Fadime Yılmaz - Academia.edu (original) (raw)

Papers by Fadime Yılmaz

New Biotechnology, Sep 1, 2012

WOS: 000209805600489

Fresenius Environmental Bulletin, 2012

YIRTICI, Umit/0000-0002-0142-6105WOS: 000320829200018Basudin 60 EM is commonly used in agricultur... more YIRTICI, Umit/0000-0002-0142-6105WOS: 000320829200018Basudin 60 EM is commonly used in agricultural areas. Genotoxic effects of Basudin 60 EM (diazinon) were evaluated in the root meristem cells of Allium cepa. The roots of the plants were treated with 600, 1200 and 1800 ppm concentrations of Basudin 60 EM. Root tips after having grown to a certain length were stained according to aceto-orcein squash procedure. Metabolic variations in response to Basudin 60 EM toxicity was measured using physiological parameters and antioxidant enzymatic activities. A significant increase in SOD activity was observed in the leaves of Allium cepa, with the majority of Basudin 60 EM treatments. With increasing concentrations of Basudin 60 EM, CAT activity increased in leaves. An increase in the concentration of Basudin 60 EM increased GSH-Px activity in leaves. Basudin 60 EM exposure significantly reduced the carotenoid as well as chlorophyll a and b pigments in all treatment groups. Chromosomal aberrations, mitosis abnormalities, mitotic index and micronucleus assay of applied pesticides on Allium cepa roots were determined. All of the concentrations of Basudin 60 EM used in the present study significantly induced abnormalities, such as C-mitosis, chromosome stickiness, breaks, bridges, laggards, and multipolar cells compared to control. Also, Basudin 60 EM significantly decreased mitotic index for all concentrations.TUBITAKTurkiye Bilimsel ve Teknolojik Arastirma Kurumu (TUBITAK) [108T156]This work was financed by the TUBITAK Project No. 108T156. We thank the Kirikkale University Environmental Issues, Application and Research Center and Scientific and Technological Research Laboratories (KUBTAL

DOAJ (DOAJ: Directory of Open Access Journals), Feb 1, 2014

Bu çalışmada süt fabrikası atık sularından izole edilen farklı mikroorganizmalardan biyosürfektan... more Bu çalışmada süt fabrikası atık sularından izole edilen farklı mikroorganizmalardan biyosürfektanlar elde edilmiş ve bu maddelerin antifungal aktiviteleri test edilmiştir. Bu amaçla Ankara Atatürk Orman Çiftliği Süt ve Süt Mamulleri Fabrikası atık su örneklerinden beş farklı mikroorganizma izole edilmiştir. Sadece üç izolatın biyosürfektan ürettiği belirlenmiştir. Biyosürfektan üreten izolatlar, identifikasyon testleri sonucunda Yarrowia lipolytica, Micrococcus luteus ve Burkholderia cepacia olarak tanımlanmışlardır. Y. lipolytica, M. luteus ve B. cepacia'dan üretilen ve sırasıyla BS-I, BS-II ve BS-III olarak kodlanmıştır. Elde edilen biyosürfektanların, bitki patojeni olan Fusarim cinsine ait Fusarium avenaceum ATCC 200466, Fusarium graminearum ATCC 15624, Fusarium inflexum ATCC 32211 ve Fusarium heterosporium ATCC 15625 türleri üzerine antifungal etkileri tespit edilmiştir. Tüm biyosürfektanların denenen funguslara karşı farklı antifungal aktivite sergiledikleri saptanmıştır. BS-III'ün en yüksek ve düşük misel inhibisyon oranları sırasıyla, % 71 oranında F. graminearum'da ve % 39 oranında F. heterosporium'da belirlenmiştir.

Genellikle tarimsal alanlarda kullanilmakta olan Dursban 4’un genotoksik etkileri, Allium cepa’ni... more Genellikle tarimsal alanlarda kullanilmakta olan Dursban 4’un genotoksik etkileri, Allium cepa’nin kok meristem hucrelerinde goruldu. Bitkilerin kokleri 600 ppm, 1200 ppm ve 1800 ppm derisimlerde Dursban 4 ile muamele edildi. Kok uclari belli bir boya ulastiktan sonra aceto-orcein yontemine gore boyandi. Dursban 4 toksisitesine cevaptaki metabolik degisimler fizyolojik parametreler ve antioksidan enzimatik activiteler kullanilarak olculdu. Pestisitlerle muamele edilen Allium cepa koklerinde kromozomal hatalar, mitoz anomalileri, mitotik indeks ve mikronukleus saptandi.

Journal of Surfactants and Detergents, 2016

Due to natural attenuation, anionic detergents in surface waters are not inferred as big environm... more Due to natural attenuation, anionic detergents in surface waters are not inferred as big environmental issues. However, the effluents from large industrial areas with high detergent concentrations can have significant local impacts. These circumstances can be diminished by using efficient detergent‐degrading bacterial isolates through bioaugmentation. In this study, detergent plant effluents were analysed by using a methylene blue active substance assay to determine detergent content during natural attenuation processes, and after single augmentations of 12 anionic detergent‐degrading bacterial isolates with high detergent tolerating abilities in batch microcosms. Maximum bioattenuation of detergents was determined as 56 % after 66 h incubation under the conditions that mimicked the natural environment. Bioattenuation was enhanced as much as 83 and 91 % in 78 h incubation time through single microbial augmentations of filter‐sterilized and non‐sterilized effluents, respectively. Eig...

New Biotechnology, 2009

added to the dsDNA before hybridization. The color of the solution in test reaction was compared ... more added to the dsDNA before hybridization. The color of the solution in test reaction was compared with the set of standards and the presence of dsDNA was determined. The setup is able to detect picogram level of dsDNA and colorimetric method is found tenfold more sensitive then visualized under UV trans-illuminator. The advantages of this method are (1) Isothermal amplification does not require thermal cycler. (2) For the visualization of the amplified fragment restriction digestion and gel electrophoresis is not required. (3) Less instrumentation hence carried out on site. (4) Cost effective and operated with formal training. (5) Rapid detection of pathogen within 60 min. (6) The pathogenic load can be determined visually. The array is being developed to detect a range of pathogens. In future this technology will also be utilized to detect genetically modified seeds and bioterrorism.

New Biotechnology, 2009

WOS: 000281760100780

New Biotechnology, 2012

Yellow rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseas... more Yellow rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseases of wheat throughout the world. Molecular markers are powerful tools in marker-assisted selection, gene pyramiding and gene cloning of important crop traits especially for disease resistance. Previously, we identified Xgwm382 and Xgwm311 as diagnostic markers located on chromosome group 2 for disease resistance against yellow rust in Izgi2001 × ES14 F 2 population by using 230 SSR primer pairs. In order to understand the chromosomal group location of these diagnostic markers in the same population, we selected 17 SSR markers mapped only in one genome of chromosome group 2 (A, B, D) around 1-21 cM distance to Xgwm382 based on the SSR consensus map of wheat. One out of 17 SSR markers, Xwmc658, that is associated with yellow rust resistance located only in 2AL and can potentially be used to select yellow rust resistant wheat germplasm. This work has highlighted the importance of the distal region of the long arm of wheat chromosome 2AL implicated in yellow rust resistance flanked by markers Xgwm382, Xgwm311 and Xwmc658.

Tez (Doktora) -- Kırıkkale Üniversitesi89979

Geomicrobiology Journal, 2018

ABSTRACT Although strontium (Sr2+) is found in soils, sediments and surface waters, there is limi... more ABSTRACT Although strontium (Sr2+) is found in soils, sediments and surface waters, there is limited evidence about its biosorption. In this study, a surface water strain being highly tolerant to Sr2+ was isolated and identified as Micrococcus luteus Sr02 by using 16S rRNA sequencing. Biosorption behavior and mechanisms of Sr2+ by M. luteus Sr02 were investigated through batch experiments, zeta potential measurements, Fourier transform infrared spectroscopy and scanning electron microscopy. The results showed that M. luteus Sr02 have potential to sorb Sr2+ and can be used efficiently for the removal of Sr2+ from aqueous solutions.

CLEAN - Soil, Air, Water, 2016

Incomplete combustion of fossil fuels and other anthropogenic activities result in contamination ... more Incomplete combustion of fossil fuels and other anthropogenic activities result in contamination of surface water by petroleum hydrocarbons. These pollutants can have severe effects on aquatic life and human health. In petroleum bioremediation, oil degrading microorganisms are utilized to remove petroleum hydrocarbons from polluted water. However, monitoring and identifying microorganisms capable of degrading petroleum hydrocarbons is very challenging. In the current study, bacteria isolated from a river alongside a petroleum refinery were assessed for their petroleum hydrocarbon degradation abilities. Primary selection was performed through traditional enrichment culture method, emulsifying ability measurement, and gravimetric analysis of hydrocarbon degradation. Screening of two novel hydrocarbon catabolism genes encoding key enzymes in hydrocarbon degradation, alkB and C23O, was performed by using polymerase chain reaction. The bacterial isolates, degrading hydrocarbons with high emulsification abilities and harboring the catabolic genes, were identified as species of Acinetobacter by 16S rRNA sequence analysis. Monitoring the temporal distribution of Acinetobacter in river water was also done by fluorescence in situ hybridization using DNA probe ACA652. The results revealed that species of Acinetobacter successfully populate the polluted surface water and have high potential for petroleum bioremediation.

Tez (Yüksek Lisans) -- Kırıkkale ÜniversitesiKaynakça var.78361

New Biotechnology, Sep 1, 2012

WOS: 000209805600489

Fresenius Environmental Bulletin, 2012

YIRTICI, Umit/0000-0002-0142-6105WOS: 000320829200018Basudin 60 EM is commonly used in agricultur... more YIRTICI, Umit/0000-0002-0142-6105WOS: 000320829200018Basudin 60 EM is commonly used in agricultural areas. Genotoxic effects of Basudin 60 EM (diazinon) were evaluated in the root meristem cells of Allium cepa. The roots of the plants were treated with 600, 1200 and 1800 ppm concentrations of Basudin 60 EM. Root tips after having grown to a certain length were stained according to aceto-orcein squash procedure. Metabolic variations in response to Basudin 60 EM toxicity was measured using physiological parameters and antioxidant enzymatic activities. A significant increase in SOD activity was observed in the leaves of Allium cepa, with the majority of Basudin 60 EM treatments. With increasing concentrations of Basudin 60 EM, CAT activity increased in leaves. An increase in the concentration of Basudin 60 EM increased GSH-Px activity in leaves. Basudin 60 EM exposure significantly reduced the carotenoid as well as chlorophyll a and b pigments in all treatment groups. Chromosomal aberrations, mitosis abnormalities, mitotic index and micronucleus assay of applied pesticides on Allium cepa roots were determined. All of the concentrations of Basudin 60 EM used in the present study significantly induced abnormalities, such as C-mitosis, chromosome stickiness, breaks, bridges, laggards, and multipolar cells compared to control. Also, Basudin 60 EM significantly decreased mitotic index for all concentrations.TUBITAKTurkiye Bilimsel ve Teknolojik Arastirma Kurumu (TUBITAK) [108T156]This work was financed by the TUBITAK Project No. 108T156. We thank the Kirikkale University Environmental Issues, Application and Research Center and Scientific and Technological Research Laboratories (KUBTAL

DOAJ (DOAJ: Directory of Open Access Journals), Feb 1, 2014

Bu çalışmada süt fabrikası atık sularından izole edilen farklı mikroorganizmalardan biyosürfektan... more Bu çalışmada süt fabrikası atık sularından izole edilen farklı mikroorganizmalardan biyosürfektanlar elde edilmiş ve bu maddelerin antifungal aktiviteleri test edilmiştir. Bu amaçla Ankara Atatürk Orman Çiftliği Süt ve Süt Mamulleri Fabrikası atık su örneklerinden beş farklı mikroorganizma izole edilmiştir. Sadece üç izolatın biyosürfektan ürettiği belirlenmiştir. Biyosürfektan üreten izolatlar, identifikasyon testleri sonucunda Yarrowia lipolytica, Micrococcus luteus ve Burkholderia cepacia olarak tanımlanmışlardır. Y. lipolytica, M. luteus ve B. cepacia'dan üretilen ve sırasıyla BS-I, BS-II ve BS-III olarak kodlanmıştır. Elde edilen biyosürfektanların, bitki patojeni olan Fusarim cinsine ait Fusarium avenaceum ATCC 200466, Fusarium graminearum ATCC 15624, Fusarium inflexum ATCC 32211 ve Fusarium heterosporium ATCC 15625 türleri üzerine antifungal etkileri tespit edilmiştir. Tüm biyosürfektanların denenen funguslara karşı farklı antifungal aktivite sergiledikleri saptanmıştır. BS-III'ün en yüksek ve düşük misel inhibisyon oranları sırasıyla, % 71 oranında F. graminearum'da ve % 39 oranında F. heterosporium'da belirlenmiştir.

Genellikle tarimsal alanlarda kullanilmakta olan Dursban 4’un genotoksik etkileri, Allium cepa’ni... more Genellikle tarimsal alanlarda kullanilmakta olan Dursban 4’un genotoksik etkileri, Allium cepa’nin kok meristem hucrelerinde goruldu. Bitkilerin kokleri 600 ppm, 1200 ppm ve 1800 ppm derisimlerde Dursban 4 ile muamele edildi. Kok uclari belli bir boya ulastiktan sonra aceto-orcein yontemine gore boyandi. Dursban 4 toksisitesine cevaptaki metabolik degisimler fizyolojik parametreler ve antioksidan enzimatik activiteler kullanilarak olculdu. Pestisitlerle muamele edilen Allium cepa koklerinde kromozomal hatalar, mitoz anomalileri, mitotik indeks ve mikronukleus saptandi.

Journal of Surfactants and Detergents, 2016

Due to natural attenuation, anionic detergents in surface waters are not inferred as big environm... more Due to natural attenuation, anionic detergents in surface waters are not inferred as big environmental issues. However, the effluents from large industrial areas with high detergent concentrations can have significant local impacts. These circumstances can be diminished by using efficient detergent‐degrading bacterial isolates through bioaugmentation. In this study, detergent plant effluents were analysed by using a methylene blue active substance assay to determine detergent content during natural attenuation processes, and after single augmentations of 12 anionic detergent‐degrading bacterial isolates with high detergent tolerating abilities in batch microcosms. Maximum bioattenuation of detergents was determined as 56 % after 66 h incubation under the conditions that mimicked the natural environment. Bioattenuation was enhanced as much as 83 and 91 % in 78 h incubation time through single microbial augmentations of filter‐sterilized and non‐sterilized effluents, respectively. Eig...

New Biotechnology, 2009

added to the dsDNA before hybridization. The color of the solution in test reaction was compared ... more added to the dsDNA before hybridization. The color of the solution in test reaction was compared with the set of standards and the presence of dsDNA was determined. The setup is able to detect picogram level of dsDNA and colorimetric method is found tenfold more sensitive then visualized under UV trans-illuminator. The advantages of this method are (1) Isothermal amplification does not require thermal cycler. (2) For the visualization of the amplified fragment restriction digestion and gel electrophoresis is not required. (3) Less instrumentation hence carried out on site. (4) Cost effective and operated with formal training. (5) Rapid detection of pathogen within 60 min. (6) The pathogenic load can be determined visually. The array is being developed to detect a range of pathogens. In future this technology will also be utilized to detect genetically modified seeds and bioterrorism.

New Biotechnology, 2009

WOS: 000281760100780

New Biotechnology, 2012

Yellow rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseas... more Yellow rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseases of wheat throughout the world. Molecular markers are powerful tools in marker-assisted selection, gene pyramiding and gene cloning of important crop traits especially for disease resistance. Previously, we identified Xgwm382 and Xgwm311 as diagnostic markers located on chromosome group 2 for disease resistance against yellow rust in Izgi2001 × ES14 F 2 population by using 230 SSR primer pairs. In order to understand the chromosomal group location of these diagnostic markers in the same population, we selected 17 SSR markers mapped only in one genome of chromosome group 2 (A, B, D) around 1-21 cM distance to Xgwm382 based on the SSR consensus map of wheat. One out of 17 SSR markers, Xwmc658, that is associated with yellow rust resistance located only in 2AL and can potentially be used to select yellow rust resistant wheat germplasm. This work has highlighted the importance of the distal region of the long arm of wheat chromosome 2AL implicated in yellow rust resistance flanked by markers Xgwm382, Xgwm311 and Xwmc658.

Tez (Doktora) -- Kırıkkale Üniversitesi89979

Geomicrobiology Journal, 2018

ABSTRACT Although strontium (Sr2+) is found in soils, sediments and surface waters, there is limi... more ABSTRACT Although strontium (Sr2+) is found in soils, sediments and surface waters, there is limited evidence about its biosorption. In this study, a surface water strain being highly tolerant to Sr2+ was isolated and identified as Micrococcus luteus Sr02 by using 16S rRNA sequencing. Biosorption behavior and mechanisms of Sr2+ by M. luteus Sr02 were investigated through batch experiments, zeta potential measurements, Fourier transform infrared spectroscopy and scanning electron microscopy. The results showed that M. luteus Sr02 have potential to sorb Sr2+ and can be used efficiently for the removal of Sr2+ from aqueous solutions.

CLEAN - Soil, Air, Water, 2016

Incomplete combustion of fossil fuels and other anthropogenic activities result in contamination ... more Incomplete combustion of fossil fuels and other anthropogenic activities result in contamination of surface water by petroleum hydrocarbons. These pollutants can have severe effects on aquatic life and human health. In petroleum bioremediation, oil degrading microorganisms are utilized to remove petroleum hydrocarbons from polluted water. However, monitoring and identifying microorganisms capable of degrading petroleum hydrocarbons is very challenging. In the current study, bacteria isolated from a river alongside a petroleum refinery were assessed for their petroleum hydrocarbon degradation abilities. Primary selection was performed through traditional enrichment culture method, emulsifying ability measurement, and gravimetric analysis of hydrocarbon degradation. Screening of two novel hydrocarbon catabolism genes encoding key enzymes in hydrocarbon degradation, alkB and C23O, was performed by using polymerase chain reaction. The bacterial isolates, degrading hydrocarbons with high emulsification abilities and harboring the catabolic genes, were identified as species of Acinetobacter by 16S rRNA sequence analysis. Monitoring the temporal distribution of Acinetobacter in river water was also done by fluorescence in situ hybridization using DNA probe ACA652. The results revealed that species of Acinetobacter successfully populate the polluted surface water and have high potential for petroleum bioremediation.

Tez (Yüksek Lisans) -- Kırıkkale ÜniversitesiKaynakça var.78361