Multiple high-throughput analyses monitor the response of E. coli to perturbations

Analysis of cellular components at multiple levels of biological information can provide valuable functional insights. We performed multiple high-throughput measurements to study the response of Escherichia coli cells to genetic and environmental perturbations. Analysis of metabolic enzyme gene disruptants revealed unexpectedly small changes in messenger RNA and proteins for most disruptants. Overall, metabolite levels were also stable, reflecting the rerouting of fluxes in the metabolic network. In contrast, E. coli actively regulated enzyme levels to maintain a stable metabolic state in response to changes in growth rate. E. coli thus seems to use complementary strategies that result in a metabolic network robust against perturbations.     

Hd3a protein is a mobile flowering signal in rice

Florigen, the mobile signal that moves from an induced leaf to the shoot apex and causes flowering, has eluded identification since it was first proposed 70 years ago. Understanding the nature of the mobile flowering signal would provide a key insight into the molecular mechanism of floral induction. Recent studies suggest that the Arabidopsis FLOWERING LOCUS T (FT) gene is a candidate for encoding florigen. We show that the protein encoded by Hd3a, a rice ortholog of FT, moves from the leaf to the shoot apical meristem and induces flowering in rice. These results suggest that the Hd3a protein may be the rice florigen.     

Persistence of the entire Epstein-Barr virus genome integrated into human lymphocyte DNA

The entire Epstein-Barr virus genome is integrated into Burkitt tumor cell DNA at the terminal direct repeat sequence of the virus. There is no homology between the GC-rich (G, guanine; C, cytosine) terminal repeat and the AT-rich (A, adenine; T, thymine) cell sequences with which it has recombined. More than 15 kilobases of cell DNA have been deleted and 236 base pairs are duplicated at one virus-cell junction site.     

Databases for technical aspects of immunohistochemistry: 2021 update

With the aim of sharing information about the technical aspects of immunohistochemistry (IHC) and facilitating the selection of suitable antibodies for histopathological examination, this technical report describes the results of a questionnaire distributed during the period of 2018 to 2019 among members of the Conference on Experimental Animal Histopathology. Additionally, it describes the immunological properties and supplier details (clone, supplier, catalog number, species reactivity, etc.) as well as the IHC staining conditions (fixing solution, fixing time, embedding, antigen retrieval method, antibody dilution, incubation time, incubation temperature, positive control tissue, blocking condition, secondary antibody information, etc.) for a total of 509 primary antibodies (comprising 220 different types). These survey results were an update on the contents reported by CEAH in 2017.     

Diagnostic utility of measuring serum amyloid A with a latex agglutination turbidimetric immunoassay in bovine mastitis: Comparison with haptoglobin and alpha 1 acid glycoprotein

This study established the precision and accuracy of a modified latex agglutination turbidimetric immunoassay (LATIA) reagent, and evaluated the ability of the measurement of serum amyloid A (SAA) compared to haptoglobin and α1-acid glycoprotein, which are acute phase proteins (APPs), for diagnosis of clinical mastitis. Concentrations of APPs in cows with mastitis were significantly higher than those in healthy cow. Only the plasma SAA concentration in cows with clinical mastitis (44.90 mg/l; n=15) was significantly higher than that in those with subclinical mastitis (10.70 mg/l; n=16), enabling their diagnosis in contrast to other APPs. Thus, the SAA assay using a LATIA reagent is useful in assessing mastitis severity due to its higher sensitivity and specificity than other APP assays.     

Plasma Membrane Lipids Are the Powerful Components for Early Stage Aluminum Tolerance in Triticale

The order of aluminum (Al) tolerance in triticale lines (ST2>ST22) after re-elongation in an Al-free 0.2 mM calcium (Ca) solution for 9 h (Ca period) following 1 h pretreatment with 20 μM Al (Al period) agreed with that after 24 h of Al treatment. Permeability of the plasma membrane (PM) of root-tip cells after the Ca period was significantly increased in Al-sensitive ST22. Al was accumulated more heavily in the root-tip portion of ST22 than in that of ST2, although similar amounts of malic and citric acid anions were released from both triticale lines. We established a new system examining lipid permeability using synthesized nylon-2,8 ultrathin and porous capsules trapped previously with 0.1% (w/v) methylene blue solution and coated thereafter with PM lipid isolated from root tips by a newly developed technique. Permeability of the PM lipid measured with time in 0.2 mM Ca with or without 50 μM Al photometrically ( A ₆₈₀) was significantly greater in Al-sensitive ST22 after 5 min of Al treatment. This is the first report to directly show the primary and early role of PM lipid in Al tolerance in triticale.     

Long-term fertilizer management in NERICA cultivated upland affects on soil bio-chemical properties

ABSTRACT

This study aims to characterize soil chemical properties and microbial biomass, greenhouse gas production, and organic matter dynamics in upland rice field as affected by the long-term fertilizer managements in Uganda. Soil total C (TC) and N (TN) contents were in the relatively smaller range under different fertilizer treatments, even after 20 crop seasons. However, available phosphate contents showed positive correlation with average yield of upland rice. Incubation experiments were conducted under aerobic or under flooding conditions to measure CO₂, methane, and nitrous oxide productions. After the incubation, soil samples were extracted to quantify nitrification rate for aerobic condition and ammonification rate for flooding condition. Soil microbial biomass carbon (MBC) and nitrogen were measured. Stable isotope ratio of ¹³C and ¹⁵N were also determined for the soil samples. CO₂ production potential under aerobic condition was higher than the flooding condition. The qCO₂ (CO₂/MBC) in the treatment applied with compost tended to be higher than the other treatments. Positive correlation between nitrous oxide production and nitrification was found. The delta ¹³C values of the soil samples indicated that the effect of C4 plants before rice cultivation still remained, while the contribution of biological N₂ fixation was little according to delta ¹⁵N values. These results indicate that soil microbial biomass in upland rice field of the long-term fertilizer experiment in Uganda was characterized with higher qCO₂. Greenhouse gas production was affected by fertilizer management, while soil organic C before the long-term experiment still remained in the experiment.     

Effects of elevated carbon dioxide concentration on biological nitrogen fixation, nitrogen mineralization and carbon decomposition in submerged rice soil

Controlled-environment chambers were used to study the effects of elevated CO₂ concentrations on biological N fixation, N mineralization and C decomposition in rice soil. In three chambers, CO₂ concentration was maintained at 353ᆣ/396ᆫ µmol mol^-1 (day/night; ambient CO₂), while in another three, CO₂ was maintained at 667ᆸ/700ᆽ µmol mol^-1 (day/night; elevated CO₂) throughout the growing season. Rice (var. Nipponbare) seedlings were grown under either ambient or elevated CO₂ concentrations, and then transplanted into the soils in the corresponding chambers. At different growth stages, soil samples were taken from surface (0-1cm) and sub-surface (1-10cm) layers at the centre of four hills, then sieved (<1 mm) to remove root residues. Fresh soil was used to measure N fixation activity (using the acetylene reduction assay), NH₄⁺ content and organic C. Separate sets of soil samples were transferred to serum bottles and anaerobically incubated at 30°C for 30 days to measure potential rates of N mineralization and C decomposition. Under an elevated atmospheric CO₂ concentration, acetylene reduction activity significantly increased in the surface soil layer during the early cultivation stages and in the sub-surface soil layer during the latter part of cultivation. There was no difference in the amount of NH₄⁺ in fresh soils between elevated and ambient CO₂ chambers, while the rate of N mineralization was increased by elevated CO₂ during the latter part of cultivation. Soils from the elevated CO₂ chambers had obviously higher rate of C decomposition than that from the ambient CO₂ chambers. CH₄ production gradually increased with the growth of rice plants. These results suggest that elevated CO₂ affected biological N fixation, N mineralization and C decomposition in submerged rice soil during the different growth stages of rice.     

Mineralization of Nitrogen and N2O Production Potentials in Acid Forest Soils under Controlled Aerobic Conditions

Some acid surface mineral soils from different forest vegetations and sites in central Japan were taken during April and October in 2003 to study the net N mineralization and N₂O production potentials in the laboratory. Under the controlled aerobic conditions, 50 Pa C₂H₂ in the headspace can be used to study total gaseous-N losses during the aerobic mineralization and heterotrophic N₂O production in acid forest soils. The net N mineralization of these acid forest soils and N₂O-N production was variable with forest stands and with seasons, probably because of the quality of the litters and the variations of soil attributes. Three deciduous forest soils during two sampling reveal a higher potential for the total gaseous-N loss during the aerobic mineralization as compared with two coniferous forest soils. Heterotrophic nitrification among these acid forest soils accounted for the range from 37.0 to 76.3% of the total N₂O production under the experimental conditions, and was variable with forest stands and with seasons. Some factors regulating the net N mineralization and N₂O-N production were discussed in these acid forest soils.     

Clinical application of 2.16% hypertonic saline solution to correct the blood sodium concentration in diarrheic calves with hyponatremia

The aim of this study was to examine whether 2.16% hypertonic saline solution (HSS) is useful for the treatment of diarrheic calves with hyponatremia. Eleven of 13 female Holstein calves exhibiting moderate diarrhea and hyponatremia received 1,250 ml of 2.16% HSS over 15 min regardless of body weight. The remaining two calves that were unable to stand and had severe hyponatremia received 2,500 ml of 2.16% HSS intravenously over 30 min. As a result, hyponatremia in all diarrheic calves was significantly improved by the administration of 2.16% HSS from 122.2 ± 7.0 mEq/l at pre to 134.8 ± 3.7 mEq/l at post, which was above the threshold of 132 mEq/l for hyponatremia. Therefore, 2.16% HSS may be useful for hyponatremia in calves with diarrhea.