Abstract: Monoamine oxidase A gene (MAOA) is suggested to
be a candidate gene implicated in many neuropsychiatric disorders,
including autism spectrum disorder (ASD). This meta-analytic review
evaluates the relationship between ASD and MAOA markers such as
30 bp variable number tandem repeats in the promoter region
(uVNTR) and single nucleotide polymorphisms (SNPs) by using
findings from recently published studies. It seems that in Caucasian
males, the risk of developing ASD increase with the presence of 4-
repeat allele in the promoter region of MAOA gene whereas no
differences were found between autistic patients and controls in
Egyptian, West Bengal and Korean population. Some studies point to
the importance of specific haplotype groups of SNPs and interaction
of MAOA with others genes (e. g. FOXP2 or SRY). The results of
existing studies are insufficient and further research is needed.
Abstract: Aim of this work was to study the genetic basis for oil
accumulation in olive fruit via tracking DGAT2 (Diacylglycerol
acyltransferase type-2) gene in three Egyptian Origen Olive cultivars
namely Toffahi, Hamed and Maraki using molecular marker
techniques and bioinformatics tools. Results illustrate that, firstly:
specific genomic band of Maraki cultivars was identified as DGAT2
(Diacylglycerol acyltransferase type-2) and identical for this gene in
Olea europaea with 100% of similarity. Secondly, differential
genomic band of Maraki cultivars which produced from RAPD
fingerprinting technique reflected predicted distinguished sequence
which identified as DGAT2 (Diacylglycerol acyltransferase type-2)
in Fragaria vesca subsp. Vesca with 76% of sequential similarity.
Third and finally, specific genomic specific band of Hamed cultivars
was identified as two fragments, 1- Olea europaea cultivar Koroneiki
diacylglycerol acyltransferase type 2 mRNA, complete cds with two
matches regions with 99% or 2- Predicted: Fragaria vesca subsp.
vesca diacylglycerol O-acyltransferase 2-like (LOC101313050),
mRNA with 86 % of similarity.
Abstract: The presence of endocrine-disrupting compounds,
such as bisphenol A (BPA), in the environment can cause serious
health problems. However, there are controversial opinions. This
study investigated the reproductive, metabolic, oxidative and
immunologic-disrupting effects of bisphenol A in male rabbits.
Rabbits were divided into five groups. The first four rabbit groups
were administered oral BPA (1, 10, 50, or 100 mg/kg/day) for ten
weeks. The fifth group was administered corn oil as the vehicle. BPA
significantly decreased serum testosterone, estradiol and the free
androgen index (FAI) and significantly increased sex hormone
binding globulin (SHBG) compared with the placebo group. The
higher doses of BPA showed a significant decrease in follicular
stimulating hormone (FSH) and luteinizing hormone (LH). A
significant increase in blood glucose levels was identified in the BPA
groups. The non-significant difference in insulin levels is a novel
finding. The cumulative testicular toxicity of BPA was clearly
demonstrated by the dose-dependent decrease in absolute testes
weight, primary measures of semen quality and a significant increase
in testicular malonaldehyde (MDA). Moreover, BPA significantly
decreased total antioxidant capacity (TAC) and significantly
increased immunoglobulin G (IgG) at the highest concentration. Our
results suggest that BPA, especially at higher doses, is associated
with many adverse effects on metabolism, oxidative stress, immunity,
sperm quality and markers of androgenic action.
Abstract: Collapsible soils go through radical rearrangement of
their particles when triggered by water, stress or/and vibration,
causing loss of volume. This loss of volume in soil as seen in
foundation failures has caused millions of dollars’ worth of damages
to public facilities and infrastructure and so has an adverse effect on
the society and people. Despite these consequences and the several
studies that are available, more research is still required in the study
of soil collapsibility. Discerning the pedogenesis (formation) of soils
and investigating the combined effects of the different geological soil
properties is key to elucidating and quantifying soils collapsibility.
This study presents a novel laboratory testing regime that would be
undertaken on soil samples where the effects of soil type, compactive
variables (moisture content, density, void ratio, degree of saturation)
and loading are analyzed. It is anticipated that results obtained would
be useful in mapping the trend of the combined effect thus the basis
for evaluating soil collapsibility or collapse potentials encountered in
construction with volume loss problems attributed to collapse.
Abstract: GRF, Growth regulating factor, genes encode a novel
class of plant-specific transcription factors. The GRF proteins play a
role in the regulation of cell numbers in young and growing tissues
and may act as transcription activations in growth and development
of plants. Identification of GRF genes and their expression are
important in plants to performance of the growth and development of
various organs. In this study, to better understanding the structural
and functional differences of GRFs family, 45 GRF proteins
sequences in A. thaliana, Z. mays, O. sativa, B. napus, B. rapa, H.
vulgare and S. bicolor, have been collected and analyzed through
bioinformatics data mining. As a result, in secondary structure of
GRFs, the number of alpha helices was more than beta sheets and in
all of them QLQ domains were completely in the biggest alpha helix.
In all GRFs, QLQ and WRC domains were completely protected
except in AtGRF9. These proteins have no trans-membrane domain
and due to have nuclear localization signals act in nuclear and they
are component of unstable proteins in the test tube.
Abstract: Microarray technology is universally used in the study
of disease diagnosis using gene expression levels. The main
shortcoming of gene expression data is that it includes thousands of
genes and a small number of samples. Abundant methods and
techniques have been proposed for tumor classification using
microarray gene expression data. Feature or gene selection methods
can be used to mine the genes that directly involve in the
classification and to eliminate irrelevant genes. In this paper
statistical measures like T-Statistics, Signal-to-Noise Ratio (SNR)
and F-Statistics are used to rank the genes. The ranked genes are used
for further classification. Particle Swarm Optimization (PSO)
algorithm and Shuffled Frog Leaping (SFL) algorithm are used to
find the significant genes from the top-m ranked genes. The Naïve
Bayes Classifier (NBC) is used to classify the samples based on the
significant genes. The proposed work is applied on Lung and Ovarian
datasets. The experimental results show that the proposed method
achieves 100% accuracy in all the three datasets and the results are
compared with previous works.
Abstract: This research aims to investigate callus induction,
somatic embryogenesis and indirect plant regeneration of Crassula
ovata (Mill.) Druce – the famous ornamental plant. Experiment no.1:
Callus induction was obtained from leaf and stem explants on
Murashige and Skoog (MS) medium supplemented with various plant
growth regulators (PGRs). Effects of different PGRs, plant
regeneration and subsequent plantlet conversion were also assessed.
Indirect plant regeneration was achieved from the callus of stem
explants by the addition of 1.5 mg/L Kinetin (KN) alone. Best shoot
induction was achieved (6.5 shoots/per explant) after 60 days. For
successful rooting, regenerated plantlets were sub-cultured on the
same MS media supplemented with 1.5 mg/L KN alone. The rooted
plantlets were acclimatized and the survival rate was 90%.
Experiment no.2: Results revealed that 0.5 mg/L 2,4-D alone and in
combination with 1.0 mg/L 6-Benzyladenine (BA) gave 89.8% callus
from the stem explants as compared to leaf explants. Callus
proliferation and somatic embryo formation were also evaluated by
‘Double Staining Method’ and different stages of somatic
embryogenesis were revealed by scanning electron microscope. Full
Strength MS medium produced the highest number (49.6%) of
cotyledonary stage somatic embryos (SEs). Mature cotyledonary
stage SEs developed into plantlets after 12 weeks of culture. Wellrooted
plantlets were successfully acclimatized at the survival rate of
85%. Indirectly regenerated plants did not show any detectable
variation in morphological and growth characteristics when
compared with the donor plant.
Abstract: This article presents a new vibration diagnostic
method designed to (PM) machines with permanent magnets. Those
devices are commonly used in small wind and water systems or
vehicles drives. The author’s method is very innovative and unique.
Specific structural properties of PM machines are used in this method
- electromotive force (EMF) generated due to vibrations. There was
analysed number of publications which describe vibration diagnostic
methods and tests of electrical PM machines and there was no
method found to determine the technical condition of such machine
basing on their own signals. In this article will be discussed: the
method genesis, the similarity of machines with permanent magnet to
vibration sensor and simulation and laboratory tests results. The
method of determination the technical condition of electrical machine
with permanent magnets basing on its own signals is the subject of
patent application and it is the main thesis of author’s doctoral
dissertation.
Abstract: Malathion (ML) is a well known pesticide commonly
used in many agricultural and non-agricultural processes. Its toxicity
has been attributed primarily to the accumulation of acetylcholine
(Ach) at nerve junctions, due to the inhibition of acetylcholinesterase
(AChE). The aim of the current research was to study the protective
effect of the melissa plant extract against reproductive impairment
induced by malathion in 32 male albino rats, and the biological
experiment was divided into four groups (8 in each) that given
malathion (27 mg/kg; 1/50 of the LD50 for an oral dose) and/or
Melissa officinalis (MO) extract (200mg/kg/day) by gavages
technique. The sperm counts, sperm motility, sperm morphology,
FSH, LH, and testosterone levels had been determined in testes
homogenate at the end of the experiment. It is worthy to report that,
rats treated with melissa extract did not show a significant difference
when compared with the control group, while rats given malathion
alone had significantly lower sperm count, sperm motility, and
significantly higher abnormal sperm numbers, than the untreated
control rats as well as having significantly lower serum FSH, LH, and
testosterone levels compared with the control group. Administrations
of melissa extract restore all mentioned histological parameters
towards the control group and the melissa extract had a strong
positive protective effect against malathion toxicity. Results the of
biological parameters were confirmed by the histological
examination of rat testes and indicated that, both control and melissa
groups showing normal seminiferous tubules, while malathion group
testicular tissues had necrosis, edema in the seminiferous tubules and
degeneration of spermatogonial cells lining the seminiferous tubules
with incomplete spermatogenesis. The use of melissa against
malathion improved the histological picture and showing normal
seminiferous tubules with complete spermatogenesis and almost there
was no histopathological changes could be noted.
Abstract: Osteoporosis is a common multifactorial disease with
a strong genetic component characterized by reduced bone mass and
increased risk of fractures. Genetic factors play an important role in
the pathogenesis of osteoporosis. The aim of our study was to
identify the genotype and allele distribution of T245G polymorphism
in OPG gene in Slovak postmenopausal women. A total of 200
unrelated Slovak postmenopausal women with diagnosed
osteoporosis and 200 normal controls were genotyped for T245G
(rs3134069) polymorphism of OPG gene. Genotyping was performed
using the Custom Taqman®SNP Genotyping assays. Genotypes and
alleles frequencies showed no significant differences (p=0.5551;
p=0.6022). The results of the present study confirm the importance of
T245G polymorphism in OPG gene in the pathogenesis of
osteoporosis.
Abstract: The MyD88 is an evolutionarily conserved host-expressed adaptor protein that is essential for proper TLR/ IL1R immune-response signaling. A previously identified complete cDNA (1626 bp) of OfMyD88 comprised an ORF of 867 bp encoding a protein of 288 amino acids (32.9 kDa). The gDNA (3761 bp) of OfMyD88 revealed a quinquepartite genome organization composed of 5 exons (with the sizes of 310, 132, 178, 92 and 155 bp) separated by 4 introns. All the introns displayed splice signals consistent with the consensus GT/AG rule. A bipartite domain structure with two domains namely death domain (24-103) coded by 1st exon, and TIR domain (151-288) coded by last 3 exons were identified through in silico analysis. Moreover, homology modeling of these two domains revealed a similar quaternary folding nature between human and rock bream homologs. A comprehensive comparison of vertebrate MyD88 genes showed that they possess a 5-exonic structure.In this structure, the last three exons were strongly conserved, and this suggests that a rigid structure has been maintained during vertebrate evolution.A cluster of TATA box-like sequences were found 0.25 kb upstream of cDNA starting position. In addition, putative 5'-flanking region of OfMyD88 was predicted to have TFBS implicated with TLR signaling, including copies of NFkB1, APRF/ STAT3, Sp1, IRF1 and 2 and Stat1/2. Using qPCR technique, a ubiquitous mRNA expression was detected in liver and blood. Furthermore, a significantly up-regulated transcriptional expression of OfMyD88 was detected in head kidney (12-24 h; >2-fold), spleen (6 h; 1.5-fold), liver (3 h; 1.9-fold) and intestine (24 h; ~2-fold) post-Fla challenge. These data suggest a crucial role for MyD88 in antibacterial immunity of teleosts.
Abstract: A large part of Russia is located in permafrost areas. These areas are widely used because there are concentrated valuable natural resources. Therefore to explore of cryosols it is important due to the significant increase of anthropogenic stress as well as the problem of global climate change. In the north of Western Siberia permafrost phenomena is widespread. Permafrost as a factor of soil formation and cryogenesis as a process have a great impact on the soil formation of these areas. Based on the research results of permafrost-affected soils tundra landscapes formed in the central part of the Tazovskiy Peninsula in cryogenic conditions, data were obtained which characterize the morphological features of soils. The specificity of soil cover distribution and manifestation of soil-forming processes within the study area are noted. Permafrost features such as frost cracking, cryoturbation, thixotropy, movement of humus are formed. The formation of these features is increased with the development of the territory. As a consequence, there is a change in the components of the environment and the destruction of the soil cover.
Abstract: Microarray gene expression data play a vital in biological processes, gene regulation and disease mechanism. Biclustering in gene expression data is a subset of the genes indicating consistent patterns under the subset of the conditions. Finding a biclustering is an optimization problem. In recent years, swarm intelligence techniques are popular due to the fact that many real-world problems are increasingly large, complex and dynamic. By reasons of the size and complexity of the problems, it is necessary to find an optimization technique whose efficiency is measured by finding the near optimal solution within a reasonable amount of time. In this paper, the algorithmic concepts of the Particle Swarm Optimization (PSO), Shuffled Frog Leaping (SFL) and Cuckoo Search (CS) algorithms have been analyzed for the four benchmark gene expression dataset. The experiment results show that CS outperforms PSO and SFL for 3 datasets and SFL give better performance in one dataset. Also this work determines the biological relevance of the biclusters with Gene Ontology in terms of function, process and component.
Abstract: In Arabidopsis, several genes encoding proteins with ankyrin repeats and transmembrane domains (AtANKTM) have been identified as mediators of biotic and abiotic stress responses. It has been known that the expression of an AtANKTM gene, At2g24600, is induced in response to abiotic stress and that there are four splicing variants derived from this locus. In this study, by RT-PCR and sequencing analysis, an unknown splicing variant of the At2g24600 transcript was identified. Based on differences in the predicted amino acid sequences, the five splicing variants are divided into three groups. The three predicted proteins are highly homologous, yet have different numbers of ankyrinrepeats and transmembrane domains. It is generally considered that ankyrin repeats mediate protein-protein interaction and that the number oftransmembrane domains affects membrane topology of proteins. The protein variants derived from the At2g24600 locus may have different molecular functions each other.
Abstract: Fishes, in general, follow ammonotelic mode of excretion. However, certain stress factors may provoke them to excrete urea. In the present study, the possible role of ureogenesis to avoid accumulation of toxic ammonia under water-restricted condition was tested in Heteropneustes fossilis. A total of hundred fishes were collected and sacrificed. Excretory urea and ammonia were estimated in the water of the aquarium and glutamate dehydrogenase acitivity was measured in the hepatic tissue. During the experimental period, excretory ammonia in Heteropneustes fossilis was found between 931% to 16% above the baseline ammonia and excretory urea was found between 112% to 898% above the baseline urea. A high degree of correlation with r (coefficient of correlation) above 0.9 is observed between excretory ammonia and urea in Heteropneustes fossilis. However, only a moderate degree of correlation is observed between the activity of glutamate dehydrogenase and excretory ammonia and urea.
Abstract: The calcarenites carbonate rocks of the Quaternary ridges, which extend along the northwestern Mediterranean coastal plain of Egypt, represent an excellent model for the transformation of loose sediments to real sedimentary rocks by the different stages of meteoric diagenesis. The depositional and diagenetic fabrics of the rocks, in addition to the strata orientation, highly affect their ultimate compressive strength and other geotechnical properties.
There is a marked increase in the compressive strength (UCS) from the first to the fourth ridge rock samples. The lowest values are related to the loose packing, weakly cemented aragonitic ooid sediments with high porosity, besides the irregularly distributed of cement, which result in decreasing the ability of these rocks to withstand crushing under direct pressure. The high (UCS) values are attributed to the low porosity, the presence of micritic cement, the reduction in grain size and the occurrence of micritization and calcretization processes.
The strata orientation has a notable effect on the measured (UCS). The lowest values have been recorded for the samples cored in the inclined direction; whereas the highest values have been noticed in most samples cored in the vertical and parallel directions to bedding plane. In case of the inclined direction, the bedding planes were oriented close to the plane of maximum shear stress. The lowest and highest anisotropy values have been recorded for the first and the third ridges rock samples, respectively, which may attributed to the relatively homogeneity and well sorted grainstone of the first ridge rock samples, and relatively heterogeneity in grain and pore size distribution and degree of cementation of the third ridge rock samples, besides, the abundance of shell fragments with intraparticle pore spaces, which may produce lines of weakness within the rock.
Abstract: Osteoporosis is a complex health disease characterized by low bone mineral density, which is determined by an interaction of genetics with metabolic and environmental factors. Current research in genetics of osteoporosis is focused on identification of responsible genes and polymorphisms. TNFRSF11B gene plays a key role in bone remodeling. The aim of this study was to investigate the genotype and allele distribution of A163G (rs3102735) osteoprotegerin gene promoter and G1181C (rs2073618) osteoprotegerin first exon polymorphisms in the group of 180 unrelated postmenopausal women with diagnosed osteoporosis and 180 normal controls. Genomic DNA was isolated from peripheral blood leukocytes using standard methodology. Genotyping for presence of different polymorphisms was performed using the Custom Taqman®SNP Genotyping assays. Hardy-Weinberg equilibrium was tested for each SNP in the groups of participants using the chi-square (χ2) test. The distribution of investigated genotypes in the group of patients with osteoporosis were as follows: AA (66.7%), AG (32.2%), GG (1.1%) for A163G polymorphism; GG (19.4%), CG (44.4%), CC (36.1%) for G1181C polymorphism. The distribution of genotypes in normal controls were follows: AA (71.1%), AG (26.1%), GG (2.8%) for A163G polymorphism; GG (22.2%), CG (48.9%), CC (28.9%) for G1181C polymorphism. In A163G polymorphism the variant G allele was more common among patients with osteoporosis: 17.2% versus 15.8% in normal controls. Also, in G1181C polymorphism the phenomenon of more frequent occurrence of C allele in the group of patients with osteoporosis was observed (58.3% versus 53.3%). Genotype and allele distributions showed no significant differences (A163G: χ2=0.270, p=0.605; χ2=0.250, p=0.616; G1181C: χ2= 1.730, p=0.188; χ2=1.820, p=0.177). Our results represents an initial study, further studies of more numerous file and associations studies will be carried out. Knowing the distribution of genotypes is important for assessing the impact of these polymorphisms on various parameters associated with osteoporosis. Screening for identification of “at-risk” women likely to develop osteoporosis and initiating subsequent early intervention appears to be most effective strategy to substantially reduce the risks of osteoporosis.
Abstract: Abnormal adipocyte growth, in terms of increased cell numbers and increased cell differentiation, is considered to be a major pathological feature of obesity. Thus, the inhibition of preadipocyte mitogenesis and differentiation could help prevent and suppress obesity. The aim of this study was to assess whether extracts from Weissella koreensis 521 cells isolated from kimchi could exert anti-adipogenic effects in 3T3-L1 cells (fat cells). Differentiating 3T3-L1 cells were treated with W. koreensis 521 cell extracts (W. koreensis 521_CE), and cell viability was assessed by MTT assays. At concentrations below 0.2 mg/ml, W. koreensis 521_CE did not exert any cytotoxic effect in 3T3-L1 cells. However, treatment with W. koreensis 521_CE significantly inhibited adipocyte differentiation, as assessed by morphological analysis and Oil Red O staining of fat. W. koreensis 521_CE treatment (0.2 mg/ml) also reduced lipid accumulation by 24% in fully differentiated 3T3-L1 adipocytes. These findings collectively indicate that Weissella koreensis 521 may help prevent obesity.
Abstract: Microarrays are made it possible to simultaneously monitor the expression profiles of thousands of genes under various experimental conditions. It is used to identify the co-expressed genes in specific cells or tissues that are actively used to make proteins. This method is used to analysis the gene expression, an important task in bioinformatics research. Cluster analysis of gene expression data has proved to be a useful tool for identifying co-expressed genes, biologically relevant groupings of genes and samples. In this work K-Means algorithms has been applied for clustering of Gene Expression Data. Further, rough set based Quick reduct algorithm has been applied for each cluster in order to select the most similar genes having high correlation. Then the ACV measure is used to evaluate the refined clusters and classification is used to evaluate the proposed method. They could identify compact clusters with feature selection method used to genes are selected.
Abstract: The low level of foreign genes expression in transgenic plants is a key factor that limits plant genetic engineering. Because of the critical regulatory activity of the promoters on gene transcription, they are studied extensively to improve the efficiency
of the plant transgenic system. The strong constitutive promoters, such as CaMV 35S promoter and Ubiqutin 1 maize are usually used in plant biotechnology research. However the expression level of the foreign genes in all tissues is often undesirable. But using a strong seed-specific promoter to limit gene expression in the seed solves such problems. The purpose of this study is to isolate one of the seed specific promoters of Hordeum vulgare. So one of the common varieties of Hordeum vulgare in Iran was selected and their genomes extracted then the D-Hordein promoter amplified using the specific designed primers. Then the amplified fragment of the insert cloned in an appropriate vector and then transformed to E. coli. At last for the
final admission of accuracy the cloned fragments sent for sequencing.
Sequencing analysis showed that the cloned fragment DHPcontained motifs; like TATA box, CAAT-box, CCGTCC-box,
AMYBOX1 and E-box etc., which constituted the seed-specific promoter activity. The results were compared with sequences existing in data banks. D-Hordein promoters of Alger has 99% similarity at 100 % coverage. The results also showed that D-Hordein promoter of barley and HMW promoter of wheat are too similar.