aureus. Finally, complementary mass spectrometry (MS)-based molecular networking analyses were performed to putatively assign the fungal metabolites and raise hypotheses to link them to the observed antimicrobial activities.     

Actinomycetes from Red Sea Sponges: Sources for Chemical and Phylogenetic Diversity

The diversity of actinomycetes associated with marine sponges collected off Fsar Reef (Saudi Arabia) was investigated in the present study. Forty-seven actinomycetes were cultivated and phylogenetically identified based on 16S rRNA gene sequencing and were assigned to 10 different actinomycete genera. Eight putatively novel species belonging to genera Kocuria, Mycobacterium, Nocardia, and Rhodococcus were identified based on sequence similarity values below 98.2% to other 16S rRNA gene sequences available in the NCBI database. PCR-based screening for biosynthetic genes including type I and type II polyketide synthases (PKS-I, PKS-II) as well as nonribosomal peptide synthetases (NRPS) showed that 20 actinomycete isolates encoded each at least one type of biosynthetic gene. The organic extracts of nine isolates displayed bioactivity against at least one of the test pathogens, which were Gram-positive and Gram-negative bacteria, fungi, human parasites, as well as in a West Nile Virus protease enzymatic assay. These results emphasize that marine sponges are a prolific resource for novel bioactive actinomycetes with potential for drug discovery.     

Insecticidal effects of Ungernia severtzovii bulb extracts against the grain aphid Schizaphis graminum (Rondani)

Insecticidal effect of Ungernia severtzovii bulbs extract has been investigated against the grain aphid Schizaphis graminum. LC₅₀ value of the ethanolic extract of U. severtzovii against the female aphids was 0.235% (2.35 g/l). There was 100% mortality of the subsequent nymphs of the treated females at 0.25-1.0%. The extract was equally active against the nymphs at the highest concentrations. Hexane and ethanolic extracts were the most active against the aphids of all the extracts. Fractionation of the hexane extract by TLC yielded three fractions. Fraction II was the most active (>90% mortality) against the aphids. Xanthoxylin was identified as the major constituent in fraction II of the hexane extract and may be responsible for the insecticidal effect of U. severtzovii.     

Antifungal activity of leaf extracts from South African trees against plant pathogens

The antifungal activity of acetone, methanol, hexane and dichloromethane leaf extracts of six plant species (Bucida buceras, Breonadia salicina, Harpephyllum caffrum, Olinia ventosa, Vangueria infausta and Xylotheca kraussiana) were evaluated for antifungal activity against seven plant pathogenic fungal species (Aspergillus niger, Aspergillus parasiticus, Colletotricum gloeosporioides, Penicillium janthinellum, Penicillium expansum, Trichoderma harzianum and Fusarium oxysporum). These plant species were selected from 600 evaluated inter alia, against two animal fungal pathogens. All plant extracts were active against the selected plant pathogenic fungi. Of the six plant species, B. buceras had the best antifungal activity against four of the fungi, with minimum inhibitory concentration (MIC) values as low as 0.02 mg/ml and 0.08 mg/ml against P. expansum, P. janthinellum, T. harzianum and F. oxysporum. Some of the plant extracts had moderate to low activity against other fungi, indicating that the activity is not based on a general metabolic toxicity. P. janthinellum, T. harzianum and F. oxysporum were the most sensitive fungal species, with a mean MIC of 0.28 mg/ml, while the remaining four fungi were more resistant to the extracts tested, with mean MICs above 1 mg/ml. The number of active compounds in the plant extracts was determined using bioautography with the listed plant pathogens. No active compounds were observed in some plant extracts with good antifungal activity as a mixture against the fungal plant pathogens, indicating possible synergism between the separated metabolites, B. salicina and O. ventosa were the most promising plant species, with at least three antifungal compounds. Leaf extracts of different plant species using different methods (acetone, hexane, DCM and methanol) had antifungal compounds with the same R_f values. The same compounds may be responsible for activity in extracts of different plant species. Based on the antifungal activity, crude plant extracts may be a cost effective way of protecting crops against fungal pathogens. Because plant extracts contain several antifungal compounds, the development of resistant pathogens may be delayed.     

Genetic adaptability of the inheritance of the resistance to different levels of aggressiveness of Septoria tritici isolates in durum wheat

The aim of this study was to evaluate the variation in the mode of inheritance for resistance in durum wheat to Septoria tritici with the aggressiveness level of the pathogen. Material for the study involved two wheat cross-combinations and offspring populations. In each cross, the parental genotypes, F₁, F₂, BC₁P_r and BC₁P_s were inoculated with 15 isolates of S. tritici with different levels of aggressiveness. Generation mean analysis revealed that the mode of inheritance varied with the aggressiveness level of isolates. For less aggressive isolates, in both crosses, only additive and dominance effects were determined. When tested with isolates with moderate levels of aggressiveness, the additive-dominance model was not sufficient to explain the variation in generation means; and a di-genic epistasis model was found appropriate. For a high level of aggressiveness, both additive-dominance and di-genic epistatic models failed to explain the phenotypic variation in generation means, and probably higher order interaction or genes linkage were present. The quantification of gene effects revealed that the absolute total of epistatic effects increased with aggressiveness level of the isolate. Selection based on less aggressive isolates would be simpler, because only additive and dominance effects are implicated, but the genetic mechanism will not be stable with isolates of high aggressiveness level. Thus, selection with highly aggressive isolats is suggested for the stability of resistance to S. tritici in durum wheat.     

Antioxidant Bioactivity of Extracts from Beach Cast Leaves of Posidonia oceanica (L.) Delile

The marine environment is a generous source of biologically active compounds useful for human health. In 50 years, about 25,000 bioactive marine compounds have been identified, with an increase of 5% per year. Peculiar feature of algae and plants is the production of secondary metabolites, such as polyphenols, synthesized as a form of adaptation to environmental stress. Posidonia oceanica is a Mediterranean endemic and dominant seagrass and represents a biologically, ecologically and geologically important marine ecosystem. Within this study, methanolic and ethanolic extracts were generated from fresh and dried Posidonia oceanica leaves, with the aim to employ and valorize the beach cast leaves. The best yield and antioxidant activity (polyphenols content equal to 19.712 ± 0.496 mg GAE/g and DPPH IC50 of 0.090 µg/µL.) were recorded in 70% ethanol extracts (Gd-E4) obtained from leaves dried for two days at 60 °C and ground four times. HPLC analyses revealed the presence of polyphenols compounds (the most abundant of which was chicoric acid) with antioxidant and beneficial properties. Bioactive properties of the Gd-E4 extracts were evaluated in vitro using fibroblast cells line (HS-68), subjected to UV induced oxidative stress. Pre-treatment of cells with Gd-E4 extracts led to significant protection against oxidative stress and mortality associated with UV exposure, thus highlighting the beneficial properties of antioxidants compounds produced by these marine plants against photo damage, free radicals and associated negative cellular effects. Beach cast leaves selection, processing and extraction procedures, and the in vitro assay results suggested the potentiality of a sustainable approach for the biotechnological exploitation of this resource and could serve a model for other marine resources.     

In Situ Detection of Antibiotic Amphotericin B Produced in Streptomyces nodosus Using Raman Microspectroscopy

The study of spatial distribution of secondary metabolites within microbial cells facilitates the screening of candidate strains from marine environments for functional metabolites and allows for the subsequent assessment of the production of metabolites, such as antibiotics. This paper demonstrates the first application of Raman microspectroscopy for in situ detection of the antifungal antibiotic amphotericin B (AmB) produced by actinomycetes—Streptomyces nodosus. Raman spectra measured from hyphae of S. nodosus show the specific Raman bands, caused by resonance enhancement, corresponding to the polyene chain of AmB. In addition, Raman microspectroscopy enabled us to monitor the time-dependent change of AmB production corresponding to the growth of mycelia. The Raman images of S. nodosus reveal the heterogeneous distribution of AmB within the mycelia and individual hyphae. Moreover, the molecular association state of AmB in the mycelia was directly identified by observed Raman spectral shifts. These findings suggest that Raman microspectroscopy could be used for in situ monitoring of antibiotic production directly in marine microorganisms with a method that is non-destructive and does not require labeling.     

Bioactive Polyoxygenated Steroids from the South China Sea Soft Coral,Sarcophyton sp

Seven new polyoxygenated steroids (1–7) were isolated together with seven known analogues (8–14) from the South China Sea soft coral, Sarcophyton sp. The structures of the new compounds were identified on the basis of extensive spectroscopic analysis and comparison with reported data. All the steroids are characterized with 3β,5α,6β-hydroxy moiety, displaying carbon skeletons of cholestane, ergostane, gorgostane and 23,24-dimethyl cholestane. In the in vitro bioassay, metabolites exhibited different levels of antimicrobial activity against bacterial species Escherichia coli and Bacillus megaterium, and fungal species Microbotryum violaceum and Septoria tritici. No inhibition was detected towards microalga Chlorella fusca. Preliminary structure-activity analysis suggests that the 11α-acetoxy group may increase both antibacterial and antifungal activities. The terminal-double bond and the cyclopropane moiety at the side chain may also contribute to the bioactivity.     

Antibiofilm Activity of the Brown Alga Halidrys siliquosa against Clinically Relevant Human Pathogens

The marine brown alga Halidrys siliquosa is known to produce compounds with antifouling activity against several marine bacteria. The aim of this study was to evaluate the antimicrobial and antibiofilm activity of organic extracts obtained from the marine brown alga H. siliquosa against a focused panel of clinically relevant human pathogens commonly associated with biofilm-related infections. The partially fractionated methanolic extract obtained from H. siliquosa collected along the shores of Co. Donegal; Ireland; displayed antimicrobial activity against bacteria of the genus Staphylococcus; Streptococcus; Enterococcus; Pseudomonas; Stenotrophomonas; and Chromobacterium with MIC and MBC values ranging from 0.0391 to 5 mg/mL. Biofilms of S. aureus MRSA were found to be susceptible to the algal methanolic extract with MBEC values ranging from 1.25 mg/mL to 5 mg/mL respectively. Confocal laser scanning microscopy using LIVE/DEAD staining confirmed the antimicrobial nature of the antibiofilm activity observed using the MBEC assay. A bioassay-guided fractionation method was developed yielding 10 active fractions from which to perform purification and structural elucidation of clinically-relevant antibiofilm compounds.     

Spring air temperature accounts for the bimodal temporal distribution of Septoria tritici epidemics in the winter wheat stands of Luxembourg

Septoria tritici is the causal agent of leaf blotch in wheat and among the most damaging fungal cereal pathogens in the humid regions of central Europe. The percentage of the leaf area colonized by S. tritici was recorded weekly between April and July every season between 2004 and 2010. A total of 11 cultivars with moderate susceptibility [ratings of 4–6 on a 1 (resistant) to 9 (susceptible) scale] were included. The disease level was assessed on the upper three leaf layers at 2 locations between 2004 and 2006 and at 3 locations between 2007 and 2010. The period between sowing and the point of time, when 50% of the leaf area was necrotized due to colonization by S. tritici (T₅₀) was estimated for each year, site, cultivar and leaf layer by non-linear regression. T₅₀ values followed a bimodal distribution with one maximum at 245 days after sowing (DAS; early epidemics) and one maximum at 270 DAS (late epidemics). Early epidemics were preceded by almost constant daily average temperatures of 13.2 ± 0.8 °C between 181 and 210 DAS. Late epidemics were preceded by an approximately linear increase in temperature from 8.7 ± 0.9 to 12.1 ± 0.9 °C during the same period of time. Based on these differences, it seems possible to predict whether an early or a late epidemic can be expected at least 35 days before the epidemic outbreak. Temperature sums calculated with a base temperature of 6.6 °C starting at sowing and ending when T₅₀ was reached were not significantly different between early and late epidemics (P = 0.73) and averaged 1721 ± 49°days. Fungicide applications, which resulted into a delay of the epidemic development similar to the difference between early and late epidemics, resulted in a yield increase between 11.7 and 12.6%.     

Identification of an insecticidal polyacetylene derivative from Chrysanthemum macrotum leaves

Compounds responsible for insecticidal properties of Chrysanthemum macrotum (D.R.) Ball. leaves against Spodoptera littoralis Boiduval caterpillars have been investigated. The screening of the insecticidal activity was performed by incorporating methanol, buthanol or ethyl acetate extracts, or some chromatographic fractions to the caterpillars’ artificial diet. It was noted that extracts and fractions ameliorated or disturbed nutritional indexes, being not always toxic for caterpillars. Among the tested fractions, one pure compound with a high insecticidal activity (percentage of mortality 66.7%) was purified. The nuclear magnetic resonance study allowed its identification as a polyacetylene derivative, in particular a spiroketal enol ether one.     

In Vitro Assessment of Marine Bacillus for Use as Livestock Probiotics

Six antimicrobial-producing seaweed-derived Bacillus strains were evaluated in vitro as animal probiotics, in comparison to two Bacillus from an EU-authorized animal probiotic product. Antimicrobial activity was demonstrated on solid media against porcine Salmonella and E. coli. The marine isolates were most active against the latter, had better activity than the commercial probiotics and Bacillus pumilus WIT 588 also reduced E. coli counts in broth. All of the marine Bacillus tolerated physiological concentrations of bile, with some as tolerant as one of the probiotics. Spore counts for all isolates remained almost constant during incubation in simulated gastric and ileum juices. All of the marine Bacillus grew anaerobically and the spores of all except one isolate germinated under anaerobic conditions. All were sensitive to a panel of antibiotics and none harbored Bacillus enterotoxin genes but all, except B. pumilus WIT 588, showed some degree of β-hemolysis. However, trypan blue dye exclusion and xCELLigence assays demonstrated a lack of toxicity in comparison to two pathogens; in fact, the commercial probiotics appeared more cytotoxic than the majority of the marine Bacillus. Overall, some of the marine-derived Bacillus, in particular B. pumilus WIT 588, demonstrate potential for use as livestock probiotics.     

Cytotoxicity of the ascidian Cystodytes dellechiajei against tumor cells and study of the involvement of associated microbiota in the production of cytotoxic compounds

Many cytotoxic compounds of therapeutic interest have been isolated from marine invertebrates, and some of them have been reported to be of microbial origin. Pyridoacridine alkaloids are the main compounds extracted from the ascidian Cystodytes dellechiajei. Here we describe the in vitro antiproliferative activity against different tumor cell lines of the ascidian extracts and provide some insights on the role of the microbial community associated with the tunicate in the production of these compounds. C. dellechiajei extracts showed remarkably high antiproliferative activity (IC₅₀ ≤5 μg/mL) in human lung carcinoma A-549, colon adenocarcinoma H-116, pancreatic adenocarcinoma PSN-1 and breast carcinoma SKBR3 cell lines. Moreover, we found that the maximum activity was located in the tunic tissue of the colony, which harbours a microbial community. In order to ascertain the involvement of this community in the synthesis of the bioactive compounds different approachs that included culture and culture independent methods were carried out. We undertook a screening for antiproliferative activities of the bacterial isolates from the ascidian, as well as a comprative analysis of the cytotoxic activities and the microbial communities from two color morphs of the ascidian, green and blue. In addition, the changes of the antiproliferative activities and the composition of the microbial communities were studied from ascidians kept in aquaria and treated with antibiotics for one month. Our data obtained from the different experiments did not point out to bacteria as the source of the cytotoxic compounds, suggesting thus an ascidian origin.     

Biological Activities of Aqueous and Organic Extracts from Tropical Marine Sponges

We report on screening tests of 66 extracts obtained from 35 marine sponge species from the Caribbean Sea (Curaçao) and from eight species from the Great Barrier Reef (Lizard Island). Extracts were prepared in aqueous and organic solvents and were tested for hemolytic, hemagglutinating, antibacterial and anti-acetylcholinesterase (AChE) activities, as well as their ability to inhibit or activate cell protein phosphatase 1 (PP1). The most interesting activities were obtained from extracts of Ircinia felix, Pandaros acanthifolium, Topsentia ophiraphidites, Verongula rigida and Neofibularia nolitangere. Aqueous and organic extracts of I. felix and V. rigida showed strong antibacterial activity. Topsentia aqueous and some organic extracts were strongly hemolytic, as were all organic extracts from I. felix. The strongest hemolytic activity was observed in aqueous extracts from P. acanthifolium. Organic extracts of N. nolitangere and I. felix inhibited PP1. The aqueous extract from Myrmekioderma styx possessed the strongest hemagglutinating activity, whilst AChE inhibiting activity was found only in a few sponges and was generally weak, except in the methanolic extract of T. ophiraphidites.     

Fungal disease suppression by inorganic salts: A review

This paper reviews the scientific literature on the topic of fungal disease suppression by applications of inorganic salts as alternatives to synthetic fungicides on a global scale for both protected and field crops. Where data were available, the comparative efficacy of inorganic salts with conventional fungicide products is discussed. In total, published evidence was found for 34 inorganic salts (mainly bicarbonates, phosphates, silicates, chlorides and phosphites) that were able to reduce the severity of 49 fungal diseases (of the foliage, stem, fruit, tuber, root and post-harvest) in 35 plant species (vegetables, cereals, fruit crops, root/tuber crops, ornamentals and native plants). The most studied and best controlled disease with inorganic salts was powdery mildew of cucurbits [Sphaerotheca fuliginea (Schltdl.) Pollacci 1913 or Erysiphe cichoracearum DC. 1805; up to 99% efficacy], wheat [Blumeria graminis (DC.) Speer 1975 (f. sp. tritici)] and grapes [Uncinula necator (Schwein.) Burrill 1892]. The next best evidence for disease control was for wheat septoria blotch (Septoria tritici Berk. & M.A. Curtis 1874), rice blast [Magnaporthe grisea (T.T. Hebert) M.E. Barr 1977], potato late blight [Phytophthora infestans (Mont.) de Bary 1876] and several other Phytophthora spp. The published evidence suggests that these 34 inorganic salts are generally less effective than conventional fungicides and could not fully replace them. However, their integration in a disease management strategy may enable a reduction in the number of conventional fungicide applications required. The potential for the inclusion of inorganic salts in fungal disease management programmes merits further investigation and greater regulatory innovation in the near future.     

Algal-Derived Halogenated Sesquiterpenes from Laurencia dendroidea as Lead Compounds in Schistosomiasis Environmental Control

Schistosomiasis has been controlled for more than 40 years with a single drug, praziquantel, and only one molluscicide, niclosamide, raising concern of the possibility of the emergence of resistant strains. However, the molecular targets for both agents are thus far unknown. Consequently, the search for lead compounds from natural sources has been encouraged due to their diverse structure and function. Our search for natural compounds with potential use in schistosomiasis control led to the identification of an algal species, Laurencia dendroidea, whose extracts demonstrated significant activity toward both Schistosoma mansoni parasites and their intermediate host snails Biomphalaria glabrata. In the present study, three seaweed-derived halogenated sesquiterpenes, (−)-elatol, rogiolol, and obtusol are proposed as potential lead compounds for the development of anthelminthic drugs for the treatment of and pesticides for the environmental control of schistosomiasis. The three compounds were screened for their antischistosomal and molluscicidal activities. The screening revealed that rogiolol exhibits significant activity toward the survival of adult worms, and that all three compounds showed activity against S. mansoni cercariae and B. glabrata embryos. Biomonitored fractioning of L. dendroidea extracts indicated elatol as the most active compound toward cercariae larvae and snail embryos.     

Antifungal activity of flavonoids from Heteropterys byrsonimifolia and a commercial source against Aspergillus ochraceus: In silico interactions of these compounds with a protein kinase

To contribute to the development of new methods to reduce the contamination of coffee beans with Aspergillus ochraceus and ochratoxin A, a toxin produced by this fungus, the present work initially aimed to select plant extracts active against A. ochraceus. Among the extracts from 43 plant species, the most active was the one obtained from leaves of Heteropterys byrsonimifolia. This extract was subjected to a fractionation process that resulted in the purification of four flavonoids, among which the most active against the fungus was rutin, which presented a minimal inhibitory concentration (MIC, 32.5 μg/mL) close to the value obtained for the commercial fungicide benzalkonium chloride (7.84 μg/mL). In vitro studies with the isolated flavonoids and other four from commercial sources showed that the MIC for the flavonoid chrysin is equal to that observed for rutin, and results from an in silico study suggested that these flavonoids act against A. ochraceus by binding to a protein kinase produced by this fungus. Consequently, this enzyme and the studied flavonoids are potentially useful for the development of new products to control A. ochraceus in coffee beans.     

Complete Genome Sequence of Two Deep-Sea Streptomyces Isolates from Madeira Archipelago and Evaluation of Their Biosynthetic Potential

The deep-sea constitutes a true unexplored frontier and a potential source of innovative drug scaffolds. Here, we present the genome sequence of two novel marine actinobacterial strains, MA3_2.13 and S07_1.15, isolated from deep-sea samples (sediments and sponge) and collected at Madeira archipelago (NE Atlantic Ocean; Portugal). The de novo assembly of both genomes was achieved using a hybrid strategy that combines short-reads (Illumina) and long-reads (PacBio) sequencing data. Phylogenetic analyses showed that strain MA3_2.13 is a new species of the Streptomyces genus, whereas strain S07_1.15 is closely related to the type strain of Streptomyces xinghaiensis. In silico analysis revealed that the total length of predicted biosynthetic gene clusters (BGCs) accounted for a high percentage of the MA3_2.13 genome, with several potential new metabolites identified. Strain S07_1.15 had, with a few exceptions, a predicted metabolic profile similar to S. xinghaiensis. In this work, we implemented a straightforward approach for generating high-quality genomes of new bacterial isolates and analyse in silico their potential to produce novel NPs. The inclusion of these in silico dereplication steps allows to minimize the rediscovery rates of traditional natural products screening methodologies and expedite the drug discovery process.