Metabolic and evolutionary engineering research in Turkey and beyond

This review discusses metabolic engineering research with an emphasis on evolutionary (whole cell and protein) engineering, which is an inverse metabolic engineering approach. For each section on metabolic, inverse metabolic and evolutionary engineering research, a general review of the major global studies in the literature is made and research examples from Turkey are given and discussed. It is expected that with the rapid development in systems biology and the novel powerful analytical technologies to identify the genetic basis of cellular phenotypes, metabolic and evolutionary engineering research will become widespread and increasingly important in Turkey, following global scientific trends.     

A GIS-based risk reduction approach for the hazardous materials routing problem in Gaziantep

The transportation of hazardous materials assumes a fundamental importance, especially in urban areas, in order to identify possible alternative routes and to choose the route with minimum risk. Therefore, considering minimization risk rather than minimization distance to prevent a potential danger being transformed into a real event is necessary. In this article , a geographic information system (GIS)–based solution approach is developed to quantify the factors on each link in the network that contribute to a possible route. Based on the origin and destination of each shipment, the risks associated with the routes that minimize (1) the transport distance, (2) the population exposure, (3) the probability of an incident, and (4) the emergency response are evaluated. Proposed risk models are applied to fuel-oil transportation problem between resource point and 78 gasoline stations through the road network of Gaziantep city center. Results show that the proposed framework can contribute to the thought processes of policy-makers and carriers when they evaluate possible routes in order to minimize damage for transporting fuel oil.     

Additional Nucleotide Sequences in Precursor 16S Ribosomal RNA from <Emphasis Type="Italic">Escherichia coli</Emphasis>

MATURE 5S, 16S and 23S ribosomal RNA species present in E. coli ribosomes are the end products of complex biosyn-thetic pathways. They are formed by reduction in length, and methylation of longer RNA chains transcribed on the ribosomal RNA cistrons of E. coli DNA. While these modifications take place the ribosome structure is formed by progressive addition of ribosomal proteins and conformational changes in the resulting ribonucleoprotein precursor particles¹.     

Effects of excessive copper intake on hematological and hemorheological parameters

Copper plays an important role in the structure and function of metalloproteins and in the absorption of iron. The present study deals with the effects of excessive copper intake on hematological and hemorheological parameters. Drinking water containing 250 μg/mL copper for a period of 9 wk, Wistar albino rats showed increased erythrocyte count, blood viscosity, and hematocrit values (p<0.05) and lower hemoglobin (p<0.05) than controls fed a normal diet. The two groups also had differences in the erythrocyte deformability index. The results suggest that excessive copper intake results in hematological and hemorheological changes affecting both the protein content of the erythrocyte membrane and heme synthesis.     

Female-extended control over their reproductive investment: the role of early mating interactions on oocyte maturation in the terrestrial crustacean Armadillidium vulgare (Latreille, 1804)

Abstract

In the terrestrial crustacean Armadillidium vulgare, the prolonged presence of males along with females is known to boost female reproductive physiology, and the so-called ‘male-effect’ was best characterized by a significant shortening of the pre-parturial intermoult (PPI) during which oocyte maturation spontaneously takes place. Continuous presence of a male over that period can speed up vitellogenesis and the moulting cycle, so to reduce female PPI by 15–20 days (shortening of 30–40%, in comparison to females reared with other females or in isolation, respectively). In the last investigation on the subject, we revealed that sexual interactions may start much sooner than previously thought in this species, and suggested that the observed ‘male-effect’ may likely result from early mating stimulations. Here we tested the specific effect of controlled mating interactions (one or two mating events at different times) on female PPI. We revealed that male presence for the time (about 2 h) that allowed a single mating to occur was enough to reduce the female intermoult by about 10 days (shortening of 19%, in comparison to females reared in similar conditions but in the absence of a mating interaction). Moreover, results indicate that the earlier and longer the copulations, the stronger the ‘male-effect’. Altogether, the data support the conclusion that A. vulgare females are adjust their reproductive physiology according to the presence/absence and the intensity of male mating stimuli. We place the findings in a broader ecological context, revise the so far prevailing view on the ‘male-effect’, and stress its possible significance in relation to the occurrence of feminising bacteria in this and other terrestrial isopod species.     

Involvement of thioredoxin y2 in the preservation of leaf methionine sulfoxide reductase capacity and growth under high light

Methionine (Met) in proteins can be oxidized to two diastereoisomers of methionine sulfoxide, Met‐S‐O and Met‐R‐O, which are reduced back to Met by two types of methionine sulfoxide reductases (MSRs), A and B, respectively. MSRs are generally supplied with reducing power by thioredoxins. Plants are characterized by a large number of thioredoxin isoforms, but those providing electrons to MSRs in vivo are not known. Three MSR isoforms, MSRA4, MSRB1 and MSRB2, are present in Arabidopsis thaliana chloroplasts. Under conditions of high light and long photoperiod, plants knockdown for each plastidial MSR type or for both display reduced growth. In contrast, overexpression of plastidial MSRBs is not associated with beneficial effects in terms of growth under high light. To identify the physiological reductants for plastidial MSRs, we analyzed a series of mutants deficient for thioredoxins f, m, x or y. We show that mutant lines lacking both thioredoxins y1 and y2 or only thioredoxin y2 specifically display a significantly reduced leaf MSR capacity (–25%) and growth characteristics under high light, related to those of plants lacking plastidial MSRs. We propose that thioredoxin y2 plays a physiological function in protein repair mechanisms as an electron donor to plastidial MSRs in photosynthetic organs.     

Purification and partial characterization of bacteriocin produced by <Emphasis Type="Italic">Lactococcus lactis</Emphasis> ssp. <Emphasis Type="Italic">lactis</Emphasis> LL171

Lactic acid bacteria (LAB) are possessing ability to synthesize antimicrobial compounds (like bacteriocin) during their growth. In this regard, novel bacteriocin compound secreting capability of LAB isolated from Tulum Cheese in Turkey was demonstrated. The synthesized bacteriocin was purified by ammonium sulphate precipitation, dialysis and gel filtration. The molecular weight (≈3.4 kDa) of obtained bacteriocin was confirmed by SDS-PAGE, which revealed single peptide band. Molecular identification of LAB strain isolated from Tulum Cheese was conducted using 16S rDNA gene sequencing as Lactococcus lactis ssp. lactis LL171. The amino acid sequences (KKIDTRTGKTMEKTEKKIELSLKNMKTAT) of the bacteriocin from Lactococcus lactis ssp. lactis LL171 was found unique and novel than reported bacteriocins. Further, the bacteriocin was possessed the thermostable property and active at wide range of pH values from 1 to 11. Thus, bacteriocin reported in this study has the potential applications property as food preservative agent.     

Micronucleus frequency and lipid peroxidation in <Emphasis Type="Italic">Allium sativum</Emphasis> root tip cells treated with gibberellic acid and cadmium

Gibberellic acid (GA₃) is a very potent hormone whose natural occurrence in plants controls their development. Cadmium is a particularly dangerous pollutant due to its high toxicity and great solubility in water. In this study, the effect of GA₃ on Allium sativum root tip cells was investigated in the presence of cadmium. A. sativum root tip cells were exposed to CdNO₃ (50, 100, 200 μM), GA₃ (10-3 M), both CdNO₃ and GA₃. Cytogenetic analyses were performed as micronucleus (MN) assay and mitotic index (MI). Lipid peroxidation analysis was also performed in A. sativum root tip cells for determination of membrane damage. MN exhibited a dose-dependent increase in Cd treatments in A. sativum. GA₃ significantly reduced the effect of Cd on the MN frequency. MN was observed in GA₃ and GA₃ + 50 μm Cd treatments at very low frequency. MI slightly decreased in GA₃ and GA₃ + Cd treatments. MI decreased more in high concentrations of Cd than combined GA₃ + Cd treatments. The high concentrations of cadmium induce MN, lipid peroxidation and lead to genotoxicity in A. sativum. Current work reveals that the effect of Cd on genotoxicity can be partially restored with GA₃ application.