Different plasmids of Rhizobium leguminosarum bv. phaseoli are required for optimal symbiotic performance.

Rhizobium leguminosarum bv. phaseoli CFN42 contains six plasmids (pa to pf), and pd has been shown to be the symbiotic plasmid. To determine the participation of the other plasmids in cellular functions, we used a positive selection scheme to isolate derivatives cured of each plasmid. These were obtained for all except one (pe), of which only deleted derivatives were recovered. In regard to symbiosis, we found that in addition to pd, pb is also indispensable for nodulation, partly owing to the presence of genes involved in lipopolysaccharide synthesis. The positive contribution of pb, pc, pe, and pf to the symbiotic capacity of the strain was revealed in competition experiments. The strains that were cured (or deleted for pe) were significantly less competitive than the wild type. Analysis of the growth capacity of the cured strains showed the participation of the plasmids in free-living conditions: the pf- strain was unable to grow on minimal medium, while strains cured of any other plasmid had significantly reduced growth capacity in this medium. Even on rich medium, strains lacking pb or pc or deleted for pe had a diminished growth rate compared with the wild type. Complementation of the cured strains with the corresponding wild-type plasmid restored their original phenotypes, thus confirming that the effects seen were due only to loss of plasmids. The results indicate global participation of the Rhizobium genome in symbiotic and free-living functions.     

Alternative mechanism for the evaluation of indole-3-acetic acid (IAA) production by Azospirillum brasilense strains and its effects on the germination and growth of maize seedlings

We evaluated the production of indole-3-acetic acid (IAA) by Azospirillum brasilense strains in vitro (cell culture supernatants) and in vivo (stems and roots of maize seedlings) to clarify the role of this phytohormone as a signaling and effector molecule in the symbiotic interaction between maize and A. brasilense. The three strains all showed IAA production when cultured in NFb medium supplemented with 100 μg/ml L-tryptophan. The level of IAA production was 41.5 μg/ml for Yu62, 12.9 μg/ml for Az39, and 0.15 μg/ml for ipdC-. The release of IAA into culture medium by the bacteria appeared to be the main activator of the early growth promotion observed in the inoculated maize seedlings. The application of supernatants with different IAA contents caused significant differences in the seedling growth. This observation provides the basis for novel technological tools for effective quality control procedures on inoculants. The approach described can be incorporated into different inoculation methods, including line sowing, downspout, and foliar techniques, and increase the sustainability of symbiotic plant-bacteria systems.     

Symbiotic effectiveness of bacteriocin producing and non-producing strains of Rhizobium in green gram (Vigna radiata)

Rhizobium strains nodulating green gram [Vigna radiata (L.) Wilczek] were found to produce bacteriocin on modified Bergersen's medium and inhibited the growth of homologous Rhizobium strains. Four bacteriocin producing and four bacteriocin non-producing strains were compared for their effect on nodulation, in planta nitrogenase activity and plant dry weight of green gram. The bacteriocin producers formed more nodules in comparison to non-bacteriocin producers. However, the symbiotic effectiveness of bacteriocin producers was less in terms of plant dry weight in comparison to non-bacteriocin producers.     

Isolation and characterization of the symbiotic phenotype of antibiotic-resistant mutantsof Frankia from Rhamnaceae

Induced rifampicin-resistant mutants of Frankia were isolated by treatment of spores from strain ChI1 with 2 mg/ml of nitrosoguanidine. The mutagenic treatment was followed by growth for 72 h on non-selective medium to allow the expression of the mutation, before plating on selective medium. Spontaneous rifampicin-resistant mutants were isolated from strain ReI4 and chloramphenicol-resistant mutants were derived from strains ReI6 and TtI42. The mutants grew in medium containing up to 20 μg/ml of antibiotics. They showed similar morphology and growth pattern compared with their parent strains. However, they exhibited differences in symbiotic properties, such as infectivity and nitrogenase activity, from their parent strains.     

Isolation and characterization of the symbiotic phenotype of antibiotic-resistant mutantsof Frankia from Rhamnaceae

Induced rifampicin-resistant mutants of Frankia were isolated by treatment of spores from strain ChI1 with 2 mg/ml of nitrosoguanidine. The mutagenic treatment was followed by growth for 72 h on non-selective medium to allow the expression of the mutation, before plating on selective medium. Spontaneous rifampicin-resistant mutants were isolated from strain ReI4 and chloramphenicol-resistant mutants were derived from strains ReI6 and TtI42. The mutants grew in medium containing up to 20 g/ml of antibiotics. They showed similar morphology and growth pattern compared with their parent strains. However, they exhibited differences in symbiotic properties, such as infectivity and nitrogenase activity, from their parent strains.     

Survival and symbiotic characteristics of rhizobium in saline-alkali soils

Summary Survival, growth and symbiotic performance of rhizobia isolated from normal, saline-sodic and mildly acidic soils were studied in original and amended saline-alkali soils. Rhizobia of 4 out of 9 legumes studied for nodulation were found to be present in a highly saline-sodic soil. Majority of the strains of these bacteria did not survive in the original saline-sodic soil of pH 10.5 but as the pH was amended to lower than 10.0, all the strains survived in the soil. Virtually no differences were noticed in the survival and symbiotic characteristics of native and exotic strains ofRhizobium leguminosarum andRhizobium trifolii in the saline-sodic soil, though wide variations were observed among individual strains irrespective of their ecological origin. Rhizobia were found to possess greater tolerance for alkalinity than their host legumes. However, delayed nodulation in lentil (Lens esculenta) and berseem (Trifolium alexandrinum) resulting in decreased yield of the plants at pH values higher than 9.0 was observed.     

Pyrolysis mass spectrometry analysis of free-living and symbiotic cyanobacteria

The potential of pyrolysis mass spectrometry to distinguish closely related cyanobacterial strains was assessed by using the technique to compare symbiotic cyanobacteria isolated from the hornwort Phaeoceros laevis and free-living cyanobacterial strains at the same field site. The same strains had previously been compared using polymerase chain reaction-based DNA fingerprinting techniques (West & Adams 1997, Appl. Environ. Microbiol. 63: 4479–4484). Many of the strains were grouped identically by the two techniques, although there were some differences, possibly resulting from the ability of these cyanobacteria to develop a range of specialised cell types having different chemical compositions to the vegetative cells. Although growth conditions were chosen to suppress cellular differentiation, this may not always have been completely successful. With careful control of growth conditions pyrolysis mass spectrometry has considerable potential as an additional tool for the phenetic comparison of cyanobacterial strains. It has the advantage that analysis is directly derived from whole cells, and hence is simpler and cheaper than DNA-based methods, although it does require the growth of axenic strains. The technique may be particularly useful in the study of some of the more cryptic unicellular and non-heterocystous filamentous cyanobacterial groups, in which the lack of cellular differentiation should minimise any variability in the chemical composition of cells.     

Purification and culture characteristics of 36 benthic marine diatoms isolated from the Solthörn tidal flat (Southern North Sea)

Marine benthic diatoms growing in biofilms on sediment surfaces generally occur associated with heterotrophic bacteria, whereas modern molecular techniques and analyses of species‐specific physiology create a demand for axenic cultures. Numerous benthic diatoms were isolated from surface sediments during a monitoring of the Solthörn tidal flat (southern North Sea, Germany) from May 2008 to May 2009. Of these, around 50% could be purified from the accompanying heterotrophic bacteria using different antibiotics combined with physical separation methods (vortexing, ultrasound). Overall, seven different antibiotics were tested at different concentrations, and a best working protocol was developed. The axenic strains were stable on average for only around 15 months, indicating a symbiotic interaction between the benthic diatoms and the associated bacteria. While most short‐term effects during the purification process were restricted to differences in growth rates among xenic and axenic diatom strains, long‐term cultivation led to distinct changes in cell volumes and growth characteristics of the axenic strains.     

On the characteristics and taxonomic position of symbiotic Chlorella

Three strains of symbiotic Chlorella (NC64A, CE/76, UTEX-130) could be assigned to C. vulgaris by physiological and DNA-hybridization studies and a fourth symbiotic strain, 3N8/13-1, exhibited characteristics intermediate between C. vulgaris and C. sorokiniana. None of the strains contained detectable sporopollenin or was nutritionally fastidious but the capacity for sugar release (usually maltose) may be a characteristic of all symbiotic Chlorella.     

Symbiotic effectiveness and plant growh promoting traits in some Rhizobium strains isolated from Phaseolus vulgaris L.

The ability of Rhizobia to colonize roots of certain legumes and promote their growth has been proven previously. In this study the symbiotic efficiency of 47 Rhizobium strains with 6 common bean cultivars was evaluated under greenhouse condition. Fourteen strains showed the best symbiotic efficiency, whereas some isolates could not induce nodules on host plants. The ability of fourteen superior strains to solubilize phosphorus and zinc and to produce auxin, HCN and siderohores was evaluated in the laboratory assays. Rhizobium strain Rb102 produced the highest amount of auxin (14.2?mg?l^?1) in the medium containing l-tryptophan. None of the isolates were able to solubilize ZnO and ZnCO₃ on solid medium but in liquid medium some of them had negligible solubilization. The highest P solubility in liquid and solid medium was observed in strains Rb113 and Rb130, respectively. Strain Rb102 produced the highest amount of siderophores. None of the isolates were able to produce HCN. This study showed that there was a great diversity between the strains of Rhizobium in terms of their plant growth promoting traits symbiotic efficiency which supports the importance of screening rhizobia for selecting the most efficient strains. The genetic diversity of the isolates was analyzed by PCR–RFLP of the 16S rDNA. Our rhizobia were clustered into 10 groups showing high levels of diversity.     

Phosphorus removal coupled to bioenergy production by three cyanobacterial isolates in a biofilm dynamic growth system

In the present study a closed incubator, designed for biofilm growth on artificial substrata, was used to grow three isolates of biofilm-forming heterocytous cyanobacteria using an artificial wastewater secondary effluent as the culture medium. We evaluated biofilm efficiency in removing phosphorus, by simulating biofilm-based tertiary wastewater treatment and coupled this process with biodiesel production from the developed biomass. The three strains were able to grow in the synthetic medium and remove phosphorus in percentages, between 6 and 43%, which varied between strains and also among each strain according to the biofilm growth phase. Calothrix sp. biofilm turned out to be a good candidate for tertiary treatment, showing phosphorus reducing capacity (during the exponential biofilm growth) at the regulatory level for the treated effluent water being discharged into natural water systems.

Besides phosphorus removal, the three cyanobacterial biofilms produced high quality lipids, whose profile showed promising chemical stability and combustion behavior. Further integration of the proposed processes could include the integration of oil extracted from these cyanobacterial biofilms with microalgal oil known for high monounsaturated fatty acids content, in order to enhance biodiesel cold flow characteristics.     

Low oxygen is optimal for luciferase synthesis in some bacteria

The synthesis of the bioluminescent systems in many strains of two species of the genus Photobacterium which were isolated as symbionts is greater at low oxygen concentrations, where aerobic growth is blocked. In strains of two other species, one Photobacterium of symbiotic orgin, and one (genus Beneckea) whose luminous members are not known to be involved in symbiotic associations, a different response is observed. At low oxygen concentrations, where there is an inhibition of growth, there is also a similar decrease in the synthesis, of the luminescent system. These species-specific differences may indicate important ecological differences along with distinctive differences in the molecular control mechanisms involved in the synthesis of luciferase.     

Identification and functional characterization of a Xenorhabdus nematophila oligopeptide permease

The bacterium Xenorhabdus nematophila is a mutualist of Steinernema carpocapsae nematodes and a pathogen of insects. Presently, it is not known what nutrients the bacterium uses to thrive in these host environments. In other symbiotic bacteria, oligopeptide permeases have been shown to be important in host interactions, and we therefore sought to determine if oligopeptide uptake is essential for growth or symbiotic functions of X. nematophila in laboratory or host environments. We identified an X. nematophila oligopeptide permease (opp) operon of two sequential oppA genes, predicted to encode oligopeptide-binding proteins, and putative permease-encoding genes oppB, oppC, oppD, and oppF. Peptide-feeding studies indicated that this opp operon encodes a functional oligopeptide permease. We constructed strains with mutations in oppA(1), oppA(2), or oppB and examined the ability of each mutant strain to grow in a peptide-rich laboratory medium and to interact with the two hosts. We found that the opp mutant strains had altered growth phenotypes in the laboratory medium and in hemolymph isolated from larval insects. However, the opp mutant strains were capable of initiating and maintaining both mutualistic and pathogenic host interactions. These data demonstrate that the opp genes allow X. nematophila to utilize peptides as a nutrient source but that this function is not essential for the existence of X. nematophila in either of its host niches. To our knowledge, this study represents the first experimental analysis of the role of oligopeptide transport in mediating a mutualistic invertebrate-bacterium interaction.     

Improvement in symbiotic efficiency of chickpea (Cicer arietinum) by coinoculation of Bacillus strains with Mesorhizobium sp. Cicer

Rhizobacteria belonging to Bacillus sp. were isolated from the rhizosphere of chickpea (Cicer arietinum). Ten Bacillus strains were studied for their antifungal activity, effect on seedling emergence and plant growth promotion. Two Bacillus strains CBS127 and CBS155 inhibited the growth of all the four pathogenic fungi tested on nutrient agar medium plates in vitro. Seed inoculation with different Bacillus strains showed stimulatory effect on root and shoot growth at 10 d of observation in comparison to control whereas four Bacillus strains CBS24, CBS127, CBS129 and CBS155 caused retardation of shoot growth at 10 d. Maximum nodule-promoting effect was observed with Bacillus strains CBS106, CBS127 and CBS155. The symbiotic effectiveness of Mesorhizobium sp. Cicer strain Ca181 was further improved on coinoculation with six Bacillus strains i.e. CBS9, CBS17, CBS20, CBS106, CBS127 and CBS155 at 80 d of plant growth under sterile conditions and shoot dry weight ratios increased 1.62 to 1.74 times those of Mesorhizobium-inoculated treatments, suggesting the usefulness of introduced rhizobacteria in improving crop productivity.     

The Effect of Ultra Violet Light on the Symbiotic Effectiveness and Some Physiological Characteristics of Four Strains of Rhiozobium trifoli

S ummary . UV light was used to induce mutations in 4 strains of Rhizobium trifolii. Mutations were found with modified acid production, generation time, polysaccharide production and symbiotic effectiveness on S184 white clover. Of 72 mutants examined, one was more effective than the parent, 9 had either similar or reduced effectiveness compared with their parental strains and the remainder were non-infective. A significant correlation ( P <0·05) was found between the effectiveness of the strains and their acid production on an agar medium but no such relationship was found in liquid medium. No other relationships were found between any of the physiological or symbiotic characteristics examined.     

Ecophysiological differences between saprotrophic and clinical strains of the microscopic fungus Aspergillus sydowii (Bainier & Sartory) Thom & Church

A number of ecophysiological differences were shown for saprotrophic and clinical strains of the potentially pathogenic microscopic fungus Aspergillus sydowii. The colony growth rates were determined for four saprotrophic and five clinical fungus strains on Czapek medium within the ranges of temperature (5, 10, 15, 20, 30, 35, 37, 40, 42°C) and humidity (0.8, 0.85, 0.9, 0.95, 099 a_w), as well as on media with other sources of organic matter (Sabouraud medium, Hutchinson medium with cellulose, and water agar). The capacity for growth of A. sydowii strains on a broad spectrum of organic substrates was determined with the EKOLOG method for multisubstrate testing. The clinical and saprotrophic strains of A. sydowii differed in the colony growth rates under the same temperature and humidity combinations, as well as in the capacity for growth on different organic substrates. At decreased water activity (0.90–0.85 a_w), the temperature interval for growth of the saprotrophic strains was narrower (30 ± 2°C) than for the clinical strains (25–30°C). Comparison of growth on different media revealed the highest growth rates of the clinical strains on Sabouraud protein-containing medium. The method of multisubstrate testing showed that the saprotrophic strains grew on sugars better than the clinical ones.     

Newly developed MRSA medium]

We have developed a new selective medium, tentatively named MR(SA)2, for rapid identification of methicillin-resistant Staphylococcus aureus (MRSA) from clinical specimens. MR(SA)2 medium contained modified Müller-Hinton agar supplemented with 75 g of NaCl, 10 g of mannit, 20 mg of bromcresol purple, 20 g of egg-yolk, 4 mg of oxacillin, and 12.5 mg of ceftisoxime per 1,000 ml. There were no differences between the growth of MRSA strains on this medium at 30 C and that of 37 C. This medium can detect the egg-yolk reaction instead of the coagulase reaction. By single streaking of a test material on the surfaces of MR(SA)2 agar, MRSAs can easily be distinguished from methicillin-resistant coagulase-negative staphylococci (MR-CNS), other bacteria and fungi from their colony morphologies in a quantitative manner. A few MRSA strains would not form colonies on this medium because of their susceptibilities to ceftisoxime, but this may not inpede its use, since most MRSA strains isolated from clinical materials showed resistance to ceftisoxime. From the above results, the MR(SA)2 medium may be suitable for rapid detection of MRSA and MR-CNS.     

Measuring the fitness of symbiotic rhizobia

The legume-rhizobia symbiosis is an important model system for research on the evolution of cooperation and conflict. A key strength of this system is that the fitness consequences of greater or lesser investment in cooperative behaviors can be measured for each partner. Most empirical studies have characterized the fitness of symbiotic rhizobia exclusively by their numbers within nodules, often estimated using nodule size as a proxy. Here we show that the relationship between nodule size and rhizobial numbers can differ drastically between strains of the same species. We further show that differences in accumulation of the storage polyester poly-3-hydroxybutyrate (PHB), which can support future reproduction, can be large enough that even direct measurements of rhizobial numbers alone can lead to qualitatively incorrect conclusions. Both results come from a comparison of strains differing in production of the ethylene-inhibitor rhizobitoxine (Rtx). A broader study (using three legume-rhizobia species pairs) showed that PHB/cell cannot be reliably estimated from its correlation with rhizobia/nodule or nodule size. Differences in PHB between strains or treatments will not always make major contributions to differences in fitness, but situation-specific data are needed before PHB can safely be neglected.     

A Comparison of Seven Strains of Lactobacillus casei var. rhamnosus in Relation to their Use in the Microbiological Assay of Serum Folate

S ummary . A comparison was made of 7 strains of Lactobacillus casei var. rhamnosus in relation to their use in the microbiological assay of serum folate. The problem of clumping by some strains could be overcome by the addition of extra salt, or chloramphenicol, to the medium. The strains showed differences in their tolerance to added salts which was measured as the Mean Inhibitory Salt Concentration. The highest salt concentration which could be used in the assay medium without affecting the serum folate results was about one-third of the Mean Inhibitory Salt Concentration and this could be less than the optimum concentration for growth. These differences in salt tolerance may provide a partial explanation of the variety of normal values reported from different laboratories.     

Evolutionary genetics and biogeographic structure of Rhizobium gallicum sensu lato, a widely distributed bacterial symbiont of diverse legumes

We used phylogenetic and population genetics approaches to evaluate the importance of the evolutionary forces on shaping the genetic structure of Rhizobium gallicum and related species. We analysed 54 strains from several populations distributed in the Northern Hemisphere, using nucleotide sequences of three 'core' chromosomal genes (rrs, glnII and atpD) and two 'auxiliary' symbiotic genes (nifH and nodB) to elucidate the biogeographic history of the species and symbiotic ecotypes (biovarieties) within species. The analyses revealed that strains classified as Rhizobium mongolense and Rhizobium yanglingense belong to the chromosomal evolutionary lineage of R. gallicum and harbour symbiotic genes corresponding to a new biovar; we propose their reclassification as R. gallicum bv. orientale. The comparison of the chromosomal and symbiotic genes revealed evidence of lateral transfer of symbiotic information within and across species. Genetic differentiation analyses based on the chromosomal protein-coding genes revealed a biogeographic pattern with three main populations, whereas the 16S rDNA sequences did not resolve that biogeographic pattern. Both the phylogenetic and population genetic analyses showed evidence of recombination at the rrs locus. We discuss our results in the light of the contrasting views of bacterial species expressed by microbial taxonomist and evolutionary biologists.