The C-terminal basic residues contribute to the chemical- and voltage-dependent activation of TRPA1

The ankyrin transient receptor potential channel TRPA1 is a non-selective cationic channel that is expressed by sensory neurons, where it can be activated by pungent chemicals, such as AITC (allyl isothiocyanate), cinnamon or allicin, by deep cooling (<18?°C) or highly depolarizing voltages (>+100 mV). From the cytoplasmic side, this channel can be regulated by negatively charged ligands such as phosphoinositides or inorganic polyphosphates, most likely through an interaction with as yet unidentified positively charged domain(s). In the present study, we mutated 27 basic residues along the C-terminal tail of TRPA1, trying to explore their role in AITC- and voltage-dependent gating. In the proximal part of the C-terminus, the function-affecting mutations were at Lys969, Arg975, Lys988 and Lys989. A second significant region was found in the predicted helix, centred around Lys1048 and Lys1052, in which single alanine mutations completely abolished AITC- and voltage-dependent activation. In the distal portion of the C-terminus, the charge neutralizations K1092A and R1099A reduced the AITC sensitivity, and, in the latter mutant, increased the voltage-induced steady-state responses. Taken together, our findings identify basic residues in the C-terminus that are strongly involved in TRPA1 voltage and chemical sensitivity, and some of them may represent possible interaction sites for negatively charged molecules that are generally considered to modulate TRPA1.     

New records for the bee fauna of Iran (Hymenoptera: Apoidea)

In a survery of the bee fauna of Horand forests in East Azerbaijan province of Iran during 2008 and 2009, 46 species belonging to the families Anthophoridae, Halictidae and Megachilidae were identified. Eight species are new to the fauna of Iran: Evylaeus albipes (Fabricius, 1781), E. corvinus (Morawitz, 1878), E. israelensis (Ebmer, 1974), Seladonia desertorum (Morawitz, 1876), Heriades crenulatus Nylander, 1856, Hoplitis anthocopoides (Schenck, 1853), H. manicata (Morice, 1901) and H. rufohirta (Latreille, 1811).     

Allometric scaling relationship between frequency of intestinal contraction and body size in rodents and rabbits

This study aimed to establish an allometric scaling relationship between the frequency of intestinal contractions and body mass of different mammalian species. The frequency of intestinal contractions of rabbit, guinea pig, rat and mouse were measured using an isolated organ system. The isolated rings were prepared from proximal segments of jejunums and the frequency of contractions was recorded by an isometric force procedure. The coefficients of the obtained allometric equation were ascertained by computation of least squares after logarithmic transformation of both body mass and frequency. Significant differences (p?<?0.001) were shown in the frequency of contractions between different species. The highest frequency that corresponded to the mice was 57.7 min^?1 and the 95% confidence interval (CI) ranged from 45.4 to 70, while rabbits showed the lowest frequency (12.71 min^?1, CI: 8.6–16.8). Logarithms of frequency were statistically proportional to logarithms of body mass (r?=?0.99; p?<?0.001). The data fitted an equation $ \mathrm{F}=18.51{{\mathrm{B}}^{-0.31 }} $ and the 95% confidence interval of the exponent ranged from ?0.30 to ?0.32. The results of this study suggest that it is probably possible to extrapolate the intestinal contraction frequency of other mammalian species by the means of allometry scaling.     

Improvement of efficient in vitro regeneration potential of mature callus induced from Malaysian upland rice seed (Oryza sativa cv. Panderas)

A new and rapid protocol for optimum callus production and complete plant regeneration has been assessed in Malaysian upland rice (Oryza sativa) cv. Panderas. The effect of plant growth regulator (PGR) on the regeneration frequency of Malaysian upland rice (cv. Panderas) was investigated. Mature seeds were used as a starting material for callus induction experiment using various concentrations of 2,4-D and NAA. Optimal callus induction frequency at 90% was obtained on MS media containing 2,4-D (3 mg L⁻¹) and NAA (2 mg L⁻¹) after 6 weeks while no significant difference was seen on tryptophan and glutamine parameters. Embryogenic callus was recorded as compact, globular and light yellowish in color. The embryogenic callus morphology was further confirmed with scanning electron microscopy (SEM) analysis. For regeneration, induced calli were treated with various concentrations of Kin (0.5–1.5 mg L⁻¹), BAP, NAA and 0.5 mg L⁻¹ of TDZ. The result showed that the maximum regeneration frequency (100%) was achieved on MS medium containing BAP (0.5 mg L⁻¹), Kin (1.5 mg L⁻¹), NAA (0.5 mg L⁻¹) and TDZ (0.5 mg L⁻¹) within four weeks. Developed shoots were successfully rooted on half strength MS free hormone medium and later transferred into a pot containing soil for acclimatization. This cutting-edge finding is unique over the other existing publishable data due to the good regeneration response by producing a large number of shoots.Abbreviations: 2,4-D, 2,4-dichlorophenoxyacetic acid; NAA, naphthaleneacetic acid; Kin, kinetin; MS, Murashige and Skoog; BAP, benzylaminopurine; TDZ, thidiazuron     

Protein psychrophilicity: role of residual structural properties in adaptation of proteins to low temperatures

In order to investigate the structural distribution responsible for protein psychrophilicity, a systematic comparative analysis of 13 pairs of psychrophilic and mesophilic proteins is reported. Three kinds of residue structural states such as exposed, intermediate and buried were considered for analyzing the structural patterns of single amino acids and amino acids in different groups. The statistical test revealed that higher frequency in exposed state of Ala, higher frequency in intermediate state of His, lower frequency in buried state of Lys, lower frequency in exposed state of Gln, higher frequency in exposed state and in intermediate state of Thr, higher frequency in exposed and intermediate state of tiny and small amino acids groups could be critical factors related with protein psychrophilicity. Such structure-based differences of residual properties would help to develop a strategy for designing psychrophilic proteins.     

PROPER: Performance visualization for optimizing and comparing ranking classifiers in MATLAB

Background

One of the recent challenges of computational biology is development of new algorithms, tools and software to facilitate predictive modeling of big data generated by high-throughput technologies in biomedical research.

Results

To meet these demands we developed PROPER - a package for visual evaluation of ranking classifiers for biological big data mining studies in the MATLAB environment.

Conclusion

PROPER is an efficient tool for optimization and comparison of ranking classifiers, providing over 20 different two- and three-dimensional performance curves.

     

A close‐up view of dynamic biomarkers in the setting of COVID‐19: Striking focus on cardiovascular system

Based on the recent reports, cardiovascular events encompass a large portion of the mortality caused by the COVID‐19 pandemic, which drawn cardiologists into the management of the admitted ill patients. Given that common laboratory values may provide key insights into the illness caused by the life‐threatening SARS‐CoV‐2 virus, it would be more helpful for screening, clinical management and on‐time therapeutic strategies. Commensurate with these issues, this review article aimed to discuss the dynamic changes of the common laboratory parameters during COVID‐19 and their association with cardiovascular diseases. Besides, the values that changed in the early stage of the disease were considered and monitored during the recovery process. The time required for returning biomarkers to basal levels was also discussed. Finally, of particular interest, we tended to abridge the latest updates regarding the cardiovascular biomarkers as prognostic and diagnostic criteria to determine the severity of COVID‐19.     

X-ray inactivation, Weigle reactivation, and Weigle mutagenesis of the lysogenic Vibrio kappa phage

Vibrio cholerae lysogenic kappa phage was inactivated by X-ray (60 kV) in a dose-dependent manner, the inactivation dose leading to 37% survival (D37) in phosphate-buffered saline (PBS), pH 7.4, being 0.36 kGy. The phages were significantly protected against X-ray irradiation when histidine or cysteine or both were present in PBS or when phages were irradiated in nutrient broth. Maximum protection was offered when both histidine (10.0 mM) and cysteine (10.0 mM) were present in PBS (dose enhancement factor being 4.17). The X-irradiated kappa phages also underwent a small but significant Weigle reactivation and also Weigle mutagenesis in the UV-irradiated V. cholerae host H218Smr. The Weigle factor or the frequency of clear-plaque mutants increased with increasing UV dose, attained a maximum at a UV dose of 2.4 J m-2, and thereafter decreased gradually with a further increase of the UV dose. The X-ray dose (D)--survival (S) curves could be empirically described by the equation S = exp[-(aD + bD2)], where a and b are constants depending on the irradiation conditions, and a good agreement between the theoretical curves and experimental data was obtained.     

A lipase from a newly isolated thermophilicRhizopus rhizopodiformis

Two strains ofRhizopus rhizopodiformis that produced lipases in broth culture were isolated. Maximum lipase production (23 U/ml) was obtained after 72 h culture. Both the crude lipases were stable at 50°C for 30 min and at 45°C for 24 h. Maltose was the best carbon source and peptone the best nitrogen source for the production of lipases. Only glycerol and lecithin stimulated lipase production further.     

在玻璃表面上短时接触硅藻土和多杀菌素对四纹豆象的致死效应和亚致死效应（英文）

四纹豆象Callosobruchus maculatus (F.)是伊朗豇豆种子上的主要贮藏害虫。控制这一害虫时, 用生物杀虫剂比用常规杀虫剂更为合适。本研究评价了室内条件下在玻璃表面上硅藻土和多杀菌素对四纹豆象成虫的致死效应和亚致死效应。结果表明： 硅藻土处理24 h和48 h后, 对四纹豆象成虫的LC50 值分别为 1.47和0.2 g/m²; 多杀菌素处理24 h和48 h后, 对四纹豆象成虫的LC50 值分别为102.9 和68.8 mg ai/L, 说明两种化合物都对四纹豆象成虫具有较高的急性毒性。通过检测生物学参数, 研究了LC₂₀浓度的硅藻土和多杀菌素对四纹豆象的亚致死效应。LC₂₀浓度的硅藻土和多杀菌素使四纹豆象成虫的繁殖力分别比对照降低了71.5%和17.2%, 卵孵化率降低了57.5%和27.8%, 成虫寿命缩短了74.7%和17.1%。接触LC₂₀浓度的硅藻土和多杀菌素使这一害虫的蛹期分别比对照延长了4.8%和2.3%。亚致死效应研究表明, 硅藻土和多杀菌素对四纹豆象的生命参数均产生了负面影响。总之, 致死效应和亚致死效应综合显示, 硅藻土在防治四纹豆象上具有较大的潜力。