The Waksman research project is focused on analyzing and comparing DNA sequences of genes. The objective of this project to compare the cDNA sequence in the duckweed plant Landoltia Punctata to the cDNA sequences in other organisms. cDNA is complementary DNA, which is a synthesized copy of mRNA. Landoltia Punctata is the name of the duckweed that we will be using to get the DNA. We will be using Landoltia Punctata because of its interesting uses in bioremediation. Duckweed grows in contaminated water, and it can remove the nitrogen and phosphate from the water. Landoltia Punctata also has the potential to be a biofuel source. Duckweed can have about 40%-70% starch, which can be converted to sugar for fermentation. The overall process of
Elodea also known as Elodea canadensis is a genus of aquatic plants. They are also called waterweeds and is mainly used in aquarium vegetation. It plays a significant role in aquatic vegetation as it produces a significant amount of carbon dioxide under the perfect conditions. Elodea mainly grows in shallow water and can also be sometimes found in deep water. The plant for this experiment is kept in a water tank. We use elodea for this experiment as this is a very good plant that play a crucial part in our experiment. The amount of carbon dioxide produced by the plant during the experiment can be used to understand the rate of the reaction.
Recombinant DNA technology: Sub cloning of cDNA molecule CIH-1 into plasmid vector pUC19, transformation of XLI-Blue Ecoli & restriction mapping.
imported into an aparatus using gel electrophoresis to compare the sample of DNA to other
Firstly, samples were taken out carefully. The frozen tissues of sea cucumbers were thawed in the sink with running tap water followed by multiple washes using distilled water to remove the foreign particles. The surgical blades, surgical blade-holder, and labelled sample tubes were prepared. Then, the tissue samples were cut-sliced from each samples followed by storage in the properly labelled tubes. Each sample was stored in separate tube. Different blade was used for each sample. The obtained in-tube-samples were stored in -20 oC freezer for the next step of DNA extraction.
For the original analysis, the corrected pairwise distance will be calculated using the Jukes–Cantor and the Maximum Composite Likelihood Model. The Jukes–Cantor model assumes that the rate of nucleotide substitution or all nucleotides (C, A, T and G) are equal, that nucleotide frequencies are equal, that there is an equal rate of substitution among sites, and does not correct for the lower rate of transversion substitutes in comparison to transitional substitutions (Jukes and Cantor, 1969). The Maximum Composite Likelihood takes into account the phylogenic relationship between sequences, using the sum of the log likelihoods of the bases as the composite likelihood. Both pair wise distances and substitution parameters are estimated using the Maximum Composite Likelihood (Tamura et al. 2004). Both models should yield different maximum sequence divergence and average divergence that can then be compared to the original paper. With sequence divergence data, the temporal origin of the genus can be identified. The two alternate models to the Kimura-2 parameter will be analyzed to discuss which methods yield results closest to the expected time origin of the genus
...et light. If the LAA plate glows green under exposure to ultraviolet light, then we can conclude that our unknown insert piece of DNA would be the kan gene. If it does not glow green under exposure to ultraviolet light, then then we streak the colony from our LAA plate onto the LAC plate using a sterile glass spreader. When the LAC plate is dray, we place it upside down in the microfuge rack so that it can be incubated at 37 ºC. Incubation at 37 ºC will allow the transformed bacterial cells to grow. If we see bacterial growth on the LA plate containing chloramphenicol, we can conclude that our unknown insert piece of DNA would be the cat gene, since the cat gene is resistant to chloramphenicol. Afterwards, we then grab the microfuge tube labeled NP and repeat the aforementioned steps shown above pertaining to the LA plates. This would be considered our control.
Almost all biology students learn the fundamentals of gene expression, DNA contains information which is transcribed into RNA to create protein. Students however, are not taught of RNA Interference, the biological process where RNA molecules inhibit a gene’s expression, RNAi for short. While RNAi is a fairly new discovery, its use in modern biological research is groundbreaking. RNA Interference works by binding Double-stranded RNA molecules (siRNA) to a complementary messenger RNA. The enzymes Dicer and Slicer then cleave the chemical bonds which hold the messeger RNA in place and prevent it from delivering protein silencing instructions thus, the term, Gene Silencing. This phenomenon was first discovered by Richard Jorgensen in 1990 when he was trying to produce deeper purple colored petunias by introducing more purple pigment genes to the flower. To his surprise, the purple petunia turned completely white and got the opposite of his predicted result. At the time Jorgensen coined this effect, “Cosuppression”. It was not until 1998 that Andrew Fire and Craig, C Mello explained the process of RNAi and discovered its use in Caenorhabditis elegans (C. Elegans). In 2006 Fire and Mello won the Nobel Prize in Physiology or Medicine “for their discover of RNA Interference – gene silencing by double stranded RNA”. They utilized the nematode, C. Elegans due to its whole genome being sequenced. This unique characteristic allows for every gene to be tested
Modern techniques , rather than the gene map , maps the map of the DNA within the gene itself : the positions of short sequences " marker " are used as markers signaling over the cromosssomas . Once a gene is discovered, it is necessary to unravel its base sequence prior to its function being studied . The sequencing has become easier with the development of methods for cloning the DNA - producing large amounts of identical fragments. In the method most widely used DNA sequencing , the chain is denatured into single strands . These are then used as templates for DNA synthesis , but such that replication to as the double helix reaches a certain growth in the mold base . In addition to provide DNA polymerase and the four bases, A - G -C- T, also using small amounts of these dideoxynucleotide bases. This is incorporated , as the normal bases, the double helix growth but prevent the continuation of the chain. The fragments are then separated by gel electrophoresis and the base seq...
Speciation and gene duplication followed by modifications are considered to be the primary events of genome evolution and were well recognized in the pre genomic era. The genes having a relationship of common descent are termed as homologs. The concept of orthology and paralogy were introduced by Walter Fitch in 1970 to distinguish between homologous genes according to their mode of descent. Orthologs are homologous genes related via vertical descent or speciation whereas paralogs are homologous genes originating through duplication in a certain lineage [1]. Paralogs can be further classified into outparalogs and inparalogs depending upon whether the gene duplication antedate or postdate the speciation event respectively [2].
Genomic sequencing is the process of determining the precise order of nucleotides within a DNA molecule. It includes any method or technology that is used to determine the order of the four DNA bases – thiamine, adenine, guanine, and cytosine– in the strand of DNA (NHGRI, 2011). In each organism, these bases are arranged in a unique and specific sequence, and it is this sequence that is the genetic code of the organism. Genomic sequencing has had an impact on nearly every field of biological research including human genetics and genomics, plants and agriculture, microbes, medicine, viruses and infectious diseases, environmental genetics and evolutionary biology. By first examining the development of gene sequencing technology we will be able to view its role in evolutionary biology, its contribution to phylogenetics, and how it has changed our understanding of the biological tree of life.
Tissue culture allows for the clonal propagation of plant (production of multiple copies of the same genotype).
Synthetic biology, also known as synbio, is a new form of research that began in the year 2000. The Action Group on Erosion, Technology and Concentration (ETC Group) says that synthetic biology is bringing together “engineering and the life sciences in order to design and construct new biological parts, devices and systems that do not currently exist in the natural world’ (Synthetic Biology). Synthetic biology is aiming to create safer medicines, clean energy, and help the environment through synthetically engineered medicines, biofuels, and food. Because synthetic biology has only existed for fourteen years, there is controversy involving its engineering ethics. In this literature review, I am going to summarize and correlate the International Association for Synthetic Biology (IASB) Code of Conduct for Gene Synthesis, the impact of synthetic biology on people and the environment, and the philosophical debates.
What if the world could find a way to dispose of sewage, produce food, and purify bodies of water at the same time? The Aztecs have proven that this idea is possible. Lake Texcoco flowed near the Aztec civilization. The Aztecs disposed of their waste in the lake. The human waste added nitrogen to the water. The nitrogen helped algae to grow, and then the algae performed photosynthesis. Photosynthesis gives off oxygen, and oxygen purifies polluted water. The Aztec's also abstracted the algae from the lake and used it for food. Certain types of algae like red and green algae are edible. Many cultures have eaten seaweed for centuries. Wendy O'Leary Dunn states, "They think of seaweed as a vegetable and eat it as we eat broccoli or spinach" (18). Therefore, when humans dispose of their waste in bodies of water, they help algae grow. Then, the algae cleans the water and they can eat the algae.
Campbell, N. A. & J. B. Reece, 8th eds. (2008). Biology. San Francisco: Pearson Benjamin Cummings.
J. Losos, K. Mason, S. Singer, based on the work of P. Raven, & G. Johnson, Biology, 8th ed., (McGraw-Hill Education (Asia), Singapore, 2008), pp. 994-995.