A technique which uses synthetic oligonucleotides to direct the cell's inherent DNA repair system to correct a mutation at a specific site in an episome or chromosome.
The reconstruction of a continuous two-stranded DNA molecule without mismatch from a molecule which contained damaged regions. The major repair mechanisms are excision repair, in which defective regions in one strand are excised and resynthesized using the complementary base pairing information in the intact strand; photoreactivation repair, in which the lethal and mutagenic effects of ultraviolet light are eliminated; and post-replication repair, in which the primary lesions are not repaired, but the gaps in one daughter duplex are filled in by incorporation of portions of the other (undamaged) daughter duplex. Excision repair and post-replication repair are sometimes referred to as "dark repair" because they do not require light.
A group of disorders which have in common elevations of tyrosine in the blood and urine secondary to an enzyme deficiency. Type I tyrosinemia features episodic weakness, self-mutilation, hepatic necrosis, renal tubular injury, and seizures and is caused by a deficiency of the enzyme fumarylacetoacetase. Type II tyrosinemia features INTELLECTUAL DISABILITY, painful corneal ulcers, and keratoses of the palms and plantar surfaces and is caused by a deficiency of the enzyme TYROSINE TRANSAMINASE. Type III tyrosinemia features INTELLECTUAL DISABILITY and is caused by a deficiency of the enzyme 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE. (Menkes, Textbook of Child Neurology, 5th ed, pp42-3)
Polymers made up of a few (2-20) nucleotides. In molecular genetics, they refer to a short sequence synthesized to match a region where a mutation is known to occur, and then used as a probe (OLIGONUCLEOTIDE PROBES). (Dorland, 28th ed)
Aminoglycoside produced by Streptomyces hygroscopicus. It is used as an anthelmintic against swine infections by large roundworms, nodular worms, and whipworms.
An unusual cyclin subtype that is found highly expressed in terminally differentiated cells. Unlike conventional cyclins increased expression of cyclin G2 is believed to cause a withdrawal of cells from the CELL CYCLE.
The integration of exogenous DNA into the genome of an organism at sites where its expression can be suitably controlled. This integration occurs as a result of homologous recombination.
Techniques and strategies which include the use of coding sequences and other conventional or radical means to transform or modify cells for the purpose of treating or reversing disease conditions.
Cinnamates are organic compounds that contain a cinnamic acid moiety, widely used in pharmaceutical and cosmetic industries as esters, with various applications ranging from UV absorbers to local anesthetics and antimicrobial agents.
Protein analogs and derivatives of the Aequorea victoria green fluorescent protein that emit light (FLUORESCENCE) when excited with ULTRAVIOLET RAYS. They are used in REPORTER GENES in doing GENETIC TECHNIQUES. Numerous mutants have been made to emit other colors or be sensitive to pH.
Diagnostic aid in pancreas function determination.
A single chain of deoxyribonucleotides that occurs in some bacteria and viruses. It usually exists as a covalently closed circle.
Interruptions in the sugar-phosphate backbone of DNA, across both strands adjacently.
The sequence of PURINES and PYRIMIDINES in nucleic acids and polynucleotides. It is also called nucleotide sequence.
Proteins which are involved in the phenomenon of light emission in living systems. Included are the "enzymatic" and "non-enzymatic" types of system with or without the presence of oxygen or co-factors.
Production of new arrangements of DNA by various mechanisms such as assortment and segregation, CROSSING OVER; GENE CONVERSION; GENETIC TRANSFORMATION; GENETIC CONJUGATION; GENETIC TRANSDUCTION; or mixed infection of viruses.
Enzymes that are involved in the reconstruction of a continuous two-stranded DNA molecule without mismatch from a molecule, which contained damaged regions.
Any detectable and heritable change in the genetic material that causes a change in the GENOTYPE and which is transmitted to daughter cells and to succeeding generations.
Extrachromosomal, usually CIRCULAR DNA molecules that are self-replicating and transferable from one organism to another. They are found in a variety of bacterial, archaeal, fungal, algal, and plant species. They are used in GENETIC ENGINEERING as CLONING VECTORS.
DNA molecules capable of autonomous replication within a host cell and into which other DNA sequences can be inserted and thus amplified. Many are derived from PLASMIDS; BACTERIOPHAGES; or VIRUSES. They are used for transporting foreign genes into recipient cells. Genetic vectors possess a functional replicator site and contain GENETIC MARKERS to facilitate their selective recognition.
A genus of the family PARVOVIRIDAE, subfamily PARVOVIRINAE, which are dependent on a coinfection with helper adenoviruses or herpesviruses for their efficient replication. The type species is Adeno-associated virus 2.
A deoxyribonucleotide polymer that is the primary genetic material of all cells. Eukaryotic and prokaryotic organisms normally contain DNA in a double-stranded state, yet several important biological processes transiently involve single-stranded regions. DNA, which consists of a polysugar-phosphate backbone possessing projections of purines (adenine and guanine) and pyrimidines (thymine and cytosine), forms a double helix that is held together by hydrogen bonds between these purines and pyrimidines (adenine to thymine and guanine to cytosine).
The process by which a DNA molecule is duplicated.
A mutation caused by the substitution of one nucleotide for another. This results in the DNA molecule having a change in a single base pair.
A group of deoxyribonucleotides (up to 12) in which the phosphate residues of each deoxyribonucleotide act as bridges in forming diester linkages between the deoxyribose moieties.
Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.
Injuries to DNA that introduce deviations from its normal, intact structure and which may, if left unrepaired, result in a MUTATION or a block of DNA REPLICATION. These deviations may be caused by physical or chemical agents and occur by natural or unnatural, introduced circumstances. They include the introduction of illegitimate bases during replication or by deamination or other modification of bases; the loss of a base from the DNA backbone leaving an abasic site; single-strand breaks; double strand breaks; and intrastrand (PYRIMIDINE DIMERS) or interstrand crosslinking. Damage can often be repaired (DNA REPAIR). If the damage is extensive, it can induce APOPTOSIS.
A DNA repair pathway involved in correction of errors introduced during DNA replication when an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. Excinucleases recognize the BASE PAIR MISMATCH and cause a segment of polynucleotide chain to be excised from the daughter strand, thereby removing the mismatched base. (from Oxford Dictionary of Biochemistry and Molecular Biology, 2001)
That portion of the electromagnetic spectrum immediately below the visible range and extending into the x-ray frequencies. The longer wavelengths (near-UV or biotic or vital rays) are necessary for the endogenous synthesis of vitamin D and are also called antirachitic rays; the shorter, ionizing wavelengths (far-UV or abiotic or extravital rays) are viricidal, bactericidal, mutagenic, and carcinogenic and are used as disinfectants.
An abnormal balloon- or sac-like dilatation in the wall of the ABDOMINAL AORTA which gives rise to the visceral, the parietal, and the terminal (iliac) branches below the aortic hiatus at the diaphragm.
The repair of DOUBLE-STRAND DNA BREAKS by rejoining the broken ends of DNA to each other directly.
Proteins which bind to DNA. The family includes proteins which bind to both double- and single-stranded DNA and also includes specific DNA binding proteins in serum which can be used as markers for malignant diseases.
Restoration of integrity to traumatized tissue.
Surgical insertion of BLOOD VESSEL PROSTHESES to repair injured or diseased blood vessels.
Repair of DNA DAMAGE by exchange of DNA between matching sequences, usually between the allelic DNA (ALLELES) of sister chromatids.

Chimeric RNA/DNA oligonucleotide-based gene therapy. (1/26)

BACKGROUND: Chimeric RNA/DNA oligonucleotides, emerging as a potential strategy for gene therapy, have been shown to induce site-specific correction of point mutations in several genetic disease models. METHODS: Six recent studies of chimeric RNA/DNA oligonucleotide-based gene therapy in genetic disease models are reviewed. Chimeric RNA/DNA oligonucleotides, complementary to 25 to 30 residues of genomic DNA flanking the mutation site with the exception of a mismatch in the center, were delivered via different routes and delivery vehicles to target different tissues and organs. Corrections of the mutation at genotypic and phenotypic levels were assessed using various methods, including allele-specific polymerase chain reaction assay, restriction enzyme digestion, colony-lifting assays, sequencing, Northern and Western blot analyses, enzyme activity assay, immunohistochemical staining, and functional studies. RESULTS: The gene correction frequency varied, ranging from less than 1% to more than 40%. This represented several magnitudes higher conversion rate compared with homologous recombination frequency, which is in the range of 10(-5) to 10(-6). The resulting phenotype changes lasted longer than one year in some studies. CONCLUSION: Chimeric RNA/DNA oligonucleotide-based gene therapy has the potential to develop into powerful therapeutic modality for genetic diseases. It can offer permanent expression and normal regulation of corrected genes in appropriate cells or tissues. Further efforts to elucidate the mechanisms of chimeric RNA/DNA oligonucleotide-based gene therapy are warranted in order to increase the efficacy and safety of this method.  (+info)

Viral-mediated gene therapy for the muscular dystrophies: successes, limitations and recent advances. (2/26)

Much progress has been made over the past decade elucidating the molecular basis for a variety of muscular dystrophies (MDs). Accordingly, there are examples of mouse models of MD whose disease progression has been halted in large part with the use of viral vector technology. Even so, we must acknowledge significant limitations of present vector systems that must be overcome prior to successful treatment of humans with such approaches. This review will present a variety of viral-mediated therapeutic strategies aimed at counteracting the muscle-wasting symptoms associated with muscular dystrophy. We include viral vector systems used for muscle gene transfer, with a particular emphasis on adeno-associated virus. Findings of several encouraging studies focusing on repair of the mutant dystrophin gene are also included. Lastly, we present a discussion of muscle compensatory therapeutics being considered that include pathways involved in the up-regulation of utrophin, promotion of cellular adhesion, enhancement of muscle mass, and antagonism of the inflammatory response. Considering the complexity of the muscular dystrophies, it appears likely that a multilayered approach tailored to a patient sub-group may be warranted in order to effectively contest the progression of this devastating disease.  (+info)

Reduction of gene repair by selenomethionine with the use of single-stranded oligonucleotides. (3/26)

BACKGROUND: The repair of single base mutations in mammalian genes can be directed by single-stranded oligonucleotides in a process known as targeted gene repair. The mechanism of this reaction is currently being elucidated but likely involves a pairing step in which the oligonucleotide align in homologous register with its target sequence and a correction step in which the mutant base is replaced by endogenous repair pathways. This process is regulated by the activity of various factors and proteins that either elevate or depress the frequency at which gene repair takes place. RESULTS: In this report, we find that addition of selenomethionine reduces gene repair frequency in a dose-dependent fashion. A correlation between gene repair and altered cell cycle progression is observed. We also find that selenium induces expression of Ref-1 which, in turn, modifies the activity of p53 during the cell cycle. CONCLUSION: We can conclude from the results that the suppression of gene repair by introduction of selenomethionine occurs through a p53-associated pathway. This result indicates that the successful application of gene repair for treatment of inherited disorders may be hampered by indirect activation of endogenous suppressor functions.  (+info)

Single-stranded oligonucleotide-mediated in vivo gene repair in the rd1 retina. (4/26)

PURPOSE: The aim of this study was to test whether oligonucleotide-targeted gene repair can correct the point mutation in genomic DNA of PDE6b(rd1) (rd1) mouse retinas in vivo. METHODS: Oligonucleotides (ODNs) of 25 nucleotide length and complementary to genomic sequence subsuming the rd1 point mutation in the gene encoding the beta-subunit of rod photoreceptor cGMP-phosphodiesterase (beta-PDE), were synthesized with a wild type nucleotide base at the rd1 point mutation position. Control ODNs contained the same nucleotide bases as the wild type ODNs but with varying degrees of sequence mismatch. We previously developed a repeatable and relatively non-invasive technique to enhance ODN delivery to photoreceptor nuclei using transpalpebral iontophoresis prior to intravitreal ODN injection. Three such treatments were performed on C3H/henJ (rd1) mouse pups before postnatal day (PN) 9. Treatment outcomes were evaluated at PN28 or PN33, when retinal degeneration was nearly complete in the untreated rd1 mice. The effect of treatment on photoreceptor survival was evaluated by counting the number of nuclei of photoreceptor cells and by assessing rhodopsin immunohistochemistry on flat-mount retinas and sections. Gene repair in the retina was quantified by allele-specific real time PCR and by detection of beta-PDE-immunoreactive photoreceptors. Confirmatory experiments were conducted using independent rd1 colonies in separate laboratories. These experiments had an additional negative control ODN that contained the rd1 mutant nucleotide base at the rd1 point mutation site such that the sole difference between treatment with wild type and control ODN was the single base at the rd1 point mutation site. RESULTS: Iontophoresis enhanced the penetration of intravitreally injected ODNs in all retinal layers. Using this delivery technique, significant survival of photoreceptors was observed in retinas from eyes treated with wild type ODNs but not control ODNs as demonstrated by cell counting and rhodopsin immunoreactivity at PN28. Beta-PDE immunoreactivity was present in retinas from eyes treated with wild type ODN but not from those treated with control ODNs. Gene correction demonstrated by allele-specific real time PCR and by counts of beta-PDE-immunoreactive cells was estimated at 0.2%. Independent confirmatory experiments showed that retinas from eyes treated with wild type ODN contained many more rhodopsin immunoreactive cells compared to retinas treated with control (rd1 sequence) ODN, even when harvested at PN33. CONCLUSIONS: Short ODNs can be delivered with repeatable efficiency to mouse photoreceptor cells in vivo using a combination of intravitreal injection and iontophoresis. Delivery of therapeutic ODNs to rd1 mouse eyes resulted in genomic DNA conversion from mutant to wild type sequence, low but observable beta-PDE immunoreactivity, and preservation of rhodopsin immunopositive cells in the outer nuclear layer, suggesting that ODN-directed gene repair occurred and preserved rod photoreceptor cells. Effects were not seen in eyes treated with buffer or with ODNs having the rd1 mutant sequence, a definitive control for this therapeutic approach. Importantly, critical experiments were confirmed in two laboratories by several different researchers using independent mouse colonies and ODN preparations from separate sources. These findings suggest that targeted gene repair can be achieved in the retina following enhanced ODN delivery.  (+info)

Natural human gene correction by small extracellular genomic DNA fragments. (5/26)

Classical gene targeting employs natural homologous recombination for a gene correction using a specially designed and artificially delivered DNA construct but the method is very inefficient. On the other hand, small DNA fragments in the form of tiny chromatin-like particles naturally present in blood plasma can spontaneously penetrate into human cells and cell nuclei. We hypothesized that these natural DNA nanoparticles with recombinagenic free ends might be effective agents for gene replacement therapy. We demonstrate that a mixture of small fragments of total human chromatin from non-mutant cells added to a culture medium without transfection agents efficiently repaired a 47 base pair deletion in the CASP3 gene in 30% of treated human MCF7 breast cancer cells, as shown by restoration of caspase-3 apoptotic function and CASP3 DNA and mRNA structure. Such an innate gene replacement mechanism might function naturally in an organism using its own apoptotic DNA fragments. This mechanism might enable human cancer cell phenotype normalization in the presence of excess normal cells.  (+info)

Targeting gene expression to cones with human cone opsin promoters in recombinant AAV. (6/26)

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New approaches to treatment of primary immunodeficiencies: fixing mutations with chemicals. (7/26)

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MicroRNAs: control and loss of control in human physiology and disease. (8/26)

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Targeted gene repair, also known as genome editing or gene editing, is a medical technique that involves the use of engineered nucleases (enzymes that cut DNA) to introduce precise changes into the DNA of an organism or cell. These engineered nucleases include zinc finger nucleases (ZFNs), transcription activator-like effector nucleases (TALENs), and clustered regularly interspaced short palindromic repeats (CRISPR)-Cas systems.

In targeted gene repair, the engineered nuclease is directed to a specific location in the genome, where it creates a double-stranded break in the DNA. This break is then repaired by one of two natural cellular mechanisms: non-homologous end joining (NHEJ) or homology-directed repair (HDR). NHEJ is an error-prone process that can introduce random insertions or deletions (indels) at the site of the break, potentially disrupting gene function. HDR, on the other hand, uses a template to accurately repair the break and introduce specific changes into the genome.

Targeted gene repair has the potential to treat or cure genetic diseases by correcting the underlying genetic defects that cause them. It can also be used to modify the genomes of animals or plants for research or agricultural purposes. However, there are concerns about the potential risks and ethical implications of using this technology in humans, including the possibility of off-target effects and the long-term consequences of genetically modifying human germ cells (sperm or eggs).

DNA repair is the process by which cells identify and correct damage to the DNA molecules that encode their genome. DNA can be damaged by a variety of internal and external factors, such as radiation, chemicals, and metabolic byproducts. If left unrepaired, this damage can lead to mutations, which may in turn lead to cancer and other diseases.

There are several different mechanisms for repairing DNA damage, including:

1. Base excision repair (BER): This process repairs damage to a single base in the DNA molecule. An enzyme called a glycosylase removes the damaged base, leaving a gap that is then filled in by other enzymes.
2. Nucleotide excision repair (NER): This process repairs more severe damage, such as bulky adducts or crosslinks between the two strands of the DNA molecule. An enzyme cuts out a section of the damaged DNA, and the gap is then filled in by other enzymes.
3. Mismatch repair (MMR): This process repairs errors that occur during DNA replication, such as mismatched bases or small insertions or deletions. Specialized enzymes recognize the error and remove a section of the newly synthesized strand, which is then replaced by new nucleotides.
4. Double-strand break repair (DSBR): This process repairs breaks in both strands of the DNA molecule. There are two main pathways for DSBR: non-homologous end joining (NHEJ) and homologous recombination (HR). NHEJ directly rejoins the broken ends, while HR uses a template from a sister chromatid to repair the break.

Overall, DNA repair is a crucial process that helps maintain genome stability and prevent the development of diseases caused by genetic mutations.

Tyrosinemia is a rare genetic disorder that affects the way the body metabolizes the amino acid tyrosine, which is found in many protein-containing foods. There are three types of tyrosinemia, but type I, also known as hepatorenal tyrosinemia or Hawkins' syndrome, is the most severe and common form.

Tyrosinemia type I is caused by a deficiency of the enzyme fumarylacetoacetase, which is necessary for the breakdown of tyrosine in the body. As a result, toxic intermediates accumulate and can cause damage to the liver, kidneys, and nervous system. Symptoms of tyrosinemia type I may include failure to thrive, vomiting, diarrhea, abdominal pain, jaundice, and mental developmental delays.

If left untreated, tyrosinemia type I can lead to serious complications such as liver cirrhosis, liver cancer, kidney damage, and neurological problems. Treatment typically involves a low-tyrosine diet, medication to reduce tyrosine production, and sometimes liver transplantation. Early diagnosis and treatment are essential for improving outcomes in individuals with tyrosinemia type I.

Oligonucleotides are short sequences of nucleotides, the building blocks of DNA and RNA. They typically contain fewer than 100 nucleotides, and can be synthesized chemically to have specific sequences. Oligonucleotides are used in a variety of applications in molecular biology, including as probes for detecting specific DNA or RNA sequences, as inhibitors of gene expression, and as components of diagnostic tests and therapies. They can also be used in the study of protein-nucleic acid interactions and in the development of new drugs.

Hygromycin B is an antibiotic that is primarily used in research and agriculture. It is produced by the bacterium Streptomyces hygroscopicus and is active against both gram-positive and gram-negative bacteria, as well as some eukaryotic cells. In medicine, it is not commonly used due to its toxicity to mammalian cells.

In a laboratory setting, Hygromycin B is often used as a selection agent in molecular biology to ensure the growth of only those cells that have been genetically modified to express resistance to the antibiotic. This is typically achieved through the introduction of a gene that confers resistance to Hygromycin B.

In agriculture, it is used to control bacterial and fungal infections in plants. However, its use is restricted in some countries due to concerns about the development of antibiotic resistance and potential harm to non-target organisms.

Cyclin G2 is a type of protein that belongs to the cyclin family, which are involved in the regulation of the cell cycle. The cell cycle is the series of events that cells undergo as they grow and divide. Specifically, Cyclin G2 regulates the G1 phase of the cell cycle, which is the phase where the cell prepares to divide.

Cyclin G2 has been found to play a role in several important cellular processes, including DNA damage response, apoptosis (programmed cell death), and differentiation. It has also been implicated in the development of certain diseases, such as cancer. For example, Cyclin G2 has been shown to have tumor-suppressive functions, and its expression is often reduced in cancer cells.

In summary, Cyclin G2 is a regulatory protein that plays a critical role in controlling the cell cycle and maintaining genomic stability. Its dysregulation has been associated with various diseases, including cancer.

Gene targeting is a research technique in molecular biology used to precisely modify specific genes within the genome of an organism. This technique allows scientists to study gene function by creating targeted genetic changes, such as insertions, deletions, or mutations, in a specific gene of interest. The process typically involves the use of engineered nucleases, such as CRISPR-Cas9 or TALENs, to introduce double-stranded breaks at desired locations within the genome. These breaks are then repaired by the cell's own DNA repair machinery, often leading to the incorporation of designed changes in the targeted gene. Gene targeting is a powerful tool for understanding gene function and has wide-ranging applications in basic research, agriculture, and therapeutic development.

Genetic therapy, also known as gene therapy, is a medical intervention that involves the use of genetic material, such as DNA or RNA, to treat or prevent diseases. It works by introducing functional genes into cells to replace missing or faulty ones caused by genetic disorders or mutations. The introduced gene is incorporated into the recipient's genome, allowing for the production of a therapeutic protein that can help manage the disease symptoms or even cure the condition.

There are several approaches to genetic therapy, including:

1. Replacing a faulty gene with a healthy one
2. Inactivating or "silencing" a dysfunctional gene causing a disease
3. Introducing a new gene into the body to help fight off a disease, such as cancer

Genetic therapy holds great promise for treating various genetic disorders, including cystic fibrosis, muscular dystrophy, hemophilia, and certain types of cancer. However, it is still an evolving field with many challenges, such as efficient gene delivery, potential immune responses, and ensuring the safety and long-term effectiveness of the therapy.

Cinnamates are organic compounds that are derived from cinnamic acid. They contain a carbon ring with a double bond and a carboxylic acid group, making them aromatic acids. Cinnamates are widely used in the perfume industry due to their pleasant odor, and they also have various applications in the pharmaceutical and chemical industries.

In a medical context, cinnamates may be used as topical medications for the treatment of skin conditions such as fungal infections or inflammation. For example, cinnamate esters such as cinoxacin and ciclopirox are commonly used as antifungal agents in creams, lotions, and shampoos. These compounds work by disrupting the cell membranes of fungi, leading to their death.

Cinnamates may also have potential therapeutic benefits for other medical conditions. For instance, some studies suggest that cinnamate derivatives may have anti-inflammatory, antioxidant, and neuroprotective properties, making them promising candidates for the development of new drugs to treat diseases such as Alzheimer's and Parkinson's. However, more research is needed to confirm these effects and determine their safety and efficacy in humans.

Green Fluorescent Protein (GFP) is not a medical term per se, but a scientific term used in the field of molecular biology. GFP is a protein that exhibits bright green fluorescence when exposed to light, particularly blue or ultraviolet light. It was originally discovered in the jellyfish Aequorea victoria.

In medical and biological research, scientists often use recombinant DNA technology to introduce the gene for GFP into other organisms, including bacteria, plants, and animals, including humans. This allows them to track the expression and localization of specific genes or proteins of interest in living cells, tissues, or even whole organisms.

The ability to visualize specific cellular structures or processes in real-time has proven invaluable for a wide range of research areas, from studying the development and function of organs and organ systems to understanding the mechanisms of diseases and the effects of therapeutic interventions.

Selenomethionine is an organic form of selenium, which is an essential trace element in human nutrition. It is incorporated into proteins in place of methionine, one of the 20 standard amino acids, and functions as an antioxidant by helping to prevent cellular damage from free radicals. Selenomethionine can be found in a variety of foods, including brazil nuts, fish, meat, and whole grains, and is also available as a dietary supplement.

Single-stranded DNA (ssDNA) is a form of DNA that consists of a single polynucleotide chain. In contrast, double-stranded DNA (dsDNA) consists of two complementary polynucleotide chains that are held together by hydrogen bonds.

In the double-helix structure of dsDNA, each nucleotide base on one strand pairs with a specific base on the other strand through hydrogen bonding: adenine (A) with thymine (T), and guanine (G) with cytosine (C). This base pairing provides stability to the double-stranded structure.

Single-stranded DNA, on the other hand, lacks this complementary base pairing and is therefore less stable than dsDNA. However, ssDNA can still form secondary structures through intrastrand base pairing, such as hairpin loops or cruciform structures.

Single-stranded DNA is found in various biological contexts, including viral genomes, transcription bubbles during gene expression, and in certain types of genetic recombination. It also plays a critical role in some laboratory techniques, such as polymerase chain reaction (PCR) and DNA sequencing.

Double-stranded DNA breaks (DSBs) refer to a type of damage that occurs in the DNA molecule when both strands of the double helix are severed or broken at the same location. This kind of damage is particularly harmful to cells because it can disrupt the integrity and continuity of the genetic material, potentially leading to genomic instability, mutations, and cell death if not properly repaired.

DSBs can arise from various sources, including exposure to ionizing radiation, chemical agents, free radicals, reactive oxygen species (ROS), and errors during DNA replication or repair processes. Unrepaired or incorrectly repaired DSBs have been implicated in numerous human diseases, such as cancer, neurodegenerative disorders, and premature aging.

Cells possess several mechanisms to repair double-stranded DNA breaks, including homologous recombination (HR) and non-homologous end joining (NHEJ). HR is a more accurate repair pathway that uses a homologous template, typically the sister chromatid, to restore the original DNA sequence. NHEJ, on the other hand, directly ligates the broken ends together, often resulting in small deletions or insertions at the break site and increased risk of errors. The choice between these two pathways depends on various factors, such as the cell cycle stage, the presence of nearby breaks, and the availability of repair proteins.

In summary, double-stranded DNA breaks are severe forms of DNA damage that can have detrimental consequences for cells if not properly repaired. Cells employ multiple mechanisms to address DSBs, with homologous recombination and non-homologous end joining being the primary repair pathways.

A base sequence in the context of molecular biology refers to the specific order of nucleotides in a DNA or RNA molecule. In DNA, these nucleotides are adenine (A), guanine (G), cytosine (C), and thymine (T). In RNA, uracil (U) takes the place of thymine. The base sequence contains genetic information that is transcribed into RNA and ultimately translated into proteins. It is the exact order of these bases that determines the genetic code and thus the function of the DNA or RNA molecule.

Luminescent proteins are a type of protein that emit light through a chemical reaction, rather than by absorbing and re-emitting light like fluorescent proteins. This process is called bioluminescence. The light emitted by luminescent proteins is often used in scientific research as a way to visualize and track biological processes within cells and organisms.

One of the most well-known luminescent proteins is Green Fluorescent Protein (GFP), which was originally isolated from jellyfish. However, GFP is actually a fluorescent protein, not a luminescent one. A true example of a luminescent protein is the enzyme luciferase, which is found in fireflies and other bioluminescent organisms. When luciferase reacts with its substrate, luciferin, it produces light through a process called oxidation.

Luminescent proteins have many applications in research, including as reporters for gene expression, as markers for protein-protein interactions, and as tools for studying the dynamics of cellular processes. They are also used in medical imaging and diagnostics, as well as in the development of new therapies.

Genetic recombination is the process by which genetic material is exchanged between two similar or identical molecules of DNA during meiosis, resulting in new combinations of genes on each chromosome. This exchange occurs during crossover, where segments of DNA are swapped between non-sister homologous chromatids, creating genetic diversity among the offspring. It is a crucial mechanism for generating genetic variability and facilitating evolutionary change within populations. Additionally, recombination also plays an essential role in DNA repair processes through mechanisms such as homologous recombinational repair (HRR) and non-homologous end joining (NHEJ).

DNA repair enzymes are a group of enzymes that are responsible for identifying and correcting damage to the DNA molecule. These enzymes play a critical role in maintaining the integrity of an organism's genetic material, as they help to ensure that the information stored in DNA is accurately transmitted during cell division and reproduction.

There are several different types of DNA repair enzymes, each responsible for correcting specific types of damage. For example, base excision repair enzymes remove and replace damaged or incorrect bases, while nucleotide excision repair enzymes remove larger sections of damaged DNA and replace them with new nucleotides. Other types of DNA repair enzymes include mismatch repair enzymes, which correct errors that occur during DNA replication, and double-strand break repair enzymes, which are responsible for fixing breaks in both strands of the DNA molecule.

Defects in DNA repair enzymes have been linked to a variety of diseases, including cancer, neurological disorders, and premature aging. For example, individuals with xeroderma pigmentosum, a rare genetic disorder characterized by an increased risk of skin cancer, have mutations in genes that encode nucleotide excision repair enzymes. Similarly, defects in mismatch repair enzymes have been linked to hereditary nonpolyposis colorectal cancer, a type of colon cancer that is inherited and tends to occur at a younger age than sporadic colon cancer.

Overall, DNA repair enzymes play a critical role in maintaining the stability and integrity of an organism's genetic material, and defects in these enzymes can have serious consequences for human health.

A mutation is a permanent change in the DNA sequence of an organism's genome. Mutations can occur spontaneously or be caused by environmental factors such as exposure to radiation, chemicals, or viruses. They may have various effects on the organism, ranging from benign to harmful, depending on where they occur and whether they alter the function of essential proteins. In some cases, mutations can increase an individual's susceptibility to certain diseases or disorders, while in others, they may confer a survival advantage. Mutations are the driving force behind evolution, as they introduce new genetic variability into populations, which can then be acted upon by natural selection.

A plasmid is a small, circular, double-stranded DNA molecule that is separate from the chromosomal DNA of a bacterium or other organism. Plasmids are typically not essential for the survival of the organism, but they can confer beneficial traits such as antibiotic resistance or the ability to degrade certain types of pollutants.

Plasmids are capable of replicating independently of the chromosomal DNA and can be transferred between bacteria through a process called conjugation. They often contain genes that provide resistance to antibiotics, heavy metals, and other environmental stressors. Plasmids have also been engineered for use in molecular biology as cloning vectors, allowing scientists to replicate and manipulate specific DNA sequences.

Plasmids are important tools in genetic engineering and biotechnology because they can be easily manipulated and transferred between organisms. They have been used to produce vaccines, diagnostic tests, and genetically modified organisms (GMOs) for various applications, including agriculture, medicine, and industry.

A genetic vector is a vehicle, often a plasmid or a virus, that is used to introduce foreign DNA into a host cell as part of genetic engineering or gene therapy techniques. The vector contains the desired gene or genes, along with regulatory elements such as promoters and enhancers, which are needed for the expression of the gene in the target cells.

The choice of vector depends on several factors, including the size of the DNA to be inserted, the type of cell to be targeted, and the efficiency of uptake and expression required. Commonly used vectors include plasmids, adenoviruses, retroviruses, and lentiviruses.

Plasmids are small circular DNA molecules that can replicate independently in bacteria. They are often used as cloning vectors to amplify and manipulate DNA fragments. Adenoviruses are double-stranded DNA viruses that infect a wide range of host cells, including human cells. They are commonly used as gene therapy vectors because they can efficiently transfer genes into both dividing and non-dividing cells.

Retroviruses and lentiviruses are RNA viruses that integrate their genetic material into the host cell's genome. This allows for stable expression of the transgene over time. Lentiviruses, a subclass of retroviruses, have the advantage of being able to infect non-dividing cells, making them useful for gene therapy applications in post-mitotic tissues such as neurons and muscle cells.

Overall, genetic vectors play a crucial role in modern molecular biology and medicine, enabling researchers to study gene function, develop new therapies, and modify organisms for various purposes.

A dependovirus, also known as a dependent adenovirus or satellite adenovirus, is a type of virus that requires the presence of another virus, specifically an adenovirus, to replicate. Dependoviruses are small, non-enveloped viruses with a double-stranded DNA genome. They cannot complete their replication cycle without the help of an adenovirus, which provides necessary functions for the dependovirus to replicate.

Dependoviruses are clinically significant because they can cause disease in humans, particularly in individuals with weakened immune systems. In some cases, dependoviruses may also affect the severity and outcome of adenovirus infections. However, it is important to note that not all adenovirus infections are associated with dependovirus co-infections.

Deoxyribonucleic acid (DNA) is the genetic material present in the cells of organisms where it is responsible for the storage and transmission of hereditary information. DNA is a long molecule that consists of two strands coiled together to form a double helix. Each strand is made up of a series of four nucleotide bases - adenine (A), guanine (G), cytosine (C), and thymine (T) - that are linked together by phosphate and sugar groups. The sequence of these bases along the length of the molecule encodes genetic information, with A always pairing with T and C always pairing with G. This base-pairing allows for the replication and transcription of DNA, which are essential processes in the functioning and reproduction of all living organisms.

DNA replication is the biological process by which DNA makes an identical copy of itself during cell division. It is a fundamental mechanism that allows genetic information to be passed down from one generation of cells to the next. During DNA replication, each strand of the double helix serves as a template for the synthesis of a new complementary strand. This results in the creation of two identical DNA molecules. The enzymes responsible for DNA replication include helicase, which unwinds the double helix, and polymerase, which adds nucleotides to the growing strands.

A point mutation is a type of genetic mutation where a single nucleotide base (A, T, C, or G) in DNA is altered, deleted, or substituted with another nucleotide. Point mutations can have various effects on the organism, depending on the location of the mutation and whether it affects the function of any genes. Some point mutations may not have any noticeable effect, while others might lead to changes in the amino acids that make up proteins, potentially causing diseases or altering traits. Point mutations can occur spontaneously due to errors during DNA replication or be inherited from parents.

Oligodeoxyribonucleotides (ODNs) are relatively short, synthetic single-stranded DNA molecules. They typically contain 15 to 30 nucleotides, but can range from 2 to several hundred nucleotides in length. ODNs are often used as tools in molecular biology research for various applications such as:

1. Nucleic acid detection and quantification (e.g., real-time PCR)
2. Gene regulation (antisense, RNA interference)
3. Gene editing (CRISPR-Cas systems)
4. Vaccine development
5. Diagnostic purposes

Due to their specificity and affinity towards complementary DNA or RNA sequences, ODNs can be designed to target a particular gene or sequence of interest. This makes them valuable tools in understanding gene function, regulation, and interaction with other molecules within the cell.

Molecular sequence data refers to the specific arrangement of molecules, most commonly nucleotides in DNA or RNA, or amino acids in proteins, that make up a biological macromolecule. This data is generated through laboratory techniques such as sequencing, and provides information about the exact order of the constituent molecules. This data is crucial in various fields of biology, including genetics, evolution, and molecular biology, allowing for comparisons between different organisms, identification of genetic variations, and studies of gene function and regulation.

DNA damage refers to any alteration in the structure or composition of deoxyribonucleic acid (DNA), which is the genetic material present in cells. DNA damage can result from various internal and external factors, including environmental exposures such as ultraviolet radiation, tobacco smoke, and certain chemicals, as well as normal cellular processes such as replication and oxidative metabolism.

Examples of DNA damage include base modifications, base deletions or insertions, single-strand breaks, double-strand breaks, and crosslinks between the two strands of the DNA helix. These types of damage can lead to mutations, genomic instability, and chromosomal aberrations, which can contribute to the development of diseases such as cancer, neurodegenerative disorders, and aging-related conditions.

The body has several mechanisms for repairing DNA damage, including base excision repair, nucleotide excision repair, mismatch repair, and double-strand break repair. However, if the damage is too extensive or the repair mechanisms are impaired, the cell may undergo apoptosis (programmed cell death) to prevent the propagation of potentially harmful mutations.

DNA mismatch repair (MMR) is a cellular process that helps to correct errors that occur during DNA replication and recombination. This mechanism plays a critical role in maintaining the stability of the genome by reducing the rate of mutations.

The MMR system recognizes and repairs base-base mismatches and small insertions or deletions (indels) that can arise due to slippage of DNA polymerase during replication. The process involves several proteins, including MutSα or MutSβ, which recognize the mismatch, and MutLα, which acts as a endonuclease to cleave the DNA near the mismatch. Excision of the mismatched region is then carried out by exonucleases, followed by resynthesis of the repaired strand using the correct template.

Defects in MMR genes have been linked to various human diseases, including hereditary nonpolyposis colorectal cancer (HNPCC) and other types of cancer. In HNPCC, mutations in MMR genes lead to an accumulation of mutations in critical genes, which can ultimately result in the development of cancer.

According to the medical definition, ultraviolet (UV) rays are invisible radiations that fall in the range of the electromagnetic spectrum between 100-400 nanometers. UV rays are further divided into three categories: UVA (320-400 nm), UVB (280-320 nm), and UVC (100-280 nm).

UV rays have various sources, including the sun and artificial sources like tanning beds. Prolonged exposure to UV rays can cause damage to the skin, leading to premature aging, eye damage, and an increased risk of skin cancer. UVA rays penetrate deeper into the skin and are associated with skin aging, while UVB rays primarily affect the outer layer of the skin and are linked to sunburns and skin cancer. UVC rays are the most harmful but fortunately, they are absorbed by the Earth's atmosphere and do not reach the surface.

Healthcare professionals recommend limiting exposure to UV rays, wearing protective clothing, using broad-spectrum sunscreen with an SPF of at least 30, and avoiding tanning beds to reduce the risk of UV-related health problems.

An abdominal aortic aneurysm (AAA) is a localized dilatation or bulging of the abdominal aorta, which is the largest artery in the body that supplies oxygenated blood to the trunk and lower extremities. Normally, the diameter of the abdominal aorta measures about 2 centimeters (cm) in adults. However, when the diameter of the aorta exceeds 3 cm, it is considered an aneurysm.

AAA can occur anywhere along the length of the abdominal aorta, but it most commonly occurs below the renal arteries and above the iliac bifurcation. The exact cause of AAA remains unclear, but several risk factors have been identified, including smoking, hypertension, advanced age, male gender, family history, and certain genetic disorders such as Marfan syndrome and Ehlers-Danlos syndrome.

The main concern with AAA is the risk of rupture, which can lead to life-threatening internal bleeding. The larger the aneurysm, the greater the risk of rupture. Symptoms of AAA may include abdominal or back pain, a pulsating mass in the abdomen, or symptoms related to compression of surrounding structures such as the kidneys, ureters, or nerves. However, many AAAs are asymptomatic and are discovered incidentally during imaging studies performed for other reasons.

Diagnosis of AAA typically involves imaging tests such as ultrasound, computed tomography (CT) scan, or magnetic resonance imaging (MRI). Treatment options depend on the size and location of the aneurysm, as well as the patient's overall health status. Small AAAs that are not causing symptoms may be monitored with regular imaging studies to assess for growth. Larger AAAs or those that are growing rapidly may require surgical repair, either through open surgery or endovascular repair using a stent graft.

DNA end-joining repair, also known as non-homologous end joining (NHEJ), is a primary mechanism for repairing double-stranded breaks in DNA. This pathway involves the direct rejoining of broken ends, often with some degree of imprecision, and it can result in small deletions or insertions at the site of the break. NHEJ plays a crucial role in maintaining genomic stability and is an important process for the repair of DNA damage that can occur as a result of ionizing radiation, chemotherapeutic agents, and other sources of genotoxic stress. The key proteins involved in NHEJ include the Ku heterodimer, DNA-dependent protein kinase (DNA-PK), XRCC4, XLF, and DNA ligase IV.

DNA-binding proteins are a type of protein that have the ability to bind to DNA (deoxyribonucleic acid), the genetic material of organisms. These proteins play crucial roles in various biological processes, such as regulation of gene expression, DNA replication, repair and recombination.

The binding of DNA-binding proteins to specific DNA sequences is mediated by non-covalent interactions, including electrostatic, hydrogen bonding, and van der Waals forces. The specificity of binding is determined by the recognition of particular nucleotide sequences or structural features of the DNA molecule.

DNA-binding proteins can be classified into several categories based on their structure and function, such as transcription factors, histones, and restriction enzymes. Transcription factors are a major class of DNA-binding proteins that regulate gene expression by binding to specific DNA sequences in the promoter region of genes and recruiting other proteins to modulate transcription. Histones are DNA-binding proteins that package DNA into nucleosomes, the basic unit of chromatin structure. Restriction enzymes are DNA-binding proteins that recognize and cleave specific DNA sequences, and are widely used in molecular biology research and biotechnology applications.

Wound healing is a complex and dynamic process that occurs after tissue injury, aiming to restore the integrity and functionality of the damaged tissue. It involves a series of overlapping phases: hemostasis, inflammation, proliferation, and remodeling.

1. Hemostasis: This initial phase begins immediately after injury and involves the activation of the coagulation cascade to form a clot, which stabilizes the wound and prevents excessive blood loss.
2. Inflammation: Activated inflammatory cells, such as neutrophils and monocytes/macrophages, infiltrate the wound site to eliminate pathogens, remove debris, and release growth factors that promote healing. This phase typically lasts for 2-5 days post-injury.
3. Proliferation: In this phase, various cell types, including fibroblasts, endothelial cells, and keratinocytes, proliferate and migrate to the wound site to synthesize extracellular matrix (ECM) components, form new blood vessels (angiogenesis), and re-epithelialize the wounded area. This phase can last up to several weeks depending on the size and severity of the wound.
4. Remodeling: The final phase of wound healing involves the maturation and realignment of collagen fibers, leading to the restoration of tensile strength in the healed tissue. This process can continue for months to years after injury, although the tissue may never fully regain its original structure and function.

It is important to note that wound healing can be compromised by several factors, including age, nutrition, comorbidities (e.g., diabetes, vascular disease), and infection, which can result in delayed healing or non-healing chronic wounds.

Blood vessel prosthesis implantation is a surgical procedure in which an artificial blood vessel, also known as a vascular graft or prosthetic graft, is inserted into the body to replace a damaged or diseased native blood vessel. The prosthetic graft can be made from various materials such as Dacron (polyester), PTFE (polytetrafluoroethylene), or bovine/human tissue.

The implantation of a blood vessel prosthesis is typically performed to treat conditions that cause narrowing or blockage of the blood vessels, such as atherosclerosis, aneurysms, or traumatic injuries. The procedure may be used to bypass blocked arteries in the legs (peripheral artery disease), heart (coronary artery bypass surgery), or neck (carotid endarterectomy). It can also be used to replace damaged veins for hemodialysis access in patients with kidney failure.

The success of blood vessel prosthesis implantation depends on various factors, including the patient's overall health, the location and extent of the vascular disease, and the type of graft material used. Possible complications include infection, bleeding, graft thrombosis (clotting), and graft failure, which may require further surgical intervention or endovascular treatments.

Recombinational DNA repair is a biological process that takes place in cells to correct damage to the DNA molecule. This type of repair is particularly important in maintaining the stability and integrity of the genetic code, especially in response to double-strand breaks (DSBs) in the DNA.

In recombinational DNA repair, the cell uses a template from a homologous DNA sequence, typically a sister chromatid, to restore the damaged region. The process involves several steps:

1. Resection: The broken ends of the DNA molecule are processed by enzymes that remove nucleotides and create 3' single-stranded overhangs.
2. Recombination: The single-stranded overhangs invade a homologous DNA sequence, forming a displacement loop (D-loop) structure. This invasion is facilitated by recombinase proteins such as Rad51 and Dmc1.
3. Strand exchange: The invading 3' end of the single strand pairs with the complementary sequence in the template DNA, and DNA synthesis occurs using the template to restore the missing genetic information.
4. Resolution: The recombination intermediate is resolved, and the repaired DNA molecule is ligated together. This step can result in different outcomes, including crossover or non-crossover events, depending on the specific mechanisms involved.

Recombinational DNA repair plays a crucial role in maintaining genome stability and preventing mutations that could lead to diseases such as cancer. Additionally, this process is exploited in genetic engineering techniques like homologous recombination-mediated gene targeting and CRISPR-Cas9 genome editing.

"Targeted DNA methylation by homology-directed repair in mammalian cells. Transcription reshapes methylation on the repaired ... Colorectal cancer samples with a BRAF (V600E) mutation or promoter hypermethylation of the mismatch repair gene MLH1 are ... Several SNPs and genes have been identified that relate to the epigenetic age of the cerebellum. Huntington's disease has been ... They propose the evaluation of DNA methylation at ELOVL2, FHL2, and PENK genes in DNA recovered from both cementum and pulp of ...
In addition to inhibiting gene expression, splicing ribozymes can be used to repair damaged or defective RNA. Splicing ... Sullenger, BA; Cech, TR (1994). "Ribozyme-mediated repair of defective mRNA by targeted, trans-splicing". Nature. 371 (6498): ... Applications include the use of ribozymes in gene therapy to control gene expression in bacteria and eukaryotes, and to inhibit ... ISBN 978-0-89603-774-8. Thompson, JD; Macejak, D; Couture, L; Stinchcomb, DT (1995). "Ribozymes in gene therapy". Nature ...
"MicroRNA-182-5p targets a network of genes involved in DNA repair". RNA. 19 (2): 230-242. doi:10.1261/rna.034926.112. PMC ... In sporadic cancers, a DNA repair deficiency is occasionally found to be due to a mutation in a DNA repair gene. However, much ... If a gene necessary for DNA repair is hypermethylated, resulting in deficient DNA repair, DNA damages will accumulate. ... The article Epigenetic inactivation of the premature aging Werner syndrome gene in human cancer indicates the DNA repair gene ...
"Cell therapy spinout targets liver repair treatment". The University of Edinburgh. Retrieved 8 December 2020. Dorsey, Kirsty. " ... CRM spinout companies include Cellinta (developing gene therapies for cancer) and Resolution Therapeutics (developing cell ... The centre forms part of the university's Institute for Regeneration and Repair and is part of the BioQuarter cluster at Little ... "Institute for Regeneration and Repair". The University of Edinburgh. Retrieved 25 August 2020. "World Leading Academics, ...
They are common targets of DNA repair pathways. cryptic unstable transcript (CUT) ctDNA 1. An abbreviation of circulating tumor ... gene dosage The number of copies of a particular gene present in a genome. Gene dosage directly influences the amount of gene ... in which a gene is only transcribed as needed. A gene that is transcribed continuously is called a constitutive gene. 2. A gene ... gene therapy The insertion of a functional or wild-type gene or part of a gene into an organism (especially a patient) with the ...
... increased ETS1 expression causes about 50 target genes to increase expression, including DNA repair genes MUTYH, BARD1, ERCC1 ... Such phosphorylation of ETS1 alters its target gene repertoire. The Ku80 portion of DNA-PK, acting alone, interacts with ETS1 ... Protein C-ets-1 is a protein that in humans is encoded by the ETS1 gene. The protein encoded by this gene belongs to the ETS ... the resistance thought to be partly due to increased expression of DNA repair genes. ETS1 functions are regulated by protein - ...
The chimeraplast enters a cell and attaches itself to the target gene. The DNA of the chimeraplast and the cell complement each ... The DNA repair enzymes then replace the cell's DNA with that of the chimeraplast. This leaves the chimeraplast's new sequence ... Chimeraplasty is a non-viral method of gene therapy. Chimeraplasty changes DNA sequences using a synthetic strand of RNA and ... "Efficiency of chimeraplast gene targeting by direct nuclear injection using a GFP recovery assay". Molecular Therapy. 7 (2): ...
"MicroRNA-182-5p targets a network of genes involved in DNA repair". RNA. 19 (2): 230-42. doi:10.1261/rna.034926.112. PMC ... BRCA1 is a human tumor suppressor gene (also known as a caretaker gene) and is responsible for repairing DNA. BRCA1 and BRCA2 ... The double-strand repair mechanism in which BRCA1 participates is homology-directed repair, where the repair proteins copy the ... BRCA1 is also involved in another type of DNA repair, termed mismatch repair. BRCA1 interacts with the DNA mismatch repair ...
HMGA1 and HMGA2 target (reduce expression of) BRCA1 and ERCC1 DNA repair genes. Thus DNA repair can be reduced, likely ... a DNA repair gene; APC, a cell cycle regulator; MLH1, a DNA-repair gene; and BRCA1, another DNA-repair gene. Indeed, cancer ... listed further DNA repair genes that are directly targeted by additional miRNAs, including ATM (miR-18a, miR-101), DNA-PK (miR- ... Over expression of any one of these miRNAs can cause reduced expression of its target DNA repair gene. Up to 15% of the MLH1- ...
This technique is referred to as oligonucleotide mediated gene repair, targeted gene repair, or targeted nucleotide alteration ... One strategy uses antisense specific to the target gene to disrupt the transcription of the faulty gene. Another uses small ... The oligonucleotide is designed to anneal with complementarity to the target gene with the exception of a central base, the ... If genetic material happens to be inserted in the middle of one of the original genes of the host cell, this gene will be ...
"Clustered Mutation Signatures Reveal that Error-Prone DNA Repair Targets Mutations to Active Genes". Cell. 170 (3): 534-547.e23 ... For example, MMR genes MLH1 and MLH3 as well as 11 other DNA repair genes (such as MGMT and many NER pathway genes) were ... Other gene products involved in mismatch repair (subsequent to initiation by MMR genes) in humans include DNA polymerase delta ... Sporadic cancers with a DNA repair deficiency only rarely have a mutation in a DNA repair gene, but they instead tend to have ...
"Clustered Mutation Signatures Reveal that Error-Prone DNA Repair Targets Mutations to Active Genes". Cell. 170 (3): 534-547.e23 ... The tool of gene sequencing at SNP level is also used to pinpoint functional variants from association studies and improve the ... Illumina's CEO, Jay Flatley, claimed in February 2009 that "by 2019 it will have become routine to map infants' genes when they ... The distribution of somatic mutations across the human genome is very uneven, such that the gene-rich, early-replicating ...
"Clustered Mutation Signatures Reveal that Error-Prone DNA Repair Targets Mutations to Active Genes". Cell. 170 (3): 534-547.e23 ... This affects their function of gene regulation. In general, genes that are active have less bound histone, while inactive genes ... genes, activating those genes in the nucleus accumbens (NAc). c-fos is well known to be important in addiction. The ccr2 gene ... Histone gene transcription is controlled by multiple gene regulatory proteins such as transcription factors which bind to ...
"Zinc-finger nuclease-induced gene repair with oligodeoxynucleotides: wanted and unwanted target locus modifications". Mol. Ther ... and potentially beneficial combinations of genes. HR performs a second vital role in DNA repair, enabling the repair of double- ... There are several gene targeting technologies used to engineer the desired mutation, the most prevalent of which are briefly ... Topaloglu O, Hurley PJ, Yildirim O, Civin CI, Bunz F (2005). "Improved methods for the generation of human gene knockout and ...
As shown by Borrmann et al., HMGA2 targets and modifies the chromatin architecture at the ERCC1 gene, reducing its expression. ... "High mobility group A2 protein and its derivatives bind a specific region of the promoter of DNA repair gene ERCC1 and modulate ... A gene knock-out study of the mouse counterpart demonstrated that this gene is involved in diet-induced obesity. Alternate ... High-mobility group AT-hook 2, also known as HMGA2, is a protein that, in humans, is encoded by the HMGA2 gene. This gene ...
... gatekeeper genes, and more recently landscaper genes. Caretaker genes ensure stability of the genome via DNA repair and ... This makes it a popular target for new cancer therapies. Homozygous loss of p53 is found in 65% of colon cancers, 30-50% of ... Gene therapy is used to reinstate the function of a mutated or deleted gene type. When tumor suppressor genes are altered in a ... e.g., CADM1) Proteins involved in repairing mistakes in DNA. Caretaker genes encode proteins that function in repairing ...
... at the target site if the transgene is incorporated into the homology repair template that is used during gene-targeting. In ... The two most established forms of gene editing are gene-targeting and targeted-mutagenesis. While gene targeting relies on the ... Gene targeting methods are established for several model organisms and may vary depending on the species used. To target genes ... In this way Gene Targeting is distinct from natural homology-directed repair, during which the 'natural' DNA repair template of ...
This gene may be a target of germline cancer-inducing mutations. This protein also appears to be important in ovarian cancer ... BRIP1 protein is a DNA helicase that is employed in homologous recombinational repair, and in the response of the cell to DNA ... Human BACH1 genome location and BACH1 gene details page in the UCSC Genome Browser. Human BRIP1 genome location and BRIP1 gene ... The protein encoded by this gene is a member of the RecQ DEAH helicase family and interacts with the BRCT repeats of breast ...
If this cleavage is targeted to a gene coding region, and NHEJ-mediated repair introduces insertions and deletions, a ... Gene knockin is similar to gene knockout, but it replaces a gene with another instead of deleting it. A conditional gene ... A complete gene knockout permanently inactivates the gene, while a conditional gene knockout allows for the gene to be turned ... Essential gene Gene knockdown Conditional gene knockout Germline Gene silencing Planned extinction Recombineering Myostatin ...
Leber R, Wise TW, Mizuta R, Meek K (1998). "The XRCC4 gene product is a target for and interacts with the DNA-dependent protein ... "Entrez Gene: XRCC4 X-ray repair complementing defective repair in Chinese hamster cells 4". Junop MS, Modesti M, Guarné A, ... NHEJ is also used to repair DSBs generated during V(D)J recombination when gene regions are rearranged to create the unique ... For instance, it has been reported that "RNAi-mediated targeting of noncoding and coding sequences in DNA repair gene messages ...
MYB drives proliferation of ACC cells and regulates genes involved in cell cycle control, DNA replication and repair, and RNA ... Thus, the MYB oncogene is a potential diagnostic and therapeutic target in ACC. ACC has a relatively quiet genome with few ... Most commonly, MYB is activated through gene fusion with the transcription factor encoding NFIB gene as a result of a t(6;9) ... Activation of the oncogenic transcription factor gene MYB is the key genomic event of ACC and seen in the vast majority of ...
... itself can enter in nuclei of cells and regulate target gene such as CTGF/CCN2 gene. Expression of MMP3 is primarily ... The enzyme is also thought to be involved in wound repair, progression of atherosclerosis, and tumor initiation. In addition to ... The MMP3 gene is part of a cluster of MMP genes which localize to chromosome 11q22.3. MMP-3 has an estimated molecular weight ... Recently, the MMP3 gene was shown to be down-regulated in individuals with cleft lip and palate when compared to controls, ...
This method relies on the periodic and isolated occurrence of DNA damage at the target site in order for the repair to commence ... Its guide RNA targets regulatory DNA sequences called promoters that immediately precede the target gene. Cas9 was used to ... The experiments resulted in successfully changing only some of the intended genes, and had off-target effects on other genes. ... the observed phenotypic change may not be due to modifying the target gene, but some other gene). Modifications to CRISPR have ...
Semba S, Ouyang H, Han SY, Kato Y, Horii A (April 2000). "Analysis of the candidate target genes for mutation in microsatellite ... In addition to mediating cell cycle checkpoints, Chk1 also contributes to DNA repair processes, gene transcription, egg ... Furthermore, Chk1 can target Cdc25 indirectly through phosphorylating Nek11. WEE1 kinase and PLK1 are also targeted by Chk1 to ... Recently, Chk1 has shown to mediate DNA repair mechanisms and does so by activating repair factors such as proliferating cell ...
This is a target-specific technique that can introduce gene knock out or knock in depending on the double strand repair pathway ... CRISPR gene editing CRISPR/Cas Tools SiRNA Gene knockout Protospacer adjacent motif Blum, B.; Bakalara, N.; Simpson, L. (1990- ... In the protozoan Leishmania tarentolae, 12 of the 18 mitochondrial genes are edited using this process. One such gene is Cyb. ... CRISPR (Clustered regularly interspaced short palindromic repeats)/Cas9 is a technique used for gene editing and gene therapy. ...
... recognition and repair machinery. Mutations in these genes allow the bacteria to have a higher overall mutation rate and to ... Mutations: Spontaneous mutations in the TB genome can alter proteins which are the target of drugs, making the bacteria drug- ... One example is a mutation in the rpoB gene, which encodes the beta subunit of the bacterium's RNA polymerase enzyme. In non- ... Mutation in the rpoB gene changes the sequence of amino acids and eventual conformation, or arrangement, of the beta subunit. ...
Biochemical repair Neurotropic factor therapy and gene therapy Neurotropic growth factors regulate growth, survival, and ... These factors would promote nerve repairs to the target area. Hydrogels' macroporous properties would enable attachment of ... Gene therapy would be able to increase the NGF efficacy by the controlled and sustained delivery in a site-specific manner. ... Engineering endogenous repair Currently, there exists a hydrogel based scaffold which acts as a channel to deliver nerve growth ...
"MicroRNA-182-5p targets a network of genes involved in DNA repair". RNA. 19 (2): 230-42. doi:10.1261/rna.034926.112. PMC ... to 4-fold change in protein expression of their target genes. Individual miRNAs often repress several hundred target genes. ... Deficiency of expression of a DNA repair gene occurs in many cancers (see DNA repair defect and cancer risk and microRNA and ... In fact several key genes such as nanos are known to bind RNA but often their targets are unknown. Although RNA binding ...
Esteller M, Hamilton SR, Burger PC, Baylin SB, Herman JG (February 1999). "Inactivation of the DNA repair gene O6-methylguanine ... Although both versions of LSD1 share the same target, their expression patterns are vastly different and neuroLSD1 is a ... Abnormal presence or lack of methylation in glioblastomas are strongly linked to genes which regulate apoptosis, DNA repair, ... Tumor suppressing genes are those which inhibit a cell's progression towards cancer. These genes are commonly associated with ...
HMGA2 protein specifically targets the promoter of ERCC1, thus reducing expression of this DNA repair gene. ERCC1 protein ... Several genes involved in DNA repair are regulated by microRNAs. Germ line mutations in DNA repair genes cause only 2-5% of ... the animal microRNAs target diverse genes. However, genes involved in functions common to all cells, such as gene expression, ... Biology portal Anti-miRNA oligonucleotides Gene expression List of miRNA gene prediction tools List of miRNA target prediction ...
25-61 bases homologous to the target sequence except for a single mismatch to the targeted base, are capable of correcting a ... single point mutation (G to A) in the mutant beta-galactosidase gene, in nuclear extracts, episome, … ... DNA Repair / genetics* * DNA, Superhelical / genetics * Gene Targeting / methods* * Genetic Therapy / methods ... Targeted gene correction by small single-stranded oligonucleotides in mammalian cells Gene Ther. 2001 Mar;8(5):391-9. doi: ...
Targeted gene repair. Nature Biotechnology asks selected members of the international community to comment on the ethical ... The Ethics of Gene Editing from an Islamic Perspective: A Focus on the Recent Gene Editing of the Chinese Twins *Qosay A. E. Al ... Points and questions to consider for a responsible way forward for gene editing in humans *Heidi C. Howard ... Points and questions to consider for a responsible way forward for gene editing in humans *Heidi C. Howard ...
BioAssay by Target (List) BioAssays related to the gene by protein target or RNAi target ... BioAssays, RNAi Target, Active BioAssays that contain the gene as the target of a RNAi reagent, which is identified as a hit in ... BioAssays, RNAi Target, Tested BioAssays that contain the gene as the target of a RNAi reagent ... Gene neighbors Overlapping genes and two nearest non-overlapping genes on either side ...
Mice homozygous for a targeted null mutation are viable and fertile but exhibit increased sensitivity to the DNA interstrand ... Gene Model ID. Feature Type. Coordinates. Select Strains. C57BL/6J MGI_C57BL6J_1930042. protein coding gene. Chr19:56517593- ... protein coding gene. Chr19:55782396-55801410 (-). BALB/cJ MGP_BALBcJ_G0025236. protein coding gene. Chr19:54154691-54173740 (-) ... protein coding gene. Chr19:55984371-56003418 (-). PWK/PhJ MGP_PWKPhJ_G0024209. protein coding gene. Chr19:53821339-53840757 (-) ...
"Targeted DNA methylation by homology-directed repair in mammalian cells. Transcription reshapes methylation on the repaired ... Colorectal cancer samples with a BRAF (V600E) mutation or promoter hypermethylation of the mismatch repair gene MLH1 are ... Several SNPs and genes have been identified that relate to the epigenetic age of the cerebellum. Huntingtons disease has been ... They propose the evaluation of DNA methylation at ELOVL2, FHL2, and PENK genes in DNA recovered from both cementum and pulp of ...
Characterisation of gene expression patterns in bladder cancer allows the identification of pathways involved in its ... Department of Molecular and Clinical Cancer Medicine, University of Liverpool, Liverpool L69 3GA, UK., Regeneration and Repair ... Gene expression profiling in bladder cancer identifies potential therapeutic targets March 26, 2017 Despite advances in ... Characterisation of gene expression patterns in bladder cancer allows the identification of pathways involved in its ...
Scientists have long known that Wiskott-Aldrich syndrome is caused by mutations in a gene on the X chromosome; the gene and the ... Researchers Identify New Drug Target for Blood Cancer, Potentially Solid Tumors. Oct. 7, 2021 Researchers have shown for the ... 10, 2022 New research could make it much simpler to repair disease-causing mutations in RNA without compromising precision or ... To find out, they removed the WASP gene from stem cells and coaxed the cells to become macrophages or B cells, two types of ...
... the efficiency of homologous recombination directed repair (HDR) of HBB was low and the edited embryos were mosaic. Off-target ... Only four zygotes were edited with the single-stranded oligo as a repair template, while seven were repaired with the HBD gene ... After testing three guide RNAs to target the gene, the scientists injected one of them along with Cas9 mRNA, GFP mRNA, and a ... "This high rate of repair using endogenous sequences presents obvious obstacles to gene therapy strategies using CRISPR/Cas9, as ...
Conclusion: We assumed that the model constructed by DNA repair genes in this study could effectively predict the clinical ... In the training set, 13 DNA repair genes were screened using univariate proportional hazard (Cox) regression analysis and least ... In the training set, 13 DNA repair genes were screened out through univariate proportional hazard (Cox) regression analysis and ... ConclusionThis study constructed a 13-DNA-repair-gene signature for the prognosis of HNSCC, which could accurately and ...
Homology-independent gene editing points to therapies targeting brain, heart, other nondividing cells. ... Although this article described how HITI was paired with CRISPR/Cas9, it could also be combined with other targeted gene- ... HITI exploits the nonhomologous end-joining (NHEJ) pathway, not the usual homology-directed repair (HDR) pathway. NHEJ, unlike ... Animal modelsBiological therapyBlindnessCRISPRCRISPR-Cas9 technologyDisease modelsGene editingGene expressionGene therapy ( ...
... binds to the faulty genes DNA, creating a triple helix. This helical distortion activates the mutated cells repair response, ... Targeted Gene Editing Cures Blood Disorder in Fetal Mice The technique offers a potential new approach for early treatment of ... In utero injections with other gene editing tools are challenging, due to off-target damage." ... corrected a genetic mutation in a mammalian fetus using a targeted gene editing technique. The approach offers a potential new ...
... for that missing gene is created and the repaired genes are cloned. When they have amplified enough of the repaired genes, the ... For some current human health issues, there are new treatments targeted at specific faulty genes. Already approved treatments ... There are several versions of this type of repaired gene replacement therapy available. ... that your target relies on, and preventing them from reporting the bug?. Is this a bug or a feature? ...
... homeostasis in diseased neurons may protect optic nerve cells from being damaged and provide a new therapeutic target for ... Researchers pinpoint gene leading to childhood glaucoma. A genetic mutation in the thrombospondin-1 gene leads to the ... Optogenetic therapy bypasses traditional methods of repairing defective photoreceptors in the eye by targeting other retinal ... Therapeutic target may aid in glaucoma treatment By Elissa Wolfson, The Science Advisory Board assistant editor. March 13, 2023 ...
... were designed to target a region in the exon 3 of mRNF4 gene (5′-CACCGCCTCAAAGAAAGCGGCGTGG-3′), that in the exon 5 of hTAK1 ... promotes DNA double-strand break repair. Genes Dev. 2012, 26, 1179-1195. [Google Scholar] [CrossRef][Green Version] ... Genes Dev. 2012, 26, 1196-1208. [Google Scholar] [CrossRef][Green Version]. *Kumar, R.; González-Prieto, R.; Xiao, Z.; Verlaan- ... To determine the mutations of mRNF4, hTAK1 and mTAK1 in cloned cells, genomic sequence around the target region was analyzed by ...
Now, two new studies have tuned gene editing up a notch by enabling scientists to target and change a single letter in a string ... Senior author Feng Zhang says REPAIR has the ability to reverse the impact of any pathogenic G-to-A mutation regardless of its ... New CRISPR tools target RNA rather than DNA. They could fix typos responsible for half of all genetic diseases. Scientists ... Led by David Liu, the Harvard team presented a new gene editing technique called base editing in the journal Nature. If ...
3] performed targeted NGS on the same 34 known pathogenic genes in 18 southern Chinese families with congenital cataracts, and ... Library preparation included end repair, adaptor ligation, and PCR enrichment, which was performed as recommended by Illumina ... Gene ID 2301, OMIM 601094) p.60_61del, MIP (Gene ID 4284, OMIM 154050) p.V164fs, and HSF4 (Gene ID 3299, OMIM 602438) p.P492L. ... This study conducted targeted NGS of 34 candidate genes causing congenital cataracts and Sanger sequencing in 21 families with ...
... and harbor BRAF mutations and methylation of specific target genes, including mismatch repair genes. [7] ... Most of the mutant genes in these syndromes have been identified. Note the following:. * At the genetic level, familial ... This is an autosomal dominant disorder caused by truncating mutations in the adenomatous polyposis coli (APC) gene. ... for the mutant APC gene. Screening is particularly important because of the inevitable development of colon cancer in affected ...
DNA DAMAGE AND REPAIR (1) * Gene amplification (1) * DRUG TARGETS (1) * Cell surface receptor drug targets (1) ...
The way that this all-in-one repair kit works is that the team use the virus to bring into cells, proteins called nucleases ... Viruses have been used to deliver two types of nucleases into cells for targeted gene editing. ... So, in this case, we used a reporter gene, the GFP gene that has a mutation. We are trying to repair this particular mutation. ... Not going for repair. Just to see whether this protein has actually able to cut inside the genome. So, we can see what we call ...
A mechanism for the exclusion of low-fidelity human Y-family DNA polymerases from base excision repair. Genes Dev. 2003 Nov 15; ... Targets POLI to replication foci.[6] [7] [8] [9] [10] Publication Abstract from PubMed DNA synthesis has been extensively ... Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, ... DNA polymerase eta is an A-T mutator in somatic hypermutation of immunoglobulin variable genes. Nat Immunol. 2001 Jun;2(6):537- ...
Genes related to glial cells might be potent therapeutic targets for schizophrenia and other diseases, like Huntingtons ... Ascl1 alone appears to target a different set of genes-ones associated with mesodermal cell fate (which generate pericytes), ... In the subset of cells that do reprogram successfully, a set of genes was induced transiently, then downregulated. These genes ... To look for additional candidate genes, Zlámalová developed fluorescent markers for two other proteins, knocked own their genes ...
Recently, a new gene-editing technique CRISPR-Cas has become dominant in laboratory conditions. The first step in a targeted ... Gene editing techniques exploit the HDR to modify the DNA to the desired sequence.. Usually, it is the NHEJ that repairs the ... Recently, a new gene-editing technique CRISPR-Cas has become dominant in laboratory conditions. The first step in a targeted ... medical and health sciencesmedical biotechnologygenetic engineeringgene therapy. *natural sciencesbiological sciencesgenetics ...
That is still a target of massive research efforts. And the whole question of DNA repair is behind basic Cancer research. No ... He was indeed able to copy and paste a minimal set of genes (based on a framework of the smallest bacterial set known) and ... Even so, the minimal set of genes required for a viable bacterium is known to a reasonable estimation, it can be tinkered with ... "ven so, the minimal set of genes required for a viable bacterium is known to a reasonable estimation, it can be tinkered with ...
Molecular basis of gene expression. Transcription, copying genetic information into RNA, is the first step of gene expression. ... We are interested in mechanistic and catalytic details of functioning of TAs and the outcomes of their action for their targets ... such as translation in prokaryotes or replication and repair in all organisms. Regulation of these interactions is pivotal for ... "Biochemistry and Drug Targets" (BGM2037), "Proteins and Enzymes" (BGM2060), "Medical Microbiology" (MIC2026) and Molecular ...
New Oncologica study explains how genetic sequencing empowers patients and doctors to make better targeted therapy decisions to ... 166 actionable mutations were detected across 36 genes linked to 17 off label targeted therapy protocols and 111 clinical ... of glioblastoma patients because of alterations in DNA-damage repair genes. * The study shows that semiconductor sequencing for ... The latest targeted cancer medicines offer great advantages over standard therapeutic approaches as they directly attack the ...
Fusions in RAF genes and mutually exclusive inactivation of DNA repair genes represent novel potential therapeutic targets that ... PACCs lacking RAF rearrangements were significantly enriched for genomic alterations, causing inactivation of DNA repair genes ... "Fusion-negative" tumors were significantly enriched for deficiencies in DNA repair genes (45%). These results confirm that ... in DNA repair genes were observed in 45% of PACCs, including mixed and pure histologies (Fig. 4B). These alterations were ...
Port of L.A.s Gene Seroka Sees Labor Deal Coming Early Next Year. ... Georgia Ports Authority Targets Container Capacity, Replacing Talmadge Bridge. Talmadge Memorial Bridge across the Savannah ...
Target Information This gene encodes a homolog to the E. coli alkB gene product. The E. coli alkB protein is part of the ... Protein Aliases: alkB, alkylation repair homolog 1; Alkylated DNA repair protein alkB homolog 1; alkylation repair, alkB ... DNA dealkylation involved in DNA repair regulation of gene expression neuron projection development RNA repair negative ... Entrez Gene ID: (Human) 8846, (Rat) 362766, (Mouse) 211064 Molecular Function: DNA metabolism protein nucleic acid metabolism ...
Target, delete, repair CRISPR is a revolutionary gene-editing tool, but its not without risk ...
Target Information This gene encodes an essential enzyme of nucleotide metabolism. The encoded protein forms a ubiquitous, ... This repair process, resulting in the removal and reincorporation of dUTP, is self-defeating and leads to DNA fragmentation and ... Alternative splicing of this gene leads to different isoforms that localize to either the mitochondrion or nucleus. A related ... Elevated levels of dUTP lead to increased incorporation of uracil into DNA, which induces extensive excision repair mediated by ...

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