Effects of substrate analogues and pH on manganese superoxide dismutases

The effect of the substrate analogues azide and fluoride on the manganese(II) zero-field interactions of different manganese-containing superoxide dismutases (SOD) was measured using high-field electron paramagnetic resonance spectroscopy. Two cambialistic types, proteins that are active with manganese or iron, were studied along with two that were only active with iron and another that was only active with manganese. It was found that azide was able to coordinate directly to the pentacoordinated Mn(II) site of only the MnSOD from Escherichia coli and the cambialistic SOD from Rhodobacter capsulatus. The formation of a hexacoordinate azide-bound center was characterized by a large reduction in the Mn(II) zero-field interaction. In contrast, all five SODs were affected by fluoride, but no evidence for hexacoordinate Mn(II) formation was detected. For both azide and fluoride, the extent of binding was no more than 50%, implying either that a second binding site was present or that binding was self-limiting. Only the Mn(II) zero-field interactions of the two SODs that had little or no activity with manganese were found to be significantly affected by pH, the manganese-substituted iron superoxide dismutase from E. coli and the Gly155Thr mutant of the cambialistic SOD from Porphyromonas gingivalis. A model for anion binding and the observed pK involving tyrosine-34 is presented.     

A high-affinity monoclonal antibody against the FLAG tag useful for G-protein-coupled receptor study

The FLAG sequence (DYKDDDDK) is an artificial sequence widely used to detect, quantify, and purify proteins expressed as FLAG-fusion proteins. Several highly specific monoclonal antibodies for FLAG are commercially available; however, they are not always sensitive enough to detect proteins expressed at low levels and can give rise to unacceptable levels of background signal when used for immunostaining in vitro and in vivo. The current study reports the successful establishment of hybridoma cells that produce an extremely high-affinity antibody to FLAG, namely 2H8 Ab. 2H8 Ab stained FLAG-tagged G-protein-coupled receptors more strongly than commercially available antibodies in both flow cytometry and immunostaining experiments with no background staining. 2H8 was sensitive enough to detect FLAG-tagged G-protein-coupled receptors and soluble proteins in crude preparations, which could not be achieved using commercially available antibodies. Only 10 ng of 2H8 Ab was required to immunoprecipitate FLAG-tagged G-protein-coupled receptors from cell lysates. Of note, 2H8 stained FLAG-tagged BLT2, a low-affinity leukotriene B4 receptor, expressed in vivo in the small intestine of mice under control of the villin promoter. Thus, 2H8 Ab is a promising tool for analyzing various FLAG-fusion proteins, particularly G-protein-coupled receptors, both in vitro and in vivo.     

Isolation and characterization of <Emphasis Type="Italic">shs1</Emphasis>, a sugar-hypersensitive and ABA-insensitive mutant with multiple stress responses

To identify salt tolerance determinants, we screened for double mutants from a T-DNA tagged sos3-1 mutant population in the Arabidopsis Col-0 gl1 background. The shs1-1 (sodium hypersensitive) sos3-1 mutant was isolated as more sensitive to NaCl than sos3-1 plants. TAIL-PCR revealed that the introduced T-DNA was located 62 bp upstream of the initiation codon of an adenylate translocator-like protein gene on chromosome IV. SHS1 mRNA did not accumulate in shs1-1 sos3-1 plants although it accumulated in shoots of both sos3-1 and the wild type plants, indicating that this gene is inactive in the mutant. Genetic co-linkage analysis revealed that the mutation causing the phenotype segregated as a recessive, single gene mutation. This mutant showed altered sensitive responses to salt as well as to cold stress. It also demonstrated sugar sensitive and ABA insensitive phenotypes including enhanced germination, reduced growth, altered leaf morphology, and necrosis on leaves at an early growth stage. Sensitivity of sos3-1 shs1-1 root growth to LiCl, KCl, and mannitol was not significantly different from growth of sos3-1 roots. Further, expression of 35S::SHS1 in sos3-1 shs1-1 plants complemented NaCl and sugar sensitivity and partially restored the leaf morphology. G. Inan and F. Goto contributed equally in this work.     

Distinct Metabolic Flow Enables Large-Scale Purification of Mouse and Human Pluripotent Stem Cell-Derived Cardiomyocytes

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Highlights? Integrated “omic” analyses reveal metabolic hallmarks in ESCs and cardiomyocytes ? Glucose depletion and lactate supplementation can purify PSC-derived cardiomyocytes ? Cardiomyocytes can use lactate efficiently for energy metabolism ? Transplanted purified human ESC-derived cardiomyocytes do not form tumors     

Construction of homo- and heteropolymers of plant ferritin subunits using an in vitro protein expression system

Ferritin is a class of iron storage protein composed of 24 subunits. Although many studies on gene expression analyses of plant ferritin have been conducted, the functions and oligomeric assembly of plant ferritin subunits are still largely unknown. In order to characterize the ability to form multimeric protein shells and determine the iron incorporating activity, we produced ferritin homo- and heteropolymers by expressing four cDNAs of ferritin subunits from soybean, sfer1, sfer2, sfer3, and sfer4, using an in vitro protein expression system. Using SDS-PAGE analysis followed by Prussian blue stain, homopolymers of SFER1, SFER2, and SFER3, and heteropolymers of SFER1/SFER2 and SFER1/SFER3 were detected as assembled polymers with iron incorporating activity, whereas only a small amount of SFER4 related homo- and heteropolymer was detected, suggesting that the SFER4 was not competent for oligomeric assembly, unlike every other ferritin. We conclude that certain combinations of plant ferritin subunits can form heteropolymers and that their iron incorporating activities depend on the formation of multimeric protein.     

Shikonin stimulates glucose uptake in 3T3-L1 adipocytes via an insulin-independent tyrosine kinase pathway

Type 2 diabetes is due to defects in both insulin action and secretion. In an attempt to discover small molecules that stimulate glucose uptake, similar to insulin, a cell-based glucose uptake screening assay was performed using 3T3-L1 adipocytes. Shikonin, a substance originally isolated from the root of the Chinese plant that has been used as an ointment for wound healing, was thus identified. Shikonin stimulated glucose uptake and potentiated insulin-stimulated glucose uptake in a concentration-dependent manner in 3T3-L1 adipocytes. Stimulation of glucose uptake was also observed in rat primary adipocytes and cardiomyocytes. Like insulin, shikonin-stimulated glucose uptake was inhibited by genistein, a tyrosine kinase inhibitor, and enhanced by vanadate, a tyrosine phosphatase inhibitor. However, in contrast to insulin, shikonin-stimulated glucose uptake was not strongly inhibited by wortmannin, a specific inhibitor of phosphatidylinositol 3-kinase (PI3K). In vitro phosphorylation analyses revealed that shikonin did not induce tyrosine phosphorylation of the insulin receptor, but significantly induced both Thr-308 and Ser-473 phosphorylation of Akt. Our results suggest that in 3T3-L1 adipocytes, shikonin action is not mediated primarily via the insulin receptor/PI3K pathway, but rather via another distinct tyrosine kinase-dependent pathway leading to glucose uptake involving Akt phosphorylation.     

Characterization of cytochrome P-450SCC-containing liposomes

Purified cytochrome $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ from bovine adrenocortical mitochondria was incorporated into liposomes by the cholate-dilution method utilizing either dialysis or Sephadex gel filtration. Among synthetic phospholipids tested, dioleoylglycerophosphocholine showed the best stability during the incorporation of $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ into liposomes. A maximum amount of heme was incorporated into liposomes at a molar ratio of phospholipid to the cytochrome of approx. 200. When $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ was incorporated into the dioleoylglycerophosphocholine liposomes by the cholate-filtration method, the $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}\text{-}\text{containing liposomes}$ showed two major populations on the elution pattern of the Sepharose 4B gel filtration, and were seen at a diameter of 200–600 Å and its aggregated forms. When the cytochrome was incorporated into dioleoylglycerophosphocholine liposomes or cholesterol-free adrenocortical mitochondrial liposomes, $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ was less stable than $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ in aqueous solution. Cholesterol or adrenodoxin markedly stabilized the liposomal $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$. Liposomal $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ required cholesterol for its optimum reduction with adrenodoxin, adrenodoxin reductase, and NADPH in the presence of CO. About 70% of the total heme in the dioleoylglycerophosphocholine liposomes was reduced by the enzymatic reduction in the presence of cholesterol, indicating that 70% of the total molecules are exposed to the surface of the outer monolayer. In order to see the location of the heme in membrane, the dioleoylglycerophosphocholine-liposomal $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$ was subjected to $\text{p-}\text{chloromercuriphenyl sulfonic acid}$ treatment. This reagent destroyed the liposomal $\text{P}{}_{\mathrm{<mtext>450</mtext><mtext>SCC</mtext>}}$. These results suggest that the heme is located in the proximity of the $\text{p-}\text{chloromercuriphenyl sulfonic acid}$ reacting sites which are exposed to the surface, or located on the vincinity of polar heads of the membrane.     

Management of nitrogen fertilizer application, rather than functional gene abundance, governs nitrous oxide fluxes in hydroponics with rockwool

Aims

Nitrous oxide (N₂O) is a strong greenhouse effective gas (GHG); the primary human source of N₂O is agricultural activities. Excessive nitrogen (N) fertilization of agricultural land is now widely recognized as a major contributor. In soil, the microbial processes of nitrification and denitrification are the principal sources of N₂O. However, it remains poorly understood how conventional hydroponics influences GHG emission. Here, we compared GHG fluxes from soil and rockwool used for hydroponics under identical nutrient conditions.

Methods

Tomato plants (Solanum lycopersicum, momotaro) were grown in soil or by hydroponics using rockwool. In situ emissions of CH₄, CO₂, and N₂O, and the abundance of genes involved in nitrification and denitrification were measured during cultivation.

Results

Hydroponics with rockwool mitigated CO₂ emission by decreasing the microbial quantity in the rhizosphere. Dilution of the nutrient solution significantly decreased N₂O emission from rockwool. Although proliferation of nitrifiers or denitrifiers in the rhizosphere did not induce N₂O emission, reuse or long-term use of rockwool induced a 3.8-fold increase in N₂O emission.

Conclusions

Our data suggest that hydroponics has a lower environmental impact and that adequate fertilizer application, rather than bacterial control, governs N₂O fluxes in hydroponic cultivation using rockwool.