A microbiotic survey of lichen-associated bacteria reveals a new lineage from the Rhizobiales

This study uses a set of PCR-based methods to examine the putative microbiota associated with lichen thalli. In initial experiments, generalized oligonucleotide-primers for the 16S rRNA gene resulted in amplicon pools populated almost exclusively with fragments derived from lichen photobionts (i.e., Cyanobacteria or chloroplasts of algae). This effectively masked the presence of other lichen-associated prokaryotes. In order to facilitate the study of the lichen microbiota, 16S ribosomal oligonucleotide-primers were developed to target Bacteria, but exclude sequences derived from chloroplasts and Cyanobacteria. A preliminary microbiotic survey of lichen thalli using these new primers has revealed the identity of several bacterial associates, including representatives of the extremophilic Acidobacteria, bacteria in the families Acetobacteraceae and Brucellaceae, strains belonging to the genus Methylobacterium, and members of an undescribed lineage in the Rhizobiales. This new lineage was investigated and characterized through molecular cloning, and was found to be present in all examined lichens that are associated with green algae. There is evidence to suggest that members of this lineage may both account for a large proportion of the lichen-associated bacterial community and assist in providing the lichen thallus with crucial nutrients such as fixed nitrogen.     

Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics

Symbioses represent a frequent and successful lifestyle on earth and lichens are one of their classic examples. Recently, bacterial communities were identified as stable, specific and structurally integrated partners of the lichen symbiosis, but their role has remained largely elusive in comparison to the well-known functions of the fungal and algal partners. We have explored the metabolic potentials of the microbiome using the lung lichen Lobaria pulmonaria as the model. Metagenomic and proteomic data were comparatively assessed and visualized by Voronoi treemaps. The study was complemented with molecular, microscopic and physiological assays. We have found that more than 800 bacterial species have the ability to contribute multiple aspects to the symbiotic system, including essential functions such as (i) nutrient supply, especially nitrogen, phosphorous and sulfur, (ii) resistance against biotic stress factors (that is, pathogen defense), (iii) resistance against abiotic factors, (iv) support of photosynthesis by provision of vitamin B₁₂, (v) fungal and algal growth support by provision of hormones, (vi) detoxification of metabolites, and (vii) degradation of older parts of the lichen thallus. Our findings showed the potential of lichen-associated bacteria to interact with the fungal as well as algal partner to support health, growth and fitness of their hosts. We developed a model of the symbiosis depicting the functional multi-player network of the participants, and argue that the strategy of functional diversification in lichens supports the longevity and persistence of lichens under extreme and changing ecological conditions.     

Free radical scavenging and antioxidant potential of mangrove plants: a review

Free radicals derived from reactive oxygen species and reactive nitrogen species are generated in our body by normal cellular metabolism which is enhanced under stress conditions. The most vulnerable biological targets of free radicals are cell structures including proteins, lipids and nucleic acids. Since antioxidants synthesized in the body are not sufficient under oxidative stress, their exogenous supply is important to prevent the body from free radical-induced injury. Recent researches have shown that antioxidants of plant origin with free radical scavenging property could have great importance as therapeutic agents in management of oxidative stress. Mangrove plants growing in inhospitable environment of the intertidal regions of land and sea in tropics and sub-tropics are equipped with very efficient free radical scavenging system to withstand the variety of stress conditions. These mangrove plants possess variety of phytochemical and are rich in phenolic compounds such as flavonoids, isoflavones, flavones, anthocyanins, coumarins, lignans, catechins, isocatechins, etc., which served as source of antioxidants. Isolation and identification of these antioxidant compounds offer great potential for their pharmaceutical exploitations. However, no comprehensive literature is available on antioxidants’ studies in mangrove plants in particular. Hence, the present review discusses the antioxidant potential of mangrove plants with its specific role under salt stress as well as the progress made so far in evaluation of antioxidant activities of different mangrove species.     

Antimutagenic properties of bacteria: a review

Lactic acid and propionic acid bacteria, bifidobacteria, and fecal enterococci associated with the activity of humans and animals caused antimutagenic effects (AME) on many test systems designed for detecting point mutations and chromosomal aberrations. Bacterial cells and some of their metabolites attenuate the mutagenic action of several genotoxic agents, and this effect is mediated by the mechanism of dysmutagenesis and/or bioantimutagenesis. Possible mechanisms of various AMEs and possible practical applications of antimutagenic properties of bacteria are discussed.     

Viability and activity in readily culturable bacteria: a review and discussion of the practical issues

In microbiology the terms viability and culturability are often equated. However, in recent years the apparently self-contradictory expression viable-but-nonculturable (VBNC) has been applied to cells with various and often poorly defined physiological attributes but which, nonetheless, could not be cultured by methods normally appropriate to the organism concerned. These attributes include apparent cell integrity, the possession of some form of measurable cellular activity and the apparent capacity to regain culturability. We review the evidence relating to putative VBNC cells and stress our view that most of the reports claiming a return to culturability have failed to exclude the regrowth of a limited number of cells which had never lost culturability. We argue that failure to differentiate clearly between use of the terms viability and culturability in an operational versus a conceptual sense is fuelling the current debate, and conclude with a number of proposals that are designed to help clarify the major issues involved. In particular, we suggest an alternative operational terminology that replaces VBNC with expressions that are internally consistent.     

Cultivable bacteria isolated from apple trees cultivated under different crop systems: Diversity and antagonistic activity against Colletotrichum gloeosporioides

This study evaluated the diversity of cultivable plant growth-promoting (PGP) bacteria associated with apple trees cultivated under different crop management systems and their antagonistic ability against Colletotrichum gloeosporioides. Samples of roots and rhizospheric soil from apple trees cultivated in organic and conventional orchards in southern Brazil were collected, together with soil samples from an area never used for agriculture (native field). Bacteria were identified at the genus level by PCR-RFLP and partial sequencing of the 16S rRNA, and were evaluated for some PGP abilities. The most abundant bacterial genera identified were Enterobacter (27.7%), Pseudomonas (18.7%), Burkholderia (13.7%), and Rahnella (12.3%). Sixty-nine isolates presented some antagonist activity against C. gloeosporioides. In a greenhouse experiment, five days after exposure to C. gloeosporioides, an average of 30% of the leaf area of plants inoculated with isolate 89 (identified as Burkholderia sp.) were infected, whereas 60 to 73% of the leaf area of untreated plants was affected by fungal attack. Our results allowed us to infer how anthropogenic activity is affecting the bacterial communities in soil associated with apple tree crop systems, and to obtain an isolate that was able to delay the emergence of an important disease for this culture.     

白色念珠菌拮抗菌株的筛选

目的筛选对白色念珠菌具有明显拮抗作用的菌株.方法通过纸片琼脂扩散法(K-B法)观察各菌株对白色念珠菌的拮抗作用;再利用试管法观察有拮抗作用菌株对白色念珠菌的抑菌效果.结果 K-B法表明大肠埃希菌、甲型链球菌和卡他球菌对白色念珠菌无抑菌作用,表皮葡萄球菌、微球菌有抑菌作用,但抑菌环小;枯草杆菌有明显抑菌作用.试管法表明表皮葡萄球菌和枯草杆菌对白色念珠菌均有生物拮抗作用,其抑菌率分别为97%和89.7%.结论枯草杆菌是白色念珠菌的理想拮抗菌株.     

Influence of soil factors and cultural practice on biological control of sheath blight of rice with antagonistic bacteria

Fluorescent and nonfluorescent strains of bacteria isolated from rice rhizospheres on the International Rice Research Institute (IRRI) farm were evaluated for in vitro antibiosis towards the sheath blight (ShB) pathogen Rhizoctonia solani, and for suppression of ShB in detached rice leaves. Efficient strains were located on the basis of consistent performance in two laboratory tests. Among nine efficient strains, 3 strains were identified as Pseudomonas fluorescens, 5 strains were tentatively identified as Bacillus spp. and one strain was identified as Enterobacter. In three greenhouse tests lowland rice soils with optimum pH for rice growth (pH 5.5–6.5), acidic pH (pH 5.0) and boron toxicity were found more suitable for biological control of ShB and, less frequently, also yield increases than were alkaline (pH 6.9) and zinc-deficient soils. Bacterial treatments afforded significant ShB reductions in 3 field experiments, but no significant yield increases resulted. In direct-seeded rice best performances by bacterial treatments in terms of ShB suppression were 66 and 98% during DS 1988 and WS 1988, respectively, which were comparable to or better than the performance of validamycin (a fungicide routinely used for ShB control) which afforded 42 and 63% disease suppression, respectively, in the same experiments. Although bacterial treatments caused ShB reductions both in direct-seeded and transplanted rice crops, disease control was more pronounced in direct-seeded than in transplanted crops. These results indicate that carefully selected strains of bacterial antagonists have the potential for ShB suppression in rice at least in areas where direct-seeding is practised.     

Enhancement of algicidal activity by immobilization of algicidal bacteria antagonistic to Stephanodiscus hantzschii (Bacillariophyceae)

AIMS: Enhancement of algicidal activity by immobilization of algicidal bacteria antagonistic to Stephanodiscus hantzschii. METHODS AND RESULTS: In laboratory studies, A diatom-lysing bacterium, Pseudomonas fluorescens HYK0210-SK09 showed strong algicidal activity against S. hantzschii, but a natural mesocosm study revealed that this bacterium failed to fully control natural blooms of Stephanodiscus at the low water temperatures that favour these blooms. Here, we sought to develop an effective immobilization strategy for enhancing the algicidal activity of HYK0210-SK09 in the natural setting. Bacterium HYK0210-SK09 was immobilized with various carriers including agar, alginate, polyurethane and cellulose sponge. The bacterial cells immobilized with cellulose sponge (CIS) induced more rapid and complete lysis of S. hantzschii than other carriers, and had a higher packing ability than polyurethane. Furthermore, CIS-immobilized cells showed higher lysis of S. hantzschii at the same concentrations as that of free cells (< or =1 x 10(7) cells ml(-1)), and had especially strong algicidal activity at the low temperatures (<10 degrees C). Based on these laboratory studies, we assessed the possible application of HYK0210-SK09 cells in the field by performing a mesocosm study during the winter season. The CIS-immobilized cells with species-specific activity towards the genera Stephanodiscus showed extremely high algicidal activity (up to 95%) against a bloom of Stephanodiscus hantzschii even at low water temperatures, because of high cell packing and subsequent cell protection against low temperatures and predators, whereas free cells showed negligible algicidal activities under these conditions. CONCLUSION: Immobilizing cells of HYK0210-SK09 in CIS foam, rather than in the other matrices tested, could achieve more efficient control of Stephanodiscus blooms and showed a significant algicidal activity on in vitro and in vivo blooms, even at low water temperature. SIGNIFICANCE AND IMPACT OF THE STUDY: Collectively, these results indicate that CIS of algicidal bacteria may form an important strategy for effective management of Stephanodiscus blooms at low water temperatures.     

Environmental factors associated with proteolytic activity of estuarine bacteria

The effects of various parameters on the extracellular hydrolysis of protein by salt marsh bacteria were examined using an agar plate assay technique. Maximum activity was observed at pH 8 and 18 C. Elimination of salts and nutrients from the growth media had little effect on activity; while, incubation in a reduced oxygen atmosphere markedly restricted proteolysis by laboratory stocks and random isolates. The availability of oxygen appeared to be one of the important factors controlling extracellular protease production by salt marsh bacteria.     

Mechanism of antagonistic activity of lactobacilli

Different species of lactobacilli, when grown together with salmonellae and shigellae, have been found to inhibit their growth and proliferation. The supernatants of the culture fluids of 8 species of lactobacilli have been shown to contain natural metabolites, other than lactic acid, with a wide spectrum of antibacterial activity with regard to different opportunistic aerobic and anaerobic microorganisms. The relationship between the antagonistic activity and the presence of plasmid DNA in a number of the most active antagonistic lactobacilli is discussed.     

Structure-radical scavenging activity relationships of flavonoids

The objective of this work is to establish the structural requirements of flavonoids for appreciable radical-scavenging activity (RSA) and elucidate a comprehensive mechanism that can explain their activity. To this end, the RSA of 52 flavonoids against 2,2-diphenyl-1-picrylhydrazyl was determined. The relative change in energy (DeltaH(f)) associated with the formation of various flavonoidal and other phenolic radicals and also the spin distribution in these radicals were determined using computational programmes. By correlating experimental data with DeltaH(f), structural features that affect activity have been identified and considered in perspective. It was shown with compelling evidences that the RSA of flavonoids could be mapped to one of their ring systems, making it possible to study their RSA by dissecting their structures and designing representative simpler models. Consequently, hydroxytoluene units were demonstrated to successfully account for the RSA of flavonoids due to ring B and also to satisfactorily do so for activities due to ring A. Further, a comprehensive model for the radical scavenging reactions of flavonoids (and in general, phenolic compounds), which could account for hydrogen atom donation and the termination of aroxyl radicals, was proposed. Finally, prediction of structural features that could endow flavonoids with appreciable radical scavenging capability was made by considering the stability data and the ease of termination. In conclusion, the underlying molecular phenomena of the RSA of flavonoids could be explained by the ease of hydrogen atom abstraction and the ease of the termination of the flavonoidal aroxyl radicals.     

Epiphytic bacteria antagonistic to Curvularia leaf spot of yam

Curvularia eragrostidis yam leaf spot is a serious concern among the northeast Brazilian yam growing areas. In order to study its biocontrol, bacterial isolates from the yam phylloplane were tested against the pathogen. They were evaluated with respect to the following parameters: (1) inhibition of C. eragrostidis mycelial growth by using paired culture and cellophane membrane methods, (2) inhibition of conidium germination by using a paired suspension test, (3) reduction of disease severity and, (4) persistence of antagonistic action, on plants under greenhouse conditions. From a total of 162 bacterial isolates, 39 showed antagonism to the pathogen in paired culture. The bacteria produced extracellular, nonvolatile, and diffusible metabolites in the membrane cellophane test. Seventeen isolates resulted in more than 75% inhibition of C. eragrostidis mycelial growth. Among them, IF-26 showed the greatest antagonism. The isolates IF-82, IF-88, and IF-109 inhibited pathogen conidial germination, with average inhibition levels of 99.2, 98.2 and 96.2%, respectively. Under greenhouse conditions the antagonists were applied at three different time intervals relative to C. eragrostidis inoculation: 3 days before, at the same time, and 3 days after. IF-82 and IF-88 applied at the same time as pathogen inoculation both reduced disease severity 75%. IF-82 showed the best persistence of antagonistic action, with an average of 96.3%. IF-82, identified as Bacillus subtilis, was the best biocontrol agent for the yam leaf spot disease in this study.Correspondence to: Sami J. Michereff     

Superoxide scavenging activity of pirfenidone-iron complex

Pirfenidone (PFD) is focused on a new anti-fibrotic drug, which can minimize lung fibrosis etc. We evaluated the superoxide () scavenging activities of PFD and the PFD-iron complex by electron spin resonance (ESR) spectroscopy, luminol-dependent chemiluminescence assay, and cytochrome c reduction assay. Firstly, we confirmed that the PFD-iron complex was formed by mixing iron chloride with threefold molar PFD, and the complex was stable in distillated water and ethanol. Secondary, the PFD-iron complex reduced the amount of produced by xanthine oxidase/hypoxanthine without inhibiting the enzyme activity. Thirdly, it also reduced the amount of released from phorbor ester-stimulated human neutrophils. PFD alone showed few such effects. These results suggest the possibility that the scavenging effect of the PFD-iron complex contributes to the anti-fibrotic action of PFD used for treating idiopathic pulmonary fibrosis.     

Free radical scavenging activity of propolis

We investigated the radical scavenging activity of propolis by ESR spectroscopy using spin trapping method. In addition, we examined the influence of a diet of 2% propolis on mice under oxidative stress. At low concentrations, the methanolic extract of propolis exhibited strong scavenging activity in vitro towards both the superoxide anion radical, generated by the hypoxanthine-xanthine oxidase reaction, and the NO radical, generated from the mixture of NOC-7 (NO generator) and carboxy-PTIO (spin trapping agent). An inhibitory effect of propolis on lipid peroxidation in vivo was observed, as determined by measurement of thiobarbituric acid-reactive substances in mouse liver homogenate. The level of vitamin C in the brain of mice under oxidative stress significantly increased compared with control mice under atmosphere, which was not observed in the mice given 2% propolis. The level of alpha-tocopherol in the brain of mice given 2% propolis significantly increased compared with control mice under atmosphere, which was not observed in mice under oxidative stress. SOD activity in the brain and plasma of mice given 2% propolis significantly decreased under atmosphere and oxidative stress compared with control mice. These results suggest that propolis possesses potent antioxidant activity in vitro and in vivo.     

仙客来软腐病拮抗细菌鉴定及其生物防治效果

目的为筛选出仙客来软腐病拮抗细菌及评价其生防效果。方法通过分离和筛选,从温州泽雅高山基地采集健康的仙客来植株分离到13株内生细菌对仙客来软腐病病原菌有较强的抑制作用,其中菌株Y1活性最强且遗传稳定。通过形态特征、生理生化特性分析、16SrDNA序列测定及其系统发育分析研究。结果菌株Y1鉴定为芽胞杆菌,将菌株Y1以发酵液灌根方式回接正常仙客来植株,菌株Y1的发酵液处理仙客来软腐病的防效均大于60％以上。结论菌株Y1具有生防的特点,在花卉产业上具有应用潜力。     

Female choice of sexually antagonistic male adaptations: a critical review of some current research

We contrast some recent uses of the concept of male-female conflict, with the type of conflict that is inherent in traditional Darwinian female choice. Females in apparent conflict situations with males may suffer reduced lifetime reproduction, but nevertheless benefit because they obtain sons with superior manipulative abilities. Female defences against male manipulations may not be 'imperfect' because of inability to keep pace with male evolution, but in order to screen males and favour those that are especially good manipulators. We examine the consequences of these ideas, and of the difficulties of obtaining biologically realistic measures of female costs, for some recent theoretical and empirical presentations of male-female conflict ideas, and find that male-female conflict in the new sense is less certain than has been commonly supposed. Disentangling previous sexual selection ideas and the new conflict of interest models will probably often be difficult, because the two types of payoffs are not mutually exclusive.     

Systems biology of lactic acid bacteria: a critical review

Understanding the properties of a system as emerging from the interaction of well described parts is the most important goal of Systems Biology. Although in the practice of Lactic Acid Bacteria (LAB) physiology we most often think of the parts as the proteins and metabolites, a wider interpretation of what a part is can be useful. For example, different strains or species can be the parts of a community, or we could study only the chemical reactions as the parts of metabolism (and forgetting about the enzymes that catalyze them), as is done in flux balance analysis. As long as we have some understanding of the properties of these parts, we can investigate whether their interaction leads to novel or unanticipated behaviour of the system that they constitute. There has been a tendency in the Systems Biology community to think that the collection and integration of data should continue ad infinitum, or that we will otherwise not be able to understand the systems that we study in their details. However, it may sometimes be useful to take a step back and consider whether the knowledge that we already have may not explain the system behaviour that we find so intriguing. Reasoning about systems can be difficult, and may require the application of mathematical techniques. The reward is sometimes the realization of unexpected conclusions, or in the worst case, that we still do not know enough details of the parts, or of the interactions between them. We will discuss a number of cases, with a focus on LAB-related work, where a typical systems approach has brought new knowledge or perspective, often counterintuitive, and clashing with conclusions from simpler approaches. Also novel types of testable hypotheses may be generated by the systems approach, which we will illustrate. Finally we will give an outlook on the fields of research where the systems approach may point the way for the near future.     

Synthesis and thromboxane A2 antagonistic activity activity of indane derivatives

A new series of indane derivatives were prepared and evaluated for their thromboxane A2 (TXA2, 1) antagonistic activity. Among these compounds, 24a (Z-335) was found to be a potent TXA2 antagonist in oral administration.