Quantifying the DNA Binding Properties of the Binuclear Ruthenium
... This project is the culmination of two years’ work in and out of the lab. None of it would have been possible without the help I received from an almost countless number of people. First and foremost, I want to thank Dr. Thaya for his invaluable guidance and support during my academic career at BSU. ...
... This project is the culmination of two years’ work in and out of the lab. None of it would have been possible without the help I received from an almost countless number of people. First and foremost, I want to thank Dr. Thaya for his invaluable guidance and support during my academic career at BSU. ...
Bio11U_Ch 6_approvedcopyedit_100817
... [CATCH: 06-F04b-OB11USB; Size C1; New. Diagram of the structure of cytosine.] [CATCH: C06-F04c-OB11USB; Size C1; New. Diagram of the structure of thymine.] [CATCH: C06-F04d-OB11USB; Size C1; New. Diagram of the structure of guanine.] ...
... [CATCH: 06-F04b-OB11USB; Size C1; New. Diagram of the structure of cytosine.] [CATCH: C06-F04c-OB11USB; Size C1; New. Diagram of the structure of thymine.] [CATCH: C06-F04d-OB11USB; Size C1; New. Diagram of the structure of guanine.] ...
Organellar DNA Polymerases Gamma I and II in
... and chloroplasts. These organelles are descendants of bacteria that were engulfed by their host according to the endosymbiotic theory. Over time, DNA has been exchanged between these organelles and the nucleus. Two polymerases, DNA Polymerases Gamma I and II, are encoded in the nucleus and remain un ...
... and chloroplasts. These organelles are descendants of bacteria that were engulfed by their host according to the endosymbiotic theory. Over time, DNA has been exchanged between these organelles and the nucleus. Two polymerases, DNA Polymerases Gamma I and II, are encoded in the nucleus and remain un ...
The Structure and Function of the DNA from Bacteriophage Lambda
... These then are the two gene orders of normal lambda that have been established by genetic mapping procedures. They relate to two aspects of lambda DNA which will be considered here. The first concerns the position of these genes in the lambda DNA molecule as isolated from mature phage. The second co ...
... These then are the two gene orders of normal lambda that have been established by genetic mapping procedures. They relate to two aspects of lambda DNA which will be considered here. The first concerns the position of these genes in the lambda DNA molecule as isolated from mature phage. The second co ...
Human Pif1 helicase is a G-quadruplex DNA
... by full-length hPif1 and the core helicase domain hPifHD. With ss/dsDNA substrates, such as PST55, the unwinding activity of full-length hPif1 increased steeply from little or no unwinding at 1 nM to a peak at 2 nM and decreasing thereafter. The reason why this activity profile is observed is unclea ...
... by full-length hPif1 and the core helicase domain hPifHD. With ss/dsDNA substrates, such as PST55, the unwinding activity of full-length hPif1 increased steeply from little or no unwinding at 1 nM to a peak at 2 nM and decreasing thereafter. The reason why this activity profile is observed is unclea ...
Eukaryotic Mismatch Repair in Relation to DNA Replication
... of mismatches slows polymerization, promotes fraying, and allows excision of the incorrect base. From this logic, it follows that altering the relative rates of 5 -to-3 polymerization and 3 -to-5 excision will influence proofreading efficiency, which can vary by more than 100-fold, depending on ...
... of mismatches slows polymerization, promotes fraying, and allows excision of the incorrect base. From this logic, it follows that altering the relative rates of 5 -to-3 polymerization and 3 -to-5 excision will influence proofreading efficiency, which can vary by more than 100-fold, depending on ...
G-quadruplex recognition and remodeling by the FANCJ helicase
... domain and the ARCH domain are inserted into HD1. The two FANCJspecific features, a C-terminal domain and a modular insertion in HD1, are shown in gray. Coomasie staining and Western blot analysis of purified bioFANCJ and FANCJ (∼150 kDa) is shown. A full summary including the FANCJHD and bioFANCJK1 ...
... domain and the ARCH domain are inserted into HD1. The two FANCJspecific features, a C-terminal domain and a modular insertion in HD1, are shown in gray. Coomasie staining and Western blot analysis of purified bioFANCJ and FANCJ (∼150 kDa) is shown. A full summary including the FANCJHD and bioFANCJK1 ...
calibration of tethered particle motion experiments
... (green bars). This figure shows that the primary cause of bead rejection is asymmetric in-plane motion. Experimentally, beads with multiple tethers can be minimized by reducing the concentration of DNA. 2.2. Acquisition Time. The drift-corrected (x, y) trajectories are noisy due to the stochastic Br ...
... (green bars). This figure shows that the primary cause of bead rejection is asymmetric in-plane motion. Experimentally, beads with multiple tethers can be minimized by reducing the concentration of DNA. 2.2. Acquisition Time. The drift-corrected (x, y) trajectories are noisy due to the stochastic Br ...
Sterile, 24-well tissue culture plates are filled with melted minimal ... 1.0 ml per well using a repeating syringe. After the...
... can be used immediately or stored for several weeks in plastic bags at 5°C. complementation tests, each well of a plate is inoculated with a drop of spore suspension from an auxotrophic mutant (usually nitM) of a VCG standard strain. A sterile Pasteur pipette is used for inoculations. A drop of spor ...
... can be used immediately or stored for several weeks in plastic bags at 5°C. complementation tests, each well of a plate is inoculated with a drop of spore suspension from an auxotrophic mutant (usually nitM) of a VCG standard strain. A sterile Pasteur pipette is used for inoculations. A drop of spor ...
Uptake of extracellular DNA: Competence induced pili in natural
... released from donor bacteria is directly taken up from the environment by competent bacteria across their cell wall. The phenomenon of natural transformation was first described in the Gram-positive bacterium Streptococcus pneumoniae more than 80 years ago [1] and occurs in a number of different bac ...
... released from donor bacteria is directly taken up from the environment by competent bacteria across their cell wall. The phenomenon of natural transformation was first described in the Gram-positive bacterium Streptococcus pneumoniae more than 80 years ago [1] and occurs in a number of different bac ...
Sample pages 2 PDF
... The study of bacterial genetic exchange has revealed three processes that allow horizontal gene transfer between cells to occur and a fourth process that allows vertically transferred DNA to jump onto horizontally transferred elements and vice versa. Transformation is the uptake of naked DNA that ha ...
... The study of bacterial genetic exchange has revealed three processes that allow horizontal gene transfer between cells to occur and a fourth process that allows vertically transferred DNA to jump onto horizontally transferred elements and vice versa. Transformation is the uptake of naked DNA that ha ...
Protocol for RiboShredder™ RNase Blend
... Storage Buffer: RiboShredder RNase Blend is supplied in a 50% glycerol solution containing 50 mM Tris-HCl (pH 7.5), 100 mM NaCl, and 0.1 mM EDTA. Dilution Buffer: RiboShredder RNase Blend may be diluted to a lower working concentration in the indicated Storage Buffer. Dilutions may be stored up to t ...
... Storage Buffer: RiboShredder RNase Blend is supplied in a 50% glycerol solution containing 50 mM Tris-HCl (pH 7.5), 100 mM NaCl, and 0.1 mM EDTA. Dilution Buffer: RiboShredder RNase Blend may be diluted to a lower working concentration in the indicated Storage Buffer. Dilutions may be stored up to t ...
Relationship between Folding and Function in a Sequence
... than does p007. Of the three variants, R4A binds hsCRE with the lowest affinity (Kd ) 427 ( 66 nM), a 3.3 kcal‚mol-1 loss relative to p007. G2A also binds hsCRE poorly (Kd ) 91 ( 28 nM), a 2.4 kcal‚mol-1 loss relative to p007. M7A binds hsCRE with the highest affinity (Kd ) 9.5 ( 1.7 nM), a loss of ...
... than does p007. Of the three variants, R4A binds hsCRE with the lowest affinity (Kd ) 427 ( 66 nM), a 3.3 kcal‚mol-1 loss relative to p007. G2A also binds hsCRE poorly (Kd ) 91 ( 28 nM), a 2.4 kcal‚mol-1 loss relative to p007. M7A binds hsCRE with the highest affinity (Kd ) 9.5 ( 1.7 nM), a loss of ...
Chapter 12
... Since the vector has an origin of replication, it will be replicated by DNA polymerase inside the bacterium when the chromosome is replicated during ...
... Since the vector has an origin of replication, it will be replicated by DNA polymerase inside the bacterium when the chromosome is replicated during ...
Topologically Non-linked Circular Duplex DNA
... These authors believe that circular DNA is not, in general, topologically helical, but rather has a structure not unlike those proposed by Rodley et al. (1976) and Sasisekharan et al. (1978), in which the two individual single-stranded circular half-chromosomes twist about each other alternately to ...
... These authors believe that circular DNA is not, in general, topologically helical, but rather has a structure not unlike those proposed by Rodley et al. (1976) and Sasisekharan et al. (1978), in which the two individual single-stranded circular half-chromosomes twist about each other alternately to ...
Extrachromosomal DNA Transformationof Caenorhabditis elegans
... measured by quantitative hybridization analysis. DNA preparations from transformed populations were spotted onto triplicate nitrocellulose filters. The filters were hybridized with 32P-labeled pBR322 DNA, bacteriophage DNA containing a single-copy gene, and bacteriophage DNA containing a fourfold re ...
... measured by quantitative hybridization analysis. DNA preparations from transformed populations were spotted onto triplicate nitrocellulose filters. The filters were hybridized with 32P-labeled pBR322 DNA, bacteriophage DNA containing a single-copy gene, and bacteriophage DNA containing a fourfold re ...
The many twists and turns of DNA: template, telomere, tool, and target
... In the structure of a complex of pentamidine with the DNA duplex [d(ATATATATAT)]2 determined by X-ray crystallography, the drug was found to stabilize a coiled coil arrangement through formation of crosslinks between neighboring duplexes [33] (3ey0). The DNA duplex exhibits a mixture of Watson–Cric ...
... In the structure of a complex of pentamidine with the DNA duplex [d(ATATATATAT)]2 determined by X-ray crystallography, the drug was found to stabilize a coiled coil arrangement through formation of crosslinks between neighboring duplexes [33] (3ey0). The DNA duplex exhibits a mixture of Watson–Cric ...
DNA Mimic Proteins: Functions, Structures, and Bioinformatic Analysis
... mimic proteins and their targets are usually complementary to each other (Figure 2B), suggesting that charge−charge interaction plays an important role in the DNA mimic’s ability to bind to its targets. Two single-strand DNA mimic proteins, Gam and P53,21,23 use an additional hydrophobic interaction ...
... mimic proteins and their targets are usually complementary to each other (Figure 2B), suggesting that charge−charge interaction plays an important role in the DNA mimic’s ability to bind to its targets. Two single-strand DNA mimic proteins, Gam and P53,21,23 use an additional hydrophobic interaction ...
Effect of non-histone proteins on thermal transition of chromatin and
... of chromatin occurs at tenperatures higher or equal to that of free DNA. The melting of free DNA helices and of free DNA in nucleosomes preparations occur at a temperature of about 64°C (see Fig.2 and Pig.3) under our experimental conditions. The thermal transitions of nucleosomes occurs at tenperat ...
... of chromatin occurs at tenperatures higher or equal to that of free DNA. The melting of free DNA helices and of free DNA in nucleosomes preparations occur at a temperature of about 64°C (see Fig.2 and Pig.3) under our experimental conditions. The thermal transitions of nucleosomes occurs at tenperat ...
Coffee, B, Muralidharan, K, Highsmith Jr., WE, Lapunzina, P and Warren, ST: Molecular diagnosis of Beckwith-Wiedemann Syndrome using quantitative methylation-sensitive polymerase chain reaction; Genetics in Medicine, Vol 8 - No.10 (2006).
... reaction were designed to avoid CpG dinucleotides in sense strand in the promoter of the KCNQ10T1 gene, which is antisense to the KCNQ1 gene. The KCNQ10T1 amplification primers are Lit1FGTTTAATTAGTAGGTGGGGGG and Lit1R-CCTAACAAAATCTTACTAAAAAACTCC. The TaqMan probes target the sequence !6 to !34 relat ...
... reaction were designed to avoid CpG dinucleotides in sense strand in the promoter of the KCNQ10T1 gene, which is antisense to the KCNQ1 gene. The KCNQ10T1 amplification primers are Lit1FGTTTAATTAGTAGGTGGGGGG and Lit1R-CCTAACAAAATCTTACTAAAAAACTCC. The TaqMan probes target the sequence !6 to !34 relat ...
The Structure of Nucleic acids (DNA, RNA,Viral nucleic acids
... He incorrectly proposed that DNA consists of a series of four-nucleotide units, each unit containing all four bases—adenine, guanine, cytosine, and thymine—in a fixed sequence. This concept, known as the tetranucleotide theory, implied that the structure of DNA is too regular to serve as the geneti ...
... He incorrectly proposed that DNA consists of a series of four-nucleotide units, each unit containing all four bases—adenine, guanine, cytosine, and thymine—in a fixed sequence. This concept, known as the tetranucleotide theory, implied that the structure of DNA is too regular to serve as the geneti ...
Molecular Computing Viability for Solving Computational Problems
... fluorescent tags that are either activated or deactivated (the output) based on a trigger (the input). Logical assembly using DNA: The second approach to demonstrate DNA’s capability of binary logic uses as its input, combinations of different DNA assemblies that can further self assemble according ...
... fluorescent tags that are either activated or deactivated (the output) based on a trigger (the input). Logical assembly using DNA: The second approach to demonstrate DNA’s capability of binary logic uses as its input, combinations of different DNA assemblies that can further self assemble according ...
Multiplex PCR NZYTaq 2× Green Master Mix
... primers. In general, primers should range in length from 20– 34 bases and should contain 40–60% of GC residues. Minimize the number of consecutive G’s in the primers. Preferably, G and C residues should be distributed uniformly along the primer. Avoid sequences that might produce internal secondary ...
... primers. In general, primers should range in length from 20– 34 bases and should contain 40–60% of GC residues. Minimize the number of consecutive G’s in the primers. Preferably, G and C residues should be distributed uniformly along the primer. Avoid sequences that might produce internal secondary ...
DNA repair
DNA repair is a collection of processes by which a cell identifies and corrects damage to the DNA molecules that encode its genome. In human cells, both normal metabolic activities and environmental factors such as UV light and radiation can cause DNA damage, resulting in as many as 1 million individual molecular lesions per cell per day. Many of these lesions cause structural damage to the DNA molecule and can alter or eliminate the cell's ability to transcribe the gene that the affected DNA encodes. Other lesions induce potentially harmful mutations in the cell's genome, which affect the survival of its daughter cells after it undergoes mitosis. As a consequence, the DNA repair process is constantly active as it responds to damage in the DNA structure. When normal repair processes fail, and when cellular apoptosis does not occur, irreparable DNA damage may occur, including double-strand breaks and DNA crosslinkages (interstrand crosslinks or ICLs).The rate of DNA repair is dependent on many factors, including the cell type, the age of the cell, and the extracellular environment. A cell that has accumulated a large amount of DNA damage, or one that no longer effectively repairs damage incurred to its DNA, can enter one of three possible states: an irreversible state of dormancy, known as senescence cell suicide, also known as apoptosis or programmed cell death unregulated cell division, which can lead to the formation of a tumor that is cancerousThe DNA repair ability of a cell is vital to the integrity of its genome and thus to the normal functionality of that organism. Many genes that were initially shown to influence life span have turned out to be involved in DNA damage repair and protection.