Oxygen availability and the growth of Escherichia coli W3110: A problem exacerbated by scale-up

By examining the effects of oxygen availability on the batch growth of Escherichia coli on glucose the present study seeks to determine the responses of growing cells to varying degrees of oxygen excess, limitation or starvation as might be experienced in an industrial-scale bioreactor. It was found that as the degree of oxygen limitation increases so too does the byproduct acetate production in addition to a concomitant decrease in the substrate based biomass yield coefficient and maximum specific growth rate. Similar, although not as severe, responses to excess oxygen growth conditions were also observed. This result supports the concept of oxygen being potentially toxic to growing organisms, resulting in, at the very least, a degree of inhibition.     

Effect of the impeller-sparger configuration over Trichoderma harzianum growth in four-phases cultures under constant dissolved oxygen

Three impeller-sparger configurations were used to evaluate the effect of different hydrodynamic conditions over fungal growth in rheologically complex cultures of Trichoderma harzianum using castor oil as sole carbon source. Three spargers (ring, sintered and 5-orifice) in combination with a turbine impeller system "TIS" (two Rushton turbines) or a hybrid impeller system "HIS" (Rushton turbine and a marine propeller as lower and upper impellers) were used. Their performance was assessed in terms of the response towards disturbance (PID oxygen control settings) and oxygen mass transfer (k_La). To avoid oxygen limitations, all cultures were controlled at 10% DOT by gas blending. Top to bottom mixing, and hence bulk blending, was improved when the - axial flow - HIS was used, ensuring phase interaction and substrate (oil) circulation. The 5-orifice sparger in combination with the TIS configuration yielded the longest lag phase and lowest k_La due to poor bulk blending and to the low gas-liquid interfacial area developed. The highest k_La was achieved with the sintered sparger-HIS probably due to considerable interfacial bubble area enhancement. However, growth limitation occurred as consequence of poor substrate availability as a stable air-oil emulsion was formed at the top of the tank. The best compromise between bulk blending (phase interaction), oxygen transfer (k_La) and fungal growth (growth rate) was achieved with the ring sparger-HIS configuration.     

Influence of k L a on bioconversion of rice straw hemicellulose hydrolysate to xylitol

The effect of overall oxygen mass transfer coefficient (k_La) on the conversion of xylose to xylitol by Candida guilliermondii FTI 20037 was investigated in batch experiments. Rice straw hemicellulose hydrolysate obtained by acid hydrolysis was employed as a xylose-rich medium. The results showed that this bioconversion strongly depended on the aeration rate. The maximum volumetric productivity (0.52 g/l h^у) and the highest xylitol yield (0.73 g/g) were achieved at an overall oxygen mass transfer coefficient of 15 h^у. Under these conditions 80% efficiency in relation to theoretical yield was attained.     

Light gradient partitioning by tropical tree seedlings in the absence of canopy gaps

To explore the importance of light availability for seedling growth in low light environments, we examined light-dependent growth, biomass allocation and mortality of tree seedlings growing in sites with 0.2-6.5% full sun, the range of light commonly encountered in the understory of closed canopy, lowland tropical forests. We transplanted seedlings of the canopy tree species, Dipteryx panamensis, Virola koschnyii, and Brosimum alicastrum into second-growth forest and native tree plantations at La Selva Biological Station, Costa Rica. We assessed seedling survival, growth, and seedling light environments bimonthly for 14 months. Plants were harvested at the end of the study to assess leaf area, total biomass, biomass partitioning and root growth. Survivorship of all species exceeded 60% across all microsites, although both D. panamensis and B. alicastrum had lower probabilities of survival in the darkest microsites. All species showed a strong positive relationship between light availability and growth, increasing in total biomass as light increased. However, the strength of the growth response differed among species causing a change in the rank order of species growth rates as light availability increased. Although D. panamensis showed the lowest growth rates in the darkest microsites, a strong response to increasing light led to a cross-over in performance, such that D. panamensis had the highest growth rate at the highest light levels studied. These data suggest that resource gradient partitioning could occur even in low light environments (0.2-6.5%). Given the limited range of light regimes sampled (i.e., non-gap microsites), our data demonstrate that growth of tropical tree seedlings beneath closed canopies is highly sensitive to light availability and that shade-tolerant species vary in these responses. Our results show that understory light heterogeneity, in the absence of canopy gaps, can significantly affect recruitment processes for shade-tolerant tree species.     

Modeling of growth and energy metabolism of Pichia pastoris producing a fusion protein

A fusion protein composed of a cellulose binding domain from Neocallimastix patriciarum cellulase A and Candida antarctica lipase B (CBD-lipase) was produced by Pichia pastoris methanol utilization plus phenotype in high cell-density cultures. The genes expressing CBD-lipase were fused to the alpha-factor secretion signal sequence of Saccharomyces cerevisiae and placed under the control of the alcohol oxidase gene (AOX1) promoter. To control the repression and induction of AOX1 and oxygen demand at high cell density, a four-stage process was used. Batch growth on glycerol was used in the first step to provide biomass (28 g L^-1) while product formation was prevented due to repression of the AOX1. The second stage was exponential fed-batch growth on glycerol, which caused a slight increase of the enzyme alcohol oxidase activity due to derepression of the AOX1. This procedure resulted in smooth transition to exponential fed-batch growth on methanol, the third stage, in which the AOX1 was strongly induced. The fourth stage was constant fed-batch growth on methanol used to control the oxygen demand at the high cell density. A kinetic model was developed that could predict biomass growth and oxygen consumption in processes with and without oxygen-enriched air. With oxygen enrichment to 34% O₂ in the inlet air the methanol feed rate could be increased by 50% and this resulted in 14% higher final cell density (from 140 to 160 g L^-1 cell dry weight). The increased methanol feed rate resulted in a proportionally increased specific rate of product secretion to the medium. After an initial decrease, the synthesis capacity of the cell was kept constant throughout the cultivation, which made the product concentration increase almost constantly during the process. The kinetic model also describes how the low maintenance demand of P. pastoris compared with E. coli enables this organism to grow to such high cell densities.     

Photosynthetic responses of tree seedlings in grass and under shrubs in early-successional tropical old fields, Costa Rica

Only recently have studies addressed the effect of early-colonizing vegetation on tree seedling survival and growth during secondary succession in tropical old fields, and few studies have elucidated the physiological responses of tree seedlings to different vegetational communities. We compared growth and various photosynthetic parameters for seedlings of four rain-forest tree species, Cedrela tonduzii, Inga punctata, Ocotea whitei, and Tapirira mexicana, growing in areas of pasture grass and shrubs in early-successional abandoned pasture in Costa Rica; in addition, we made measurements for two species in forest gaps. We tested the general hypothesis that early-colonizing shrubs facilitate growth of forest tree seedlings. Specifically, we measured microclimate, growth, CO₂ assimilation, stomatal conductance, photosystem II quantum yield (KPSII), and xanthophyll pigment pools for all seedlings. Photosynthetic flux density (PFD) was higher under grass than shrubs or forest gaps, but was highly variable in each growth environment. For three of the four species, height growth was greatest in the grass compared to the shrubs and forest gaps; growth was similar below grass and shrubs for O. whitei. Photosynthetic capacity, apparent quantum yield, and stomatal conductance did not vary across habitats, but light compensation point and PFD at light saturation tended to be higher in the grass compared to forest and shrub growth environments. Water use efficiency differed across growth environments for three of the species. For plants in ambient PFD and dark-adapted plants, the efficiency of excitation energy transfer through PSII was lowest for plants in the grass compared to shrubs and forest gaps and also differed across species. Measurement of steady-state responses of KPSII to increasing PFD indicated a significant effect of growth environment at low PFD for all species and significant effects at high PFD only for I. punctata. All species exhibited a high degree of midday xanthophyll de-epoxidation in the different growth environments. Xanthophyll pigment pool size on an area basis was highest in the grass compared to shrubs and forest gaps for all four species. The results suggest that shrubs do not provide a facilitative effect for growth or photosynthesis for ~1.5-year-old seedlings of these four species. We conclude that site differences in success of tree seedlings during succession are a result of complex interactions of facilitation and competition and are not simply based on physiological responses to PFD.     

Combining yield coefficients and exit-gas analysis for monitoring of the baker's yeast fed-batch fermentation

Baker's yeast is one of the micro-organisms that is studied most in literature. Therefore, a lot of knowledge on the biochemical pathways and corresponding yield coefficients is available. This knowledge is combined with measurements of oxygen and carbon dioxide in the exit-gas to determine the coefficients appearing in the stoichiometric equations. In this manner, two measurements are sufficient to yield on-line estimates for biomass, glucose, ethanol and the specific growth rate, and information about the (ill-defined) nitrogen source NH_q. This is not possible if the yield coefficients are not included in the estimation procedure. A sensitivity analysis illustrates that this estimation scheme is rather insensitive to uncertainties on the yield coefficients.     

Growth energetics of an alkaline serine protease-producing strain of Bacillus clausii during continuous cultivation

Glucose-limited chemostats were used to determine the growth yields of biomass of Bacillus clausii PP 473-8 producing an alkaline serine protease Savinase (Novozymes A/S, Bagsværd, Denmark) and a low yield of biomass on oxygen was observed. The energy metabolism was investigated further by setting up simple stoichiometric models for growth on glucose and citrate. In order to determine the parameters in the models, a macromolecular biomass composition was determined based on measured values of protein and RNA combined with literature data. From the macromolecular composition of the biomass the theoretical co-factor and building block requirements needed for biomass formation were calculated. Using the stoichiometric models and data for growth on glucose and citrate the amount of ATP needed for biomass synthesis was estimated to 42.0 mmol ATP/gDW, the P/O ratio to 0.68 and the ATP maintenance to 2.93 mmol ATP/gDW/h. From these values it is concluded that the high oxygen consumption compared with other Bacillus species is due to a low efficiency in respiration resulting in a low P/O ratio. Finally, the energetic parameters were estimated for different architectures of the respiratory chain.     

Biodiversity and invasibility in grassland microcosms

In the years since Charles Elton proposed that more diverse communities should be less susceptible to invasion by exotic species, empirical studies have both supported and refuted Elton's hypothesis. Here, I use grassland community microcosms to test the effect of functional diversity on the success of an invasive annual weed (Centaurea solstitialis L.). I found that high functional diversity reduced the success of Centaurea by reducing resource availability. An equally important, but unstudied, question is whether diversity can buffer a community against the impacts of invasive species. In this experiment, although species diversity (independent of functional diversity) did not affect the success of the invader, the invader suppressed growth of species-poor communities more strongly. Invasion of Centaurea also increased summer evapotranspiration in species-poor communities. These results suggest that loss of species diversity alone does not affect community invasibility, but that communities with fewer species may be more likely to decline as a consequence of invasion.     

Root system adjustments: regulation of plant nutrient uptake and growth responses to elevated CO2

Nutrients such as nitrogen (N) and phosphorus (P) often limit plant growth rate and production in natural and agricultural ecosystems. Limited availability of these nutrients is also a major factor influencing long-term plant and ecosystem responses to rising atmospheric CO₂ levels, i.e., the commonly observed short-term increase in plant biomass may not be sustained over the long-term. Therefore, it is critical to obtain a mechanistic understanding of whether elevated CO₂ can elicit compensatory adjustments such that acquisition capacity for minerals increases in concert with carbon (C) uptake. Compensatory adjustments such as increases in (a) root mycorrhizal infection, (b) root-to-shoot ratio and changes in root morphology and architecture, (c) root nutrient absorption capacity, and (d) nutrient-use efficiency can enable plants to meet an increased nutrient demand under high CO₂. Here we examine the literature to assess the extent to which these mechanisms have been shown to respond to high CO₂. The literature survey reveals no consistent pattern either in direction or magnitude of responses of these mechanisms to high CO₂. This apparent lack of a pattern may represent variations in experimental protocol and/or interspecific differences. We found that in addressing nutrient uptake responses to high CO₂ most investigators have examined these mechanisms in isolation. Because such mechanisms can potentially counterbalance one another, a more reliable prediction of elevated CO₂ responses requires experimental designs that integrate all mechanisms simultaneously. Finally, we present a functional balance (FB) model as an example of how root system adjustments and nitrogen-use efficiency can be integrated to assess growth responses to high CO₂. The FB model suggests that the mechanisms of increased N uptake highlighted here have different weights in determining overall plant responses to high CO₂. For example, while changes in root-to-shoot biomass allocation, r, have a small effect on growth, adjustments in uptake rate per unit root mass, [`(n)]\bar \nu , and photosynthetic N use efficiency, p*, have a significantly greater leverage on growth responses to elevated CO₂ except when relative growth rate (RGR) reaches its developmental limit, maximum RGR (RGR_max).     

The utilisation of glucose/acetate mixtures by Escherichia coli W3110 under aerobic growth conditions

Byproduct acetate is of major concern when considering the growth of Escherichia coli on glucose. Besides the fact that acetate production detracts from the overall yield, acetate itself is also a growth inhibitor. To further complicate matters, E. coli is capable of growth on acetate via the glyoxylate bypass. In an effort to evaluate the influence of acetate on the growth of E. coli, mixed glucose/acetate substrate batch and continuous cultivations have been carried out. The results have been examined in the context of their implications for industrial-scale bioreactors. It was found that acetate was growth inhibitory at relatively low concentrations <1.25 g/l. A batch culture supplied with both glucose and acetate utilised glucose in preference to acetate. Simultaneous utilisation of substrates was observed in continuous cultures at low imposed growth rates, i.e., below ca. 0.30 h^у.     

Direct and indirect effects of zooplankton on algal composition in in situ grazing experiments

To examine both direct and indirect effects of macrozooplankton on phytoplankton species in Lake Biwa, we conducted in situ grazer-gradient experiments under different nutrient levels in summer, when Daphnia galeata dominated, and in autumn, when Eodiaptomus japonicus dominated. The experiments revealed that grazing pressure on phytoplankton was highly dependent on zooplankton species composition. Smaller phytoplankton species such as Stephanodiscus carconensis were more grazed when D. galeata was abundant, whereas large colonial diatom species such as Aulacoseira granulata were preferentially grazed when E. japonicus dominated. In addition, indirect effect of macrozooplankton through nutrient regeneration was suggested, although the magnitude of nutrient regeneration effects seemed to differ between D. galeata and E. japonicus. Specifically, growth rates of Sphaerocystis schroeteri were stimulated more by E. japonicus than by D. galeata. Macrozooplankton also enhanced the growth rates of colonial cyanobacteria such as Microcystis incerta, probably through decreasing the density of microzooplankton grazers (ciliates and rotifers). The results suggest that the effects of large zooplankton on phytoplankton populations are species-specific and cannot be understood without consideration of changes in abundance of other components of plankton communities.     

Resources and the flexible allocation of work in the desert ant, Aphaenogaster cockerelli

Summary: Social insect colonies can respond to changes in resource availability by altering their foraging behavior. Colonies of the desert ant, Aphaenogaster cockerelli, responded to experimental changes in the distribution and type of available resources by adjusting the numbers of ants engaged in foraging and other tasks outside the nest, and by adjusting the temporal patterns of these activities. Colonies foraged more intensely for protein resources than for seed resources, and for high-density resources more than for low-density resources. This flexible allocation and resource use may promote coexistence with interspecific competitors such as ants in the genus Myrmecocystus.     

Reactor kinetics for submerged aerobic biofilms

Sclerotium rolfsii ATCC 15205 was cultivated in continuous culture (48 l reactor volume) for scleroglucan production. The maximum volumetric productivity (Q_Pvmax) amounted to 7.2 g/ld and was more than twice as high as in comparable batchwise cultivations. In addition, the relation between (a) volumetric productivity (Q_P [g/ld]) and product yield (Y_{Glucan/Glucose} [1]), (b) volumetric productivity and product quality (M_W [g/mol]), and (c) product quality and impeller tip speed (Nd [m/s]) was studied in continuous culture. It was found, that an increase in volumetric productivity led to a decline in product yield and product quality. Furthermore, an impeller tip speed of >0.7 m/s decreased the attainable product quality considerably. Based on these results, the impact of the operational setpoint of the process in terms of oxygen supply and reactor scale on the economics of scleroglucan production was discussed. In contrast to batchwise cultivation, scleroglucan production in continuous culture proved to be not feasible under non-aseptic conditions.     

Growth rate and body weight of foundress-reared offspring in a paper wasp, <Emphasis Type="Italic">Polistes chinensis</Emphasis> (Hymenoptera,Vespidae): no influence of food quantity on the first offspring

Summary. Laboratory experiments with Polistes chinensis (Pérez) showed that growth rates and weights of the first-hatched offspring were not different between food-available and food-deficient conditions. In food-deficient colonies, some first-hatched offspring grew quickly, but their dry weights were not different from that of later offspring. The present results suggest that foundresses of P. chinensis may intensively feed some first-hatched larvae to produce the first workers quickly under food-deficient conditions. Since food availability of field foundresses of this species has been estimated as very low, it seems likely that they may produce the first offspring as early as possible by such feeding. On the other hand, heavier offspring were produced when extra food is available, especially in the latter half of the order of emergence. Foundresses of this species may change the amount of prey fed to each larva in response to food availability.     

Influences of yeast extract on specific cellular yield of Ovine growth hormone during fed-batch fermentation of E. coli

In most cases of E. coli high cell density fermentation process, maximizing cell concentration helps in increasing the volumetric productivity of recombinant proteins usually at the cost of lower specific cellular protein yield. In this report, we describe a process for maintaining the specific cellular yield of Ovine growth hormone (oGH) from E. coli by optimal feeding of yeast extract during high cell density fermentation process. Recombinant oGH was produced as inclusion bodies in Escherichia coli. Specific cellular yield of recombinant oGH was maintained by feeding yeast extract along with glucose during fed-batch fermentation. Glucose to yeast extract ratio of 0.75 was found to be optimum for maintaining the specific cellular oGH yield of 66 mg/g of E. coli cells. Continuous feeding of yeast extract along with glucose helped in reducing acetic acid secretion and promoted higher cell growth during fed-batch fermentation. High cell growth of E. coli and high specific yield of recombinant oGH thus helped in achieving high volumetric productivity of the expressed protein. A maximum of 2 g/l of ovine growth hormone was expressed as inclusion bodies in 12 h of fed-batch fermentation.     

Performance of reciprocally sown populations of Senecio vulgaris from ruderal and agricultural habitats

Senecio vulgaris from ruderal habitats may colonise crop fields and persist in the new environment. Persistence may occur through phenotypic plasticity or genetic differentiation. In the presence of genetic variation, differential responses of life history traits to selection may lead to local adaptation. A reciprocal seed transplant experiment was conducted to determine environmental and genetic variation of life history traits in S. vulgaris from ruderal and agricultural habitats, and whether infection by the rust Puccinia lagenophorae is a selection factor in S. vulgaris populations. Emergence, growth and fecundity showed environmental as well as genetic variation, as shown by a significant site and origin effect. However, there was no evidence of local adaptation, as indicated by the absence of significant origin by site interactions. Genetic variation in emerging seedling numbers seems to be important for S. vulgaris, an annual plant which has no means other than seed production for propagation. Seedling survival was solely under environmental control stressing the importance of stochastic events for plant mortality. Most S. vulgaris from ruderal sites showed reduced growth, but still reached reproduction, suggesting that S. vulgaris is following the plastic strategy of a stress tolerator to endure unfavourable environments. Plants at most agricultural sites behaved like r-strategists, exploiting a productive environment for rapid plant growth and maximising reproduction. Emergence, survival, growth and fecundity were higher at the agricultural sites. Infection by the rust occurred at all sites, with the highest incidence at the agricultural sites, and was solely determined by the environment. A higher incidence did not result in an increased disease impact on plant growth and reproduction nor did it affect survival of S. vulgaris. Although the majority of life-history traits studied showed phenotypic and genetic variation, which can both be subject to natural selection, no adaptation of S. vulgaris to its local environment was detected.     

Acclimation to sudden increase in light favoring an invasive over native trees in subtropical islands, Japan

Bischofia javanica Blume, an exotic tree, dominates many forest areas of the Bonin Islands in the western Pacific of Japan. The aim of this study was to test the hypothesis that the success of B. javanica (a mid-successional plant species) is related to its high acclimation capacity to sudden light increase due to canopy gap formation. We compared its ecophysiological response to simulated canopy opening with those of native species of different successional status: Trema orientalis Blume, Schima mertensiana (Sieb, et Zucc.) Koidz, Elaeocarpus photiniaefolius Hook.Et Arn. and Ardisia sieboldii Miquel. In all species, transfer of leaves developed in shade (5.3% of full sun) to full sun resulted in a substantial initial reduction in the dark-adapted quantum yield of photosystem II (Fv/Fm). T. orientalis, a pioneer plant species, showed the least reduction (38%), whereas E. photiniaefolius and A. sieboldii, both late-successional plant species, demonstrated large reductions (about 80%). In all four native species, Fv/Fm in shade leaves gradually recovered following transfer, but B. javanica recovered more fully and rapidly than the other species. Unlike Fv/Fm, the chlorophyll content in all species did not recover following the initial decline. This indicates that the recovery of quantum yield (Fv/Fm) was independent of the reduction in chlorophyll. Among all the species, B. javanica showed the highest (1) increase in maximum photosynthetic rate of shade leaves after transfer, (2) production of newly formed sun leaves, and (3) increase in relative growth rate. Ecophysiological characters of B. javanica in simulated canopy openings indicated rapid photosynthetic acclimation in existing shade leaves by minimizing photoinhibition and a rapid deployment of new sun leaves with high photosynthetic capacity. Because its habitats on these Pacific Islands are prone to typhoon disturbance, the successful invasion of B. javanica may lie in the congruence of its acclimation potential and the frequent gap events.     

Comparative study of the fermentation of D-glucose/D-xylose mixtures with Pachysolen tannophilus and Candida shehatae

We have performed a comparative analysis of the fermentation of the solutions of the mixtures of D-glucose and D-xylose with the yeasts Pachysolen tannophilus (ATCC 32691) and Candida shehatae (ATCC 34887), with the aim of producing bioethanol. All the experiments were performed in a batch bioreactor, with a constant aeration level, temperature of 30v°C, and a culture medium with an initial pH of 4.5. For both yeasts, the comparison was established on the basis of the following parameters: maximum specific growth rate, biomass productivity, specific rate of substrate consumption (q_s) and of ethanol production (q_E), and overall ethanol and xylitol yields. For the calculation of the specific rates of substrate consumption and ethanol production, differential and integral methods were applied to the kinetic data. From the experimental results, it is deduced that both Candida and Pachysolen sequentially consume the two substrates, first D-glucose and then D-xylose. In both yeasts, the specific substrate-consumption rate diminished over each culture. The values q_s and q_E proved higher in Candida, although the higher ethanol yield was of the same order for both yeasts, close to 0.4 kg kg^у.     

An interactive effect of simultaneous death of dwarf bamboo, canopy gap, and predatory rodents on beech regeneration

To clarify the interactive effect of the simultaneous death of dwarf bamboo (Sasa kurilensis), forest canopy gap formation, and seed predators on beech (Fagus crenata) regeneration, we analyzed beech demography from seed fall until the end of the first growing season of seedlings in an old-growth forest near Lake Towada, northern Japan. The simultaneous death of S. kurilensis took place in 1995. We established four types of sampling site differing in forest canopy conditions (closed or gap) and Sasa status (dead or alive). Beech seed survival and emergence ratio were both highest in gaps with dead Sasa (gap-dead), because rate of predation was lowest. Seedling survival during the first growing season was also highest in the gap-dead treatment, because of less predation and less damping off. As a result, even though density of seed fall was lowest in the gap-dead treatment, the living seedling density there was highest at the end of the first growing season. Predation, which caused the greatest mortality during the seed and seedling stages, was significantly lower at both sites in gaps and sites with dead Sasa. This was probably due to changes in the behavior of rodents in response to the structure of the forest canopy and undergrowth. Both the death of Sasa and canopy gap formation allowed seedlings to avoid damping off because of the high light availability. The indirect effect of the simultaneous death of Sasa and canopy gap formation in reducing predation contributed more to beech regeneration than their direct effect in increasing light for the seedlings.