Serological and molecular properties of isolates of Bean common mosaic virus-BCMV from Khorasan Razavi province

During growing season, 2011–2012, selected bean plant samples with symptoms of mosaic, vein clearing, leaf rolling, were collected from different part of Khorasan Razavi province of north-eastern Iran. To identify the virus, leaf samples were tested serologically by DAS-ELISA and tissue blot, using specific BCMV polyclonal antibody. Elisa positive samples were rechecked by RT-PCR and IC-RT-PCR using set of primers directed to the coat protein gene which were designed to detect and characterise the viral species. Similarly, the BCMV primers amplified product of approximately 373?bp in 1% agarose gel electrophoresis. In phylogenic analysis, A and B groups were formed for 12 Iranian isolate comparing with 18 BCMV isolates from GenBank. Iranian isolates were classified into three clusters indicating to have more homology 99.3% with Mexican Isolates. There are also indications of some diversities among Iranian BCMV isolates.     

Evaluation of satellite data efficiency in identification of plant groups

Application of remote sensing (RS) and geographical information system (GIS) techniques has been increased in natural sciences. In fact, it is inevitable applying of these techniques in vegetation studies due to the existence of some problems in traditional methods (e.g. sampling, calculation, analysis and so on). On this scope, scientists must have sufficient information about the efficiency of these techniques as a useful tool in their studies. This study aims to evaluate the IRS-P6 LISS III and Landsat ETM⁺ efficiency in plant groups’ identification. In order to this purpose, 143 training samples were collected from areas that showed homogenous composition of plant species in at least area of 3600 m² (60 × 60 m). Coordinates of these training samples were recorded using a GPS device and transferred to a GIS database. Also, ENVI 4.2 package has used to process and analyze the satellites data. Several methods of processing such as; spectral separability, supervised classification and assessment of classification accuracy were used in order to gain a satisfy evaluation of the data efficiency. The results indicated that net farming of alfalfa and Juniperus polycarpus–Artemisia kopetdaghensisi community have the most separability on the satellite images (1.99 for Landsat and 2 for IRS). Against, the least separabilities on the Landsat data were between Ju. polycarpus–Onobrychis cornuta and Ju. polycarpus–Ar. kopetdaghensis communities (1.57) and between Ju. polycarpus–Ar. kopetdaghensis and Ju. polycarpus–Agropyron intermedium (1.53) on the IRS data. According to these results, it is concluded that the satellite data are somedeal able to identify plant groups when vegetation communities are sufficiently homogenous, abundant and spectrally and ecologically separable.     

Occurrence of different trichothecenes and deoxynivalenol-3-β-d-glucoside in naturally and artificially contaminated Danish cereal grains and whole maize plants

Fusarium mycotoxins such as deoxynivalenol (DON) can occur in cereals conjugated to glucose and probably also to other sugars. These conjugates, which are often referred to as ??masked mycotoxins??, will not be detected with routine analytical techniques. Furthermore, it is suspected that the parent toxin may again be released after hydrolysis in the digestive tracts of animals and humans. Today, our knowledge of the occurrence of these compounds in cereal grains is limited. In this paper, a LC-MS/MS method for the simultaneous determination of DON, deoxynivalenol-3-??-d-glucoside (DON-3-glucoside), 3 acetyl-DON, nivalenol, fusarenon-X, diacetoxyscirpenol, HT-2 toxin, and T-2 toxin in naturally (n?=?48) and artificially (n?=?30) contaminated cereal grains (wheat, barley, oat, rye triticale) is reported. The method has also been applied to whole fresh maize plant intended for production of maize silage (n?=?10). The samples were collected from the harvest years 2006?C2010, The results show that DON-3-glucoside and DON co-occurred in cereal grains and, especially in several of the highly contaminated samples, the concentration of the glucoside can be relatively high, corresponding to over 37?% of the DON concentration. The DON-3-glucoside levels in both the naturally and in the artificially grain inoculated with Fusarium were second only to DON, and were generally higher than those of the other tested trichothecenes, which were found at low concentrations in most samples, in many cases even below the detection limit of the method. This argues for the importance of taking DON-3-glucoside into account in the ongoing discussion within the European Community concerning exposure re-evaluations for setting changed values for the tolerable intake for DON. Our results indicate that, in the naturally contaminated grains and in the Fusarium infested cereal grains (winter and spring wheat, oat, triticale), the concentration level of DON-3-glucoside is positively correlated to the DON content. When the DON concentration is high, then the content of DON-3-glucoside will most probably also be high and vice versa.     

Densely sampled phylogenetic analyses of the Lesser Short-toed Lark (Alaudala rufescens) — Sand Lark (A. raytal) species complex (Aves,Passeriformes) reveal cryptic diversity

The taxonomy of the Lesser/Asian Short-toed Lark Alaudala rufescens–cheleensis complex has been debated for decades, mainly because of minor morphological differentiation among the taxa within the complex, and different interpretations of the geographical pattern of morphological characters among different authors. In addition, there have been few studies based on non-morphological traits. It has recently been suggested based on a molecular study of the lark family Alaudidae that the Sand Lark A. raytal is nested within this complex. We here analysed mitochondrial cytochrome b (cyt b) from 130 individuals across the range of this complex (hereafter called Alaudala rufescens–raytal complex), representing all except two of the 18 currently recognized subspecies. We also analysed 11 nuclear markers from a subsample of these individuals, representing all of the clades found in the cyt b tree. Five primary clades were recovered, which confirmed that A. raytal is nested within this complex. Divergence time estimates among these five clades ranged from 1.76 to 3.16 million years (my; 95% highest posterior density [HPD] 1.0–4.51 my) or 1.99–2.53 my (95% HPD 0.96–4.3 my) in different analyses. Only four of the currently recognized subspecies were recovered as monophyletic in the cyt b tree. Our results call for a taxonomic revision, and we tentatively suggest that at least four species should be recognized, although we stress the need for an approach integrating molecular, morphological and other data that are not yet available.     

Study of the mechanisms of crocetin-induced differentiation and apoptosis in human acute promyelocytic leukemia cells

Crocetin, the major carotenoid in saffron, exhibits potent anticancer effects. However, the antileukemic effects of crocetin are still unclear, especially in primary acute promyelocytic leukemia (APL) cells. In the current study, the potential antipromyelocytic leukemia activity of crocetin and the underlying molecular mechanisms were investigated. Crocetin (100 µM), like standard anti-APL drugs, all-trans retinoic acid (ATRA, 10 µM) and As₂O ₃ (arsenic trioxide, 50 µM), significantly inhibited proliferation and induced apoptosis in primary APL cells, as well as NB4 and HL60 cells. The effect was associated with the decreased expressions of prosurvival genes Akt and BCL2, the multidrug resistance (MDR) proteins, ABCB1 and ABCC1 and the inhibition of tyrosyl-DNA phosphodiesterase 1 (TDP1), while the expressions of proapoptotic genes CASP3, CASP9, and BAX/BCL2 ratio were significantly increased. In contrast, crocetin at relatively low concentration (10 µM), like ATRA (1 µM) and As ₂O ₃ (0.5 µM), induced differentiation of leukemic cells toward granulocytic pattern, and increased the number of differentiated cells expressing CD11b and CD14, while the number of the immature cells expressing CD34 or CD33 was decreased. Furthermore, crocetin suppressed the expression of clinical marker promyelocytic leukemia/retinoic acid receptor-α ( PML/RARα) in NB4 and primary APL cells, and reduced the expression of histone deacetylase 1 ( HDAC1) in all leukemic cells. The results suggested that crocetin can be considered as a candidate for future preclinical and clinical trials of complementary APL treatment.     

Ground,dry-rolled and steam-processed barley grain for midlactation Holstein cows

Fine grinding of barley grain has traditionally been considered to be a potential risk to rumen function, feed intake and milk yield. These concerns are thought to be reduced by steam-rolling or coarse dry rolling. We hypothesized that finely ground barley grain is as effective in stimulating feed intake and milk production as are dry- and steam-rolled barley grain, and so the objective was to determine effects of feeding either (1) finely ground, (2) steam-rolled, (3) finely dry-rolled, or (4) coarsely dry-rolled barley grain on rumen fermentation, digestibility and milk yield and composition. Eight multiparous midlactation Holstein cows were used in a replicated 4×4 Latin square design experiment with four periods of 21 d. Diets contained 256 g barley grain/kg on a dry matter (DM) basis. Processing method did not affect milk yield and composition, DM intake, rumen pH and volatile fatty acids, fecal and urine pH, and apparent total tract nutrient digestibility. Results suggest that finely ground barley grain is no different than dry-rolled and steam-rolled barley grains in stimulating feed intake and productivity of midlactation cows, when 256 g of dietary DM/kg is barley grain.     

The 6-methoxymethyl derivative of pyrrolo-dC for selective fluorometric detection of guanosine-containing sequences

The beta-cyanoethyl phosphosphoramidite derivatives of 6-methyl- and 6-methoxymethyl-3-(2-deoxy-beta-D-ribofuranosyl)-3H-pyrrolo[2,3-d]pyrimidin-2-one have been synthesized. These monomers have been employed for oligodeoxynucleotide synthesis to evaluate their effect on duplex stability and ability to fluorometrically report on hybridization. The structurally conservative 6-methoxymethyl-substitution results in a pyrrolocytidine that is stabilizing toward hybrid formation (Delta Tm = +1.3 degrees C) whereas the known 6-methylpyrrolocytidine is destabilizing (Delta Tm = -4.7 degrees C), in the sequence examined. The 6-methoxymethylpyrrolocytidine retains excellent mismatch discrimination and its fluorescence is selectively quenched when hybridized to a match oligodeoxynucleotide sequence. The quenching of fluorescence for an internal position is approximately three-fold, whereas a terminal position (5'-end or 3'-end) experienced approximately two-fold decrease in the fluorescence intensity.     

Exploring dynamics and network analysis of spike glycoprotein of SARS-COV-2

The ongoing pandemic caused by severe acute respiratory syndrome coronavirus 2 continues to rage with devastating consequences on human health and global economy. The spike glycoprotein on the surface of coronavirus mediates its entry into host cells and is the target of all current antibody design efforts to neutralize the virus. The glycan shield of the spike helps the virus to evade the human immune response by providing a thick sugar-coated barrier against any antibody. To study the dynamic motion of glycans in the spike protein, we performed microsecond-long molecular dynamics simulation in two different states that correspond to the receptor binding domain in open or closed conformations. Analysis of this microsecond-long simulation revealed a scissoring motion on the N-terminal domain of neighboring monomers in the spike trimer. The roles of multiple glycans in shielding of spike protein in different regions were uncovered by a network analysis, in which the high betweenness centrality of glycans at the apex revealed their importance and function in the glycan shield. Microdomains of glycans were identified featuring a high degree of intracommunication in these microdomains. An antibody overlap analysis revealed the glycan microdomains as well as individual glycans that inhibit access to the antibody epitopes on the spike protein. Overall, the results of this study provide detailed understanding of the spike glycan shield, which may be utilized for therapeutic efforts against this crisis.     

A bioactive foamed emulsion reactor for the treatment of benzene-contaminated air stream

An adapted bioactive foamed emulsion bioreactor for the treatment of benzene vapor has been developed. In this reactor, bed clogging was resolved by bioactive foam as a substitute of packing bed for interfacial contact of liquid to gaseous phase. The pollutant solubility has been increased using biocompatible organic phase in liquid phase and this reactor can be applied for higher inlet benzene concentration. Experimental results showed a benzene elimination capacity (EC) of 220 g m⁻³ h⁻¹ with removal efficiency (RE) of 85% for benzene inlet concentration of 1–1.2 g m⁻³ at 15 s gas residence time in bioreactor. Assessment of benzene concentration in liquid phase showed that a significant amount of transferred benzene mass has been biodegraded. By optimizing the operational parameters of bioreactor, continuous operation of bioreactor with high EC and RE was demonstrated. With respect to the results, this reactor has the potential to be applied instead of biofilter and biotrickling filters.