Abstract: Potatoes are a good source of carotenoids, which are lipophilic compounds synthesized in plastids from isoprenoids. The aim of this research was to determine the content of carotenoids in relationship with the colour of organically and conventionally cultivated potato genotypes before and after period of storage. In cooperation with the State Priekuli Plant Breeding Institute (Latvia), six potato genotypes were studied: 'Agrie dzeltenie', 'Prelma', 'Imanta', 'S-03135-10', 'S-99108-8' and 'S-01063-5'. All the genotypes were cultivated under three different conditions: organically and conventionally (two conditions). The content of carotenoids was determined by using spectrophotometer and the colour – L*a*b* system. The results of current research show that after the period of storage, carotenoid amount has increased and in conventionally cultivated potatoes it varies from 228.514 to 552.434 μg 100 g-1 while in organically cultivated potato genotypes – from 45.485 to 662.699 μg 100 g-1 FW. Colour of potato flesh was changing during storage.
Abstract: Fuzzy C-means Clustering algorithm (FCM) is a
method that is frequently used in pattern recognition. It has the
advantage of giving good modeling results in many cases, although,
it is not capable of specifying the number of clusters by itself. In
FCM algorithm most researchers fix weighting exponent (m) to a
conventional value of 2 which might not be the appropriate for all
applications. Consequently, the main objective of this paper is to use
the subtractive clustering algorithm to provide the optimal number of
clusters needed by FCM algorithm by optimizing the parameters of
the subtractive clustering algorithm by an iterative search approach
and then to find an optimal weighting exponent (m) for the FCM
algorithm. In order to get an optimal number of clusters, the iterative
search approach is used to find the optimal single-output Sugenotype
Fuzzy Inference System (FIS) model by optimizing the
parameters of the subtractive clustering algorithm that give minimum
least square error between the actual data and the Sugeno fuzzy
model. Once the number of clusters is optimized, then two
approaches are proposed to optimize the weighting exponent (m) in
the FCM algorithm, namely, the iterative search approach and the
genetic algorithms. The above mentioned approach is tested on the
generated data from the original function and optimal fuzzy models
are obtained with minimum error between the real data and the
obtained fuzzy models.
Abstract: The research was conducted with three replications as
“Randomized Block Design” in Konya-Turkey ecological conditions.
In the study, 16 of promising safflower lines (A8, E1, F4, F6, G16,
H14, I1), and 1 cultivar (Dinçer) were evaluated in 2008-09 growing
season. Some of the yield components such as plant height (cm), first
branch height (cm), number of branches per plant, 1000 seed weight
(g), seed yield (kg ha-1), oil content (%), oil yield (kg ha-1) were
determined. Winter sowing showed higher values than spring sowing.
The highest values were taken from Dinçer for plant height (86.7
cm), E1 (37.5 cm) for first branch height, F6 for number of branch
(11.6 per plant), I1 for number of head (24.9 per plant), A8 for 1000
seed weight (51.75 g), Dinçer for seed yield (2927.1 kg ha-1), oil
content (28.79 %) and also for oil yield (87.44 kg ha-1) respectively.
Abstract: This research studied the simulation of increased
ambient ozone to estimate nutrient content and genetic changes in
two Thai soybean cultivars (Chiang Mai 60 and Srisumrong 1).
Ozone stress conditions affected proteins and lipids. It was found
that proteins decreased, but lipids increased. Srisumrong 1 cultivars
were more sensitive to ozone stress than Chiang Mai 60 cultivars.
The effect of ozone stress conditions on plant phenotype and
genotype was analyzed using the AFLP technique for the 2 Thai
soybean cultivars (Chiang Mai 60 and Srisumrong 1).
Abstract: In order to study seed yield and seed yield
components in bean under reduced irrigation condition and
assessment drought tolerance of genotypes, 15 lines of White beans
were evaluated in two separate RCB design with 3 replications under
stress and non stress conditions. Analysis of variance showed that
there were significant differences among varieties in terms of traits
under study, indicating the existence of genetic variation among
varieties. The results indicate that drought stress reduced seed yield,
number of seed per plant, biological yield and number of pod in
White been. In non stress condition, yield was highly correlated with
the biological yield, whereas in stress condition it was highly
correlated with harvest index. Results of stepwise regression showed
that, selection can we done based on, biological yield, harvest index,
number of seed per pod, seed length, 100 seed weight. Result of path
analysis showed that the highest direct effect, being positive, was
related to biological yield in non stress and to harvest index in stress
conditions. Factor analysis were accomplished in stress and nonstress
condition a, there were 4 factors that explained more than 76
percent of total variations. We used several selection indices such as
Stress Susceptibility Index ( SSI ), Geometric Mean Productivity (
GMP ), Mean Productivity ( MP ), Stress Tolerance Index ( STI ) and
Tolerance Index ( TOL ) to study drought tolerance of genotypes, we
found that the best Stress Index for selection tolerance genotypes
were STI, GMP and MP were the greatest correlations between these
Indices and seed yield under stress and non stress conditions. In
classification of genotypes base on phenotypic characteristics, using
cluster analysis ( UPGMA ), all allels classified in 5 separate groups
in stress and non stress conditions.
Abstract: There is a world-wide need for the development of sustainable management strategies to control pest infestation and the development of phosphine (PH3) resistance in lesser grain borer (Rhyzopertha dominica). Computer simulation models can provide a relatively fast, safe and inexpensive way to weigh the merits of various management options. However, the usefulness of simulation models relies on the accurate estimation of important model parameters, such as mortality. Concentration and time of exposure are both important in determining mortality in response to a toxic agent. Recent research indicated the existence of two resistance phenotypes in R. dominica in Australia, weak and strong, and revealed that the presence of resistance alleles at two loci confers strong resistance, thus motivating the construction of a two-locus model of resistance. Experimental data sets on purified pest strains, each corresponding to a single genotype of our two-locus model, were also available. Hence it became possible to explicitly include mortalities of the different genotypes in the model. In this paper we described how we used two generalized linear models (GLM), probit and logistic models, to fit the available experimental data sets. We used a direct algebraic approach generalized inverse matrix technique, rather than the traditional maximum likelihood estimation, to estimate the model parameters. The results show that both probit and logistic models fit the data sets well but the former is much better in terms of small least squares (numerical) errors. Meanwhile, the generalized inverse matrix technique achieved similar accuracy results to those from the maximum likelihood estimation, but is less time consuming and computationally demanding.
Abstract: Human genome is not only the evolutionary
summation of all advantageous events, but also houses lesions of
deleterious foot prints. A single gene mutation sometimes may
express multiple consequences in numerous tissues and a linear
relationship of the genotype and the phenotype may often be obscure.
ß Thalassemia minor, a transfusion independent mild anaemia,
coupled with environment among other factors may articulate into
phenotypic pleotropy with Hypocholesterolemia, Vitamin D
deficiency, Tissue hypoxia, Hyper-parathyroidism and Psychological
alterations. Occurrence of Pancreatic insufficiency, resultant
steatorrhoea, Vitamin-D (25-OH) deficiency (13.86 ngm/ml) with
Hypocholesterolemia (85mg/dl) in a 30 years old male ß Thal-minor
patient (Hemoglobin 11mg/dl with Fetal Hemoglobin 2.10%, Hb A2
4.60% and Hb Adult 84.80% and altered Hemogram) with increased
Para thyroid hormone (62 pg/ml) & moderate Serum Ca+2
(9.5mg/ml) indicate towards a cascade of phenotypic pleotropy
where the ß Thalassemia mutation ,be it in the 5’ cap site of the
mRNA , differential splicing etc in heterozygous state is effecting
several metabolic pathways. Compensatory extramedulary
hematopoiesis may not coped up well with the stressful life style of
the young individual and increased erythropoietic stress with high
demand for cholesterol for RBC membrane synthesis may have
resulted in Hypocholesterolemia.Oxidative stress and tissue hypoxia
may have caused the pancreatic insufficiency, leading to Vitamin D
deficiency. This may in turn have caused the secondary
hyperparathyroidism to sustain serum Calcium level. Irritability and
stress intolerance of the patient was a cumulative effect of the vicious
cycle of metabolic compromises. From these findings we propose
that the metabolic deficiencies in the ß Thalassemia mutations may
be considered as the phenotypic display of the pleotropy to explain
the genetic epidemiology.
According to the recommendations from the NIH Workshop on
Gene-Environment Interplay in Common Complex Diseases: Forging
an Integrative Model, study design of observations should be
informed by gene-environment hypotheses and results of a study
(genetic diseases) should be published to inform future hypotheses.
Variety of approaches is needed to capture data on all possible
aspects, each of which is likely to contribute to the etiology of
disease. Speakers also agreed that there is a need for development of
new statistical methods and measurement tools to appraise
information that may be missed out by conventional method where
large sample size is needed to segregate considerable effect.
A meta analytic cohort study in future may bring about significant
insight on to the title comment.
Abstract: Plant growth is affected by the osmotic stress as well as toxicity of salt in leaves. In order to study of salt stress effects on stomatal conductance and growth rate and relationship between them as wells osmotic and Na+-specific effects on these traits, four bread wheat genotypes differing in salt tolerance were selected. Salinity was applied when the leaf 4 was fully expanded. Sodium (Na+) concentrations in flag leaf blade at 3 salinity levels (0, 100 and 200 mM NaCl) were measured. Salt-tolerant genotypes showed higher stomatal conductance and growth rate compared to salt-sensitive ones. After 10 and 20 days exposure to salt, stomatal conductance and relative growth rate were reduced, but the reduction was greater in sensitive genotypes. Growth rate was reduced severely in the first period (1-10 days) of salt commencements and it was due to osmotic effect of salt not Na+ toxicity. In the second period (11-20 days) after salt treatment growth reduced only when salt accumulated to toxic concentrations in the leaves. A positive relationship between stomatal conductance and relative growth rate showed that stomatal conductance can be a reliable indicator of growth rate, and finally can be considered as a sensitive indicator of the osmotic stress. It seems 20 days after salinity, the major effect of salt, especially at low to moderate salinity levels on growth properties was due to the osmotic effect of salt, not to Na+-specific effects within the plant.
Abstract: The understanding of the system level of biological behavior and phenomenon variously needs some elements such as gene sequence, protein structure, gene functions and metabolic pathways. Challenging problems are representing, learning and reasoning about these biochemical reactions, gene and protein structure, genotype and relation between the phenotype, and expression system on those interactions. The goal of our work is to understand the behaviors of the interactions networks and to model their evolution in time and in space. We propose in this study an ontological meta-model for the knowledge representation of the genetic regulatory networks. Ontology in artificial intelligence means the fundamental categories and relations that provide a framework for knowledge models. Domain ontology's are now commonly used to enable heterogeneous information resources, such as knowledge-based systems, to communicate with each other. The interest of our model is to represent the spatial, temporal and spatio-temporal knowledge. We validated our propositions in the genetic regulatory network of the Aarbidosis thaliana flower
Abstract: Information society is an absolutely new public formation at which the infrastructure and the social relations correspond to the socialized essence of «information genotype» mankind. Information society is a natural social environment which allows the person to open completely the information nature, to use intelligence for joint creation with other people of new information on the basis of knowledge earlier saved up by previous generations.
Abstract: Biplot can be used to evaluate cultivars for their oil
percent potential and stability and to evaluate trial sites for their
discriminating ability and representativeness. Multi-environmental
trial (MET) data for oil percent of 10 open pollinating sunflower
cultivars were analyzed to investigate the genotype-environment
interactions. The genotypes were evaluated in four locations with
different climatic conditions in Iran in 2010. In each location, a
Randomized Complete Block design with four replications was used.
According to both mean and stability, Zaria, Master and R453, had
highest performances among all cultivars. The graphical analysis
identified best cultivar for each environment. Cultivars Berezans and
Record performed best in Khoy and Islamabad. Zaria and R453 were
the best genotypes in Sari and Karaj followed by Master and Favorit.
The GGE bi-plot indicated two mega-environments, group one
contained Karaj, Khoy and Islamabad and the second group
contained Sari. The best discriminating location was Karaj followed
with Khoy, Islamabad and Sari. The best representative genotypes
were Zaria, R453, Master and Favorit. Ranking of ten cultivars based
their oil percent was as Zaria > R453 ≈ Master ≈ Favorit > Record ≈
Berezans > Sor > Lakumka > Bulg3 > Bulg5.
Abstract: Evolvable hardware (EHW) is a developing field that
applies evolutionary algorithm (EA) to automatically design circuits,
antennas, robot controllers etc. A lot of research has been done in this
area and several different EAs have been introduced to tackle
numerous problems, as scalability, evolvability etc. However every
time a specific EA is chosen for solving a particular task, all its
components, such as population size, initialization, selection
mechanism, mutation rate, and genetic operators, should be selected
in order to achieve the best results. In the last three decade the
selection of the right parameters for the EA-s components for solving
different “test-problems" has been investigated. In this paper the
behaviour of mutation rate for designing logic circuits, which has not
been done before, has been deeply analyzed. The mutation rate for an
EHW system modifies the number of inputs of each logic gates, the
functionality (for example from AND to NOR) and the connectivity
between logic gates. The behaviour of the mutation has been
analyzed based on the number of generations, genotype redundancy
and number of logic gates for the evolved circuits. The experimental
results found provide the behaviour of the mutation rate during
evolution for the design and optimization of simple logic circuits.
The experimental results propose the best mutation rate to be used for
designing combinational logic circuits. The research presented is
particular important for those who would like to implement a
dynamic mutation rate inside the evolutionary algorithm for evolving
digital circuits. The researches on the mutation rate during the last 40
years are also summarized.
Abstract: Single nucleotide polymorphisms (SNPs) hold much promise as a basis for disease-gene association. However, research is limited by the cost of genotyping the tremendous number of SNPs. Therefore, it is important to identify a small subset of informative SNPs, the so-called tag SNPs. This subset consists of selected SNPs of the genotypes, and accurately represents the rest of the SNPs. Furthermore, an effective evaluation method is needed to evaluate prediction accuracy of a set of tag SNPs. In this paper, a genetic algorithm (GA) is applied to tag SNP problems, and the K-nearest neighbor (K-NN) serves as a prediction method of tag SNP selection. The experimental data used was taken from the HapMap project; it consists of genotype data rather than haplotype data. The proposed method consistently identified tag SNPs with considerably better prediction accuracy than methods from the literature. At the same time, the number of tag SNPs identified was smaller than the number of tag SNPs in the other methods. The run time of the proposed method was much shorter than the run time of the SVM/STSA method when the same accuracy was reached.
Abstract: Oxidative stress is considered to be the cause for onset
and the progression of type 2 diabetes mellitus (T2DM) and
complications including neuropathy. It is a deleterious process that
can be an important mediator of damage to cell structures: protein,
lipids and DNA. Data suggest that in patients with diabetes and
diabetic neuropathy DNA repair is impaired, which prevents effective
removal of lesions. Objective: The aim of our study was to evaluate
the association of the hOGG1 (326 Ser/Cys) and XRCC1 (194
Arg/Trp, 399 Arg/Gln) gene polymorphisms whose protein is
involved in the BER pathway with DNA repair efficiency in patients
with diabetes type 2 and diabetic neuropathy compared to the healthy
subjects. Genotypes were determined by PCR-RFLP analysis in 385
subjects, including 117 with type 2 diabetes, 56 with diabetic
neuropathy and 212 with normal glucose metabolism. The
polymorphisms studied include codon 326 of hOGG1 and 194, 399
of XRCC1 in the base excision repair (BER) genes. Comet assay was
carried out using peripheral blood lymphocytes from the patients and
controls. This test enabled the evaluation of DNA damage in cells
exposed to hydrogen peroxide alone and in the combination with the
endonuclease III (Nth). The results of the analysis of polymorphism
were statistically examination by calculating the odds ratio (OR) and
their 95% confidence intervals (95% CI) using the ¤ç2-tests. Our data
indicate that patients with diabetes mellitus type 2 (including those
with neuropathy) had higher frequencies of the XRCC1 399Arg/Gln
polymorphism in homozygote (GG) (OR: 1.85 [95% CI: 1.07-3.22],
P=0.3) and also increased frequency of 399Gln (G) allele (OR: 1.38
[95% CI: 1.03-1.83], P=0.3). No relation to other polymorphisms
with increased risk of diabetes or diabetic neuropathy. In T2DM
patients complicated by neuropathy, there was less efficient repair of
oxidative DNA damage induced by hydrogen peroxide in both the
presence and absence of the Nth enzyme. The results of our study
suggest that the XRCC1 399 Arg/Gln polymorphism is a significant
risk factor of T2DM in Polish population. Obtained data suggest a
decreased efficiency of DNA repair in cells from patients with
diabetes and neuropathy may be associated with oxidative stress.
Additionally, patients with neuropathy are characterized by even
greater sensitivity to oxidative damage than patients with diabetes,
which suggests participation of free radicals in the pathogenesis of
neuropathy.
Abstract: Quantitative trait loci (QTL) experiments have yielded
important biological and biochemical information necessary for
understanding the relationship between genetic markers and
quantitative traits. For many years, most QTL algorithms only
allowed one observation per genotype. Recently, there has been an
increasing demand for QTL algorithms that can accommodate more
than one observation per genotypic distribution. The Bayesian
hierarchical model is very flexible and can easily incorporate this
information into the model. Herein a methodology is presented that
uses a Bayesian hierarchical model to capture the complexity of the
data. Furthermore, the Markov chain Monte Carlo model composition
(MC3) algorithm is used to search and identify important markers. An
extensive simulation study illustrates that the method captures the
true QTL, even under nonnormal noise and up to 6 QTL.
Abstract: To evaluate genetic variation of wheat (Triticum aestivum) affected by heat and drought stress on eight Australian wheat genotypes that are parents of Doubled Haploid (HD) mapping populations at the vegetative stage, the water stress experiment was conducted at 65% field capacity in growth room. Heat stress experiment was conducted in the research field under irrigation over summer. Result show that water stress decreased dry shoot weight and RWC but increased osmolarity and means of Fv/Fm values in all varieties except for Krichauff. Krichauff and Kukri had the maximum RWC under drought stress. Trident variety was shown maximum WUE, osmolarity (610 mM/Kg), dry mater, quantum yield and Fv/Fm 0.815 under water stress condition. However, the recovery of quantum yield was apparent between 4 to 7 days after stress in all varieties. Nevertheless, increase in water stress after that lead to strong decrease in quantum yield. There was a genetic variation for leaf pigments content among varieties under heat stress. Heat stress decreased significantly the total chlorophyll content that measured by SPAD. Krichauff had maximum value of Anthocyanin content (2.978 A/g FW), chlorophyll a+b (2.001 mg/g FW) and chlorophyll a (1.502 mg/g FW). Maximum value of chlorophyll b (0.515 mg/g FW) and Carotenoids (0.234 mg/g FW) content belonged to Kukri. The quantum yield of all varieties decreased significantly, when the weather temperature increased from 28 ÔùªC to 36 ÔùªC during the 6 days. However, the recovery of quantum yield was apparent after 8th day in all varieties. The maximum decrease and recovery in quantum yield was observed in Krichauff. Drought and heat tolerant and moderately tolerant wheat genotypes were included Trident, Krichauff, Kukri and RAC875. Molineux, Berkut and Excalibur were clustered into most sensitive and moderately sensitive genotypes. Finally, the results show that there was a significantly genetic variation among the eight varieties that were studied under heat and water stress.
Abstract: Heavy metal pollution is an environmental concern.
Phytoremediation is a low-cost, environmental-friendly approach to
solve this problem. Mustard has the potential in reducing heavy metal
contents in soils. Among mustard (Brassica juncea (L.) Czern &
Coss) genotypes in Sri Lanka, accessions 7788, 8831 and 5088 give
significantly a high yield. Therefore, present study was conducted to
quantify the phytoextractive potential among these local mustard
accessions and to assess the interaction of heavy metals, Pb, Co, Mn
on phytoextraction. A pot experiment was designed with acid washed
sand (quartz) and a series of heavy metal solutions of 0, 25, 50, 75
and 100 μg/g. Experiment was carried out with factorial
experimental design. Mustard accessions were tolerant to heavy
metals and could be successfully used in removal of Pb, Co and Mn
and they are capable of accumulating significant quantities of heavy
metals in vegetative and reproductive organs. The order of the
accumulative potential of Pb, Co and Mn in mustard accessions is,
root > shoot >seed.
Abstract: Dilated cardiomyopathy (DCM) is a severe
cardiovascular disorder characterized by progressive systolic
dysfunction due to cardiac chamber dilatation and inefficient
myocardial contractility often leading to chronic heart failure.
Recently, a genome-wide association studies (GWASs) on DCM
indicate that the ZBTB17 gene rs10927875 single nucleotide
polymorphism is associated with DCM. The aim of the study was to
identify the distribution of ZBTB17 gene rs10927875 polymorphism
in 50 Slovak patients with DCM and 80 healthy control subjects
using the Custom Taqman®SNP Genotyping assays. Risk factors
detected at baseline in each group included age, sex, body mass
index, smoking status, diabetes and blood pressure. The mean age of
patients with DCM was 52.9±6.3 years; the mean age of individuals
in control group was 50.3±8.9 years. The distribution of investigated
genotypes of rs10927875 polymorphism within ZBTB17 gene in the
cohort of Slovak patients with DCM was as follows: CC (38.8%), CT
(55.1%), TT (6.1%), in controls: CC (43.8%), CT (51.2%), TT
(5.0%). The risk allele T was more common among the patients with
dilated cardiomyopathy than in normal controls (33.7% versus
30.6%). The differences in genotype or allele frequencies of ZBTB17
gene rs10927875 polymorphism were not statistically significant
(p=0.6908; p=0.6098). The results of this study suggest that ZBTB17
gene rs10927875 polymorphism may be a risk factor for
susceptibility to DCM in Slovak patients with DCM. Studies of
numerous files and additional functional investigations are needed to
fully understand the roles of genetic associations.
Abstract: The aim of this work was to detect genetic variability among the set of 40 castor genotypes using 8 RAPD markers. Amplification of genomic DNA of 40 genotypes, using RAPD analysis, yielded in 66 fragments, with an average of 8.25 polymorphic fragments per primer. Number of amplified fragments ranged from 3 to 13, with the size of amplicons ranging from 100 to 1200 bp. Values of the polymorphic information content (PIC) value ranged from 0.556 to 0.895 with an average of 0.784 and diversity index (DI) value ranged from 0.621 to 0.896 with an average of 0.798. The dendrogram based on hierarchical cluster analysis using UPGMA algorithm was prepared and analyzed genotypes were grouped into two main clusters and only two genotypes could not be distinguished. Knowledge on the genetic diversity of castor can be used for future breeding programs for increased oil production for industrial uses.
Abstract: Rainbow trout homogametic males, (XX or YY sex genotype), can be obtained, respectively, through masculinisation of genetic females or induced androgenesis. Aim of this study was to compare reproductive potential of neo-males (XX) and super-males (YY) with heterogametic males (XY). We measured spermatozoa motility parameters, sperm concentration, osmolality and characterized protein profiles in samples of stripped and testicular sperm obtained from XY and YY males, and testicular sperm of XX males. The motile spermatozoa, as measured by both subjective method and CASA, showed no differences between testicular sperm of XX males and stripped sperm of XY and YY males whereas testicular sperm of XY and YY males had significantly lower sperm motility. Result of protein densitometry showed similarities in protein profile between seminal plasma of XY and YY males and testicular fluids of XX males. Testis of XX males showed specific histological structures of cysts consists hypertrophied Sertoli cells.