Characterization of a Paracoccus denitrificans mutant pleiotropically impaired in nitrogen metabolism

A Tn5 insertional prototrophic mutant of Paracoccus denitrificans (UBM219) was generated which grew on high (>1 mM) but not low (<0.5 mM) ammonium as sole nitrogen source. It did not utilize nitrate and most amino acids except glutamate and aspartate. UBM219 showed more than 10-fold lower levels of ammonium (methylammonium) transport, aspartate and alanine aminotransferase, but more than 10-fold higher activities of glutamate dehydrogenase and glutamate synthase. This pleiotropy indicates a mutation in a regulatory gene affecting nitrogen metabolism in general. — Ammonia assimilation pathways and regulation in Paracoccus resemble the patterns in enterobacteria with the exception, that alanine is generated by amino transfer from glutamate to pyruvate.Non-standard abbreviations GS glutamine synthetase - GOGAT glutamate synthase - GluDH glutamate dehydrogenase - GPT glutamate/pyruvate aminotransferase - GOT glutamate/oxaloacetate aminotransferase     

Molecular structure and genetic regulation of SFA, a gene responsible for resistance to formaldehyde in Saccharomyces cerevisiae, and characterization of its protein product

Summary A 3.7 kb DNA fragment of yeast chromosome IV has been sequenced that contains the SFA gene which, when present on a multi-copy plasmid in Saccharomyces cerevisiae, confers hyper-resistance to formaldehyde. The open reading frame of SFA is 1158 by in size and encodes a polypeptide of 386 amino acids. The predicted protein shows strong homologies to several mammalian alcohol dehydrogenases and contains a sequence characteristic of binding sites for NAD. Overexpression of the SFA gene leads to enhanced consumption of formaldehyde, which is most probably the reason for the observed hyper-resistance phenotype. In sfa:LEU2 disruption mutants, sensitivity to formaldehyde is correlated with reduced degradation of the chemical. The SFA gene shares an 868 by divergent promoter with UGX2 a gene of yet unknown function. Promoter deletion studies with a SFA promoter-lacZ gene fusion construct revealed negative interference on expression of SFA by upstream sequences. The upstream region between positons – 145 and – 172 is totally or partially responsible for control of inducibility of SFA by chemicals such as formaldehyde (FA), ethanol and methyl methanesulphonate. The 41 kDa SFA-encoded protein was purified from a hyper-resistant transformant; it oxidizes long-chain alcohols and, in the presence of glutathione, is able to oxidize FA. SFA is predicted to code for a long-chain alcohol dehydrogenase (glutathione-dependent formaldehyde dehydrogenase) of the yeast S. cerevisiae.     

Contribution of physiological and morphological plant traits to a species' competitive ability at high and low nitrogen supply

Why do inherently fast-growing species from productive habitats generally have a higher rate of biomass production in short-term low-nitrogen experiments than slow-growing species from unproductive habitats, whereas the opposite is found in long-term experiments? Is this mainly due to inherent differences in biomass allocation, leaf characteristics or the plants' physiology? To analyse these questions we grew five monocotyledonous species from productive and unproductive habitats in a climate chamber at both high and low nitrogen supply. Nitrate was supplied exponentially, enabling us to compare inherent differences in morphological and physiological traits between the species, without any interference due to differences in the species' ability to take up nutrients. At high nitrogen supply, we found major inherent differences in specific leaf area and nitrogen productivity, i.e. daily biomass increment per unit plant nitrogen, where-as there were only small differences in net assimilation rate, i.e. daily biomass increment per unit leaf area, and biomass partitioning. We propose that the higher specific leaf area and nitrogen productivity of inherently fast-growing species are the key factors explaining their high abundance in productive habitats compared with inherently slow-growing ones. At low nitrogen supply, the net assimilation rate was decreased to a similar extent for all species, compared with that at high nitrogen supply. The nitrogen productivity of the inherentlyfast-growing species decreased with decreasing nitrogen supply, whereas that of the inherently slow-growing species remained constant. There were no inherent differences in nitrogen productivity in this treatment. At this low nitrogen supply, the inherently fast-growing species invested relatively more biomass in their roots that the slow-growing ones did. The inherently fast-growing species still had a higher specific leaf area at low nitrogen supply, but the difference between species was less than that at high nitrogen supply. Based on the present results and our optimization model for carbon and nitrogen allocation (Van der Werf et al. 1993a), we propose that the relatively large investment in root biomass of fast-growing species is the key factor explaining their higher biomass production in short-term experiments. We also propose that in the long run the competitive ability of the slow-growing species will increase due to a lower turnover rate of biomass. It is concluded that the plant's physiology (net assimilation rate and nitrogen productivity), only plays a minor role in the species' competitive ability in low-nitrogen environments.     

Seasonal accumulation and partitioning of nitrogen by lentil

Although wheat (Triticum aestivum L.) is the dominant crop of the semi-arid plains of Canada and the western United States, lentil (Lens culinaris Medik.) has become an important alternative crop. Sources and seasonal accumulation of N must be understood in order to identify parameters that can lead to increased N₂-fixing activity and yield. Inoculated lentil was grown in a sandy-loam soil at an irrigated site in Saskatchewan, Canada. Wheat was used as the reference crop to estimate N₂ fixation by the A-value approach. Lentil and wheat received 10 and 100 kg N ha⁻¹ of ammonium nitrate, respectively. Crops were harvested six times during the growing season and plant components analyzed. During the first 71 days after planting the wheat had a higher daily dry matter and N accumulation compared to lentil. However, during the latter part of the growing season, daily dry matter and N accumulation were greater for lentil. The maximum total N accumulation for lentil at maturity was 149 kg ha⁻¹. In contrast, wheat had a maximum N accumulation of 98 kg ha⁻¹ in the Feekes 11.1 stage, or 86 days after planting. The maximum daily rates of N accumulation were 3.82 kg N ha⁻¹ day⁻¹ for lentil and 2.21 kg N ha⁻¹ day⁻¹ for wheat. The percentage of N derived from N₂ fixation (% Ndfa) ranged from 0 at the first harvest to 92 % at final harvest. Generative plant components had higher values for % Ndfa than the vegetative components which indicates that N in the reproductive plant parts was derived largely from current N₂ fixation and lentil continued to fix N until the end of the pod fill stage. At final harvest, lentil had derived 129 kg N ha⁻¹ from N₂ fixation with maximum N₂-fixing activity (4.4 kg N ha⁻¹ day⁻¹) occurring during the early stages of pod fill. Higher maximum rates of N₂-fixing activity than net N accumulation (3.82 kg N ha⁻¹ day⁻¹) may have been caused by N losses like volatilization. In addition, lentil provided a net N contribution to the soil of 59 kg ha⁻¹ following the removal of the grain.     

Regulation by ammonium and glucose of Arthrobacter fluorescens alanine dehydrogenase

Alanine dehydrogenase in Arthrobacter fluorescens exhibited an allosteric behaviour and two K _m values for ammonium were estimated. In batch cultures at different ammonium concentrations and in continuous culture following an NH₄ ⁺ pulse, the level of ADH activity seems to be regulated by the ammonium concentration, high activities being observed when extracellular ammonium was in excess. The response to the growth rate of an ammonium-limited chemostat culture of A. fluorescens seems to indicate that alanine dehydrogenase and glutamine synthetase activities were inversely related. High activities of glutamate oxaloacetate transaminase and glutamate pyruvate transaminase have been found in crude extract of ammonium-limited cultures. From the results obtained in batch cultures grown at different glucose concentrations and in carbon-limited chemostat culture it appeared that the limitation by glucose influenced alanine dehydrogenase activity negatively. No glutamate dehydrogenase activity and no glutamate synthase activity could be detected with either NADH or NADPH as coenzymes.Abbreviations ADH alanine dehydrogenase - GS glutamine synthetase - GDH glutamate dehydrogenase - GOGAT glutamine oxoglutarate aminotransferase - GOT glutamate oxaloacetate transaminase - GPT glutamate pyruvate transaminase     

Photosynthate costs associated with the utilization of different nitrogen–forms: influence on the carbon balance of plants and shoot–root biomass partitioning

The photosynthate costs of processes (amino acid and protein synthesis and turnover, and pH regulation) associated with the utilization of nitrate (NO₃⁻), ammonium (NH₄⁺) or glutamine (Gln) for plant growth were estimated. Based on these estimates, the effects of these forms of nitrogen (N) on the carbon balance of plants and on shoot–root biomass allocation were evaluated. The results indicated that NO₃⁻ as an N source for plant growth is not substantially more expensive to utilize than either NH₄⁺ or Gln, particularly in the long term when costs due to protein turnover dominate the total costs of N utilization. It is also suggested that the photosynthate use in processes associated with N assimilation has little impact on the carbon balance of plants, and hence on shoot–root biomass allocation.     

Food assimilation of a neotropical riverine detritivorous fish, Prochilodus lineatus, studied by fatty acid composition (Pisces, Curimatidae)

Food assimilation by the detritivorous fish Prochilodus lineatus, throughout a life cycle, was studied by means of fatty acid analysis. Fish length ranged from 2.7 to 55 cm and weight from 2 to 2670 g. Samples for fatty acid determination were taken from the mesenteric deposit in adults and from the whole fish in juveniles. Phyto and zooplankton, and superficial mud were also studied. Samples were taken from the principal channel of the Paraná River and lentic environments in its alluvial plain (60 ° 29W and 31 ° 40S). Fatty acids in the smaller fish (2.8–3.8 cm) indicated the assimilation of zoo and phytoplankton. Longer P. lineatus have a fat-deficient diet, particularly in polyunsaturated acids. At different stages of life, P. lineatus is adapted to different sources of food. When young, it eats zoo- and phytoplankton, becomes gradually detritivorous and has a series of adaptations of the digestive tract (morphological and histological) to enable it to assimilate detritus.     

Changes in intracellular amino acids and organic acids induced by nitrogen starvation and nitrate or ammonium resupply in the cyanobacterium Phormidium laminosum

In Phormidium laminosum cells, nitrogen starvation caused a decrease in the intracellular levels of all amino acids, except glutamate, and an increase in the total level of the analyzed organic acids. The addition of nitrate or ammonium to N-starved cells resulted in substantial increases in the pool size of most amino acids. Upon addition of ammonium the total level of organic acids diminished, whereas it increased upon addition of nitrate, after a transient decay during the first minutes. Nitrogen resupply stimulated amino acid synthesis, the effect being faster and higher when ammonium was assimilated. The data indicate that nitrate and ammonium assimilation induced an enhancement of carbon flow through the glycolytic and the tricarboxylic-acid pathways to amino acid biosynthesis, with a concurrent decrease in the carbohydrate reserves. The results suggest that the availability of carbon skeletons limited the rate of ammonium assimilation, whereas the availability of reducing equivalents limited the rate of nitrate assimilation.Abbreviations Chl chlorophyll - GOGAT ferredoxin-dependent glutamate synthase (EC 1.4.7.1) - GS glutamine synthetase (EC 6.3.1.2) This work has been supported by grants from the Spanish Ministry of Education and Science (DGICYT and PB92-0464) and the University of the Basque Country (042.310-EC203/94) M.I.T. and J.A.G. were the recipients of fellowships from the Basque Government.