Characterization of Aluminum and Manganese Tolerant Cell Lines Selected from Carrot Cell Cultures

Two carrot cell lines tolerant to aluminum and manganese wereselected from suspension cultures by subculturing cells in anexcessive amount of AlCl₃3 or MnCl₂ forseveral months, and theirproperties were investigated. The Al-tolerant cell line wasnot tolerant to Mn, and the Mn-tolerant cell line was not tolerantto Al. A cell line tolerant to both Al and Mn was obtained bysubculturing the Al-tolerant cell line in the presence of excessMn. Both the Al- and the Mn-tolerant lines had many more uniform,free cells and only a few small cell aggregates in comparisonto the nonselected parental cell line. Of the cells examinedat metaphase, about 50% of the selected cells had a chromosomenumber of 26 and about 50% of the nonselected cells had 28;a significant difference in the chromosome numbers of the twolines. The acquired Al-tolerance was stable because selectedcells retained their tolerance after prolonged subculture inthe absence of Al. The Al-tolerant cell line selected underthe stress of AlCl₃ was not tolerant to Al-EDTA, but was tolerantto gallium chloride, gallium belonging to the same group asAl in the Periodic Table. Aluminum gels, which formed in the medium after the additionof AlCl₃, gradually became soluble as the Al-tolerant cell culturegrew. This suggests that some chelating substance(s) releasedfrom the cells dissolves the Al-gels in the medium. (Received January 20, 1983; Accepted March 31, 1983)     

Utilization of Amino Acids as a Sole Source of Nitrogen by Obligate Chemolithoautotroph Thiobacillus ferrooxidans

An obligate chemolithoautotroph, Thiobacillus ferrooxidans API 9–3, could utilize amino acids, other than glycine, methionine and phenylalanine, as a sole source of nitrogen. However, both the growth rate and growth yield were lower than those in Fe²⁺-NH4 -salts medium, suggesting that the ammonium ion was a superior nitrogen source for the strain compared to amino acids. Methionine and phenylalanine strongly inhibited the cell growth on Fe²⁺-NH4-salts medium at 10 mm. [¹⁴C]Glycine could not be taken up into the cells, and this meant the strain could not use glycine as a sole source of nitrogen. The uptake of [¹⁴C]leucine into the cells was dependent on the presence of Fe^{2 +}. When the strain was cultured on Fe^{2 +} - leucine (lOmm)-salts medium lacking an inorganic nitrogen source for 5 days at 30°C, 83.5% and 16.5% of the cellular carbon were derived from carbon dioxide and leucine, respectively, indicating that carbon dioxide was a superior carbon source for the bacterium compared to leucine. The ammonium ion did not inhibit the utilization of leucine for cellular carbon. Leucine uptake was markedly inhibited by inhibitors of protein synthesis, such as chloramphenicol (94.3% at 1 mm), streptomycin (57.2% at 5mm) and rifampin (77.2% at 0.1 mm), respectively. Carbon dioxide uptake was also completely inhibited by chloramphenicol at 4mm. These results suggest that the transport of both amino acids and carbon dioxide into the cells was dependent on protein synthesis.     

Characteristics of Aluminum-Phosphate-Adapted Carrot Cells: Uptake and Utilization of the Phosphate

To elucidate the mechanism responsible for the superior growthof a selected line of carrot cells (Daucus carota L. cv MS Yonsun)in medium that contained AIPO₄, kinetic studies of the uptakeof phosphate and the efficiency of utilization of phosphatewere performed with the selected cells and the wild-type cells.When the two cell lines were grown in a medium with adequatesoluble phosphate (2 mM), there was no difference between theirgrowth rates. Rates of increase in fresh weight as a functionof increasing concentration of phosphate in the medium werealso identical between the cell lines, indicating that the efficiencyof utilization of phosphate by the selected cell line was similarto that by the wild-type cells. However, rate of uptake of phosphateby the selected cells under phosphate limited conditions (20µMNaH₂PO₄ at pH 5.6) was about 5-fold higher than that by thewild-type cells. Apparent K_m values for the uptake of phosphatewere calculated to be 13.6 and 9.1 µM for the selectedand the wild-type cells, respectively. The V_max valuewas estimatedto be 88.8 nmol per g fresh weight per min for the selectedcells and 28.2 for thewild-type cells. Thus, the selected cellshas an enhanced system for uptake of phosphate wherebytherewas an increase in the rate of the uptake without any dramaticchange in the affinity for phosphateions. (Received September 21, 1991; Accepted December 25, 1991)     

Genetics of the Synthesis of Serine from Glycine and the Utilization of Glycine as Sole Nitrogen Source by Saccharomyces Cerevisiae

Saccharomyces cerevisiae can grow on glycine as sole nitrogen source and can convert glycine to serine via the reaction catalyzed by the glycine decarboxylase multienzyme complex (GDC). Yeast strains with mutations in the single gene for lipoamide dehydrogenase (lpd1) lack GDC activity, as well as the other three 2-oxoacid dehydrogenases dependent on this enzyme. The LPD1 gene product is also required for cells to utilize glycine as sole nitrogen source. The effect of mutations in LPD1 (L-subunit of GDC), SER1 (synthesis of serine from 3-phosphoglycerate), ADE3 (cytoplasmic synthesis of one-carbon units for the serine synthesis from glycine), and all combinations of each has been determined. The results were used to devise methods for isolating mutants affected either in the generation of one-carbon units from glycine (via GDC) or subsequent steps in serine biosynthesis. The mutants fell into six complementation groups (gsd1-6 for defects in conversion of glycine to serine). Representatives from three complementation groups were also unable to grow on glycine as sole nitrogen source (gsd1-3). Assays of the rate of glycine uptake and decarboxylation have provided insights into the nature of the mutations.     

Utilization of Nitrite as a Nitrogen Source by Botryococcus Braunii

Nitrite at 2 mM did not affect the growth of Botryococcus braunii and served as the sole nitrogen source giving a minimum biomass doubling time of 4.2 d, which was equal to that of the culture using 4 mM nitrate as nitrogen source. With nitrite at 4 mM, after a lag phase of about 10 d, the alga grew quickly, reaching 1.1 g l(-1) at the end. Respective nitrite removals were 100% and 99.7%. There were few differences in the hydrocarbons produced using different nitrogen sources.     

Utilization of Glyphosate as Phosphate Source: Biochemistry and Genetics of Bacterial Carbon-Phosphorus Lyase

SUMMARY

After several decades of use of glyphosate, the active ingredient in weed killers such as Roundup, in fields, forests, and gardens, the biochemical pathway of transformation of glyphosate phosphorus to a useful phosphorus source for microorganisms has been disclosed. Glyphosate is a member of a large group of chemicals, phosphonic acids or phosphonates, which are characterized by a carbon-phosphorus bond. This is in contrast to the general phosphorus compounds utilized and metabolized by microorganisms. Here phosphorus is found as phosphoric acid or phosphate ion, phosphoric acid esters, or phosphoric acid anhydrides. The latter compounds contain phosphorus that is bound only to oxygen. Hydrolytic, oxidative, and radical-based mechanisms for carbon-phosphorus bond cleavage have been described. This review deals with the radical-based mechanism employed by the carbon-phosphorus lyase of the carbon-phosphorus lyase pathway, which involves reactions for activation of phosphonate, carbon-phosphorus bond cleavage, and further chemical transformation before a useful phosphate ion is generated in a series of seven or eight enzyme-catalyzed reactions. The phn genes, encoding the enzymes for this pathway, are widespread among bacterial species. The processes are described with emphasis on glyphosate as a substrate. Additionally, the catabolism of glyphosate is intimately connected with that of aminomethylphosphonate, which is also treated in this review. Results of physiological and genetic analyses are combined with those of bioinformatics analyses.     

Biodegradation of cis-Dichloroethene as the Sole Carbon Source by a β-Proteobacterium

An aerobic bacterium capable of growth on cis-dichloroethene (cDCE) as a sole carbon and energy source was isolated by enrichment culture. The 16S ribosomal DNA sequence of the isolate (strain JS666) had 97.9% identity to the sequence from Polaromonas vacuolata, indicating that the isolate was a β-proteobacterium. At 20°C, strain JS666 grew on cDCE with a minimum doubling time of 73 ± 7 h and a growth yield of 6.1 g of protein/mol of cDCE. Chloride analysis indicated that complete dechlorination of cDCE occurred during growth. The half-velocity constant for cDCE transformation was 1.6 ± 0.2 μM, and the maximum specific substrate utilization rate ranged from 12.6 to 16.8 nmol/min/mg of protein. Resting cells grown on cDCE could transform cDCE, ethene, vinyl chloride, trans-dichloroethene, trichloroethene, and 1,2-dichloroethane. Epoxyethane was produced from ethene by cDCE-grown cells, suggesting that an epoxidation reaction is the first step in cDCE degradation.     

Utilization of PPi as an Energy Source by a Clostridium sp

The growth of an anaerobic, spore-forming rod we have isolated from the cockroach gut after enrichment on media containing PP_i was stimulated by the presence of PP_i. The doubling time decreased and cell yield increased proportionately to PP_i concentrations of up to 0.35%. A similar stimulation of the growth of Desulfotomaculum sp. by PP_i has been reported. The PP_i-stimulated Clostridium sp. fermented a number of sugars with the production of hydrogen, acetate, and butyrate, with smaller amounts of ethanol and butanol being produced from some substrates. The fermentation products were not qualitatively changed by the presence of PP_i, but significantly more hydrogen was produced. The organism contained several of the enzymes previously reported from Entamoeba sp. and Propionibacterium sp., in which PP_i serves as a source of a high-energy bond in place of ATP. These include significant amounts of pyruvate-phosphate dikinase and phosphoenolpyruvate carboxytransphosphorylase. The activities of many of the catabolic enzymes of the organism, as well as of its phosphatases and pyrophosphatase, were similar whether it was grown in the presence or absence of PP_i. The organism did not accumulate intracellular polyphosphate granules but stored large amounts of glycogen.     

Isolation and Determination of Yeasts Utilizing Kerosene as a Sole Source of Carbon

In order to produce microbial cell substances from petroleum, 83 strains of kerosene-utilizing yeasts, as a sole source of carbon, were isolated from 37 materials in contact with petroleum in the petroleum refinery. They could be distributed in either of 15 cultural groups with their colony appearances. Fifteen representative strains in 15 cultural groups were served for determination and identified with the following species: Candida tropicalis, 9 strains; C. guilliermondii, 2 strains; C. intermedia, 2 strains; C. pulcherrima, 1 strains; Torulopsis pinus, 1 strain.

In order to clarify what the ability of hydrocarbon utilization means biologically, 46 standard strains were served for test, of which the following 5 strains could utilize kerosene as a sole source of carbon: Candida albicans IAM 4888; C. arborea IAM 4147; C. lipolytica IAM 4947; C. tropicalis IAM 4862 and IAM 4924. Considering the result, the ability of utilizing kerosene would seem to characterize the genus, but it was not evident that it would characterize the species.

C. tropicalis Pk-233 gave the best cell yield among the above strains when kerosene was employed as a sole source of carbon and moreover, in the production of the cells of Pk-233, employing kerosene as a carbon material was compared with employing glucose.     

Production of Rhamnolipid Biosurfactant by Fed-batch Culture of Pseudomonas aeruginosa Using Glucose as a Sole Carbon Source

The pH-stat fed-batch culture of Pseudomonas aeruginosa YPJ-80 was done to produce a rhamnolipid biosurfactant. With glucose as the sole carbon source, the final concentrations of cells and rhamnolipid biosurfactant obtained in 25 h were 25 g cell dry weight/l and 4.4 g/l, respectively.     

Utilization of γ-Aminobutyric Acid as the Sole Carbon and Nitrogen Source by Escherichia coli K-12 Mutants

Wild-type strains of Escherichia coli K-12 cannot grow in media with gamma-aminobutyrate (GABA) as the sole source of carbon or nitrogen. Mutants were isolated which could utilize GABA as the sole source of nitrogen. These mutants were found to have six- to ninefold higher activities of gamma-aminobutyrate-alpha-ketoglutarate transaminase (EC 2.6.1.19) and succinate semialdehyde dehydrogenase (EC 1.2.1.16) than those of the wild-type parent strains. Secondary mutants derived from these GABA-nitrogen-utilizing strains were able to grow on GABA as the sole source of carbon and nitrogen. They also grew faster on a variety of other carbon and nitrogen sources, and their growth was more strongly inhibited by different metabolic inhibitors than was that of the parent strains. The nature of the two mutations and the possible genes involved are discussed. A scheme of the pathway for GABA breakdown in E. coli K-12 is presented.     

Sequencing Batch Reactor Biodegradation of Hydrolyzed Sarin as Sole Carbon Source

The chemical nerve agent sarin (o-isopropyl methylphosphonofluoridate) was hydrolyzed at 7.18 weight percent in aqueous sodium hydroxide yielding primarily o-isopropyl methylphosphonic acid (IMPA). This hydrolysate was diluted and fed as sole carbon source to activated sludge in an aerobic sequencing batch reactor. Feed chemical oxygen demand (COD) concentrations ranged from approximately 2500 mg/L (initial) to 5000 mg/L (final). The reactor was operated essentially on a 15-day hydraulic residence time. Overall COD removal efficiency was 86.2% and the IMPA in the feed was converted to methylphosphonic acid. MICROTOX® and Daphnia magna aquatic toxicity testing showed the effluent to be of very low toxicity to aquatic test organisms. The final MPA product was effectively absorbed by Phoslock?, which is a lanthanide modified clay.     

Sequencing Batch Reactor Biodegradation of Hydrolyzed Sarin as Sole Carbon Source

The chemical nerve agent sarin (o-isopropyl methylphosphonofluoridate) was hydrolyzed at 7.18 weight percent in aqueous sodium hydroxide yielding primarily o-isopropyl methylphosphonic acid (IMPA). This hydrolysate was diluted and fed as sole carbon source to activated sludge in an aerobic sequencing batch reactor. Feed chemical oxygen demand (COD) concentrations ranged from approximately 2500 mg/L (initial) to 5000 mg/L (final). The reactor was operated essentially on a 15-day hydraulic residence time. Overall COD removal efficiency was 86.2% and the IMPA in the feed was converted to methylphosphonic acid. MICROTOX® and Daphnia magna aquatic toxicity testing showed the effluent to be of very low toxicity to aquatic test organisms. The final MPA product was effectively absorbed by Phoslock™, which is a lanthanide modified clay.     

Utilization of DNA as a Sole Source of Phosphorus, Carbon, and Energy by Shewanella spp.: Ecological and Physiological Implications for Dissimilatory Metal Reduction

The solubility of orthophosphate (PO₄³⁻) in iron-rich sediments can be exceedingly low, limiting the bioavailability of this essential nutrient to microbial populations that catalyze critical biogeochemical reactions. Here we demonstrate that dissolved extracellular DNA can serve as a sole source of phosphorus, as well as carbon and energy, for metal-reducing bacteria of the genus Shewanella. Shewanella oneidensis MR-1, Shewanella putrefaciens CN32, and Shewanella sp. strain W3-18-1 all grew with DNA but displayed different growth rates. W3-18-1 exhibited the highest growth rate with DNA. While strain W3-18-1 displayed Ca²⁺-independent DNA utilization, both CN32 and MR-1 required millimolar concentrations of Ca²⁺ for growth with DNA. For S. oneidensis MR-1, the utilization of DNA as a sole source of phosphorus is linked to the activities of extracellular phosphatase(s) and a Ca²⁺-dependent nuclease(s), which are regulated by phosphorus availability. Mass spectrometry analysis of the extracellular proteome of MR-1 identified one putative endonuclease (SO1844), a predicted UshA (bifunctional UDP-sugar hydrolase/5′ nucleotidase), a predicted PhoX (calcium-activated alkaline phosphatase), and a predicted CpdB (bifunctional 2′,3′ cyclic nucleotide 2′ phosphodiesterase/3′ nucleotidase), all of which could play important roles in the extracellular degradation of DNA under phosphorus-limiting conditions. Overall, the results of this study suggest that the ability to use exogenous DNA as the sole source of phosphorus is widespread among the shewanellae, and perhaps among all prokaryotes, and may be especially important for nutrient cycling in metal-reducing environments.     

Metabolism of Phosphonoacetate as the Sole Carbon and Phosphorus Source by an Environmental Bacterial Isolate

A gram-negative bacterium isolated from activated sludge was able to utilize up to 25 mM phosphonoacetate as the sole carbon and phosphorus source, with simultaneous excretion of virtually equimolar levels of phosphate. 2-Aminoethylphosphonate was similarly utilized with equivalent growth rates and cellular yields, while 3-aminopropyl-, 4-aminobutyl-, methyl-, ethyl-, and phenylphosphonates served only as phosphorus sources.     

L-Arogenate Is a Chemoattractant Which Can Be Utilized as the Sole Source of Carbon and Nitrogen by Pseudomonas aeruginosa

L-Arogenate is a commonplace amino acid in nature in consideration of its role as a ubiquitous precursor of L-phenylalanine and/or L-tyrosine. However, the questions of whether it serves as a chemoattractant molecule and whether it can serve as a substrate for catabolism have never been studied. We found that Pseudomonas aeruginosa recognizes L-arogenate as a chemoattractant molecule which can be utilized as a source of both carbon and nitrogen. Mutants lacking expression of either cyclohexadienyl dehydratase or phenylalanine hydroxylase exhibited highly reduced growth rates when utilizing L-arogenate as a nitrogen source. Utilization of L-arogenate as a source of either carbon or nitrogen was dependent upon (sigma)(sup54), as revealed by the use of an rpoN null mutant. The evidence suggests that catabolism of L-arogenate proceeds via alternative pathways which converge at 4-hydroxyphenylpyruvate. In one pathway, prephenate formed in the periplasm by deamination of L-arogenate is converted to 4-hydroxyphenylpyruvate by cyclohexadienyl dehydrogenase. The second route depends upon the sequential action of periplasmic cyclohexadienyl dehydratase, phenylalanine hydroxylase, and aromatic aminotransferase.     

Microbial Growth on Dichlorobiphenyls Chlorinated on Both Rings as a Sole Carbon and Energy Source

We have isolated bacterial strains capable of aerobic growth on ortho-substituted dichlorobiphenyls as sole carbon and energy sources. During growth on 2,2′-dichlorobiphenyl and 2,4′-dichlorobiphenyl strain SK-4 produced stoichiometric amounts of 2-chlorobenzoate and 4-chlorobenzoate, respectively. Chlorobenzoates were not produced when strain SK-3 was grown on 2,4′-dichlorobiphenyl.     

Utilization of PP(i) as an Energy Source by a Clostridium sp

The growth of an anaerobic, spore-forming rod we have isolated from the cockroach gut after enrichment on media containing PP(i) was stimulated by the presence of PP(i). The doubling time decreased and cell yield increased proportionately to PP(i) concentrations of up to 0.35%. A similar stimulation of the growth of Desulfotomaculum sp. by PP(i) has been reported. The PP(i)-stimulated Clostridium sp. fermented a number of sugars with the production of hydrogen, acetate, and butyrate, with smaller amounts of ethanol and butanol being produced from some substrates. The fermentation products were not qualitatively changed by the presence of PP(i), but significantly more hydrogen was produced. The organism contained several of the enzymes previously reported from Entamoeba sp. and Propionibacterium sp., in which PP(i) serves as a source of a high-energy bond in place of ATP. These include significant amounts of pyruvate-phosphate dikinase and phosphoenolpyruvate carboxytransphosphorylase. The activities of many of the catabolic enzymes of the organism, as well as of its phosphatases and pyrophosphatase, were similar whether it was grown in the presence or absence of PP(i). The organism did not accumulate intracellular polyphosphate granules but stored large amounts of glycogen.