Open Access. Powered by Scholars. Published by Universities.®
- Keyword
-
- Apoptosis (44)
- Antimicrobial activity (32)
- Cancer (32)
- Oxidative stress (31)
- Cytotoxicity (30)
-
- Antioxidant (25)
- COVID-19 (25)
- Breast cancer (24)
- SARS-CoV-2 (24)
- Melatonin (23)
- Antioxidant activity (22)
- Purification (20)
- Mesenchymal stem cells (19)
- Turkey (18)
- Antioxidant enzymes (17)
- Rat (17)
- Antibacterial activity (15)
- Inflammation (15)
- Gene expression (14)
- Regeneration (14)
- Bioinformatics (13)
- Characterization (13)
- Liver (13)
- Antibacterial (12)
- Genetic diversity (12)
- Growth (12)
- Saccharomyces cerevisiae (11)
- Streptomyces (11)
- Toxicity (11)
- Catalase (10)
- Publication Year
Articles 181 - 210 of 1681
Full-Text Articles in Biology
Cancer Testis Antigen Pasd1 Expression And Immunogenicity In Human Colorectal Cancer And Polyps, Nur Fazilah Sukor, Azyani Yahaya, Ismail Sagap, Rahman Jamal, Nor Adzimah Johdi
Cancer Testis Antigen Pasd1 Expression And Immunogenicity In Human Colorectal Cancer And Polyps, Nur Fazilah Sukor, Azyani Yahaya, Ismail Sagap, Rahman Jamal, Nor Adzimah Johdi
Turkish Journal of Biology
Colorectal cancer (CRC) is a malignant tumor arising from a human inner colon lining that may spread to other organs such as the liver and lungs. Per ARNT Sim domain containing 1 (PASD1) is a cancer-testis antigen expressed in cancers including CRC but not in normal tissues except for normal testes. This study aims to study PASD1 protein as a potential target for CRC immunotherapy. A total of 90 CRC and polyps tissue samples were investigated for PASD1 RNA and protein expression using a real-time polymerase chain reaction and immunohistochemical staining, respectively. Matched patients? peripheral blood mononuclear cells were pulsed …
Rgs1 Serves As An Anti-Tumor Target To Inhibit Proliferation Of Nicn87-Dr Cells And Tumor Growth In Gastric Cancer Mouse Model, Zhixiong Chen, Banglun Liu, Shouru Zhang, Lihui Chen, Yuyu Lv, Hao Sun
Rgs1 Serves As An Anti-Tumor Target To Inhibit Proliferation Of Nicn87-Dr Cells And Tumor Growth In Gastric Cancer Mouse Model, Zhixiong Chen, Banglun Liu, Shouru Zhang, Lihui Chen, Yuyu Lv, Hao Sun
Turkish Journal of Biology
Gastric cancer is becoming the 4th leading cause of cancer-associated death worldwide. The purpose of this study was to investigate the role of RGS1 in gastric cancer in vitro and in vivo. Proliferation, migration, invasion, and colony formation of NCIN87 cells and drug-resistant NCIN87 cells (NCIN87-DR) were determined. Cell apoptosis and cell cycle were examined using a flow cytometry assay. RGS1 gene knock-down vector (pLVshshRGS1) and Xenograft tumor mouse model was generated. RGS1 and epithelial-mesenchymal transition (EMT) associated markers, including E-cadherin (E-cad), N-cadherin (N-cad), Slug, and Vimentin were detected using a western blotting assay. Tumor size of Xenograft tumor mouse …
Influence Of Aerobic Exercise Training On Mice Gut Microbiota In Parkinson's Disease, Tianlun Fan, Xiating Li, Xiang Zhang, Jing Zhang, Lichun Sun, Jingjing Chen, Chuan Fu
Influence Of Aerobic Exercise Training On Mice Gut Microbiota In Parkinson's Disease, Tianlun Fan, Xiating Li, Xiang Zhang, Jing Zhang, Lichun Sun, Jingjing Chen, Chuan Fu
Turkish Journal of Biology
Accumulating evidence shows that gut microbial dysbiosis may represent a risk factor for Parkinson's disease (PD). Exercise has a positive effect on microbiota in general. The effect of aerobic exercise training (AET) on the gut microbial environment in PD remains to be explored. Here, we performed the 16S rRNA gene sequencing on feces from sham operated-mice (sham), PD mice model, and mice receiving AET (AET). Results indicated that AET had no remarkable effect on species richness and bacterial diversity of PD mice. The relative abundance of the Bacteroidetes was reduced, while Firmicutes, Actinobacteria, Lactobacillaceae, Streptococcaceae, Lactobacillus, Streptococcus, Lactococcus, Lysinibacillus, Pelomonas, …
Mthfr C677t Mutation Affects Adipogenic Differentiation Abilities Of Human Bone Marrow-Derived Mesenchymal Stem Cells, Rengi̇m Vural, Di̇cle Çeli̇k, Ersi̇n Berkay Peker, Eki̇n Köni̇, Ayşe Aydanur Kulaç, Zeynep Tokcaer Keski̇n
Mthfr C677t Mutation Affects Adipogenic Differentiation Abilities Of Human Bone Marrow-Derived Mesenchymal Stem Cells, Rengi̇m Vural, Di̇cle Çeli̇k, Ersi̇n Berkay Peker, Eki̇n Köni̇, Ayşe Aydanur Kulaç, Zeynep Tokcaer Keski̇n
Turkish Journal of Biology
The effects of 5,10-Methylenetetrahydrofolate reductase (MTHFR) C677T polymorphism on human bone marrow-derived mesenchymal stem cells (hBM-MSCs) viability, morphology, physiology and differentiation capacity were investigated in this study. For this purpose, primary hBM-MSCs with wild type (WT, C/C), heterozygote (HTZ, C/T) and homozygote (HMZ, T/T) for the MTHFR gene were obtained with ethical committee permission and donor informed. Mutations were detected using RFLP and Sanger sequencing methods from genomic DNA isolated from cells, colonization properties were investigated by CFU-F test and proliferative differences were investigated by MTT test. Adipogenic, osteogenic, and chondrogenic differentiation were induced to study changes in their differentiation …
The Investigation Of Diverse Physiological And Therapeutic Impact Of Cellular-Based Products Derived From Human Cumulus Cells, Derya Burukçu, Sema Yilmaz, Oya Alagöz, Cumhur Kaan Yaltirik, Neci̇p Erkut Attar, Fi̇kretti̇n Şahi̇n, Esra Aydemi̇r Çoban
The Investigation Of Diverse Physiological And Therapeutic Impact Of Cellular-Based Products Derived From Human Cumulus Cells, Derya Burukçu, Sema Yilmaz, Oya Alagöz, Cumhur Kaan Yaltirik, Neci̇p Erkut Attar, Fi̇kretti̇n Şahi̇n, Esra Aydemi̇r Çoban
Turkish Journal of Biology
Particular somatic cells, namely cumulus cells (CCs) that support the oocyte maturation, fertility, and viability by providing the nutrients and energy to the oocyte envelop the mammalian oocyte. In this study, discarded human cumulus tissues were used to reveal the value of hyaluronic acid-rich CCs on several cellular events, including differentiation. Conditioned media, recovered from the primary culture of CCs, were introduced to the human nucleus pulposus cells (hNPCs) which were functionally distorted because of the loss of chondrogenecity. Enlightening the impact of cumulus conditioned media (CCM) on wound healing and angiogenesis was also investigated. In line with these goals, …
Adoptive T-Cell Therapies To Overcome T Cell-Dependent Immune Dysregulations In Covid-19, Sevgi̇ Kalkanli Taş, Merve Sai̇de Uzunoğlu, Ayli̇n Seher Uzunoğlu, Duygu Kirkik, Derya Altunkanat, Nevi̇n Kalkanli
Adoptive T-Cell Therapies To Overcome T Cell-Dependent Immune Dysregulations In Covid-19, Sevgi̇ Kalkanli Taş, Merve Sai̇de Uzunoğlu, Ayli̇n Seher Uzunoğlu, Duygu Kirkik, Derya Altunkanat, Nevi̇n Kalkanli
Turkish Journal of Biology
Coronavirus disease 2019 (COVID-19) pandemic has been an important global interest that affected millions of people, and it requires a deep investigation of the disease immunology for developing further therapeutic applications. Adoptive T cell therapy promises to address T cell-dependent immune dysregulation in COVID-19 patients by the generation of specific T cell clones against virus-specific antigens. Additionally, targeting B cell-dependent protection through COVID-19 vaccines, which have been developed in the recent year, possessed sufficient prevention for spreading the virus, since the cases and deaths related to COVID-19 tend to decrease after the vaccination. However, adoptive cell therapies are now encouraging …
The Comparison Of Differentially Expressed Micrornas In Bag-1 Deficient And Wild Type Mcf-7 Breast Cancer Cells By Small Rna Sequencing, Peli̇n Özfi̇li̇z Kilbaş, Gi̇zem Alkurt, Pinar Obakan Yerli̇kaya, Ajda Çoker Gürkan, Gi̇zem Di̇nler Doğanay, Eli̇f Damla Arisan
The Comparison Of Differentially Expressed Micrornas In Bag-1 Deficient And Wild Type Mcf-7 Breast Cancer Cells By Small Rna Sequencing, Peli̇n Özfi̇li̇z Kilbaş, Gi̇zem Alkurt, Pinar Obakan Yerli̇kaya, Ajda Çoker Gürkan, Gi̇zem Di̇nler Doğanay, Eli̇f Damla Arisan
Turkish Journal of Biology
The multifunctional BAG-1 (Bcl-2 athanogene-1) protein promotes breast cancer survival through direct or indirect interaction partners. The number of the interacting partners determines its cellular role in different conditions. As well as interaction partner variability, the amount of BAG-1 protein in the cells could cause dramatic alterations. According to previous studies, while the transient silencing of Bag-1 enhanced drug-induced apoptosis, deletion of BAG-1 could induce stemness properties and Akt-mediated actin remodeling in MCF-7 breast cancer cells. Considering the heterogeneity of breast cancer and the variability of BAG-1 -mediated cell response, it has become essential to determine microRNA (miRNA) functions in …
Melatonin Ameliorates Cisplatin-Induced Neurodegeneration In Medulla Oblongata Through The Expressions Of Aqp-1,-4, Inflammation And Apoptosis Pathway Genes, Rahi̇me Özlem Öztopuz
Melatonin Ameliorates Cisplatin-Induced Neurodegeneration In Medulla Oblongata Through The Expressions Of Aqp-1,-4, Inflammation And Apoptosis Pathway Genes, Rahi̇me Özlem Öztopuz
Turkish Journal of Biology
In this study, the neuroprotective effects of melatonin (MEL) with changes in apoptosis, inflammation, and histopathological morphology were evaluated in the medulla oblongata of cisplatin (CIS) administered rats. Although the side effects of CIS are known in many tissues, its reaction on the medulla oblongata and the molecular association underlying this effect is unclear. Male wistar albino rats were separated into four groups (control, CIS, CIS+MEL, and MEL) (n = 24). CIS and CIS+MEL groups were given 4 mg/kg CIS at 4-day intervals (days 1, 5, 9, and 13) by the first day of the study. The MEL and CIS+MEL …
Bone Marrow Mesenchymal Stem Cells Attenuate Lps-Induced Acute Lung Injury In Mice By Promoting Rve1/Prod1 And Modulating Treg/Th17 Balance, He-Bu Qian, Guijuan Zou, Chao Li, Qifang He, Jun Liu
Bone Marrow Mesenchymal Stem Cells Attenuate Lps-Induced Acute Lung Injury In Mice By Promoting Rve1/Prod1 And Modulating Treg/Th17 Balance, He-Bu Qian, Guijuan Zou, Chao Li, Qifang He, Jun Liu
Turkish Journal of Biology
Acute lung injury (ALI) and its severe form acute respiratory distress syndrome (ARDS) are respiratory failures caused by excessive alveolar inflammation with high mortality. In this study, we investigated the effects of bone marrow mesenchymal stem cells (BMSCs) on lung injury of lipopolysaccharide (LPS)-induced ALI and explored the associated mechanisms. BMSCs were isolated, cultured, identified by staining with CD34 and CD44 surface markers. LPS-induced ALI mouse model was generated by injecting with LPS and divided into ALI group and ALI+BMSCs group. Mice treated without any reagents were assigned as Control, mice transplanted with BMSCs were assigned as BMSCs group. Regulatory …
Regulatory Roles Of An Atypical Ubiquitin Ligase Ube2o In Orphans Of Multi-Protein Complexes For Degradation, Yi Lv, Feiyue Xing
Regulatory Roles Of An Atypical Ubiquitin Ligase Ube2o In Orphans Of Multi-Protein Complexes For Degradation, Yi Lv, Feiyue Xing
Turkish Journal of Biology
UBE2O as an atypical ubiquitin-conjugating enzyme possesses an E2-E3 hybrid enzyme activity. It can regulate substrate levels or transcriptional activities by cooperating with other E3 ubiquitin ligases or forming homomeric complexes displaying intrinsic E2 and E3 activities. UBE2O controls the quality of cell proteome including protein degradation, modification, transport and location. Recent studies reveal that UBE2O plays a vital role in intracellular protein ubiquitination processes by regulating BMP/SMAD, TRAF/ NF-κB, mTOR/HIF1a and IL-1ß/IRAK4 signaling pathways, c-Maf stability and BAP1 subcellular location, which is proposed as a quality control supervisor of multiprotein complexes for degradation. Its abnormality leads to a variety …
Developing A Label Propagation Approach For Cancer Subtype Identification Problem, Pinar Güner, Burcu Güngör, Mustafa Coşkun
Developing A Label Propagation Approach For Cancer Subtype Identification Problem, Pinar Güner, Burcu Güngör, Mustafa Coşkun
Turkish Journal of Biology
Cancer is a disease in which abnormal cells grow uncontrollably and invade other tissues. Several types of cancer have various subtypes with different clinical and biological implications. Based on these differences, treatment methods need to be customized. The identification of distinct cancer subtypes is an important problem in bioinformatics, since it can guide future precision medicine applications. In order to design targeted treatments, bioinformatics methods attempt to discover common molecular pathology of different cancer subtypes. Along this line, several computational methods have been proposed to discover cancer subtypes or to stratify cancer into informative subtypes. However, existing works do not …
Development A Novel Multi-Epitope Dna Vaccine Against Human Sars Coronavirus-2: An Immunoinformatics Designing Study, Afshin Samimi Nemati, Sako Mirzaie, Mohammad Reza Masoumian, Fatemeh Sheikhi, Mostafa Jamalan
Development A Novel Multi-Epitope Dna Vaccine Against Human Sars Coronavirus-2: An Immunoinformatics Designing Study, Afshin Samimi Nemati, Sako Mirzaie, Mohammad Reza Masoumian, Fatemeh Sheikhi, Mostafa Jamalan
Turkish Journal of Biology
Human SARS coronavirus 2 (SARS-CoV-2) causes the current global COVID-19 pandemic. The production of an efficient vaccine against COVID-19 is under heavy investigation. In this study, we have designed a novel multiepitope DNA vaccine against SARS-CoV-2 using reverse vaccinology and DNA vaccine approaches. Applying these strategies led to reduce the time and costs of vaccine development and also improve the immune protective characteristics of the vaccine. For this purpose, epitopes of nucleocapsid, membrane glycoprotein, and ORF8 proteins of SARS-CoV-2 chose as targets for B and T-cell receptors. Accordingly, DNA sequences of selected epitopes have optimized for protein expression in the …
Palmitic Acid Declines Glucose Uptake In Hepg2 Cells Via Modulating Phosphoglucomutase 1 To Repress Phosphatidylinositol 3 Kinase/Protein Kinase B And Jnk Pathways Via Inducing Microrna-124-3p, Linghui Zhang, Shengli Zhang
Palmitic Acid Declines Glucose Uptake In Hepg2 Cells Via Modulating Phosphoglucomutase 1 To Repress Phosphatidylinositol 3 Kinase/Protein Kinase B And Jnk Pathways Via Inducing Microrna-124-3p, Linghui Zhang, Shengli Zhang
Turkish Journal of Biology
Diabetes resulting from insufficient insulin secretion or insulin resistance (IR) is a highly prevalent metabolic disease. Since microRNAs have been linked with elevated IR, the current research hypothesized that miR-124-3p has a role in IR and the establishment of IR and type 2 diabetes (T2DM). The study aimed to explore the molecular mechanisms of miR-124-3p which influence IR leading to T2DM establishment. HepG2 cells were cultured in vitro, and palmitic acid (PA) was used to construct the IR cell model. In the IR model, transfection of miR-124-3p or phosphoglucomutase 1 (PGM1) linked plasmids were transfected into HepG2 cells. RT-qPCR was …
Enlightening The Molecular Mechanisms Of Type 2 Diabetes With A Novel Pathway Clustering And Pathway Subnetwork Approach, Burcu Güngör, Mi̇ray Ünlü Yazici, Gökhan Göy, Mustafa Temi̇z
Enlightening The Molecular Mechanisms Of Type 2 Diabetes With A Novel Pathway Clustering And Pathway Subnetwork Approach, Burcu Güngör, Mi̇ray Ünlü Yazici, Gökhan Göy, Mustafa Temi̇z
Turkish Journal of Biology
Type 2 diabetes mellitus (T2D) constitutes 90% of the diabetes cases, and it is a complex multifactorial disease. In the last decade, genome-wide association studies (GWASs) for T2D successfully pinpointed the genetic variants (typically single nucleotide polymorphisms, SNPs) that associate with disease risk. In order to diminish the burden of multiple testing in GWAS, researchers attempted to evaluate the collective effects of interesting variants. In this regard, pathway-based analyses of GWAS became popular to discover novel multigenic functional associations. Still, to reveal the unaccounted 85 to 90% of T2D variation, which lies hidden in GWAS datasets, new post-GWAS strategies need …
Demethylase Fto Inhibits The Development Of Prostate Cancer By Upregulating Egr2 Expression In An M6a Manner, Zhenyu Wang, Huami̇n Sun, Hua Zhu, Donghua Gu, Xi̇nfeng Chen, Yongsheng Pan, Bi̇ng Zheng, Dongrong Yang
Demethylase Fto Inhibits The Development Of Prostate Cancer By Upregulating Egr2 Expression In An M6a Manner, Zhenyu Wang, Huami̇n Sun, Hua Zhu, Donghua Gu, Xi̇nfeng Chen, Yongsheng Pan, Bi̇ng Zheng, Dongrong Yang
Turkish Journal of Biology
Fat mass and obesity-associated protein (FTO) is a demethylase and plays a vital role in various cancers. However, the regulation mechanism of FTO in prostate cancer (PCa) remains unclear. This study aimed to elucidate the mechanism of FTO in PCa. The function and mechanism of FTO-mediated in PCa were determined by gain-of-function assays and RNA-seq. We found that FTO expression in PCa tissues and two PCa cell lines were significantly lower than that in adjacent tissues and normal cell line. PCa cells after overexpression of FTO showed a significant lower in proliferation, migration, and invasion capabilities. RNA-seq displayed that FTO …
Vars1 Mutations Associated With Neurodevelopmental Disorder Are Located On A Short Amino Acid Stretch Of The Anticodon-Binding Domain, Ayşe Semra Hiz, Seval Kiliç, Güney Bademci̇, Tülay Karakulak, Aybi̇ke Erdoğan, Burcu Özden Yücel, Çi̇ğdem Eresen Yazicioğlu, Şeri̇fe Esra Erdal Bağriyanik, Uluç Yi̇ş, Mustafa Teki̇n, Gökhan Karakülah, Ezgi̇ Karaca Erek, Mehmet Öztürk
Vars1 Mutations Associated With Neurodevelopmental Disorder Are Located On A Short Amino Acid Stretch Of The Anticodon-Binding Domain, Ayşe Semra Hiz, Seval Kiliç, Güney Bademci̇, Tülay Karakulak, Aybi̇ke Erdoğan, Burcu Özden Yücel, Çi̇ğdem Eresen Yazicioğlu, Şeri̇fe Esra Erdal Bağriyanik, Uluç Yi̇ş, Mustafa Teki̇n, Gökhan Karakülah, Ezgi̇ Karaca Erek, Mehmet Öztürk
Turkish Journal of Biology
Majority of 37 human aminoacyl tRNA synthetases have been incriminated in diverse, mostly recessive, genetic diseases. In accordance with this, we uncovered a novel homozygous valyl-tRNA synthetase 1 (VARS1) gene variant, leading to p.T1068M mutation. As in the previously reported VARS1 mutations, the affected individual harboring p.T1068M was experiencing a neurodevelopmental disorder with intractable seizures, psychomotor retardation, and microcephaly. To link this phenotypic outcome with the observed genotype, we structurally modeled human VARS1 and interpreted p.T1068M within the spatial distribution of previously reported VARS1 variants. As a result, we uncovered that p.T1068M is clustered with three other pathogenic …
Inhibition Of Trpv4 Attenuates Ferroptosis Against Lps-Induced Ali Via Ca2+ Pathway, Junying Cai, Guohai Xu, Yue Lin, Bin Zhou, Zhenzhong Luo, Shuchun Yu, Jun Lu
Inhibition Of Trpv4 Attenuates Ferroptosis Against Lps-Induced Ali Via Ca2+ Pathway, Junying Cai, Guohai Xu, Yue Lin, Bin Zhou, Zhenzhong Luo, Shuchun Yu, Jun Lu
Turkish Journal of Biology
Acute lung injury (ALI) is an inflammation of the lungs with high incidence rate and mortality. Ferroptosis is a new cell death, which has influence in body organs. Transient receptor potential vanillin-4 (TRPV4) channel is a key mediator of Ca2+, its activation induces ferroptosis. The purpose of the study is to investigate the function of TRPV4 on ferroptosis in ALI mice induced by lipopolysaccharide (LPS). In vitro, the regulation of TRPV4 on Ca2+ and ferroptosis was detected by CCK-8, fluorescent probe, and western blot in BEAS-2B cells. In vivo, the role of TRPV4 antagonists on ALI mice …
Scaffolds From Medical Grade Chitosan: A Good Choice For 3d Cultivation Of Mesenchymal Stem Cells, Merve Çapkin Yurtsever, Özge Eki̇n Akdere, Menemşe Gümüşdereli̇oğlu
Scaffolds From Medical Grade Chitosan: A Good Choice For 3d Cultivation Of Mesenchymal Stem Cells, Merve Çapkin Yurtsever, Özge Eki̇n Akdere, Menemşe Gümüşdereli̇oğlu
Turkish Journal of Biology
Chitosan has high biocompatibility, supports proliferation of many cells, and can be a good carrier for various growth factors. However, low attachment ratio and spheroid formation of several stem cell types on plain chitosan scaffolds/films is still a problem. In this study, it was aimed to obtain 3D scaffolds using medical grade chitosan (MC) with a high deacetylation degree (DD ≥ 92.6%) to overcome the spheroid formation of rat adipose tissue derived mesenchymal stem cells (rAdMSCs) on control chitosan (C, DD = 75%-85%) scaffolds. Genipin was used as a biological chemical crosslinker, and glycerol phosphate salt was used both as …
Knockdown Of Death Receptor 5 Antisense Long Noncoding Rna And Cisplatin Treatment Modulate Similar Macromolecular And Metabolic Changes In Hela Cells, Di̇lek Cansu Gürer, İpek Erdoğan Vatansever, Çağatay Ceylan, Bünyami̇n Akgül
Knockdown Of Death Receptor 5 Antisense Long Noncoding Rna And Cisplatin Treatment Modulate Similar Macromolecular And Metabolic Changes In Hela Cells, Di̇lek Cansu Gürer, İpek Erdoğan Vatansever, Çağatay Ceylan, Bünyami̇n Akgül
Turkish Journal of Biology
Background/aim: Despite great progress in complex gene regulatory mechanisms in the dynamic tumor microenvironment, the potential contribution of long noncoding RNAs (lncRNAs) to cancer cell metabolism is poorly understood. Death receptor 5 antisense (DR5-AS) is a cisplatin inducible lncRNA whose knockdown modulates cell morphology. However, its effect on cell metabolism is unknown. The aim of this study is to examine metabolic changes modulated by cisplatin and DR5-AS lncRNA in HeLa cells. Materials and methods: We used cisplatin as a universal cancer therapeutic drug to modulate metabolic changes in HeLa cervix cancer cells. We then examined the extent of metabolic changes …
Acceleration Of Slow Autophagy Flux Induced By Arabinofuranosyl Cytidine Improves Its Antileukemic Effectiveness In M-Nfs-60 Cells, Salwa Fouad, Gamal Elsokkary, Abo Bakr Abdel Shakor
Acceleration Of Slow Autophagy Flux Induced By Arabinofuranosyl Cytidine Improves Its Antileukemic Effectiveness In M-Nfs-60 Cells, Salwa Fouad, Gamal Elsokkary, Abo Bakr Abdel Shakor
Turkish Journal of Biology
Arabinofuranosyl cytidine (AraC) is an analog of deoxycytidine used as an anticancer drug for leukemic patients. The effective dose always produces severe complications. The present study investigated the modulation of autophagy and its impact on the cytotoxicity of AraC toward murine myelogenous leukemia cells (M-NFS-60). Autophagy was inhibited by NH4Cl or Bafilomycin A1 or enhanced by amino acid starvation, glucose starvation, mild hyperthermia (41 °C), or rapamycin (Rap). Cells were treated with different concentrations, 0 to 2 µM, of AraC in the presence or absence of autophagy modulators. AraC-induced apoptosis is combined with autophagy, especially at lower concentrations. This autophagy …
Comparison Of The Different Isoforms Of Vitamin E Against Amyloid Beta-Induced Neurodegeneration, Alp Yi̇ği̇t Özdemi̇r, Esi̇n Çeti̇n, Mehmet Ali̇ Onur
Comparison Of The Different Isoforms Of Vitamin E Against Amyloid Beta-Induced Neurodegeneration, Alp Yi̇ği̇t Özdemi̇r, Esi̇n Çeti̇n, Mehmet Ali̇ Onur
Turkish Journal of Biology
Neurodegeneration is the progressive loss of structure or function of neurons. Amyloid beta oligomers and aggregates have been linked to neurodegeneration. While previous studies have suggested that dietary α-tocopherol intake can prevent amyloid beta aggregation and protect the brain against neurotoxicity, other research, however, indicated that tocotrienol forms might be used as an alternate agent against this kind of degeneration. In the presented research, we compared the in vitro protective effects of α-tocopherol and α-tocotrienol. In this context, we formed an in vitro neurodegeneration model with primary isolated neurons and measured α-tocopherol's and α-tocotrienol's protective effects. As a result, α-tocopherol …
Cellular Iron Storage And Trafficking Are Affected By Gtn Stimulation In Primary Glial And Meningeal Cell Culture, Lati̇fe Arzu Aral, Mehmet Ali̇ Ergün, Hayrunni̇sa Bolay Belen
Cellular Iron Storage And Trafficking Are Affected By Gtn Stimulation In Primary Glial And Meningeal Cell Culture, Lati̇fe Arzu Aral, Mehmet Ali̇ Ergün, Hayrunni̇sa Bolay Belen
Turkish Journal of Biology
A well-balanced intracellular iron trafficking in glial cells plays a role in homeostatic processes. Elevated intracellular iron triggers oxidative stress and cell damage in many neurological disorders, including migraine. This study aimed to investigate the effects of glyceryl trinitrate (GTN), on cellular iron homeostasis, matrixmetalloproteinase (MMP)-9, and calcitonin gene related peptide (CGRP) receptor (CRLR/CGRPR1) production in microglia, astrocyte, and meningeal cell cultures. Primary glial and meningeal cells in culture were exposed to GTN for 24 h. Messenger RNA expression was assessed using qPCR. Iron accumulation was visualized via modified Perl?s histochemistry. MMP-9 levels in cell culture supernatants were measured using …
Expression Profiles Of Interferon-Related Genes In Cells Infected With Influenza A Viruses Or Transiently Transfected With Plasmids Encoding Viral Rna Polymerase, Eli̇f Çağlayan, Kadi̇r Turan
Expression Profiles Of Interferon-Related Genes In Cells Infected With Influenza A Viruses Or Transiently Transfected With Plasmids Encoding Viral Rna Polymerase, Eli̇f Çağlayan, Kadi̇r Turan
Turkish Journal of Biology
Influenza A viruses frequently change their genetic characteristics, which leads to the emergence of new viruses. Consequently, elucidation of the relationship between influenza A virus and host cells has a great importance to cope with viral infections. In this study, it was aimed to determine expression profiles of interferon response genes in human embryonic kidney 293 (HEK293) cells infected with human (A/WSN-H1N1) and avian influenza A viruses (duck/Pennsylvania/10218/84/H5N2) or transfected with plasmids encoding viral RdRP subunits and, to obtain clues about the genes that may be important for the viral pathogenesis. The HEK293 cells cultured in a 12-well plate were …
Current Mutatome Of Sars-Cov-2 In Turkey Reveals Mutations Of Interest, Doğa Eski̇er, Evren Akalp, Özlem Dalan, Gökhan Karakülah, Yavuz Oktay
Current Mutatome Of Sars-Cov-2 In Turkey Reveals Mutations Of Interest, Doğa Eski̇er, Evren Akalp, Özlem Dalan, Gökhan Karakülah, Yavuz Oktay
Turkish Journal of Biology
As the underlying pathogen for the COVID-19 pandemic that has affected tens of millions of lives worldwide, SARS-CoV-2 and its mutations are among the most urgent research topics worldwide. Mutations in the virus genome can complicate attempts at accurate testing or developing a working treatment for the disease. Furthermore, because the virus uses its own proteins to replicate its genome, rather than host proteins, mutations in the replication proteins can have cascading effects on the mutation load of the virus genome. Due to the global, rapidly developing nature of the COVID-19 pandemic, local demographics of the virus can be difficult …
Prediction Of Host-Pathogen Protein Interactions By Extended Network Model, İrfan Kösesoy, Murat Gök, Tamer Kahveci̇
Prediction Of Host-Pathogen Protein Interactions By Extended Network Model, İrfan Kösesoy, Murat Gök, Tamer Kahveci̇
Turkish Journal of Biology
Knowledge of the pathogen-host interactions between the species is essentialin order to develop a solution strategy against infectious diseases. In vitro methods take extended periods of time to detect interactions and provide very few of the possible interaction pairs. Hence, modelling interactions between proteins has necessitated the development of computational methods. The main scope of this paper is integrating the known protein interactions between thehost and pathogen organisms to improve the prediction success rate of unknown pathogen-host interactions. Thus, the truepositive rate of the predictions was expected to increase.In order to perform this study extensively, encoding methods and learning algorithms …
Transcriptome Profiles Associated With Selenium-Deficiency-Dependent Oxidative Stress Identify Potential Diagnostic And Therapeutic Targets In Liver Cancer Cells, Damla Gözen, Deni̇z Cansen Kahraman, Kübra Narci, Huma Shehwana, Özlen Konu, Rengül Çeti̇n Atalay
Transcriptome Profiles Associated With Selenium-Deficiency-Dependent Oxidative Stress Identify Potential Diagnostic And Therapeutic Targets In Liver Cancer Cells, Damla Gözen, Deni̇z Cansen Kahraman, Kübra Narci, Huma Shehwana, Özlen Konu, Rengül Çeti̇n Atalay
Turkish Journal of Biology
Hepatocellular carcinoma (HCC) is one of the most common cancer types with high mortality rates and displays increased resistance to various stress conditions such as oxidative stress. Conventional therapies have low efficacies due to resistance and off-target effects in HCC. Here we aimed to analyze oxidative stress-related gene expression profiles of HCC cells and identify genes that could be crucial for novel diagnostic and therapeutic strategies. To identify important genes that cause resistance to reactive oxygen species (ROS), a model of oxidative stress upon selenium (Se) deficiency was utilized. The results of transcriptome-wide gene expression data were analyzed in which …
Arid4b Physically Interacts With Tfap2c In Mouse Embryonic Stem Cells, Ezgi̇ Gül Keski̇n, Jialiang Huang, Ni̇hal Terzi̇ Çi̇zmeci̇oğlu
Arid4b Physically Interacts With Tfap2c In Mouse Embryonic Stem Cells, Ezgi̇ Gül Keski̇n, Jialiang Huang, Ni̇hal Terzi̇ Çi̇zmeci̇oğlu
Turkish Journal of Biology
Precise regulation of gene expression is required for embryonic stem cell (ESC) differentiation. Transcription factor (TF) networks coordinate the balance of pluripotency and differentiation in response to extracellular and intracellular signals. Chromatin factors work alongside TFs to achieve timely regulation of gene expression for differentiation process. Our previous studies showed that a member of the Sin3a corepressor complex, Arid4b, is critical for proper mouse ESC differentiation into mesoderm and endoderm. We found elevated histone 3 lysine 27 acetylation (H3K27Ac) in a subset of genomic loci in meso/endoderm directed arid4b? cells, coincident with their derepression. We reasoned that Sin3a complex may …
Helicobacter-Stimulated Il-10-Producing B Cells Suppress Differentiation Of Lipopolysaccharide/Helicobacter Felis-Activated Stimulatory Dendritic Cells, Doğuş Altunöz, Ayça Sayi Yazgan
Helicobacter-Stimulated Il-10-Producing B Cells Suppress Differentiation Of Lipopolysaccharide/Helicobacter Felis-Activated Stimulatory Dendritic Cells, Doğuş Altunöz, Ayça Sayi Yazgan
Turkish Journal of Biology
Regulatory B cells (Bregs) produce antiinflammatory cytokines and inhibits proinflammatory response. Recently, immunosuppressive roles of Bregs in the effector functions of dendritic cells (DCs) were demonstrated. However, cross talk between Bregs and DCs in Helicobacter infection remains unknown. Here, we showed that direct stimulation of bone marrow-derived DCs (BMDCs) with Helicobacter felis (H. felis) antigen upregulates their CD86 surface expression and causes the production of interleukin-6 (IL-6), tumor necrosis factor alpha (TNF-α), interleukin-12 (IL-12), and interleukin-10 (IL-10). Furthermore, prestimulation of DCs with supernatants derived from both Helicobacter-stimulated IL-10- B (Hfstim-IL-10- B) or IL-10+ B (Hfstim-IL-10+) cells suppresses the secretion of …
Crosstalk Between Autophagy And Dna Repair Systems, Si̇nem Sarikaya, Hati̇ce Çakir, Devri̇m Gözüaçik, Yunus Akkoç
Crosstalk Between Autophagy And Dna Repair Systems, Si̇nem Sarikaya, Hati̇ce Çakir, Devri̇m Gözüaçik, Yunus Akkoç
Turkish Journal of Biology
Autophagy and DNA repair are two essential biological mechanisms that maintain cellular homeostasis. Impairment of these mechanisms was associated with several pathologies such as premature aging, neurodegenerative diseases, and cancer. Intrinsic or extrinsic stress stimuli (e.g., reactive oxygen species or ionizing radiation) cause DNA damage. As a biological stress response, autophagy is activated following insults that threaten DNA integrity. Hence, in collaboration with DNA damage repair and response mechanisms, autophagy contributes to the maintenance of genomic stability and integrity. Yet, connections and interactions between these two systems are not fully understood. In this review article, current status of the associations …
Identification Of Differentially Expressed Micrornas In Primary Esophageal Achalasia By Next-Generation Sequencing, Mahin Gholipour, Javad Mikaeli, Seyed Javad Mowla, Mohammad Reza Bakhtiarzadeh, Marie Saghaeian Jazi, Naeme Javid, Narges Fazlollahi, Masoud Khoshnia, Naser Behnampour, Abdolvahab Moradi
Identification Of Differentially Expressed Micrornas In Primary Esophageal Achalasia By Next-Generation Sequencing, Mahin Gholipour, Javad Mikaeli, Seyed Javad Mowla, Mohammad Reza Bakhtiarzadeh, Marie Saghaeian Jazi, Naeme Javid, Narges Fazlollahi, Masoud Khoshnia, Naser Behnampour, Abdolvahab Moradi
Turkish Journal of Biology
Molecular knowledge regarding the primary esophageal achalasia is essential for the early diagnosis and treatment of this neurodegenerative motility disorder. Therefore, there is a need to find the main microRNAs (miRNAs) contributing to the mechanisms of achalasia. This study was conducted to determine some patterns of deregulated miRNAs in achalasia. This case-control study was performed on 52 patients with achalasia and 50 nonachalasia controls. The miRNA expression profiling was conducted on the esophageal tissue samples using the next-generation sequencing (NGS). Differential expression of miRNAs was analyzed by the edgeR software. The selected dysregulated miRNAs were additionally confirmed using the quantitative …