Publications by authors named "Çimen Atak"

5 Publications

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Comparison of tolerance related proteomic profiles of two drought tolerant tomato mutants improved by gamma radiation.

J Biotechnol 2021 Mar 27;330:35-44. Epub 2021 Feb 27.

T.C. İstanbul Kültür University, Faculty of Science and Letters, Department of Molecular Biology and Genetics, 34156, Ataköy, Istanbul, Turkey.

Lycopersicon esculentum L., also known as tomato, is an important industrial plant due to its products which worth billions of dollars annually, besides its nutritional value and health benefits. In this study, we investigated the two-dimensional protein expression profiles in drought tolerant mutant plants derived from industrial 5MX12956 tomato variety by Cs-137 gamma radiation source induced mutations. Drought tolerance of mutants were evaluated and confirmed by in vivo and in vitro methods. Eleven drought responsive protein spots were identified by two-dimensional electrophoresis and MALDI-TOF-MS. Identified proteins which presented differential expression under drought conditions were clustered under six distinct groups based on their cellular functions. These clusters are ATP and carbohydrate metabolism, mRNA processing and protein phosphorylation, oxidation reduction and stress response, signaling and supporting cytoskeleton. Our results contributed proteomic data to drought tolerance of our tomato mutants which were originated from drought susceptible 5MX12956 variety. They may also facilitate basis for future investigations into the genetic and physiological aspects of this tolerance.
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http://dx.doi.org/10.1016/j.jbiotec.2021.02.012DOI Listing
March 2021

Raman Spectroscopic and Chemometric Investigation of Lipid-Protein Ratio Contents of Soybean Mutants.

Appl Spectrosc 2020 Jan 13;74(1):34-41. Epub 2019 Sep 13.

CQC, Department of Chemistry, University of Coimbra, Coimbra, Portugal.

Seeds belonging to fourth generation mutants (M) of Ataem-7 cultivar (A7) variety and S04-05 (S) breeding line salt-tolerant soybeans were investigated by Raman spectroscopy, complemented by chemometrics methods, in order to evaluate changes induced by mutations in the relative lipid-protein contents, and to find fast, efficient strategies for discrimination of the mutants and the control groups based on their Raman spectra. It was concluded that gamma irradiation caused an increase in the lipid to protein ratio of the studied Ataem-7 variety mutants, while it led to a decrease of this ratio in the investigated S04-05 breeding line mutants. These results were found to be in agreement with data obtained by reflectance spectrum analysis of the seeds in the full ultraviolet to near-infrared spectral region and suggest the possibility of developing strategies where gamma irradiation can be used as a tool to improve mutant soybean plants targeted to different applications, either enriched in proteins or in lipids. Ward's clustering and principal component analysis showed a clear discrimination between mutants and controls and, in the case of the studied S-type species, discrimination between the different mutants. The grouping scheme is also found to be in agreement with the compositional information extracted from the analysis of the lipid-protein contents of the different samples.
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http://dx.doi.org/10.1177/0003702819859940DOI Listing
January 2020

Identification of the antioxidant defense genes which may provide enhanced salt tolerance in L.

Physiol Mol Biol Plants 2019 Jan 16;25(1):85-99. Epub 2018 Nov 16.

1Department of Molecular Biology and Genetics, Faculty of Science and Letters, İstanbul Kültür University, Ataköy, 34156 Istanbul, Turkey.

Antioxidative mechanisms are important to protect cells from the hazardous effects of reactive oxygen species (ROS). Salt stress is one of the environmental stress factors that leads to accumulation of ROS at toxic levels. In this study, we analyzed the responses of two rice ( L.) cultivars against NaCl stress at enzymatic and transcriptional levels. In 14 day-old-seedlings, different antioxidant enzyme activities were observed. These findings were also supported by transcriptional analyses of the responsible genes. According to the results, Cyt-APX, CAT A, Cyt-GR1 and proline metabolism-related genes were differentially expressed between two rice varieties under different salt concentrations. Their regulational differences cause different salt sensitivities of the varieties. By this study, we provided an insight into understanding of the correlation between antioxidant defence genes and ROS enzymes under salt stress.
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http://dx.doi.org/10.1007/s12298-018-0618-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6352531PMC
January 2019

Enzymatic and non-enzymatic comparison of two different industrial tomato (Solanum lycopersicum) varieties against drought stress.

Bot Stud 2017 Dec 2;58(1):32. Epub 2017 Aug 2.

Department of Molecular Biology and Genetics, Faculty of Science and Letters, Istanbul Kultur Univesity, Ataköy, 34156, Istanbul, Turkey.

Background: The aim of this study is to compare the tolerance mechanisms of two industrial tomato varieties (X5671R and 5MX12956) under drought stress. 14 days-old tomato seedlings were subjected to 7 days-long drought stress by withholding irrigation. The effects of stress were determined by enzymatic and non-enzymatic parameters. The physiological damages were evaluated via lipid peroxidation ratio, total protein content, relative water content, chlorophyll content and proline accumulation. Enzymatic responses were determined by biochemical analysis and electrophoresis of SOD, APX, POX and CAT enzymes.

Results: Relative water contents of X5671R and 5MX12956 varieties at 7th day of drought were decreased to 8.4 and 12.2%, respectively. Applied drought decreased all photosynthetic pigments of X5671R and 5MX12956 varieties during the treatment period significantly comparing to the Day 0 as the control. Total protein content, lipid peroxidation and proline accumulation presented increased values in both varieties in accordance with the increasing stress intensity. According to lipid peroxidation analysis, 5MX12956 tomato variety was found more drought sensitive than X5671R variety. Antioxidative enzyme activities showed increases in both varieties as a response to drought stress, although CAT and APX activities presented decrease on the 7th day of applied stress. 7 days long drought stress differentially altered POX, APX and SOD isozyme patterns. Same POX bands were observed in both varieties with different band intensities.

Conclusions: However, main isozyme pattern differences were obtained for SOD and APX. APX1, Fe-SOD and Cu/Zn-SOD2 isozyme bands should be evaluated to define their main role in the tolerance mechanism of both tomato varieties.
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http://dx.doi.org/10.1186/s40529-017-0186-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5540743PMC
December 2017

Induced of plastid mutations in soybean plant (Glycine max L. Merrill) with gamma radiation and determination with RAPD.

Mutat Res 2004 Nov;556(1-2):35-44

Department of Molecular Biology and Genetics, Faculty of Arts and Sciences, Haliç University, Ahmet Vefik Pasa Cad: No:1, Findikzade 34280, Istanbul, Turkey.

The aim of our study was to induce with radiation of atrazine resistant and tolerated mutants in Coles, Amsoy-71 and 1937 soybean varieties. Atrazine that is photosynthetic inhibitor is the most important herbicide of S-triazin group, and shows toxic effect on soybean plant. For the improvement of the atrazine resistant plants with mutation breeding, the seeds belonging to the three varieties were irradiated with 200 Gy of gamma radiation dose. The irradiated seeds were sown in the field and at the end of harvesting season, every pod at node situated on the main stem was picked up separately and M2 generations were obtained. At the plants, which were obtained from M2 generation, chlorophyll mutants were determined and atrazine selection was made. The percentage of chlorophyll mutants for Amsoy-71, Coles and 1937 soybean varieties were found as 1.07, 1.48 and 1.32, respectively. At the end of atrazine selection, the percentages of atrazine resistant plants for Amsoy-71, Coles and 1937 soybean varieties were 0.80, 0.60 and 0.53, respectively. The percentages of atrazine tolerated plants were 1.07, 1.18 and 1.05, respectively as well. In our research; the differences among the mutants replying to atrazine in various concentrations were examined by using RAPD procedure as the molecular marker techniques in comparison with polymorphism. In the study done by using 14 primers; according to the amplification results, the differences between atrazine resistant plants were shown.
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http://dx.doi.org/10.1016/j.mrfmmm.2004.06.037DOI Listing
November 2004