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Bio Lab 1208 paper .docx Bio Lab 1208 paper .docx Bio Lab 1208 paper .docx Bio Lab 1208 paper .docx
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Gene expression is the process where the information from the gene is used to make a functional gene product (Yang et al., 2011). Gene expression occurs through the RNA molecule's transcription. Gene expression decides what proteins are produced and how many. How a Gene express is determined by the Chromatin Insulators and functions. Chromatin insulators are DNA sequences that act as boundaries in the genome (Phillips- Cremins et al., 2013.). They help regulate gene expression by controlling the signals passed between chromatin domains. This ensures precise control over which genes are turned on or off in the context. The structure and the function of chromatin are very dependent on each other. The three-dimensional chromatin structure contributes to how the gene expresses and functions. The structure of chromatin can change in response to signals and cues from the cell. Higher order chromatin structure and organization contributes to gene expression regulation. This allows the cell to control when genes are turned on or off for different processes. The Study of how Drosophila insulator protein BEAF-32 (Boundary element-associated factor) interacted in Chromatin Structure and Gene regulation is ongoing (Maharjan, M. (2019). BEAF- 32 is a protein that binds to DNA and helps other molecules reach certain places in the genes. It helps bind a specific sequence in DNA. It organizes DNA structure and modifies specific proteins. It was found in the nucleus and a specific region of chromosomes (Hou, 2012). It is not clear how BEAF aids gene expression, to find this out the proteins need to be discovered. From Research and using different pre-existing sources, it needed to be clarified if Apontic (APT) and BEAF proteins have anything to do with one another. Apt proteins bind to translational repressors in the regulations of mRNA (Lie et al., 1999), and play a crucial role in Drosophila oogenesis, which is a developmental process associated with Drosophila melanogaster (Filardo et al., 2003). APT is a protein that attaches to DNA and helps control the activity of specific genes. It is essential for the growth and development of various body parts in the embryo of a fruit fly called Drosophila (Pauli et al., 2016). The other protein in this Study was ROW (relative of woc) , which is essential for long-range gene regulation, working with another protein called BEAF-32 (Herman et al., 2022). This gene helps bind to a structure called chromatin. It controls the process of making RNA molecules in the nucleus. It is part of a complex containing proteins. It is found in different body parts, including the nervous system, early development structures, and the gut. Using the yeast two-hybrid system, there will be interactions between BEAF proteins and apontic. BEAF will encode a DNA-binding protein with binding sites near transcription start sites. It is proven that BEAF will interact with the ROW proteins (Herman et al., 2022). Considering this fact, it is plausible that BEAF will interact with APT proteins. This is true because APT is a transcriptional regulator and can function in translational repression (http://flybase.org/reports/FBgn0015903).BEAF is known to physically interact with DNA binding proteins near transcription sites and APT is a DNA protein. Theoreally two will interact with one another in the process of gene regulation.
DNA amplification of target genes is a fundamental technique used in molecular biology to increase the amount of specific DNA sequences selectively. Mix 1.0ul of apt , 9 ul of nuclease- free water, 1.25 ul of forward primer, 1.25 ul of the reverse primer was added. Add 12.5 ul of Q5 High Fidelity 2X Master Mix. With all reagents mixed, set in a PCR machine to begin thermocycling. Vector Linearization by Restriction Digestion: Linearization of plasmid vectors like pOND and pBDC is a common molecular biology technique used for various applications, such as cloning. Vector linearization helps simplify the understanding and control of complex systems by approximating the behavior of a nonlinear system as if it were linear. With PCR completely done, data is recorded into the snap gene. Next, the snap gene was opened to file pOBD and annotated gene. The next step is to click the feature while opening a new window. In this new window are many features, including amino acid sequences of genes. Now, the primer extension will be determined for each assigned DNA sequence. Assembly of DNA and linear vector: The assembly of an amplified gene with a linear vector is a crucial step in molecular biology and genetic engineering, often used for tasks like gene cloning, gene expression, and creating recombinant DNA molecules. Starting with the pOBD, Put 43 μL of water , put 1 μL of pOBD vector plasmid, 5 μL of the 1X Buffer , 1 μL of enzyme Mix the reaction. Keep the sample in the incubator at 37 °C for 1 hour. For part two with pBDC, Start the process with 43 microliters of water mix one microliter of pBDC vector plasmid, five microliters of the 1X Buffer , one microliter of enzyme NruI. Mix the contents of the PCR tube slowly. Leave the sample in the incubator at 37 °C for 1 hour. Bacterial Transformation After the mixture Incubates for 15, it is ready for bacterial transformation. Bacterial transformation is a gene transfer process when some bacteria take up foreign genetic material from the environment. The first step was to let the cells sit on ice for 30 minutes, getting very cold, then quickly add 37 C water for 45 seconds. Add back to the ice for 2 minutes. The back a fourth of hot to cold allows heat shock to occur, causing them to take up or plasmid. Next, add the appropriate amount of SOC to the mixture. After adding it to the shaker incubator at 37 C for 1 hour Add to LB agar plates with selected antibiotic and spread it using a sterile spreader. Incubate plates at 37° C overnight. Once done, Isolate the plasmid DNA from each culture. Digest the plasmid DNA using restriction enzymes; separate by gel electrophoresis.