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You searched for: Journal Analytical biochemistry Remove constraint Journal: Analytical biochemistry Publication Year 2016 Remove constraint Publication Year: 2016 Source 2016 v.507 Remove constraint Source: 2016 v.507
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1. A continuous spectrophotometric assay and nonlinear kinetic analysis of methionine γ-lyase catalysis

Author:
Foo, Timothy C.; Terentis, Andrew C.; Venkatachalam, Kallidaikurichi V.
Source:
Analytical biochemistry 2016 v.507 pp. 21-26
ISSN:
0003-2697
Subject:
Porphyromonas gingivalis; absorbance; catalytic activity; kinetics; methionine; nuclear magnetic resonance spectroscopy
Abstract:
... In this article, we present a new, easy-to-implement assay for methionine γ-lyase (MGL)-catalyzed γ-elimination reactions of l-methionine and its analogues that produce α-ketobutyrate (α-KB) as product. The assay employs ultraviolet–visible (UV–Vis) spectrophotometry to continuously monitor the rate of formation of α-KB by its absorbance at 315 nm. We also employ a nonlinear data analysis method t ...
DOI:
10.1016/j.ab.2016.05.010

2. Adding an appropriate amino acid during crosslinking results in more stable crosslinked enzyme aggregates

Author:
Mukherjee, Joyeeta; Majumder, Abir Baran; Gupta, Munishwar Nath
Source:
Analytical biochemistry 2016 v.507 pp. 27-32
ISSN:
0003-2697
Subject:
Thermomyces lanuginosus; acetonitrile; amino acids; biocatalysis; biocatalysts; carboxylic ester hydrolases; chymotrypsin; crosslinking; half life; proteins; subtilisin; thermophilic microorganisms
Abstract:
... Carrier free immobilization, especially crosslinked enzyme aggregates (CLEAs), has become an important design for biocatalysis in several areas. Adding amino acids during formation of CLEAs was found to give biocatalysts more stable at 55 °C and in the presence of 60% acetonitrile. The half-lives of CLEAs prepared with and without Arg addition were 21 and 15 h (subtilisin) and 4 and 1.6 h (α-chymo ...
DOI:
10.1016/j.ab.2016.05.012

3. A model system using confocal fluorescence microscopy for examining real-time intracellular sodium ion regulation

Author:
Lee, Jacqueline A.; Collings, David A.; Glover, Chris N.
Source:
Analytical biochemistry 2016 v.507 pp. 40-46
ISSN:
0003-2697
Subject:
Galaxias maculatus; cell viability; confocal microscopy; dissociation; environmental factors; euryhaline species; excretion; fish; fluorescence microscopy; fluorescent dyes; gills; homeostasis; nitrogen; saline water; salinity; sodium; water balance
Abstract:
... The gills of euryhaline fish are the ultimate ionoregulatory tissue, achieving ion homeostasis despite rapid and significant changes in external salinity. Cellular handling of sodium is not only critical for salt and water balance but is also directly linked to other essential functions such as acid–base homeostasis and nitrogen excretion. However, although measurement of intracellular sodium ([Na ...
DOI:
10.1016/j.ab.2016.05.008

4. An improved fluorescent substrate for assaying soluble and membrane-associated ADAM family member activities

Author:
Moss, Marcia L.; Minond, Dmitriy; Yoneyama, Toshie; Hansen, Hinrich P.; Vujanovic, Nikola; Rasmussen, Fred H.
Source:
Analytical biochemistry 2016 v.507 pp. 13-17
ISSN:
0003-2697
Subject:
energy transfer; fluorescence; peptides; tumor necrosis factor-alpha
Abstract:
... A fluorescent resonance energy transfer substrate with improved sensitivity for ADAM17, −10, and −9 (where ADAM represents a disintegrin and metalloproteinase) has been designed. The new substrate, Dabcyl-Pro-Arg-Ala-Ala-Ala-Homophe-Thr-Ser-Pro-Lys(FAM)-NH2, has specificity constants of 6.3 (±0.3) × 104 M−1 s−1 and 2.4 (±0.3) × 103 M−1 s−1 for ADAM17 and ADAM10, respectively. The substrate is more ...
DOI:
10.1016/j.ab.2016.05.001

5. A novel cell-based duplex high-throughput screening assay combining fluorescent Ca2+ measurement with homogeneous time-resolved fluorescence technology

Author:
Kiss, László; Cselenyák, Attila; Varga, Ágnes; Visegrády, András
Source:
Analytical biochemistry 2016 v.507 pp. 33-39
ISSN:
0003-2697
Subject:
G-protein coupled receptors; calcium; cyclic AMP; fluorescence; fluorometry; genetic engineering; humans; ligands; screening; second messengers
Abstract:
... Cell-based assays for G-protein-coupled receptor (GPCR) activation applied in high-throughput screening (HTS) monitor various readouts for second messengers or intracellular effectors. Recently, our understanding of diverging signaling pathways downstream of receptor activation and the capability of small molecules to selectively modulate signaling routes has increased substantially, underlining t ...
DOI:
10.1016/j.ab.2016.05.009

6. A novel procedure for the assessment of the antioxidant capacity of food components

Author:
Yoshimura, Toshihiro; Harashima, Mai; Kurogi, Katsuhisa; Suiko, Masahito; Liu, Ming-Cheh; Sakakibara, Yoichi
Source:
Analytical biochemistry 2016 v.507 pp. 7-12
ISSN:
0003-2697
Subject:
adverse effects; antioxidant activity; antioxidants; arginine; fluorescence; fluorescent dyes; food quality; hydrogen peroxide; kaempferol; lysine; oxidative stress; polyacrylamide gel electrophoresis; post-translational modification; quantitative analysis; quinic acid; saponins; screening; squalene; trigonelline
Abstract:
... Carbonylation, an oxidative modification of the amino group of arginine and lysine residues caused by reactive oxygen species, has emerged as a new type of oxidative damage. Protein carbonylation has been shown to exert adverse effects on various protein functions. Recently, the role of food components in the attenuation of oxidative stress has been the focus of many studies. Most of these studies ...
DOI:
10.1016/j.ab.2016.05.002

7. Deparaffinization of formalin-fixed paraffin-embedded tissue blocks using hot water instead of xylene

Author:
Kalantari, Narges; Bayani, Masomeh; Ghaffari, Taraneh
Source:
Analytical biochemistry 2016 v.507 pp. 71-73
ISSN:
0003-2697
Subject:
DNA; Toll-like receptor 4; absorbance; genes; polymerase chain reaction; xylene
Abstract:
... This study aimed to deparaffinize formalin-fixed paraffin-embedded (FFPE) tissues using hot water instead of xylene and measuring the quantity and quality of the extracted DNA from the respective tissues. To deparaffinize the tissue sections with hot water, small sections were exposed to 90 °C distilled sterile water. After 25 FFPE tissue samples were deparaffinized with the hot water method, DNA ...
DOI:
10.1016/j.ab.2016.05.015

8. Design and characterization of electrochemical dopamine–aptamer as convenient and integrated sensing platform

Author:
Azadbakht, Azadeh; Roushani, Mahmoud; Abbasi, Amir Reza; Derikvand, Zohreh
Source:
Analytical biochemistry 2016 v.507 pp. 47-57
ISSN:
0003-2697
Subject:
carbon; carbon nanotubes; detection limit; dopamine; electrochemistry; electrodes; guanine; methylene blue; nanoparticles; oligonucleotides
Abstract:
... Here, an ultrasensitive label-free electrochemical aptasensor was developed for dopamine (DA) detection. Construction of the aptasensor was carried out by electrodeposition of gold–platinum nanoparticles (Au–PtNPs) on glassy carbon (GC) electrode modified with acid-oxidized carbon nanotubes (CNTs–COOH). A designed complementary amine-capped capture probe (ssDNA1) was immobilized at the surface of ...
DOI:
10.1016/j.ab.2016.04.022

9. Efficient non-enzymatic cleavage of Staphylococcus aureus plasmid DNAs mediated by neodymium ions

Author:
Zovčáková, Monika; Španová, Alena; Pantůček, Roman; Doškař, Jiří; Rittich, Bohuslav
Source:
Analytical biochemistry 2016 v.507 pp. 66-70
ISSN:
0003-2697
Subject:
Staphylococcus aureus; agarose; antibiotic resistance; buffers; gel electrophoresis; ions; neodymium; pH; plasmids; topology
Abstract:
... Staphylococcus aureus plasmids are the main factor in the spreading of antibacterial resistance among bacterial strains that has emerged on a worldwide scale. Plasmids recovered from 12 clinical and food isolates of S. aureus were treated with 10 mM free lanthanide Nd3+ ions (non-enzymatic cleavage agent) in Hepes buffer (pH 7.5) at 70 °C. Topological forms of plasmids—closed circular (ccc), open ...
DOI:
10.1016/j.ab.2016.05.013

10. Exciton circular dichroism couplet arising from nitrile-derivatized aromatic residues as a structural probe of proteins

Author:
Mukherjee, Debopreeti; Gai, Feng
Source:
Analytical biochemistry 2016 v.507 pp. 74-78
ISSN:
0003-2697
Subject:
circular dichroism spectroscopy; monitoring; peptides; proteins; spectral analysis; tryptophan
Abstract:
... Exciton coupling between two chromophores can produce a circular dichroism (CD) couplet that depends on their separation distance, among other factors. Therefore, exciton CD signals arising from aromatic sidechains, especially those of tryptophan (Trp), have been used in various protein conformational studies. However, the long-wavelength component of the commonly used CD couplet produced by a pai ...
DOI:
10.1016/j.ab.2016.05.017
PubMed:
27251434
PubMed Central:
PMC4921296

11. Predicting pupylation sites in prokaryotic proteins using semi-supervised self-training support vector machine algorithm

Author:
Ju, Zhe; Gu, Hong
Source:
Analytical biochemistry 2016 v.507 pp. 1-6
ISSN:
0003-2697
Subject:
amino acids; bioinformatics; computer software; post-translational modification; prediction; proteins; support vector machines
Abstract:
... As one important post-translational modification of prokaryotic proteins, pupylation plays a key role in regulating various biological processes. The accurate identification of pupylation sites is crucial for understanding the underlying mechanisms of pupylation. Although several computational methods have been developed for the identification of pupylation sites, the prediction accuracy of them i ...
DOI:
10.1016/j.ab.2016.05.005

12. Prolonged treatment with 3-isobutyl-1-methylxanthine improves the efficiency of differentiating 3T3-L1 cells into adipocytes

Author:
Hua, Yongjie; Ke, Shanshan; Wang, Yao; Irwin, David M.; Zhang, Shuyi; Wang, Zhe
Source:
Analytical biochemistry 2016 v.507 pp. 18-20
ISSN:
0003-2697
Subject:
adipocytes; assays; biochemistry; cell differentiation; xanthines
Abstract:
... Until now, the low efficiency of current protocols or kits for the differentiation of 3T3-L1 preadipocytes makes it difficult to continue the studies of the cellular and molecular mechanisms in adipocytes. Here we present a productive and highly efficient protocol for the differentiation of 3T3-L1 cells that uses a prolonged treatment with 3-isobutyl-1-methylxanthine (IBMX) during the differentiat ...
DOI:
10.1016/j.ab.2016.05.007

13. Sirtuin 1 evaluation with a novel immunoassay approach based on TiO2–Au label and hyperbranched polymer hybrid

Author:
An, Yarui
Source:
Analytical biochemistry 2016 v.507 pp. 58-65
ISSN:
0003-2697
Subject:
antibodies; biosensors; colloids; composite polymers; crosslinking; detection limit; electrochemistry; gold; hydrogen peroxide; immunoassays; metabolism; nanocomposites; nanogold; peroxidase; titanium dioxide
Abstract:
... Accurate and highly sensitive evaluation of the sirtuin 1 (SirT1) level is becoming increasingly important for understanding the contribution of SirT1 in metabolism pathways. Here, a novel electrochemical immunoassay of SirT1 based on crosslinked hyperbranched azo-polymer decorated with gold colloids (Au–HAP) as sensing platform and titanium dioxide (TiO2)–Au nanocomposites to immobilize secondary ...
DOI:
10.1016/j.ab.2016.05.020