Copper requirement and its influence on the growth of the obligate methylotrophic bacterial strain 4025

Summary Requirement of copper for growth of the obligate methanol-utilizing bacterium, strain 4025 was investigated. Strong demand for copper compounds was determined in the surface growth on methanol and methylamine. A pronounced requirement for copper and iron was evident during submerged growth of the strain on methanol; both elements affected growth and methanol utilization of the cultures. The optimal concentration of several copper compounds was 1.2 moles per liter. The copper effect was more pronounced with ammonium than with nitrate as the nitrogen source.     

Substrate stimulation of para-aminohippuric acid transport: effect on uptake and runout.

The ability of penicillin pretreatment to increase PAH accumulation by slices of newborn rabbit renal cortex was dissected into two components, uptake and runout. The oxygen-requiring component of the uptake process was significantly enhanced by penicillin treatment, whereas runout was unaffected. Kinetically, the data suggest that penicillin alters the affinity of the transport system for PAH. Due to the limitations of such a kinetic analysis, no conclusions may be drawn from such a suggestion. However, it may be concluded that penicillin pretreatment increases renal accumulation of PAH solely by stimulating the uptake process. Elucidation of the molecular changes involved will require techniques more sophisticated than uptake into renal cortical slices.     

Substrate specificity of the Escherichia coli maltodextrin transport system and its component proteins

Maltooligosaccharides up to maltoheptaose are transported by the maltodextrin transport system of Escherichia coli. The overall substrate specificity of the transport system was investigated by using 15 maltodextrin analogues with various modifications at the reducing end of the oligosaccharides as competing substrates. The binding interaction of the analogues with maltoporin in the outer membrane and the periplasmic maltose-binding protein, the two protein components of the transport system with known specificity for maltodextrins, was also investigated. All analogues containing several α,1 → 4-glucosyl linkages were bound with high affinity by maltoporin and maltose-binding protein, regardless of O-methyl, O-nitrophenyl, β-glucosyl or β-fructosyl substitutions at the reducing end of the dextrins. Introduction of a negative charge or lack of a ring structure at the reducing end were also ineffective in abolishing binding by these two proteins. These results suggest that the structure of the reducing glucose is not important in the binding specificity of maltoporin or maltose-binding protein. However, the high affinity of these proteins for analogues was not in itself sufficient for recognition by the transport system overall. Maltohexaitol, 4-nitrophenyl α-maltotetraoside and 4-β-d-maltopentaosyl-d-glucopyranose were bound with the same affinity as comparable maltodextrins by both maltoporin and maltose-binding protein but were poorly recognized by the transport system. These results suggest that another, yet uninvestigated component of the transport system has a more restricted specificity towards changes at the reducing end of the maltodextrin molecule.     

Flocculation and its effect on the vertical transport of fine-grained sediments

Recent experimental and theoretical work on flocculation and settling speeds of flocs is reviewed. On the basis of this work, an accurate and computationally efficient model of the aggregation and disaggregation of fine-grained sediments is proposed. This model is then used to predict flocculation times and steady-state floc sizes for a wide range of environmental conditions. The predicted flocculation times are smaller, sometimes by as much as two orders of magnitude, than those predicted by mono-disperse theory. The model is also used to show that the disaggregation of flocs due to increased shear near the sediment-water interface may be a possible mechanism for the increased concentrations often observed near this interface.     

PIF genes mediate the effect of sucrose on seedling growth dynamics

As photoautotrophs, plants can use both the form and amount of fixed carbon as a measure of the light environment. In this study, we used a variety of approaches to elucidate the role of exogenous sucrose in modifying seedling growth dynamics. In addition to its known effects on germination, high-resolution temporal analysis revealed that sucrose could extend the number of days plants exhibited rapid hypocotyl elongation, leading to dramatic increases in ultimate seedling height. In addition, sucrose changed the timing of daily growth maxima, demonstrating that diel growth dynamics are more plastic than previously suspected. Sucrose-dependent growth promotion required function of multiple phytochrome-interacting factors (PIFs), and overexpression of PIF5 led to growth dynamics similar to plants exposed to sucrose. Consistent with this result, sucrose was found to increase levels of PIF5 protein. PIFs have well-established roles as integrators of response to light levels, time of day and phytohormone signaling. Our findings strongly suggest that carbon availability can modify the known photomorphogenetic signaling network.     

Purification of the formate-tetrahydrofolate ligase from Methylobacterium extorquens AM1 and demonstration of its requirement for methylotrophic growth

The serine cycle methylotroph Methylobacterium extorquens AM1 contains two pterin-dependent pathways for C(1) transfers, the tetrahydrofolate (H(4)F) pathway and the tetrahydromethanopterin (H(4)MPT) pathway, and both are required for growth on C(1) compounds. With the exception of formate-tetrahydrofolate ligase (FtfL, alternatively termed formyl-H(4)F synthetase), all of the genes encoding the enzymes comprising these two pathways have been identified, and the corresponding gene products have been purified and characterized. We present here the purification and characterization of FtfL from M. extorquens AM1 and the confirmation that this enzyme is encoded by an ftfL homolog identified previously through transposon mutagenesis. Phenotypic analyses of the ftfL mutant strain demonstrated that FtfL activity is required for growth on C(1) compounds. Unlike mutants defective for the H(4)MPT pathway, the ftfL mutant strain does not exhibit phenotypes indicative of defective formaldehyde oxidation. Furthermore, the ftfL mutant strain remained competent for wild-type conversion of [(14)C]methanol to [(14)C]CO(2). Collectively, these data confirm our previous presumptions that the H(4)F pathway is not the key formaldehyde oxidation pathway in M. extorquens AM1. Rather, our data suggest an alternative model for the role of the H(4)F pathway in this organism in which it functions to convert formate to methylene H(4)F for assimilatory metabolism.     

Cytoskeletal dynamics and transport in growth cone motility and axon guidance

Recent studies indicate the actin and microtubule cytoskeletons are a final common target of many signaling cascades that influence the developing neuron. Regulation of polymer dynamics and transport are crucial for the proper growth cone motility. This review addresses how actin filaments, microtubules, and their associated proteins play crucial roles in growth cone motility, axon outgrowth, and guidance. We present a working model for cytoskeletal regulation of directed axon outgrowth. An important goal for the future will be to understand the coordinated response of the cytoskeleton to signaling cascades induced by guidance receptor activation.     

Stimulation of the growth and respiration of a methylotrophic bacterium by morphine.

The growth of a pseudomonad on methanol was stimulated by the presence of morphine (or codeine) in the medium. The drug appeared to influence the amount of growth rather than its rate. Respiration of resting cells on a variety of substrates was stimulated by adding morphine. This report appears to be the first case of a microorganism whose growth and respiration is stimulated by an opiate.     

Inhibition by itaconate of growth of methylotrophic bacteria.

The effects of the isocitrate lyase-directed growth inhibitor itaconate on the growth of certain methylotrophic organisms was investigated. It was found that growth of those organisms possessing the Icl(+)-serine pathway of one-carbon metabolism was inhibited during growth on methylamine and on acetate, but not on glucose. Organisms possessing the Icl(-)-serine pathway pathway were unaffected. Organism PAR, an Icl(-)-serine pathway type, was not specifically inhibited during growth on acetate. This finding further substantiates previous reports of the lack of isocitrate lyase in this organism, indicating a totally new pathway for acetate assimilation.     

Peroxisomal catalase in the methylotrophic yeast Candida boidinii: transport efficiency and metabolic significance

In this study we cloned CTA1, the gene encoding peroxisomal catalase, from the methylotrophic yeast Candida boidinii and studied targeting of the gene product, Cta1p, into peroxisomes by using green fluorescent protein (GFP) fusion proteins. A strain from which CTA1 was deleted (cta1Delta strain) showed marked growth inhibition when it was grown on the peroxisome-inducing carbon sources methanol, oleate, and D-alanine, indicating that peroxisomal catalase plays an important nonspecific role in peroxisomal metabolism. Cta1p carries a peroxisomal targeting signal type 1 (PTS1) motif, -NKF, in its carboxyl terminus. Using GFP fusion proteins, we found that (i) Cta1p is transported to peroxisomes via its PTS1 motif, -NKF; (ii) peroxisomal localization is necessary for Cta1p to function physiologically; and (iii) Cta1p is bimodally distributed between the cytosol and peroxisomes in methanol-grown cells but is localized exclusively in peroxisomes in oleate- and D-alanine-grown cells. In contrast, the fusion protein GFP-AKL (GFP fused to another typical PTS1 sequence, -AKL), in the context of CbPmp20 and D-amino acid oxidase, was found to localize exclusively in peroxisomes. A yeast two-hybrid system analysis suggested that the low transport efficiency of the -NKF sequence is due to a level of interaction between the -NKF sequence and the PTS1 receptor that is lower than the level of interaction with the AKL sequence. Furthermore, GFP-Cta1pDeltankf coexpressed with Cta1p was successfully localized in peroxisomes, suggesting that the oligomer was formed prior to peroxisome import and that it is not necessary for all four subunits to possess a PTS motif. Since the main physiological function of catalase is degradation of H2O2, suboptimal efficiency of catalase import may confer an evolutionary advantage. We suggest that the PTS1 sequence, which is found in peroxisomal catalases, has evolved in such a way as to give a higher priority for peroxisomal transport to peroxisomal enzymes other than to catalases (e.g., oxidases), which require a higher level of peroxisomal transport efficiency.     

Src kinase modulates the activation, transport and signalling dynamics of fibroblast growth factor receptors

The non-receptor tyrosine kinase Src is recruited to activated fibroblast growth factor receptor (FGFR) complexes through the adaptor protein factor receptor substrate 2 (FRS2). Here, we show that Src kinase activity has a crucial role in the regulation of FGFR1 signalling dynamics. Following receptor activation by ligand binding, activated Src is colocalized with activated FGFR1 at the plasma membrane. This localization requires both active Src and FGFR1 kinases, which are inter-dependent. Internalization of activated FGFR1 is associated with release from complexes containing activated Src. Src-mediated transport and subsequent activation of FGFR1 require both RhoB endosomes and an intact actin cytoskeleton. Chemical and genetic inhibition studies showed strikingly different requirements for Src family kinases in FGFR1-mediated signalling; activation of the phosphoinositide-3 kinase-Akt pathway is severely attenuated, whereas activation of the extracellular signal-regulated kinase pathway is delayed in its initial phase and fails to attenuate.     

Adaptive feeding across environmental gradients and its effect on population dynamics

This paper analyzes a consumer's adaptive feeding response to environmental gradients. We consider a consumer-resource system where resources are distributed among many discrete resource patches. Each consumer exhibits a feeding morphology allowing it to remove resources from a patch down to some threshold density (or level) before having to seek resources elsewhere. Assuming consumers trade off resource extraction with patch access and predation, we show that for a given environment there often exists a single evolutionarily stable feeding threshold and it is an evolutionary attractor. We then investigate how the population dynamics of the resource and the consumer change as the environment changes. Two cases are considered: (i) all consumers exhibit a fixed feeding threshold that is adaptive for an intermediate environment; and (ii) the consumer population adapts and adopts the evolutionarily stable feeding threshold associated with the current environment. In less harsh environments (i.e., environments where consumers experience a lower risk of predation, or environments where resource patches are more abundant) the adaptive consumer population is predicted to evolve so that resources within a patch are depleted to lower densities. We show that the change in consumer density due to environmental change can be rather different depending on whether or not the population can adapt. In some situations we observe that when the consumer's environment becomes harsher, the consumer population may increase in density before a rapid crash to extinction. This result has implications for monitoring and managing a population.     

Modeling immune response and its effect on infectious disease outbreak dynamics

Background

In recent epidemiological models, immunity is incorporated as a simplified value that determines the capacity of an individual to become infected or to transmit the disease. Moreover, the quality of the immune response determines the chances of infection and the length of time an individual is capable to infect others. We present a model that incorporates individuals’ immune responses to, further, examine the role of the collective immune response of individuals in a population during an infectious outbreak.

Methods

We constructed a contagion model that incorporates the collective immune response of individuals represented by the superposition of individual immune responses (PIR). Multiple probability distributions are used to represent the immunocompetence of different age groups, thereby modeling the concept of Population Immune Response (PIR). Multiple experiments were conducted in which the population is divided in different age groups for which each group has a unique immune response quality and thus a different length for its immune periods. Finally, we explored the effects of implementing different vaccination strategies in the population.

Results

The experiments displayed important variations in the outbreak dynamics as a consequence of incorporating PIR in homogeneous and mixed populations. The experiments showed that individuals with weak immune responses and those who are immune to the pathogen play a significant role in shaping the outbreak dynamics. Finally, after implementing different vaccination strategies, the results suggest that if vaccination resources are limited, the vaccination should be targeted towards individuals that spread the disease for a longer period of time.

Conclusions

Our results suggest that it is essential for the public health establishment to increase their understanding of the characteristics of regional demographics that could impact the quality of the immune response of the individuals. The results indicate that it is necessary to further investigate mitigation strategies to limit the capacity to transmit the disease by individuals that spread the pathogen for extended periods of time. Ultimately, this study suggests that it is crucial for public health researchers to identify appropriate targeted vaccination regimes and to explore the link between PIR and outbreak dynamics to improve the monitoring and mitigating efforts of ongoing and future epidemics.

     

Biochemical properties of pigeon milk and its effect on growth

Summary The avian juvenile food pigeon milk was studied for its chemical composition and effect on growth in vivo and in vitro. Pigeon milk on a wet weight basis consisted of 9–13% protein, 9–11% fat, 0.9–1.5% carbohydrate, 0.8–1.1% ash, 0.10–0.12% non-protein nitrogen, energy content 5.6–6.8 kcal·g^-1. Except for proteins there was little or no decrease in pigeon milk constitutents during the first week of secretion. Pigeon milk proteins consisted of trichloroacetic acid (precipitable), trichloroacetic acid (soluble), and free amino acid components in the ranges 8.4–12.1%, 0.5–0.7% and 1.4–2.5%, respectively; whereas the level of trichloroacetic acid (precipitable) and trichloroacetic acid (soluble) components decreased by about 30%, that of the free amino acids increased by 9% in the first week. About 0.6–1.0% of pigeon milk sugar was found in the trichloroacetic acid (soluble) fraction and increased by 67% in the first week. The remainder was found in the trichloroacetic acid (precipitable) fraction and did not change during this period. Major lipids of pigeon milk were the neutral lipids (7.8–8.4%); the minor lipids were glycolipids (0.9–1.6%), phospholipids (0.5–1.4%) and cholesterol (0.5–0.6%). Squabs fed pigeon milk increased their body weight by 22-fold in the first 3 weeks after hatching, and crude extracts of pigeon milk stimulated the growth of cultured hamster ovary cells. These results reflect the ability of pigeon milk to stimulate growth both in vivo and in vitro.Abbreviations AOAC association of official analytical chemists - BRIT board of radiation and isotope technology - CHO chinese hamster ovary - DNA deoxyribonucleic acid - EDTA ethylenediaminetetra-acetic acid - FCS foetal calf serum - GF growth factor - GS goat serum - MEM minimum essential medium - NPN nonprotein nitrogen - PBS phosphate-buffered saline - PM pigeon milk - TCA(P) trichloroacetic acid precipitable fraction - TCA(S) trichloroacetic acid soluble fraction     

Shiga toxin facilitates its retrograde transport by modifying microtubule dynamics

The bacterial exotoxin Shiga toxin is endocytosed by mammalian host cells and transported retrogradely through the secretory pathway before entering the cytosol. Shiga toxin also increases the levels of microfilaments and microtubules (MTs) upon binding to the cell surface. The purpose for this alteration in cytoskeletal dynamics is unknown. We have investigated whether Shiga toxin-induced changes in MT levels facilitate its intracellular transport. We have tested the effects of the Shiga toxin B subunit (STB) on MT-dependent and -independent transport steps. STB increases the rate of MT-dependent Golgi stack repositioning after nocodazole treatment. It also enhances the MT-dependent accumulation of transferrin in a perinuclear recycling compartment. By contrast, the rate of MT-independent transferrin recycling is not significantly different when STB is present. We found that STB normally requires MTs and dynein for its retrograde transport to the juxtanuclear Golgi complex and that STB increases MT assembly. Furthermore, we find that MT polymerization is limiting for STB transport in cells. These results show that STB-induced changes in cytoskeletal dynamics influence intracellular transport. We conclude that the increased rate of MT assembly upon Shiga toxin binding facilitates the retrograde transport of the toxin through the secretory pathway.     

Modelling the effect of varying soil water on root growth dynamics of annual crops

We present a simple framework for modelling root growth and distribution with depth under varying soil water conditions. The framework considers the lateral growth of roots (proliferation) and the vertical extension of roots (root front velocity). The root front velocity is assumed to be constant when the roots descend into an initially wet soil profile. The lateral growth of roots is governed by two factors: (1) the current root mass or root length density at a given depth, and (2) soil water availability at that depth.Under non-limiting soil water conditions, the increase in root mass at any depth is governed by a logistic equation so that the root length density (R _v) cannot exceed the maximum value. The maximumR _v, is assumed to be the same for all depths. Additional dry matter partitioned to roots is initially distributed according to the current root mass at each depth. As the root mass approaches the maximum value, less dry matter is partitioned to that depth.When soil water is limiting, a water deficit factor is introduced to further modify the distribution of root dry matter. It is assumed that the plant is an energy minimiser so that more root mass is partitioned to the wetter regions of the soil where least energy will be expended for root growth. Hence, the model allows for enhanced root growth in areas where soil water is more easily available.Simulation results show that a variety of root distribution patterns can be reproduced due to varying soil water conditions. It has been demonstrated that broad patterns of root distribution reported in the literature can also be simulated by the model.     

Studies on the effect of toxin T-514 on the integrity of peroxisomes in methylotrophic yeasts

Abstract We have studied the response of two methylotrophic yeasts ( Hansenula polymorpha and Candida boidinii ) to toxin T-514, a toxin lethal to man, extracted from the shrub Karwinska homboldtiana . Growth experiments indicated a dose-response effect; at enhanced concentrations (50 μg/ml) the different subcellular organelles rapidly disintegrated resulting in death of the cultures. At non-lethal concentrations (<2 μg / ml ) growth ceased initially, but resumed after a lag period of 4 h. At the subcellular level a specific effect was observed on peroxisomal integrity. Distinct holes appeared in the peroxisomal membranes, resulting in leakage of matrix proteins from these organelles. In addition, import of newly synthesized proteins appeared to be blocked since cytosolic aggregates of matrix proteins were formed. The peroxisomal damage was probably irreversible since affected organelles were degraded at later stages of incubation. Upon restoration of growth on methanol, new peroxisomes developed from those which had escaped degradation.