Abstract: The literature reports a large number of approaches for
measuring the similarity between protein sequences. Most of these
approaches estimate this similarity using alignment-based techniques
that do not necessarily yield biologically plausible results, for two
reasons.
First, for the case of non-alignable (i.e., not yet definitively aligned
and biologically approved) sequences such as multi-domain, circular
permutation and tandem repeat protein sequences, alignment-based
approaches do not succeed in producing biologically plausible results.
This is due to the nature of the alignment, which is based on the
matching of subsequences in equivalent positions, while non-alignable
proteins often have similar and conserved domains in non-equivalent
positions.
Second, the alignment-based approaches lead to similarity measures
that depend heavily on the parameters set by the user for the alignment
(e.g., gap penalties and substitution matrices). For easily alignable
protein sequences, it's possible to supply a suitable combination of
input parameters that allows such an approach to yield biologically
plausible results. However, for difficult-to-align protein sequences,
supplying different combinations of input parameters yields different
results. Such variable results create ambiguities and complicate the
similarity measurement task.
To overcome these drawbacks, this paper describes a novel and
effective approach for measuring the similarity between protein
sequences, called SAF for Substitution and Alignment Free. Without
resorting either to the alignment of protein sequences or to substitution
relations between amino acids, SAF is able to efficiently detect the
significant subsequences that best represent the intrinsic properties of
protein sequences, those underlying the chronological dependencies of
structural features and biochemical activities of protein sequences.
Moreover, by using a new efficient subsequence matching scheme,
SAF more efficiently handles protein sequences that contain similar
structural features with significant meaning in chronologically
non-equivalent positions. To show the effectiveness of SAF, extensive
experiments were performed on protein datasets from different
databases, and the results were compared with those obtained by
several mainstream algorithms.
Abstract: In Algeria, some fruit trees produce fruits in free nature. Such trees are Celtis australis, Crataegus azarolus, Crataegus monogyna and Zizyphus lotus. In spite of their appreciable consumption, their nutritional value remains unknown. The objective of this study is the determination of sugars in the pulpe and almond of the above fruits. The biochemical analysis shows that these fruits present interesting contents of soluble sugars which confers significant caloric intakes to them. As well as significant fibres which give them therapeutic and industrial benefits? The analysis of the almonds shows that it contains considerable contents of sugars which enable them to be an energetic food.
Abstract: Obesity is frequent attendant phenomenon of patients
with endocrinological disease. Between BMI and endocrinological
diseases is close correlation. In thesis we focused on the allocation of
hormone concentration – PTH and TSH, CHOL a mineral element Ca
in a blood serum. The examined group was formed by 100
respondents (women) aged 36 – 83 years, who were divided into two
groups – control group (CG), group with diagnosed endocrine disease
(DED). The concentration of PTH and TSH, Ca and CHOL was
measured through the medium of analyzers Cobas e411 (Japan);
Cobas Integra 400 (Switzerland). At individuals was measured body
weight as well as stature and thereupon from those data we
enumerated BMI. On the basis of Student T-test in biochemical
parameter of PTH and Ca we found out significantly meaningful
difference (p
Abstract: The direct discharge of palm oil mill effluent (POME) wastewater causes serious environmental pollution due to its high chemical oxygen demand (COD) and biochemical oxygen demand (BOD). Traditional ways for POME treatment have both economical and environmental disadvantages. In this study, a membrane anaerobic system (MAS) was used as an alternative, cost effective method for treating POME. Six steady states were attained as a part of a kinetic study that considered concentration ranges of 8,220 to 15,400 mg/l for mixed liquor suspended solids (MLSS) and 6,329 to 13,244 mg/l for mixed liquor volatile suspended solids (MLVSS). Kinetic equations from Monod, Contois and Chen & Hashimoto were employed to describe the kinetics of POME treatment at organic loading rates ranging from 2 to 13 kg COD/m3/d. throughout the experiment, the removal efficiency of COD was from 94.8 to 96.5% with hydraulic retention time, HRT from 400.6 to 5.7 days. The growth yield coefficient, Y was found to be 0.62gVSS/g COD the specific microorganism decay rate was 0.21 d-1 and the methane gas yield production rate was between 0.25 l/g COD/d and 0.58 l/g COD/d. Steady state influent COD concentrations increased from 18,302 mg/l in the first steady state to 43,500 mg/l in the sixth steady state. The minimum solids retention time, which was obtained from the three kinetic models ranged from 5 to 12.3 days. The k values were in the range of 0.35 – 0.519 g COD/ g VSS • d and values were between 0.26 and 0.379 d-1. The solids retention time (SRT) decreased from 800 days to 11.6 days. The complete treatment reduced the COD content to 2279 mg/l equivalent to a reduction of 94.8% reduction from the original.
Abstract: The reservoir of Kowsar dam supply water for
different usages such as aquaculture farms , drinking, agricultural and
industrial usages for some provinces in south of Iran. The Kowsar
dam is located next to the city of Dehdashat in Kohgiluye and
Boyerahmad province in southern Iran. There are some towns and
villages on the Kowsar dam watersheds, which Dehdasht and Choram
are the most important and populated twons in this area, which can to
be sources of pollution for water reservoir of the Kowsar dam . This
study was done to determine of water pollution of the Kowsar dam
reservoir which is one of the most important water resources of
Kohkiloye and Boyerahmad and Bushehr provinces in south-west
Iran. In this study , water samples during 12 months were collected to
examine Biochemical Oxygen Demand (BOD) and Dissolved
Oxygen(DO) as a criterion for evaluation of water pollution of the
reservoir. In summary ,the study has shown Maximum, average and
minimum levels of BOD have observed 25.9 ,9.15 and 2.3 mg/L
respectively and statistical parameters of data such as standard
deviation , variance and skewness have calculated 7.88, 62 and 1.54
respectively. Finally the results were compared with Iranian national
standards. Among the analyzed samples, as the maximum value of
BOD (25.9 mg/L) was observed at the May 2010 , was within the
maximum admissible limits by the Iranian standards.
Abstract: Microorganisms isolated from water and soil of
Kazakhstan to identify potential high-effective producers of the
arachidonic acid, exhibiting a wide range of physiological activity
and having practical applications were screened. Based on the results
of two independent tests (the test on the sensitivity of the growth
processes of microorganisms to acetylsalicylic acid - an irreversible
inhibitor of PGH-synthase involved in the metabolism of arachidonic
acid and its derivatives, the test for inhibition of peroxidase activity
of membrane-bounding fraction of PGH - synthase by acetylsalicylic
acid) were selected microbial cultures which are potential highproducer
of arachidonic acid. They are characterized by a stable
strong growth in the laboratory conditions. Identification of
microorganism cultures based on morphological, physiological,
biochemical and molecular genetic characteristics was performed.
Abstract: Application of pesticides in the paddy fields has
deleterious effects on non-target organisms including cyanobacteria
which are photosynthesizing and nitrogen fixing micro-organisms
contributing significantly towards soil fertility and crop yield.
Pesticide contamination in the paddy fields has manifested into a
serious global environmental concern. To study the effect of one such
pesticide, three cyanobacterial strains; Anabaena fertilissima,
Aulosira fertilissima and Westiellopsis prolifica were selected for
their stress responses to an Organochlorine insecticide - 6, 7, 8, 9, 10,
10-hexachloro-1, 5, 5a, 6, 9, 9a-hexahydro-6, 9-methano-2, 4, 3-
benzodioxathiepine-3-oxide, with reference to their photosynthesic
pigments-chlorophyll-a and carotenoids as well as accessory
pigments-phycobiliproteins (phycocyanin, allophycocyanin and
phycoerythrin), stress induced biochemical metabolites like
carbohydrates, proteins, amino acids, phenols and enzymes-nitrate
reductase, glutamine synthetase and succinate dehydrogenase. All
the three cyanobacterial strains were adversely affected by the
insecticide doses and inhibition was dose dependent. Reduction in
photosynthetic and accessory pigments, metabolites, nitrogen fixing
and respiratory enzymes of the test organisms were accompanied
with an initial increase in their total protein at lower Organochlorine
doses. On the other hand, increased amount of phenols in all the
insecticide treated concentrations was indicative of stressed activities
of the organisms.
Abstract: Foodborne Salmonella infections have become a
major problem world wide. Salmonellosis transmitted from fish are
quite common. Established quality control measures exist for export
oriented fish, none exists for fish consumed locally. This study aimed
at characterization of Salmonella isolated from Nile tilapia . The
study was carried out in selected beaches along L. Victoria in
Western Kenya between March and June 2007. One hundred and
twenty fish specimens were collected. Salmonella isolates were
confirmed using serotyping, biochemical testing in addition to malic
acid dehydrogenase (mdh) and fliC gene sequencing. Twenty
Salmonella isolates were confirmed by mdh gene sequencing. Nine
(9) were S. enterica serotype typhimurium, four (4) were S. enterica
Serotype, enteritidis and seven (7) were S. enterica serotype typhi.
Nile tilapia have a role in transmission of Salmonellosis in the study
area, poor sanitation was a major cause of pollution at the beach
inshore waters.
Abstract: Carbon tetrachloride (CCl4) is a well-known
hepatotoxin and exposure to this chemical is known to induce
oxidative stress and causes liver injury by the formation of free
radicals. Flacourtia indica commonly known as 'Baichi' has been
reported as an effective remedy for the treatment of a variety of
diseases. The objective of this study was to investigate the
hepatoprotective activity of aqueous extract of leaves of Flacourtia
indica against CCl4 induced hepatotoxicity. Animals were pretreated
with the aqueous extract of Flacourtia indica (250 & 500 mg/kg
body weight) for one week and then challenged with CCl4 (1.5 ml/kg
bw) in olive oil (1:1, v/v) on 7th day. Serum marker enzymes (ALP,
AST, ALT, Total Protein & Total Bilirubin) and TBARS level
(Marker for oxidative stress) were estimated in all the study groups.
Alteration in the levels of biochemical markers of hepatic damage
like AST, ALT, ALP, Total Protein, Total Bilirubin and lipid
peroxides (TBARS) were tested in both CCl4 treated and extract
treated groups. CCl4 has enhanced the AST, ALT, ALP and the
Lipid peroxides (TBARS) in liver. Treatment of aqueous extract of
Flacourtia indica leaves (250 & 500 mg/kg) exhibited a significant
protective effect by altering the serum levels of AST, ALT, ALP,
Total Protein, Total Bilirubin and liver TBARS. These biochemical
observations were supported by histopathological study of liver
sections. From this preliminary study it has been concluded that the
aqueous extract of the leaves of Flacourtia indica protects liver
against oxidative damages and could be used as an effective protector
against CCl4 induced hepatic damage. Our findings suggested that
Flacourtia indica possessed good hepatoprotective activity
Abstract: The ability to distinguish missense nucleotide
substitutions that contribute to harmful effect from those that do not
is a difficult problem usually accomplished through functional in
vivo analyses. In this study, instead current biochemical methods, the
effects of missense mutations upon protein structure and function
were assayed by means of computational methods and information
from the databases. For this order, the effects of new missense
mutations in exon 5 of PTEN gene upon protein structure and
function were examined. The gene coding for PTEN was identified
and localized on chromosome region 10q23.3 as the tumor
suppressor gene. The utilization of these methods were shown that
c.319G>A and c.341T>G missense mutations that were recognized in
patients with breast cancer and Cowden disease, could be pathogenic.
This method could be use for analysis of missense mutation in others
genes.
Abstract: Uterine and oviducal fluids are necessary for
capacitation of the spermatozoa and early embryonic development.
The aim of the present study was to determine the effects of estrous
cycle phases (follicular and luteal) on some biological parameters
(enzymes, electrolytes and total proteins) in uterine and oviducal
secretions of ewes. Oviducal and uterine fluids were collected,
diluted and centrifuged. According to our results, concentrations of
GPT, G6PDH, total proteins, K and Na were significantly (P