Deletion mutagenesis independent of recombination in bacteriophage T7.

Deletion between directly repeated DNA sequences in bacteriophage T7-infected Escherichia coli was examined. The phage ligase gene was interrupted by insertion of synthetic DNA designed so that the inserts were bracketed by 10-bp direct repeats. Deletion between the direct repeats eliminated the insert and restored the ability of the phage to make its own ligase. The deletion frequency of inserts of 85 bp or less was of the order of 10(-6) deletions per replication. The deletion frequency dropped sharply in the range between 85 and 94 bp and then decreased at a much lower rate over the range from 94 to 900 bp. To see whether a deletion was predominantly caused by intermolecular recombination between the leftmost direct repeat on one chromosome and the rightmost direct repeat on a distinct chromosome, genetic markers were introduced to the left and right of the insert in the ligase gene. Short deletions of 29 bp and longer deletions of approximately 350 bp were examined in this way. Phage which underwent deletion between the direct repeats had the same frequency of recombination between the left and right flanking markers as was found in controls in which no deletion events took place. These data argue against intermolecular recombination between direct repeats as a major factor in deletion in T7-infected E. coli.     

Photoperiod regulates elicitation of growth promotion but not induced resistance by plant growth-promoting rhizobacteria

For several years, we have noticed that plant growth-promoting rhizobacteria (PGPR), which consistently promote plant growth in greenhouse tests during spring, summer, and fall, fail to elicit plant growth promotion during the midwinter under ambient light conditions. This report tests the hypothesis that photoperiod regulates elicitation of growth promotion and induced systemic resistance (ISR) by PGPR. A commercially available formulation of PGPR strains Bacillus subtilis GB03 and Bacillus amyloliquefaciens IN937a (BioYield) was used to grow tomato and pepper transplants under short-day (8 h of light) (SD) and long-day (12 h of light) (LD) conditions. Results of many experiments indicated that under LD conditions, BioYield consistently elicited significant increases in root and shoot mass as well as in several parameters of root architecture. However, under SD conditions, such increases were not elicited. Differential root colonization of plants grown under LD and SD conditions and changes in leachate quality partially account for these results. BioYield elicited ISR in tomato and pepper under both LD and SD conditions, indicating that although growth promotion was not elicited under SD conditions, induced resistance was. Overall, the results indicate that PGPR-mediated growth promotion is regulated by photoperiod, while ISR is not.     

Phenotypic characteristics and composition of rhizobia associated with woody legumes growing in diverse Kenyan conditions

Over 480 rhizobia were isolated from root nodules of woody legume and herbaceous trap host species grown in soils collected from 12 different Kenyan sites. The isolates were differentiated by growth and morphological characteristics, intrinsic antibiotic resistance (IAR) and salt (NaCl) tolerance levels (STL) when grown on yeast mannitol mineral salts agar and broth media.The bulk of the isolates (91%) were watery, milky-translucent and curdled milk types with moderate to copious extracellular polysaccharide (EPS). The rest were creamy or white opaque with little to moderate EPS production. Overall, they showed a wide range of growth rates: very fast-growing (mean generation time 1.6–2.5 h), fast-growing (2.8–4.8 h), intermediate between fast- and slow-growing (5.6–5.7 h) and slow- and very slow-growing (6.4–8.8 h). The isolates were tentatively grouped into Rhizobium spp., to include very fast, fast and intermediate (acid-producing) types; and Bradyrhizobium spp., to include very slow, slow and intermediate (alkali-producing) types.Bradyrhizobium spp. were more sensitive to antibiotics (40 g mL^-1) than Rhizobium spp., contrary to the general opinion which indicates that they are normally resistant. Cluster analysis based on sensitivity responses of IAR and STL could not distinguish Rhizobium spp. from Bradyrhizobium spp., neither was there any association by site nor host of isolation except for those isolates trapped with Phaseolus vulgaris at Kibwezi.Our data demonstrated a high diversity of tropical rhizobia associated with trees.     

Using FAME Analysis to Compare, Differentiate, and Identify Multiple Nematode Species

We have adapted the Sherlock^® Microbial Identification system for identification of plant parasitic nematodes based on their fatty acid profiles. Fatty acid profiles of 12 separate plant parasitic nematode species have been determined using this system. Additionally, separate profiles have been developed for Rotylenchulus reniformis and Meloidogyne incognita based on their host plant, four species and three races within the Meloidogyne genus, and three life stages of Heterodera glycines. Statistically, 85% of these profiles can be delimited from one another; the specific comparisons between the cyst and vermiform stages of H. glycines, M. hapla and M. arenaria, and M. arenaria and M. javanica cannot be segregated using canonical analysis. By incorporating each of these fatty acid profiles into the Sherlock^® Analysis Software, 20 library entries were created. While there was some similarity among profiles, all entries correctly identified the proper organism to genus, species, race, life stage, and host at greater than 86% accuracy. The remaining 14% were correctly identified to genus, although species and race may not be correct due to the underlying variables of host or life stage. These results are promising and indicate that this library could be used for diagnostics labs to increase response time.     

Carbon isotope ratios of photolithotrophs from allt meall nan damh,a burn at ardeonaig,Perthshire, and their ecophysiological significance

Summary

δ¹³C measurements were made of dissolved inorganic C, and of submerged benthic cyanobacteria, algae and bryophytes, from Allt Meall nan Damh, a burn at Ardeonaig, Perthshire. The δ¹³C of the CO₂, HCO3/- and CO3/2- components of the inorganic C were computed, and the Δ values of the organic C in the photolithotrophs were then calculated relative to dissolved CO₂. The decreasing order of A values in the Ardeonaig Burn is Lemanea and bryophytes ≥ green macroalgae and Audouinella > diatom mats, which is the same as in the Dighty Burn. However, the Δ values of Lemanea and the bryophytes, which depend on diffusive CO₂ entry, are lower at Ardeonaig than in the Dighty Burn, suggesting greater diffusive limitation to photosynthesis in the Ardeonaig Burn. It is not easy to relate this difference in Δ values in Lemanea to the higher C:N atomic ratio in the Ardeonaig Burn (21.2 ± 0.64) than in the Dighty Burn (9.5–11.0). The Δ values relative to HCO3/- for the HCO3/--using diatom mat in the Ardeonaig Burn is also lower than that in the Dighty Burn; this is consistent with a greater diffusion limitation of photosynthesis in the thicker mats in the Ardeonaig Burn. The δ¹³C of a Lyngbya mat overlying a Lemanea population stranded by low summer water levels indicates that some of the C fixed by the HCO3/--using Lyngbya comes from respiration of low-δ¹³C inorganic C by the Lemanea which is shaded by the Lyngbya. The δ¹³C values of Mesotaenium in its mucilage sheath on a thinly vegetated bank is suggestive of predominant use of the higher CO₂ concentrations with lower δ¹³C from groundwater rather than of atmospheric CO₂ yielding lower dissolved CO₂ concentrations with a higher δ¹³C value.     

Analysis of populations and physiological characterization of microorganisms in rhizospheres of plants with antagonistic properties to phytopathogenic nematodes

Populations of rhizosphere microflora of plants which have demonstrated an antagonism toward phytopathogenic nematodes, including velvet bean (Mucuna deeringiana), castor bean (Ricinus communis), sword bean (Cannavalia ensiformis), and Abruzzi rye (Secale cereale)., were compared to the rhizosphere microflora of soybean. Population densities of total bacteria were significantly lower for young Abruzzi rye, mature velvet bean, and mature castor bean, and fungi from mature velvet bean than for soybean. Population densities of spore-forming bacilli were significantly higher for Abruzzi rye than for soybean. Population densities of coryneform bacteria for mature sword bean and velvet bean were significantly higher than for soybean. All seedling test poants supported significantly higher population densities of chitinolytic fungi than soybean. On mature plants, chitinolytic bacteria were significantly higher on all test plants except velvet bean. Populations of endophytic root bacteria for three of the four test plants were significantly higher than for soybean. Fifty randomly, selected bacterial strains from seedlings and mature plants of soybean and each test plant were characterized for various physiological traits associated with rhizosphere competence, including chitinolytic activity, gelatin hydrolysis, production of hydrogen cyanide, starch hydrolysis, phenol oxidation, siderophore production, and production of antifungal compounds (inhibition ofPythium ultimum and/orRhizoctonia solani). There was a strong trend to increased frequency in each of the physiological tests with bacteria from test plants in comparison to those from soybean. The frequency of starch hydrolysis was up to 24 times greater for strains from test plants than for soybean strains, and siderophore production was up to 22 times more frequent for test plants. These results demonstrate that, compared to soybean, plants with properties antagonistic to phytopathogenic nematodes have a distinct rhizosphere microflora.