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Full-Text Articles in Life Sciences
The Impact Of Prenatal Vape Exposure On Weanling Liver Gene Expression, Isabella R. Fieger, Cristina Isabel Pauig, Mindy Yin, Anna Lipinski, Barrett Blevins, Tyler Plake, Lucas Georges, Katelyn Chism, Isaiah Burciaga, Selma Podbicanin, Cynthia Corbitt, Rachel Neal
The Impact Of Prenatal Vape Exposure On Weanling Liver Gene Expression, Isabella R. Fieger, Cristina Isabel Pauig, Mindy Yin, Anna Lipinski, Barrett Blevins, Tyler Plake, Lucas Georges, Katelyn Chism, Isaiah Burciaga, Selma Podbicanin, Cynthia Corbitt, Rachel Neal
The Cardinal Edge
The use of E-cigarettes is a fairly recent phenomenon. Vaping is seen as the “healthier” alternative to smoking cigarettes, yet we know little about the developmental toxicity of commercially available vaping products. In the current study, C57Bl/6 mice were exposed to Vuse Alto Golden Tobacco pods (5% nicotine) 4 days before mating and throughout gestation (GD19) for 1 hour/day every day. Offspring birth outcomes were measured with liver tissue collected at weaning. Gross histology and gene expression in the SIRT1-FXR pathway were examined via qPCR analysis with male and female offspring analyzed separately. No differences in gross morphology or cell …
High-Spatial-Resolution Transcriptomic Map Of The Mouse Lymph Node Microenvironment Using Deterministic Barcoding, Archibald Enninful, Yang Liu, Rong Fan
High-Spatial-Resolution Transcriptomic Map Of The Mouse Lymph Node Microenvironment Using Deterministic Barcoding, Archibald Enninful, Yang Liu, Rong Fan
The Yale Undergraduate Research Journal
Spatial transcriptomics is an emerging approach which characterizes gene expression profiles for a more nuanced understanding of biological processes at a tissue level. This offers significant advantages over traditional omics which require the digestion of tissues and subsequent isolation of cells, during which the spatial information is completely lost. Lymph nodes are an integral part of the immune system and an in-depth analysis of its spatial organization will provide useful insights which can be applicable in the development of novel immunotherapies. In this study, the mouse lymph node is characterized using the newly developed microfluidic-based approach, Deterministic Barcoding in Tissue …
Targeting The Tumor Stroma: Integrative Analysis Reveal Gata2 And Toryaip1 As Novel Prognostic Targets In Breast And Ovarian Cancer, Ömer Faruk Erceylan, Ayşe Savaş, Esra Göv
Targeting The Tumor Stroma: Integrative Analysis Reveal Gata2 And Toryaip1 As Novel Prognostic Targets In Breast And Ovarian Cancer, Ömer Faruk Erceylan, Ayşe Savaş, Esra Göv
Turkish Journal of Biology
Tumor stroma interaction is known to take a crucial role in cancer growth and progression. In the present study, it was performed gene expression analysis of stroma samples with ovarian and breast cancer through an integrative analysis framework to identify common critical biomolecules at multiomics levels. Gene expression datasets were statistically analyzed to identify common differentially expressed genes (DEGs) by comparing tumor stroma and normal stroma samples. The integrative analyses of DEGs indicated that there were 59 common core genes, which might be feasible to be potential marks for cancer stroma targeted strategies. Reporter molecules (i.e. receptor, transcription factors and …
Poly (I:C)- And Doxorubicin-Loaded Magnetic Dendrimeric Nanoparticles Affect The Apoptosis-Related Gene Expressions In Mcf-7 Cells, Rouhollah Khodadust, Aktan Alpsoy, Gözde Ünsoy, Ufuk Gündüz
Poly (I:C)- And Doxorubicin-Loaded Magnetic Dendrimeric Nanoparticles Affect The Apoptosis-Related Gene Expressions In Mcf-7 Cells, Rouhollah Khodadust, Aktan Alpsoy, Gözde Ünsoy, Ufuk Gündüz
Turkish Journal of Biology
Use of nanoparticles as drug carrier vectors has great potential to circumvent the limitations associated with chemotherapy, including drug resistance and destructive side effects. For this purpose, magnetic generation 4 dendrimeric nanoparticles were prepared to carry chemotherapeutic agent doxorubicin (G:4-DOX) and immune modulator polyinosinic:polycytidylic acid [Poly(I:C)]. As previously reported, DOX and Poly(I:C) was loaded onto G4 nanoparticles (PIC-G4-DOX). Cellular internalization study using confocal microscopy demonstrated high levels of cellular internalization of PIC-G4-DOX nanoparticles by MCF-7 cells. This resulted in higher efficacy of PIC-G4-DOX nanoparticles in killing MCF-7 breast cancer cells. Alteration in the expression levels of selected genes was determined …
Transcriptome Analysis Reveals Differentially Expressed Genes Between Human Primary Bone Marrow Mesenchymal Stem Cells And Human Primary Dermal Fibroblasts, Eki̇m Z. Taşkiran, Beren Karaosmanoğlu
Transcriptome Analysis Reveals Differentially Expressed Genes Between Human Primary Bone Marrow Mesenchymal Stem Cells And Human Primary Dermal Fibroblasts, Eki̇m Z. Taşkiran, Beren Karaosmanoğlu
Turkish Journal of Biology
Stromal cells have been widely used in biomedical research and disease modeling studies in vitro. The most commonly used types of stromal cells are mesenchymal stem cells and fibroblasts. Their cellular phenotypes and differentiation capabilities are quite similar and there are no specific distinction criteria. In order to identify transcriptomic differences between these 2 cell types, we performed next-generation RNA sequencing. Using the global gene expression profile and pathway analysis, we showed that human primary bone marrow mesenchymal stem cells and human primary dermal fibroblasts have different molecular signatures. We also identified critical transcription factors that are differentially expressed between …
Assessment Of Iranian Endemic Artemisia Khorassanica: Karyological, Genome Size,And Gene Expressions Involved In Artemisinin Production, Farokh Hamidi, Ghasem Karimzadeh, Sajad Rashidi Monfared, Maryam Salehi
Assessment Of Iranian Endemic Artemisia Khorassanica: Karyological, Genome Size,And Gene Expressions Involved In Artemisinin Production, Farokh Hamidi, Ghasem Karimzadeh, Sajad Rashidi Monfared, Maryam Salehi
Turkish Journal of Biology
The species of Artemisia, one of the largest genera of the family Asteraceae, are frequently utilized for the treatment of diseases such as malaria, hepatitis, cancer, inflammation, and infections by fungi, bacteria, and viruses. Karyological studies were performed on 18 Artemisia khorassanica populations: eleven were diploid (2n = 18) and seven were tetraploid (2n = 36). The mean chromosome lengths were 3.61 and 3.84 ?m for diploids and tetraploids, respectively. Two chromosome types ("m", "sm") formed karyotype formulas "18m" for diploids and "36m" and "34m + 2sm" for tetraploids. The mean 2C DNA contents were 5.91 and 11.53 pg in …
Molecular Investigations Of The Somatic Embryogenesis Recalcitrancein The Cherry (Prunus Cerasus L.) Rootstock Cab 6p, Kaouther Ben Mahmoud, Emna Jedidi, Fabienne Delporte, Yordan Muhovski, Ahmed Jemmali, Philippe Druart
Molecular Investigations Of The Somatic Embryogenesis Recalcitrancein The Cherry (Prunus Cerasus L.) Rootstock Cab 6p, Kaouther Ben Mahmoud, Emna Jedidi, Fabienne Delporte, Yordan Muhovski, Ahmed Jemmali, Philippe Druart
Turkish Journal of Biology
Somatic embryogenesis is a powerful tool for clonal propagation and plant breeding in many plant species, but its application is limited by the genotype response based on the interaction between gene expression and culture conditions. In this context, the recalcitrance of the nonembryogenic cherry rootstock Prunus cerasus cultivar CAB 6P was investigated via the analysis of the candidate genes PiABP19, Picdc2, and PiSERK3 in comparison with the embryogenic genotype Prunus incisa cultivar N°131. Semiquantitative RT-PCR was employed to assess the transcript level of these genes in leaf explants and derived calli of the two genotypes cultured on picloram-containing MS medium …
Assessment Of The Function And Expression Pattern Of Auxin Response Factor B3 In The Model Legume Plant Medicago Truncatula, Miglena Revalska, Valya Vassileva, Grigor Zehirov, Sofie Goormachtig, Anelia Iantcheva
Assessment Of The Function And Expression Pattern Of Auxin Response Factor B3 In The Model Legume Plant Medicago Truncatula, Miglena Revalska, Valya Vassileva, Grigor Zehirov, Sofie Goormachtig, Anelia Iantcheva
Turkish Journal of Biology
The phytohormone auxin is a critical signal molecule, regulating fundamental processes in plant growth and development, such as shaping the root and shoot architecture, organ patterning, and nodulation. Auxin regulates plant gene expression mainly through auxin response factors (ARFs), which bind to auxin response elements in the promoter, upstream of auxin-activated genes. Here we examine and assess the function and expression pattern of a gene described as an auxin response factor, containing a DNA-binding pseudobarrel and B3 DNA-binding domains, from Medicago truncatula (MtARF-B3). For the model legume species M. truncatula, stable transgenic plants with MtARF-B3 overexpression, downregulation, and transcriptional reporters …
Gene Expression Patterns Of Bone Morphogenetic Proteins (Bmps) During Early Embryonic Development In The Annual Killifish Austrofundulus Limnaeus, Eva Y. Chan
PSU McNair Scholars Online Journal
The developmental pattern of the annual killifish Austrofundulus limnaeus is unusual compared to other fish. First, the cell movements associated with gastrulation are separated from formation of the embryonic axis. In addition, embryonic diapause can occur. Diapause II and III are often observed when embryos are incubated at 25oC. Maternal influences and incubation environment are the factors that determine entrance into embryonic diapause, but the molecular mechanisms that regulate diapause are still unknown. Interestingly, embryonic diapause and the unusual cell movements observed during early development are always found together in species of annual killifish that exhibit diapause. Bone …
Genome-Wide Analysis Of Response To Low Sulfur (Lsu) Genes In Grass Species And Expression Profiling Of Model Grass Species Brachypodium Distachyon Under S Deficiency, Hüseyi̇n Tombuloğlu, Abdugaffor Ablazov, Ertuğrul Fi̇li̇z
Genome-Wide Analysis Of Response To Low Sulfur (Lsu) Genes In Grass Species And Expression Profiling Of Model Grass Species Brachypodium Distachyon Under S Deficiency, Hüseyi̇n Tombuloğlu, Abdugaffor Ablazov, Ertuğrul Fi̇li̇z
Turkish Journal of Biology
Sulfur (S) affects the plant life cycle and crop yield and has nutritional importance for human and animal diet. Its deficiency is one of the major problems in agriculture. However, the plant-specific LSU (response to Low Sulfur) gene family has not been extensively analyzed in major plant species such as grasses. In this study, we have performed in silico genome-wide analysis of LSU genes in 6 grass species, including Brachypodium distachyon, Sorghum bicolor, Oryza sativa, Zea mays, Triticum aestivum, and Panicum virgatum. All identified LSU genes contained one exon encoding proteins of acidic character with cytoplasmic localization. In silico analysis …
Changes In Gene Expression In Sirt3 Knockout Liver Cells, Randa Tao, Jamie Leclerc, Kübra Yildiz, Seong-Hoon Park, Barbara Jung, David Gius, Özkan Özden
Changes In Gene Expression In Sirt3 Knockout Liver Cells, Randa Tao, Jamie Leclerc, Kübra Yildiz, Seong-Hoon Park, Barbara Jung, David Gius, Özkan Özden
Turkish Journal of Biology
The sirtuin (SIRT) gene family is reported to regulate critical intracellular processes from aging to cellular metabolism and repair. SIRT3 knockout (SIRT3-/-) mice develop receptor positive mammary tumors starting at 13 months and SIRT3 expression is decreased in human breast cancer samples as well as several other diseases. It is established that carcinogenesis results from the accumulation of multiple aberrant genetic events including the activation of oncogenes and inactivation of tumor-suppressor genes. To determine the potential early genomic events that may play a role in the tumor-permissive phenotype observed in SIRT3-/- cells, we compared gene expression profile in SIRT3-/- and …
Optimization Of Multiplex Rt-Pcr For M1, M23, And M23x Splice Variants Of Aqp4 And Ss-Actin Transcripts In Dalton?S Lymphoma Mouse Tissues, Rajaneesh Kumar Gupta, Sukala Prasad
Optimization Of Multiplex Rt-Pcr For M1, M23, And M23x Splice Variants Of Aqp4 And Ss-Actin Transcripts In Dalton?S Lymphoma Mouse Tissues, Rajaneesh Kumar Gupta, Sukala Prasad
Turkish Journal of Biology
Multiplex reverse transcriptase-polymerase chain reaction (MRT-PCR) is a method of choice for efficient and simultaneous analysis of gene expression at the transcript level with limited amounts of tissues; however, it is less common than other methods due to certain limitations. Here, we describe the protocol for MRT-PCR-based semiquantitative analysis of all AQP4 transcripts simultaneously in Dalton's lymphoma (DL) using transcript-specific primers and outline the critical parameters. Aquaporin-4 (AQP4) water channels are associated with edema of tissues due to various diseases. The AQP4 transcript possesses alternative transcription initiation sites and produces three isoforms, AQP4.M1, AQP4.M23, and AQP4.M23X, which constitute heterotetrameric orthogonal …
Activity Of Brassica Napus And Perilla Frutescens Microsomal \Omega-3 Desaturases Expressed In Yeast (Saccharomyces Cerevisiae), Mohammed Abdelreheem, David Hildebrand
Activity Of Brassica Napus And Perilla Frutescens Microsomal \Omega-3 Desaturases Expressed In Yeast (Saccharomyces Cerevisiae), Mohammed Abdelreheem, David Hildebrand
Turkish Journal of Biology
Yeast transformations with Brassica napus and Perilla frutescens \omega-3 desaturases were carried out. Feeding experiments on exogenous 18:2 at 10 mg/L and 100 mg/L for both genes under this investigation showed the same activity levels over the 3 days of the incubation, producing almost the same amount of 18:3. To further investigate the characteristics of B. napus and P. frutescens \omega -3 desaturases, a time-course in vivo activity study was conducted. Both enzymes showed the same behavior over the time course, desaturating 18:2 into 18:3. Moreover, the use of 2 different temperatures for incubation (30 °C and 20 °C) did …
Molecular Cloning, Characterization, And Expression Analysis Of A Gene Encoding A Ran Binding Protein (Ranbp) In Cucumis Melo L., Mehmet Cengi̇z Baloğlu, Florence Negre-Zakharov, Hüseyi̇n Avni̇ Öktem, Ayşe Meral Yücel
Molecular Cloning, Characterization, And Expression Analysis Of A Gene Encoding A Ran Binding Protein (Ranbp) In Cucumis Melo L., Mehmet Cengi̇z Baloğlu, Florence Negre-Zakharov, Hüseyi̇n Avni̇ Öktem, Ayşe Meral Yücel
Turkish Journal of Biology
Ran binding proteins (RanBPs) are highly conserved members of the GTP-binding protein family that are involved in nuclear protein export between the nucleus and the cytoplasm. In this study, a CmRanBP gene from a melon was isolated (Cucumis melo L.) using the RACE (rapid amplification of cDNA ends) method. The 778 basepair long melon, with a RanBP cDNA encoding consisting of 197 amino acids (22.2 kDa protein), was characterized (GenBank accession no: EU853459). The predicted amino acid sequence of CmRanBP was found to be 70% identical to VvRanBP, PtRanBP, and RcRanBP from Vitis vinifera, Populus trichocarpa, and Ricinus communis, respectively. …
Quorum Sensing In Gram-Negative Bacteria, Gülgün Boşgelmez Tinaz
Quorum Sensing In Gram-Negative Bacteria, Gülgün Boşgelmez Tinaz
Turkish Journal of Biology
It has become increasingly and widely recognised that bacteria do not live as isolated entities but instead exist as communities that exploit elaborate systems of intercellular communication to facilitate their adaptation to changing environmental conditions. A well-characterised example of such intercellular communication is quorum sensing. Quorum sensing depends on the production of diffusible signal molecules termed autoinducers or pheromones, which enable a bacterium to monitor its own cell population density. A variety of physiological processes in a range of bacterial species is regulated by quorum sensing. Examples include bioluminescence, antibiotic biosynthesis, swarming, biofilm differentiation, conjugation and the production of virulence …
Role Of Calcium Oxalate Monohydrate Crystal Interactions With Renal Epithelial Cells In The Pathogenesis Of Nephrolithiasis: A Review, John C. Lieske, Mary S. Hammes, F. Gary Toback
Role Of Calcium Oxalate Monohydrate Crystal Interactions With Renal Epithelial Cells In The Pathogenesis Of Nephrolithiasis: A Review, John C. Lieske, Mary S. Hammes, F. Gary Toback
Scanning Microscopy
Renal tubular fluid in the distal nephron is supersaturated with calcium and oxalate ions that nucleate to form crystals of calcium oxalate monohydrate (COM), the most common crystal in renal stones. How these nascent crystals are retained in the nephron to form calculi in certain individuals is not known. Recent studies from this laboratory have demonstrated that COM crystals can bind within seconds to the apical surface of renal epithelial cells, suggesting one mechanism whereby crystals could be retained in the tubule. Adherence of crystals to cells along the nephron may be opposed by specific urinary anions such as glycosaminoglycans, …