Physiological and environmental effects on metabolic flux change caused by heterologous gene expression inEscherichia coli

Expression of theZymomonas mobilis pyruvate decarboxylase (pdc) and alcohol dehydrogenase (adh) genes inEscherichia coli has been known to reduce acetate accumulation by shifting carbon flow from acetate to ethanol. In this study, we investigated the effects of physiological and environmental conditions on the metabolic flux alteration caused by the expression of thepdc andadh genes. In the batch cultures, no significant differences, regardless of medium composition, were found in growth rate and glucose uptake rate between the host strains and the recombinant strains expressing thepdc andadh genes. In the continuous cultures performed with glucose minimal medium, however, the recombinant strains gave more biomass than the host strains at the same specific growth rates. On the contrary, in the continuous cultures with complex medium, the host strains yielded more biomass than the recombinant strains. Analysis of the culture supernatants revealed that the effect of thepdc andadh expression on byproduct formation was more significant at low specific growth rates than at high specific growth rates. This study suggests that physiological and environmental conditions should be carefully considered and precisely defined in assessing the effects of heterologous gene expression on metabolic activities of recombinantE. coli.     

Intact-plant screening for tolerance of nutrient-deficiency stress

Summary Critical factors in the selection of appropriate screening procedures to detect different phenotypic responses to nutrient-deficiency stress are discussed. Various morphological, anatomical, and physiological plant factors responsible for adaptations to nutrient deficiency, particularly low-P stress, are reviewed. Also, the relative effectiveness of various screening culture techniques for detecting phenotypic efficiencies based on specific plant features are considered. The relative ineffectiveness of liquid culture media in detecting plant factors critical in P acquisition from low-P natural environments is recognized, and a culture medium that is effective under these conditions is described. P adsorbed onto alumina, after mixing with coarse sand, serves as a P source in nutrient cultures. Buffered P concentrations approximating soil solution concentrations are maintained in this system, and P availability at the root surface seems diffusion-limited. With this system, significant differences in the growth of tomato strains under P stress were detected. The desirability of screening phenotypes at the same degree of depression from maximum yield (equivalent deficiency stress) is discussed. The need for evaluations at equivalent stress is associated with the capacities of plants in general to respond to deficiency stress with morphological and physiological changes that may not be under genetic control, for example an increase in root:shoot ratio. Additional capacity to adjust the same plant factors often are characteristic of specific phenotypes. The relative growth of the same tomato strains under equivalent and non-equivalent P-deficiency stress is compared. Significant strain differences were observed under both conditions. However, the relative responses among strains for several efficiency parameters were very different under the two types of stress.     

Spontaneous mutation in a thermoacidophilic archaeon: evaluation of genetic and physiological factors

We used direct selection of pyrE and pyrF mutants to estimate the rates of spontaneous mutation in Sulfolobus acidocaldarius as a function of genetic background and culture conditions. Fluctuation tests were applied to several genetically marked strains, including one isolated as a putative mutator strain, and to cultures grown over a wide range of temperature and other physiological conditions. The results suggested some impact of auxotrophic markers on the apparent rate of mutation, but no obvious pattern of effect of growth conditions, including those that gave evidence of being physiologically stressful. Received: 27 May 1997 / Accepted: 2 September 1997     

Continuous culture studies on the production of staphylocoagulase by Staphylococcus aureus

The production of staphylocoagulase was studied with continuous cultures of various S. aureus strains in a simple salts medium supplemented with mannitol, casein hydrolysate and three vitamins. Conditions of low oxygen availability and magnesium-limitation were required for optimal steady-state staphylocoagulase production. It was demonstrated that the specific rate of staphylocoagulase production was dependent on the growth rate.In two bovine strains, the production rate pattern was similar to that of an inducible enzyme sensitive to catabolite repression, although no specific inductor or repressor could be demonstrated. The human strain, on the other hand, produced staphylocoagulase constitutively. In all strains the specific rate of production of total extracellular protein was strictly proportional to the growth rate. The bovine strains produced 6 times more staphylocoagulase in chemostat culture as compared with batch cultures of the same organisms.It is likely that mannitol functioned as an energy source rather than as a carbon source because it was converted for a major part to acetate and for a minor part to lactate and not to new cell material. Repression of staphylocoagulase production by mannitol, acetate or lactate was not observed. The probable nature of the regulating mechanism(s) underlying staphylocoagulase production is discussed.     

Effect of the DNA replication velocity on the response of Salmonella typhimurium to mild heating

Changes in the DNA replication velocity of Salmonella typhimurium following mild heat stress (52°C) were studied independently of the major physiological parameter of growth rate, using thymine-requiring mutant strains derived from Salm. typhimurium LT2. The isolated mutant strains BM1 or BM2, grown either as batch or chemostat cultures, showed a greater sensitivity to 52°C heat stress when grown on a minimal medium containing near-limiting concentrations of thymine, compared with growth in the presence of excess thymine. Radiolabelling experiments provided evidence for alterations in the velocity of DNA replication upon growth on different thymine concentrations, independent of the growth rate. Thus, replicating DNA was implicated as the major site of injury after mild moist heat stress. and accepted 3 June 1989     

Some Physiological Characteristics of Two Sets of Phage-Propagating Strains of Staphylococcus aureus

A number of physiological characteristics were studied on some 29 strains of phage-propagating staphylococci belonging to the Basic International Series and the Seto-Wilson bovine-adapted set. All the cultures except strain 73 were coagulase-positive, with reciprocal titers ranging from 2 to 8,192. Strain 73 was again an exception with respect to phosphatase activity. Group 1 yielded high values for both phosphatase and oxygen uptake but low values for extracellular protein. Resistance to penicillin was demonstrated only by strains 80, 81, 53, 54, 75, and 77. Strain 70, one of the highest coagulase producers, alone showed no catalase activity. Mannitol was fermented by all coagulase-positive strains. Hemolysis of one or more of three kinds of erythrocytes (sheep, rabbit, and human) was a common characteristic of most strains. However, pigmentation was a nondiscriminating parameter. Although one-half of the cultures liquefied gelatin, most of them gave similar antibiotic-sensitivity tests, except the six which were penicillinase producers. There was little difference in growth rate for all strains. Comparison of coagulase production to cell size indicated that the high-titer strains were generally larger than the low producers. The foregoing evidence avers that, in addition to lytic spectrum, physiological properties can usefully characterize staphylococcal phage-propagating strains.     

Phenotypic characterization of the archaebacterial genus Sulfolobus: comparison of five wild-type strains.

Though amenable to routine manipulation and a popular subject of molecular genetic and biochemical studies on archaebacteria, the genus Sulfolobus has remained poorly described in phenotypic terms. To delineate their physiological capabilities and diversity, five laboratory strains, including type strains of the described species Sulfolobus acidocaldarius and S. solfataricus, were compared with respect to a variety of growth and biochemical parameters, including component profile of the surface-layer cell wall, inhibitors of growth, growth rate as a function of temperature and pH, and compounds used as sole sources of carbon or nitrogen. Motility and photoregulated production of an orange pigment were detected in all five strains tested. The results provide new criteria for distinguishing Sulfolobus strains as well as potential tools for the physiological and genetic manipulation of these extreme thermophiles.     

Regulation of fermentative capacity and levels of glycolytic enzymes in chemostat cultures of Saccharomyces cerevisiae

Regulation of fermentative capacity was studied in chemostat cultures of two Saccharomyces cerevisiae strains: the laboratory strain CEN.PK113-7D and the industrial bakers’ yeast strain DS28911. The two strains were cultivated at a fixed dilution rate of 0.10 h⁻¹ under various nutrient limitation regimes: aerobic and anaerobic glucose limitation, aerobic and anaerobic nitrogen limitation on glucose, and aerobic ethanol limitation. Also the effect of specific growth rate on fermentative capacity was compared in glucose-limited, aerobic cultures grown at dilution rates between 0.05 h⁻¹ and 0.40 h⁻¹. Biomass yields and metabolite formation patterns were identical for the two strains under all cultivation conditions tested. However, the way in which environmental conditions affected fermentative capacity (assayed off-line as ethanol production rate under anaerobic conditions) differed for the two strains. A different regulation of fermentative capacity in the two strains was also evident from the levels of the glycolytic enzymes, as determined by in vitro enzyme assays. With the exception of phosphofructokinase and pyruvate decarboxylase in the industrial strain, no clear-cut correlation between the activities of glycolytic enzymes and the fermentative capacity was found. These results emphasise the need for controlled cultivation conditions in studies on metabolic regulation in S. cerevisiae and demonstrate that conclusions from physiological studies cannot necessarily be extrapolated from one S. cerevisiae strain to the other.     

Response of Escherichia coli to ethyl methanesulfonate: Influence of growth phase and repair ability on survival and mutagenesis

The effects of altering the cell growth rate (physiological state) and DNA repair capacity (genetic state) on susceptibility to inactivation and mutagenesis by ethyl methanesulfonate (EMS) were studied in 4 strains of E. coli. Logarithmic and stationary phase cells of the polymerase I deficient mutant, P₃₄₇8 polA, a recombination deficient mutant, DZ₄₁₇ recA, and the respective parental strains, W₃₁₁₀pol⁺ and AB₂₅₃ rec⁺, were exposed to EMS and the surviving fraction and mutant frequency determined. At the same EMS concentration both mutants were more susceptible to inactivation than the parental strains. In all 4 strains, log phase cells were more sensitive to inactivation than stationary cells. The surviving fraction of stationary cells exceeded log cells by a factor of 18 for polA, 6 for recA, and about 2 for the parental strains. In all strains, except recA, log phase cells exhibited higher spontaneous mutant frequencies than stationary phase cells. At the same concentration of EMS, survivors of both polA and recA showed more than 10-fold higher induced frequencies than the wild types. However, at the same survival levels the repair deficient mutants exhibited induced mutant frequencies comparable to the repair proficient strains. There was no significant effect of growth phase on EMS induced mutability in recA or the parental strains. In marked contrast, the polymerase I deficient mutant shows both a higher spontaneous frequency and a greater than 10-fold higher EMS induced mutant frequency in log phase cultures compared to stationary phase cultures. Our results support the hypothesis that cellular susceptibility to alkylating agents is influenced by both the genetic capability for repair and the particular physiological state of the cell.     

Synergistic growth of two members from a mixed microbial consortium growing on biphenyl

Abstract A stable nine-membered aerobic bacterial consortium (BSEN-2) growing on biphenyl as the sole carbon and energy source was isolated from a polychlorinated biphenyl (PCB) contaminated soil. Characterisation of the members, strains BPSI-1 to 9, revealed three principal genera, Pseudomonas, Sphingomonas and Alcaligenes . Phenotypic analysis based on standard microbiological tests and Biolog identification, showed close relationship between community members with the exception of Sphingomonas paucimobilis strain BPSI-3. Some clusters revealed relationships unrelated to genus groupings. Strain BPSI-3 produced a bright yellow water soluble compound from biphenyl having absorption maxima at 412 and 337 nm at neutral pH. This is similar, but not identical, to those results reported for muconic semialdehydes, cleavage products of biphenyl and other aromatic compounds. Only four of the nine isolates, BPSI-2, 3, 4 and 7, were capable of growth on biphenyl as sole carbon and energy source. Two isolates, Alcaligenes faecalis type II strain BPSI-2 and S. paucimobilis strain BPSI-3, were isolated together and were difficult to separate into pure cultures. Growth studies in liquid culture showed that a co-culture of these two achieved a specific growth rate (μ) approximately twice as high as strain BPSI-2 and four times that of BPSI-3. Both strains grew equally well on benzoate with no significant difference in their specific growth rates. When compared to the original mixed culture, BSEN-2, the co-culture achieved 39% greater biomass and a specific growth rate twice as high. In the co-culture, the yellow colour seen with pure cultures of BPSI-3 was not observed. BPSI-2 was found to be able to utilise the yellow metabolites more effectively than BPSI-3. A model for the interaction of these two strains, based on the utilisation of biphenyl catabolites and degradation at the genetic level, has been proposed.     

Comparative evaluation of different preservation methods for cyanobacterial strains

Maintaining pure cultures using preservation methods is of high importance for biotechnological purposes. However, preservation does not necessarily guarantee the genetic stability of these cultures. Therefore, preservation methods are currently needed to assure viability as well as genetic, physiological, and morphological integrity across storage periods. In this study, preservation of five isolates from the microalgae and cyanobacteria collection of the Plant Biology Department, Federal University of Viçosa, Minas Gerais, Brazil was investigated via monthly analyses of cell viability, biomass recovery, and contaminant concentrations over a period of 120 days. Lyophilization was adequate for both heterocystous cyanobacteria and other strains that were able to differentiate hormogones or to synthesize thick layers of exopolysaccharides. Lyophilization was also able to maintain cultures with low levels of contaminants. Dimethyl sulfoxide was relatively efficient, though some of the strains were susceptible to its cytotoxic effects. Our results demonstrated that cryopreservation with glycerol was the most efficient method. The ability to routinely preserve cyanobacterial strains reduces costs associated with maintaining large culture collections and reduces the risks of losing particular strains or species through contamination and genetic drift. The results obtained in this study are therefore discussed in the context of the efficiency of the methods and the current need to develop suitable methods for maintenance of cyanobacterial collections.     

Effect of the DNA replication velocity on the response of Salmonella typhimurium to mild heating

Changes in the DNA replication velocity of Salmonella typhimurium following mild heat stress (52 degrees C) were studied independently of the major physiological parameter of growth rate, using thymine-requiring mutant strains derived from Salm. typhimurium LT2. The isolated mutant strains BM1 or BM2, grown either as batch or chemostat cultures, showed a greater sensitivity to 52 degrees C heat stress when grown on a minimal medium containing near-limiting concentrations of thymine, compared with growth in the presence of excess thymine. Radiolabelling experiments provided evidence for alterations in the velocity of DNA replication upon growth on different thymine concentrations, independent of the growth rate. Thus, replicating DNA was implicated as the major site of injury after mild moist heat stress.     

Epistasis for growth rate and total metabolic flux in yeast

Studies of interactions between gene deletions repeatedly show that the effect of epistasis on the growth of yeast cells is roughly null or barely positive. These observations relate generally to the pace of growth, its costs in terms of required metabolites and energy are unknown. We measured the maximum rate at which yeast cultures grow and amounts of glucose they consume per synthesized biomass for strains with none, single, or double gene deletions. Because all strains were maintained under a fermentative mode of growth and thus shared a common pattern of metabolic processes, we used the rate of glucose uptake as a proxy for the total flux of metabolites and energy. In the tested sample, the double deletions showed null or slightly positive epistasis both for the mean growth and mean flux. This concordance is explained by the fact that average efficiency of converting glucose into biomass was nearly constant, that is, it did not change with the strength of growth effect. Individual changes in the efficiency caused by gene deletions did have a genetic basis as they were consistent over several environments and transmitted between single and double deletion strains indicating that the efficiency of growth, although independent of its rate, was appreciably heritable. Together, our results suggest that data on the rate of growth can be used as a proxy for the rate of total metabolism when the goal is to find strong individual interactions or estimate the mean epistatic effect. However, it may be necessary to assay both growth and flux in order to detect smaller individual effects of epistasis.     

Production of savinase and population viability of Bacillus clausii during high-cell-density fed-batch cultivations

The growth and product formation of a Savinase-producing Bacillus clausii were investigated in high-cell-density fed-batch cultivations with both linear and exponential feed profiles. The highest specific productivity of Savinase was observed shortly after the end of the initial batch phase for all feed profiles applied and, in addition, there was a time-dependent decrease in specific productivity. The specific glucose uptake rate increased with time for constant specific growth rate indicating that the maintenance requirements increased with time, possibly due to a decreasing K(+) concentration. The physiological state of the cells was monitored during the cultivations using a flow cytometry assay based on the permeability of the cell membrane to propidium iodide. In the latter parts of the fed-batch cultures with a linear feed profile, a large portion of the cell population was found to have a permeable membrane, indicating a large percentage of dead cells. By assuming that only cells with a nonpermeable membrane contributed to growth and product formation, the physiological properties of this subpopulation were calculated.     

The energetics of bacterial growth: a reassessment

The growth yield of microbial cultures can be used to estimate the efficiency of energy generation during a fermentation or respiration, in the past, the assessment of this efficiency in organisms carrying out a respiration has been the subject of many heated debates. This has partly been caused by the complexity of microbial respiratory chains. Strains of Escherichia coli specifically modified in their respiratory chain have been used recently to re-evaluate the energetic efficiency of the bacterial respiration using chemostat cultures. The different strains indeed show different growth efficiencies. The physiological significance of energetically less-efficient branches of the respiratory chain is discussed.     

Growth rate and control of development of the photosynthetic apparatus in Chloroflexus aurantiacus

Chloroflexus aurantiacus was grown photoheterotrophically in a chemostat in order to study the influence of growth rate on the formation of bacteriochlorophyll a (Bchl a) which represents the membrane-bound photosynthetic pigment complexes, and of Bchl c which represents the light harvesting pigment-proteins of the chlorosome. Steady state cell protein levels as well as specific Bchl a contents increased linearly and specific Bchl c contents exponentially when the dilution rate, representing growth rate, was decreased. In spite of differences in the light intensities, continuous cultures growing at comparable growth rates and densities exhibited comparable specific contents of both Bchls and largely identical molar ratios of Bchl c/Bchl a. The growth rate of constantly illuminated batch cultures was varied by changing the concentration of growth-limiting nutrients. Cultures growing at higher growth rates showed higher cell densities but lower specific Bchl levels as well as lower molar ratios of Bchl c/Bchl a than cultures growing at low growth rate. Determination of the light energy flux required for half-maximal saturation of photosynthetic activity (light dependent proton extrusion) by chemostat cultures showed a dependency of that activity by the content of cellular Bchl c. In summary, the results suggest that, growth rate or a factor regulating growth rate, rather than light affected specific Bchl levels and because of the increasing molar ratio of Bchl c to Bchl a, the light harvesting capacity and photosynthetic efficiency of the photosynthetic apparatus.     

An assessment of the role of physiological adaptation in the transient response of bacterial cultures

The RNA-limiting theory of transient response states that the primary physiological adaptation which occurs when microbial cultures are grown at specific rates less than their maximum is a decrease in the cellular level of RNA. It predicts that, as a result of this decrease, the response of the culture to a shift-up in growth rate will be limited by its RNA level. In order to test the RNA-limiting theory and to investigate the role physiological adaptation in transient response, experiments were performed in which steady-state chemostat cultures of Pseudomonasputida grown at various specific rates were transferred to batch reactors containing sufficient carbon source (L-lysine) and nutrients to remove all external growth restrictions. Samples were collected during the subsequent transient period for determination of the macromolecular composition and the maximum instantaneous oxygen uptake rate. The results indicated that, while decreases in the RNA level did significantly affect the nature of the transient response, other unidentified components varied with the steady-state specific growth rate at which the culture had been grown prior to the shift-up and that the levels of those components affected the nature of the subsequent transient response. This implies that the RNA-limiting theory is inadequate for describing the transient responses of cultures grown over a wide range of specific growth rates.     

我国主栽皱环球盖菇菌株遗传多样性及栽培特性

对我国皱环球盖菇Stropharia rugosoannulata 20个主栽菌株进行了ISSR标记遗传多样性分析,使用的28个ISSR引物中22个具有多态性,UPGMA聚类分析显示遗传相似性水平在0.68-0.86之间,在0.72时可将菌株分为6个类群,类群间遗传差异较大。在PDA培养基上,除菌株Sr-03和Sr-05最适生长pH值为8.0外,其他菌株均为pH 5.0-6.0;在5-30℃的温度范围内,除菌株Sr-01、Sr-08、Sr-11在30℃时长速受到抑制外,其他菌株长速随温度升高而加快,但在35℃时仅有5个菌株在培养20d时具有活性;皱环球盖菇菌丝在以木屑为主的原种培养料中长速较慢,为0.73-1.08mm/d。在菌株的农艺性状比较中,菌株Sr-12的菇型比例最好、产量最高,生物学效率达98.09%,菌株Sr-08和Sr-12菇体硬度较大,菌盖颜色与其他菌株差异显著,菌株Sr-19和Sr-20的菌褶颜色较其他菌株差异较大。本研究筛选出了7个具有遗传差异的优异种质,产量高、抗逆性强,并在菇型、菌盖颜色、菌褶颜色等农艺性状上具有较大的差异,可为皱环球盖菇育种及遗传研究提供菌株选择。     

Consequences of phosphoglycerate kinase overproduction for the growth and physiology of Saccharomyces cerevisiae

Summary The physiological consequences of overproduction of the homologous glycolytic enzyme 3-phosphoglycerate kinase (PGK), integrated in 80 PGK1 gene copies in the genome of Saccharomyces cerevisiae are described. This multiple integration and the strong PGK overproduction (maximum 47% of the total soluble cell protein) do not affect the maximal specific growth rate, but cause 40% reduction of the molar growth yield, compared with that of the wild-type host. The extra energy that is needed for protein overproduction is mainly provided by extra fermentation (respirofermentative growth), but respiration is also elevated compared with the reference strains. The increase in the specific oxygen uptake rate indicates that the respiratory capacity of the yeasts is higher than that in the wild-type host, in which the limited capacity of respiration is generally supposed to be at its maximal level at the critical dilution rate, and is thus responsible for the switch to respirofermentative growth. In a medium PGK1 gene copy integrant (about 25 copies), overproduction of 10%–12% PGK has a stimulating effect on the growth yield and energy efficiency. In these cells the growth benefits of overproduction of the glycolytic enzyme are higher than the disadvantages of extra protein synthesis. The overproduction of PGK has also consequences for the glucose affinity of the yeasts: In the more overproducing strain the K _s is increased, compared to its reference strains. Elimination of strong overproducing cells from a glucose-limited chemostat culture is caused by two factors: (a) the excision of the PGK genes from the genome, which is of minor importance for wash-out, but the induction process for this overall decline of overproduction, and (b) the physiological selection process for less overproducing cells, caused by differences in affinity for glucose, most obvious at µ 1/2µ_max. However in batch culture and in a chemostat at low specific growth rates, all the overproducing strains show high genetic stability and constantly provide high PGK quantities.Offprint requests to: P. C. van der Aar