International Journal of Biological, Life and Agricultural Sciences
ISSN: 2415-6612
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Multi-Agent Systems Applied in the Modeling and Simulation of Biological Problems: A Case Study in Protein Folding
Multi-agent system approach has proven to be an effective and appropriate abstraction level to construct whole models of a diversity of biological problems, integrating aspects which can be found both in "micro" and "macro" approaches when modeling this type of phenomena. Taking into account these considerations, this paper presents the important computational characteristics to be gathered into a novel bioinformatics framework built upon a multiagent architecture. The version of the tool presented herein allows studying and exploring complex problems belonging principally to structural biology, such as protein folding. The bioinformatics framework is used as a virtual laboratory to explore a minimalist model of protein folding as a test case. In order to show the laboratory concept of the platform as well as its flexibility and adaptability, we studied the folding of two particular sequences, one of 45-mer and another of 64-mer, both described by an HP model (only hydrophobic and polar residues) and coarse grained 2D-square lattice. According to the discussion section of this piece of work, these two sequences were chosen as breaking points towards the platform, in order to determine the tools to be created or improved in such a way to overcome the needs of a particular computation and analysis of a given tough sequence. The backwards philosophy herein is that the continuous studying of sequences provides itself important points to be added into the platform, to any time improve its efficiency, as is demonstrated herein.Survey of Impact of Production and Adoption of Nanocrops on Food Security
Perspective of food security in 21 century showed shortage of food that production is faced to vital problem. Food security strategy is applied longtime method to assess required food. Meanwhile, nanotechnology revolution changes the world face. Nanotechnology is adequate method utilize of its characteristics to decrease environmental problems and possible further access to food for small farmers. This article will show impact of production and adoption of nanocrops on food security. Population is researchers of agricultural research center of Esfahan province. The results of study show that there was a relationship between uses, conversion, distribution, and production of nanocrops, operative human resources, operative circumstance, and constrains of usage of nanocrops and food security. Multivariate regression analysis by enter model shows that operative circumstance, use, production and constrains of usage of nanocrops had positive impact on food security and they determine in four steps 20 percent of it.Mechanisms of Organic Contaminants Uptake and Degradation in Plants
As a result of urbanization, the unpredictable growth of industry and transport, production of chemicals, military activities, etc. the concentration of anthropogenic toxicants spread in nature exceeds all the permissible standards. Most dangerous among these contaminants are organic compounds having great persistence, bioaccumulation, and toxicity along with our awareness of their prominent occurrence in the environment and food chain. Among natural ecological tools, plants still occupying above 40% of the world land, until recently, were considered as organisms having only a limited ecological potential, accumulating in plant biomass and partially volatilizing contaminants of different structure. However, analysis of experimental data of the last two decades revealed the essential role of plants in environment remediation due to ability to carry out intracellular degradation processes leading to partial or complete decomposition of carbon skeleton of different structure contaminants. Though, phytoremediation technologies still are in research and development, their various applications have been successfully used. The paper aims to analyze mechanisms of organic contaminants uptake and detoxification in plants, being the less studied issue in evaluation and exploration of plants potential for environment remediation.Estimation of Production Function in Fishery on the Coasts of Caspian Sea
This research was conducted for the first time at the southeastern coasts of the Caspian Sea in order to evaluate the performance of osteichthyes cooperatives through production (catch) function. Using one of the indirect valuation methods in this research, contributory factors in catch were identified and were inserted into the function as independent variables. In order to carry out this research, the performance of 25 Osteichthyes catching cooperatives in the utilization year of 2009 which were involved in fishing in Miankale wildlife refuge region. The contributory factors in catch were divided into groups of economic, ecological and biological factors. In the mentioned function, catch rate of the cooperative were inserted into as the dependant variable and fourteen partial variables in terms of nine general variables as independent variables. Finally, after function estimation, seven variables were rendered significant at 99 percent reliably level. The results of the function estimation indicated that human resource (fisherman quantity) had the greatest positive effect on catch rate with an influence coefficient of 1.7 while weather conditions had the greatest negative effect on the catch rate of cooperatives with an influence coefficient of -2.07. Moreover, factors like member's share, experience and fisherman training and fishing effort played the main roles in the catch rate of cooperative with influence coefficients of 0.81, 0.5 and 0.21, respectively.Influence of Hydrocarbons on Plant Cell Ultrastructure and Main Metabolic Enzymes
Influence of octane and benzene on plant cell ultrastructure and enzymes of basic metabolism, such as nitrogen assimilation and energy generation have been studied. Different plants: perennial ryegrass (Lolium perenne) and alfalfa (Medicago sativa); crops- maize (Zea mays L.) and bean (Phaseolus vulgaris); shrubs – privet (Ligustrum sempervirens) and trifoliate orange (Poncirus trifoliate); trees - poplar (Populus deltoides) and white mulberry (Morus alba L.) were exposed to hydrocarbons of different concentrations (1, 10 and 100 mM). Destructive changes in bean and maize leaves cells ultrastructure under the influence of benzene vapour were revealed at the level of photosynthetic and energy generation subcellular organells. Different deviations at the level of subcellular organelles structure and distribution were observed in alfalfa and ryegrass root cells under the influence of benzene and octane, absorbed through roots. The level of destructive changes is concentration dependent. Benzene at low 1 and 10 mM concentration caused the increase in glutamate dehydrogenase (GDH) activity in maize roots and leaves and in poplar and mulberry shoots, though to higher extent in case of lower, 1mM concentration. The induction was more intensive in plant roots. The highest tested 100mM concentration of benzene was inhibitory to the enzyme in all plants. Octane caused induction of GDH in all grassy plants at all tested concentrations; however the rate of induction decreased parallel to increase of the hydrocarbon concentration. Octane at concentration 1 mM caused induction of GDH in privet, trifoliate and white mulberry shoots. The highest, 100mM octane was characterized by inhibitory effect to GDH activity in all plants. Octane had inductive effect on malate dehydrogenase in almost all plants and tested concentrations, indicating the intensification of Trycarboxylic Acid Cycle. The data could be suggested for elaboration of criteria for plant selection for phytoremediation of oil hydrocarbons contaminated soils.The Role of Immunogenic Adhesin Vibrio alginolyticus 49 k Da to Molecule Expression of Major Histocompatibility Complex on Receptors of Humpback Grouper Cromileptes altivelis
The purpose of research was to know the role of immunogenic protein of 49 kDa from V.alginolyticus which capable to initiate molecule expression of MHC Class II in receptor of Cromileptes altivelis. The method used was in vivo experimental research through testing of immunogenic protein 49 kDa from V.alginolyticus at Cromileptes altivelis (size of 250 - 300 grams) using 3 times booster by injecting an immunogenic protein in a intramuscular manner. Response of expressed MHC molecule was shown using immunocytochemistry method and SEM. Results indicated that adhesin V.alginolyticus 49 kDa which have immunogenic character could trigger expression of MHC class II on receptor of grouper and has been proven by staining using immunocytochemistry and SEM with labeling using antibody anti MHC (anti mouse). This visible expression based on binding between epitopes antigen and antibody anti MHC in the receptor. Using immunocytochemistry, intracellular response of MHC to in vivo induction of immunogenic adhesin from V.alginolyticus was shown.Product Development and Derivatives Exploration by using Photosynthetic Bacteria
Lycopene, which can be extracted from plants and is very popular for fruit intake, is restricted for healthy food development due to its high price. On the other hand, it will get great safety concerns, especially in the food or cosmetic application, if the raw material of lycopene is produced by chemical synthesis. In this project, we provide a key technology to bridge the limitation as mentioned above. Based on the abundant bioresources of BCRC (Bioresource Collection and Research Center, Taiwan), a promising lycopene output will be anticipated by the introduction of fermentation technology along with industry-related core energy. Our results showed that addition of tween 80(0.2%) and span 20 produced higher amount of lycopene. And piperidine, when was added at 48hr to the cultivation medium, could promote lycopene excretion effectively also.Fractal Dimension of Breast Cancer Cell Migration in a Wound Healing Assay
- R. Sullivan
- T. Holden
- G. Tremberger
- Jr
- E. Cheung
- C. Branch
- J. Burrero
- G. Surpris
- S. Quintana
- A. Rameau
- N. Gadura
- H. Yao
- R. Subramaniam
- P. Schneider
- S. A. Rotenberg
- P. Marchese
- A. Flamhlolz
- D. Lieberman
- T. Cheung
A Tool for Creation Artificial Symbiotic Associations of Wheat
This paper reports optimization of characteristics of bioballistic transformation of spring soft wheat (Triticum aestivum L. cultivar Raduga) and getting of transgenic plants, carrying pea lectin gene. This gene will let to create new associative wheat symbiosis with nodule bacteria of field pea, which has growth encouraging, fungistatic and other useful characteristics.Use of GIS for the Performance Evaluation of Canal Irrigation System in Rice Wheat Cropping Zone
The research study evaluated the performance of irrigation system by using special scientific tools like Remote Sensing and GIS technology, so that proper measurements could be taken for the sustainable agriculture and water management. Different performance evaluation parameters had been calculated for the purposed data was gathered from field investigation and different government and private organizations. According to the calculations, organic matter ranges from 0.19% (low value) to 0.76% (high value). In flat irrigation system for wheat yield ranges from 3347.16 to 5260.39 kg/ha, while the total water applied to wheat crop ranges from 252.94 to 279.19 mm and WUE ranges from 13.07 to 18.37 kg/ha/mm. For rice yield ranges from 3347.47 to 5433.07 kg/ha with total water supplied to rice crop ranges from 764.71 to 978.15 mm and WUE ranges from 3.49 to 5.71 kg/ha/mm. Similarly, in raised bed system wheat yield ranges from 4569.13 to 6008.60 kg/ha, total water supplied ranges from 158.87 to 185.09 mm and WUE ranges from 27.20 to 33.54 kg/ha/mm while in rice crop, yield ranges from 5285.04 to 6716.69 kg/ha, total water supplied ranges from 600.72 to 755.06 mm and WUE ranges from 6.41 to 10.05 kg/ha/mm. Almost 51.3% water saving is observed in bed irrigation system as compared to flat system. Less water supplied to beds is more affective as its WUE value is higher than flat system where more water is supplied in both the seasons. Similarly, RWS values show that maximum water deficit while minimum area is getting adequate water supply. Greater yield is recorded in bed system as plant per square meter is more in bed system in comparison of flat system Thus, the integration of GIS tools to regularly compute performance indices could provide irrigation managers with the means for managing efficiently the irrigation system.Cloning of a β-Glucosidase Gene (BGL1) from Traditional Starter Yeast Saccharomycopsis fibuligera BMQ 908 and Expression in Pichia pastoris
β-Glucosidase is an important enzyme for production of ethanol from lignocellulose. With hydrolytic activity on cellooligosaccharides, especially cellobiose, β-glucosidase removes product inhibitory effect on cellulases and forms fermentable sugars. In this study, β-glucosidase encoding gene (BGL1) from traditional starter yeast Saccharomycosis fibuligera BMQ908 was cloned and expressed in Pichia pastoris. BGL1 of S. fibuligera BMQ 908 shared 98% nucleotide homology with the closest GenBank sequence (M22475) but identity in amino-acid sequences of catalytic domains. Recombinant plasmid pPICZαA/BGL1 containing the sequence encoding BGL1 mature protein and α-factor secretion signal was constructed and transformed into methylotrophic yeast P. pastoris by electroporation. The recombinant strain produced single extracellular protein with molecular weight of 120 kDa and cellobiase activity of 60 IU/ml. The optimum pH of the recombinant β-glucosidase was 5.0 and the optimum temperature was 50°C.Salicylhydroxamic Acid Inhibits the Growth of Candida albicans
Candida spp. are common and aggressive pathogens. Because of the growing resistance of Candida spp. to current antifungals, novel targets, found in Candida spp. but not in humans or other flora, have to be identified. The alternative oxidase (AOX) is one such possibility. This enzyme is insensitive to cyanide, but is sensitive to compounds such as salicylhydroxamic acid (SHAM), disulfiram and n-alkyl gallates. The growth Candida albicans was inhibited by SHAM (Ki = 9-15 mM) and cyanide (Ki = 2-4 mM), albeit to differing extents. The rate of O2 uptake was inhibited by less than 10% by 25 mM SHAM and by about 90% by 250 μM KCN. Although SHAM substantially inhibited the growth of C. albicans, it is unlikely that the inhibition of AOX was the cause. Salicylhydroxamic acid is used therapeutically in the treatment of urinary tract infections and urolithiasis, but it also has some potential in the treatment of C. albicans infection.Influence of Active Packaging on the Quality of Pumpkin - Rowanberry Marmalade Candies
- Solvita Kampuse
- Elga Berna
- Sandra Muizniece-Brasava
- Lija Dukalska
- Irisa Murniece
- Martins Sabovics
- Zanda Kruma
- Karina Ruse
- Svetlana Sarvi
- Kaspars Kampuss
Evaluation of Protein Digestibility in Canola Meals between Caecectomised and Intact Adult Cockerels
The experiment was conducted to evaluate digestibility quantities of protein in Canola Meals (CMs) between caecectomised and intact adult Rhode Island Red (RIR) cockerels with using conventional addition method (CAM) for 7 d: a 4-d adaptation and a 3-d experiment period on the basis of a completely randomized design with 4 replicates. Results indicated that caecectomy decreased (PGenetic Polymorphism of Main Lactoproteins of Romanian Grey Steppe Breed in Preservation
The paper presents a part of the results obtained in a complex research project on Romanian Grey Steppe breed, owner of some remarkable qualities such as hardiness, longevity, adaptability, special resistance to ban weather and diseases and included in the genetic fund (G.D. no. 822/2008.) from Romania. Following the researches effectuated, we identified alleles of six loci, codifying the six types of major milk proteins: alpha-casein S1 (α S1-cz); beta-casein (β-cz); kappa-casein (K-cz); beta-lactoglobulin (β-lg); alpha-lactalbumin (α-la) and alpha-casein S2 (α S2-cz). In system αS1-cz allele αs1-Cn B has the highest frequency (0.700), in system β-cz allele β-Cn A2 ( 0.550 ), in system K-cz allele k-CnA2 ( 0.583 ) and heterozygote genotype AB ( 0.416 ) and BB (0.375), in system β-lg allele β-lgA1 has the highest frequency (0.542 ) and heterozygote genotype AB ( 0.500 ), in system α-la there is monomorphism for allele α-la B and similarly in system αS2-cz for allele αs2-Cn A. The milk analysis by the isoelectric focalization technique (I.E.F.) allowed the identification of a new allele for locus αS1-casein, for two of the individuals under analysis, namely allele called αS1-casein IRV. When experiments were repeated, we noticed that this is not a proteolysis band and it really was a new allele that has not been registered in the specialized literature so far. We identified two heterozygote individuals, carriers of this allele, namely: BIRV and CIRV. This discovery is extremely important if focus is laid on the national genetic patrimony.Protein Production by Bacillus Subtilis Atcc 21332 in the Presence of Cymbopogon Essential Oils
- Hanina M. N.
- Hairul Shahril M.
- Mohd Fazrullah Innsan M. F.
- Ismatul Nurul Asyikin I.
- Abdul Jalil A. K
- Salina M. R.
- Ahmad I.B.