Browsing by Author "Celik Altunoglu, Yasemin"

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Evaluation of the Potential Therapeutic Properties of Liquidambar orientalis Oil.
(2023-09-12) Baloglu, Mehmet Cengiz; Yildiz Ozer, Lutfiye; Pirci, Buket; Zengin, Gokhan; Uba, Abdullahi Ibrahim; Celik Altunoglu, Yasemin
Liquidambar orientalis Mill., commonly called the Anatolian sweetgum or Sigla tree, is endemic to southwestern Turkey. It has been historically significant in traditional medicine. In our research, we delved into the therapeutic attributes of its oil, emphasizing its antioxidant, antimicrobial, and antitumor properties. The primary chemical constituent of the gum is styrene, accounting for 78.5%. The gum demonstrated antioxidant capabilities in several assays, including in 2,2-diphenyl-1-picrylhydrazyl (DPPH), 2,2'-azino-bis (3-ethylbenzothiazoline-6-sulfonic acid) (ABTS), cupric reducing antioxidant capacity (CUPRAC) and ferric reducing antioxidant power (FRAP). It displayed bactericidal actions against various gram-positive bacteria, such as Staphylococcus aureus, and gram-negative strains, including Escherichia coli. Additionally, the oil showcased potent antitumor effects against breast (MDA-MB-231), lung (A549), and prostate (PC3) cancer cell lines. These effects were found to be both time- and dose-dependent. L. orientalis Mill. oil showed the best antitumor activity against breast, lung, and prostate cancer cell lines after the 24 h and 48h treatment. Its oil might induce autophagy in the PC3 prostate cancer cell line, whereas its cytotoxicity against MDA-MB-231 and A549 cancer cell lines might not be correlated with autophagy or apoptosis pathways. In conclusion, the oil from the Sigla tree offers promising therapeutic potential and warrants further exploration.
Expansin gene family database: A comprehensive bioinformatics resource for plant expansin multigene family.
(2023-05-31T21:00:00Z) Kök, Büşra Özkan; Celik Altunoglu, Yasemin; Öncül, Ali Burak; Karaci, Abdulkadir; Cengiz Baloglu, Mehmet
Expansins, which are plant cell wall loosening proteins associated with cell growth, have been identified as a multigene family. Plant expansin proteins are an important family that functions in cell growth and many of developmental processes including wall relaxation, fruit softening, abscission, seed germination, mycorrhiza and root nodule formation, biotic and abiotic stress resistance, invasion of pollen tube stigma and organogenesis. In addition, it is thought that increasing the efficiency of plant expansin genes in plants plays a significant role, especially in the production of secondary bioethanol. When the studies on the expansin genes are examined, it is seen that the expansin genes are a significant gene family in the cell wall expansion mechanism. Therefore, understanding the efficacy of expansin genes is of great importance. Considering the importance of this multigene family, we aimed to create a comprehensively informed database of plant expansin proteins and their properties. The expansin gene family database provides comprehensive online data for the expansin gene family members in the plants. We have designed a new website accessible to the public, including expansin gene family members in 70 plants and their features including gene, coding and peptide sequences, chromosomal location, amino acid length, molecular weight, stability, conserved motif and domain structure and predicted three-dimensional architecture. Furthermore, a deep learning system was developed to detect unknown genes belonging to the expansin gene family. In addition, we provided the blast process within the website by establishing a connection to the NCBI BLAST site in the tools section. Thus, the expansin gene family database becomes a useful database for researchers that enables access to all datasets simultaneously with its user-friendly interface. Our server can be reached freely at the following link (http://www.expansingenefamily.com/).
Exploring the Nutraceutical Potential of Dried Pepper L. on Market from Altino in Abruzzo Region.
(2020-05-08T00:00:00Z) Della Valle, Alice; Dimmito, Marilisa Pia; Zengin, Gokhan; Pieretti, Stefano; Mollica, Adriano; Locatelli, Marcello; Cichelli, Angelo; Novellino, Ettore; Ak, Gunes; Yerlikaya, Serife; Baloglu, Mehmet Cengiz; Celik Altunoglu, Yasemin; Stefanucci, Azzurra
Sweet pepper is a typical type of from Abruzzo region, recognized as a traditional and local product, traditionally cultivated in the town of Altino (Abruzzo region, Italy). The aim of this study is to compare the sweet type of peppers from Altino with the hot pepper cultivated in the same area, in order to delineate their different phytochemical and biological profiles in vitro and in vivo. In this study, we elucidated their phytochemical composition, fatty acids composition and phenolic/flavonoid contents in extracts. Then antioxidant and enzyme inhibition assays were performed to evaluate their biological properties, together with in vitro cell assay and in vivo anti-inflammatory activity. Microwave (1000 mg/mL) extract of hot pepper showed the best inhibition value on in vitro cell growth assay; in fact, the number of survived cells was about 20% and 40% for microwave and Soxhlet extracts, respectively. In vivo anti-inflammatory assay revealed good activity for both species, which, when associated with in vitro cell inhibition results, could explain the protective effect on human prostatic hyperplasia.
Gene-Editing Technologies and Applications in Legumes: Progress, Evolution, and Future Prospects.
(2022-01-28) Baloglu, Mehmet Cengiz; Celik Altunoglu, Yasemin; Baloglu, Pinar; Yildiz, Ali Burak; Türkölmez, Nil; Özden Çiftçi, Yelda
Legumes are rich in protein and phytochemicals and have provided a healthy diet for human beings for thousands of years. In recognition of the important role they play in human nutrition and agricultural production, the researchers have made great efforts to gain new genetic traits in legumes such as yield, stress tolerance, and nutritional quality. In recent years, the significant increase in genomic resources for legume plants has prepared the groundwork for applying cutting-edge breeding technologies, such as transgenic technologies, genome editing, and genomic selection for crop improvement. In addition to the different genome editing technologies including the CRISPR/Cas9-based genome editing system, this review article discusses the recent advances in plant-specific gene-editing methods, as well as problems and potential benefits associated with the improvement of legume crops with important agronomic properties. The genome editing technologies have been effectively used in different legume plants including model legumes like alfalfa and lotus, as well as crops like soybean, cowpea, and chickpea. We also discussed gene-editing methods used in legumes and the improvements of agronomic traits in model and recalcitrant legumes. Despite the immense opportunities genome editing can offer to the breeding of legumes, governmental regulatory restrictions present a major concern. In this context, the comparison of the regulatory framework of genome editing strategies in the European Union and the United States of America was also discussed. Gene-editing technologies have opened up new possibilities for the improvement of significant agronomic traits in legume breeding.
Genome-wide identification and comparative expression analysis of genes in watermelon and melon genomes.
(2017-01-01T00:00:00Z) Celik Altunoglu, Yasemin; Baloglu, Mehmet Cengiz; Baloglu, Pinar; Yer, Esra Nurten; Kara, Sibel
Late embryogenesis abundant (LEA) proteins are large and diverse group of polypeptides which were first identified during seed dehydration and then in vegetative plant tissues during different stress responses. Now, gene family members of LEA proteins have been detected in various organisms. However, there is no report for this protein family in watermelon and melon until this study. A total of 73 genes from watermelon () and 61 genes from melon () were identified in this comprehensive study. They were classified into four and three distinct clusters in watermelon and melon, respectively. There was a correlation between gene structure and motif composition among each LEA groups. Segmental duplication played an important role for gene expansion in watermelon. Maximum gene ontology of genes was observed with poplar genes. For evaluation of tissue specific expression patterns of and genes, publicly available RNA-seq data were analyzed. The expression analysis of selected genes in root and leaf tissues of drought-stressed watermelon and melon were examined using qRT-PCR. Among them, --- genes were quickly induced after drought application. Therefore, they might be considered as early response genes for water limitation conditions in watermelon. In addition, -- genes were found to be up-regulated in both tissues of melon under drought stress. Our results can open up new frontiers about understanding of functions of these important family members under normal developmental stages and stress conditions by bioinformatics and transcriptomic approaches.
Immune responses to methanolic extract of black cumin (Nigella sativa) in rainbow trout (Oncorhynchus mykiss).
(2017-08-01T00:00:00Z) Celik Altunoglu, Yasemin; Bilen, Soner; Ulu, Ferhat; Biswas, Gouranga
The immune stimulating effects of the methanolic extract of black cumin (Nigella sativa) in rainbow trout (Oncorhynchus mykiss) was evaluated. Variable concentrations of black cumin methanolic extract [0 (Control), 0.1 and 0.5 g kg of feed] were individually added to the basal diet and rainbow trout was fed for 30 days to assess the innate immune responses and growth performance. Feed conversion ratio significantly decreased in the group fed with 0.5 g kg black cumin extract. Respiratory burst activity was observed to be the highest in the 0.5 g kg black cumin extract fed group. Lysozyme and myeloperoxidase activities were significantly increased in fish of experimental groups compared to control (P < 0.05). TGF-β gene expression increased in black cumin 0.5 g kg treated group. IL-1β and TGF-β gene expressions decreased in black cumin 0.1 g kg administered group. Expression of IL-12 gene diminished in both the experimental groups. There was no significant difference in survival rates between black cumin extract treated fish groups and control (P > 0.05) after challenged with Aeromonas hydrophila. The results indicate that the methanolic extract of black cumin is a stimulator of some innate humoral immune responses, but it is ineffective for cytokine-related gene trancriptions in rainbow trout.
Investigation of the expansin gene family in sugar beet (Beta vulgaris) by the genome-wide level and their expression responses under abiotic stresses.
(2023-08-29) Faris Abdulkhadum Al-Mamoorı, Dima; Celik Altunoglu, Yasemin; Horuz, Erdoğan; Özkan Kök, Büşra
Sugar beet (Beta vulgaris ssp. vulgaris) is primarily used in sugar production worldwide. Expansins are a gene family of cell wall proteins effective in regulating cell wall structure. They also participate in developmental stages, including cell and leaf growth, root development, and fruit ripening. This study comprehensively characterizes the expansin gene family members found in the sugar beet genome. In addition, in silico expression analysis of sugar beet expansin genes under variable abiotic stress conditions and expression profiles of expansin genes under combined drought and heat stresses by the qRT-PCR method were evaluated in the study. A total of 31 sugar beet expansin genes were identified. BvuEXLA-02 and BvuEXLB-02 genes can have abiotic stress tolerance roles besides their roles in normal development. Determining the properties of sugar beet expansin, family members can help enable the cellulose hydrolysis mechanism and raise plant biomass. Elucidating expression profiles of the sugar beet expansin genes under variable stress conditions can support improving plant productivity. The results of the current study may also contribute to the deep understanding of sugar beet expansin genes in the future.
LC-MS/HRMS Analysis, Anti-Cancer, Anti-Enzymatic and Anti-Oxidant Effects of Extracts: A Potential Raw Material for Functional Applications.
(2021-12-16T00:00:00Z) Sinan, Kouadio Ibrahime; Akpulat, Uğur; Aldahish, Afaf A; Celik Altunoglu, Yasemin; Baloğlu, Mehmet Cengiz; Zheleva-Dimitrova, Dimitrina; Gevrenova, Reneta; Lobine, Devina; Mahomoodally, Mohamad Fawzi; Etienne, Ouattara Katinan; Zengin, Gokhan; Mahmud, Shafi; Capasso, Raffaele
is a great tropical plant and is widely used for various traditional purposes. In the present study, we examined the influence of solvents (dichloromethane, ethyl acetate, methanol and infusion (water)) on chemical composition and biological capabilities of . An UHPLC-HRMS method was used to determine the chemical characterization. The biological ability was examined for antioxidant, enzyme inhibitory and anti-cancer effects. To evaluate antioxidant effects, different chemical methods (ABTS, DPPH, CUPRAC, FRAP, metal chelating and phosphomolybdenum) were applied. With regard to enzyme inhibitory properties, cholinesterases, amylase, glucosidase and tyrosinase were used. The MDA-MB-231 breast cancer cell line was chosen to determine anticancer activity. Based on the UHPLC-HRMS analysis, 37 specialized metabolites were dereplicated and identified in the studied extracts. Results revealed the presence of 15 hydroxybenzoic, hydroxycinnamic, acylquinic acids, and their glycosides, one rotenoid, seven flavonoids, 12 fatty acids and two other glycosides. Among the tested extracts, the methanol extract showed a stronger antioxidant ability compared with other extracts. The methanol extract also showed the best inhibitory effects on tyrosinase and glucosidase. In the anti-cancer evaluation, the methanol extract showed stronger anticancer effects compared with water extract. In summary, our observations can contribute to the establishment of as a potential candidate for functional applications in the preparation.