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Stephen R Doyle et al.
BMC biotechnology, 11, 83-83 (2011-08-31)
Many SNP discrimination strategies employ natural restriction endonucleases to discriminate between allelic states. However, SNPs are often not associated with a restriction site and therefore, a number of attempts have been made to generate sequence-adaptable restriction endonucleases. In this study
Larissa A Balabanova et al.
Marine biotechnology (New York, N.Y.), 14(1), 87-95 (2011-06-08)
An extracellular nuclease was purified 165-fold with a specific activity of 41,250 U/mg poly(U) by chromatography with modified chitosan from the culture of marine fungus Penicillium melinii isolated from colonial ascidium collected near Shikotan Island, Sea of Okhotsk, at a
Nicole M Nichols
Current protocols in molecular biology, Chapter 3, Unit3-Unit3 (2011-01-13)
Reaction conditions for a variety of endonucleases are detailed in this unit along with discussions of potential applications. Enzymes covered include BAL 31 nuclease, S1 nuclease, mung bean nuclease, micrococcal nuclease, and DNase I. A general discussion regarding the use
Hitesh S Chaouhan et al.
Journal of biochemical and molecular toxicology, 35(8), e22819-e22819 (2021-06-01)
Hexavalent chromium [Cr(VI)] is a genotoxic chemical, and in the chemical-exposed organism, oxidative stress is one of the leading causative mechanisms of genotoxicity. Heat shock protein-70 (Hsp70) is reported to be modulated in environmental chemical exposed organisms. Inadequate information on
Yong Feng et al.
RNA (New York, N.Y.), 18(11), 2083-2092 (2012-09-18)
Dicer cleaves double-stranded RNAs (dsRNAs) or precursor microRNAs (pre-miRNAs) to yield ≈ 22-nt RNA duplexes. The pre-miRNA structure requirement for human Dicer activity is incompletely understood. By large-scale in vitro dicing assays and mutagenesis studies, we showed that human Dicer
T E Shenk et al.
Proceedings of the National Academy of Sciences of the United States of America, 72(3), 989-993 (1975-03-01)
S1 nuclease (EC 3.1.4.X), a single-strand-specific nuclease, can be used to accurately map the location of mutational alterations in simian virus 40 (SV40) DNA. Deletions of between 32 and 190 base pairs, which are at or below the limit of
Rong-Zhen Liao et al.
Inorganic chemistry, 49(15), 6883-6888 (2010-07-08)
Nuclease P1 is a trinuclear zinc enzyme that catalyzes the hydrolysis of single-stranded DNA and RNA. Density functional calculations are used to elucidate the reaction mechanism of this enzyme with a model of the active site designed on the basis
Tiziana Cervelli et al.
PloS one, 6(8), e23474-e23474 (2011-08-20)
Adeno-associated virus (AAV)-based vectors are promising tools for targeted transfer in gene therapy studies. Many efforts have been accomplished to improve production and purification methods. We thought to develop a simple eukaryotic system allowing AAV replication which could provide an
Joachim Kloehn et al.
Methods in molecular biology (Clifton, N.J.), 2116, 587-609 (2020-03-30)
This protocol describes the use of heavy water (2H2O) labeling to determine the growth rate and metabolic state of Leishmania parasites in culture and in infected animals. In vitro labeling studies are undertaken by cultivating defined parasite developmental stages in
Gerard Mazón et al.
Nature structural & molecular biology, 19(9), 964-971 (2012-08-14)
Holliday junctions can be formed during homology-dependent repair of DNA double-strand breaks, and their resolution is essential for chromosome segregation and generation of crossover products. The Mus81-Mms4 and Yen1 nucleases are required for mitotic crossovers between chromosome homologs in Saccharomyces
Dai Kato et al.
Analytical chemistry, 83(20), 7595-7599 (2011-09-13)
We describe the electrochemical detection of DNA methylation through the direct oxidation of both 5-methylcytosine (mC) and cytosine (C) in 5'-CG-3' sequence (CpG) oligonucleotides using a sputtered nanocarbon film electrode after digesting a longer CpG oligonucleotide with endonuclease P1. Direct
Purification and further properties of single-strand-specific nuclease from Aspergillus oryzae.
V M Vogt
European journal of biochemistry, 33(1), 192-200 (1973-02-15)
Shao-Yi Hou et al.
Talanta, 99, 375-379 (2012-09-13)
In this study, the tested microRNA and the detection probe perfectly match with the capture probe instead of the traditional sandwich methods in which the tested oligonucleotide matches with the detection and capture probes. To avoid non-specific signals, mung-bean nuclease
S1 nuclease from Aspergillus oryzae for the detection of DNA damage and repair in the gamma-irradiated intracerebral rat gliosarcoma 9L.
P H Gutin et al.
Radiation research, 72(1), 100-106 (1977-10-01)
Ning Tsao et al.
Molecular cell, 81(20), 4228-4242 (2021-10-24)
Central to genotoxic responses is their ability to sense highly specific signals to activate the appropriate repair response. We previously reported that the activation of the ASCC-ALKBH3 repair pathway is exquisitely specific to alkylation damage in human cells. Yet the
A crude nuclease preparation suitable for use in DNA reassociation experiments.
W D Sutton
Biochimica et biophysica acta, 240(4), 522-531 (1971-07-29)
Siu-Hong Chan et al.
Nucleic acids research, 39(1), 1-18 (2010-09-02)
Restriction endonucleases (REases) are highly specific DNA scissors that have facilitated the development of modern molecular biology. Intensive studies of double strand (ds) cleavage activity of Type IIP REases, which recognize 4-8 bp palindromic sequences, have revealed a variety of mechanisms
Meiying Liu et al.
Biosensors & bioelectronics, 26(11), 4294-4300 (2011-05-25)
We report here an optical approach that enables highly selective and colorimetric single-base mismatch detection without the need of target modification, precise temperature control or stringent washes. The method is based on the finding that nucleoside monophosphates (dNMPs), which are
Gary Rowley et al.
Microbiology (Reading, England), 157(Pt 3), 848-858 (2010-12-15)
The alternative sigma factor σ(E) (rpoE) is essential for survival in vivo of Salmonella Typhimurium but is dispensable during growth in the laboratory. We have been identifying σ(E)-regulated genes and studying their regulation and function to elucidate their potential role
M A Chaudhry et al.
Nucleic acids research, 23(19), 3805-3809 (1995-10-11)
Defined DNA substrates containing discrete abasic sites or paired abasic sites set 1, 3, 5 and 7 bases apart on opposite strands were constructed to examine the reactivity of S1, mung bean and P1 nucleases towards abasic sites. None of
Yuanyuan Pan et al.
BMC microbiology, 11, 164-164 (2011-07-21)
sabR is a pleiotropic regulatory gene which has been shown to positively regulate the nikkomycin biosynthesis and negatively affect the sporulation of Streptomyces ansochromogenes. In this study, we investigate the mechanism of SabR on modulating nikkomycin production in Streptomyces ansochromogenes.
Xinjian Yang et al.
Chemical communications (Cambridge, England), 47(28), 8133-8135 (2011-06-02)
We have demonstrated a DNA-templated small molecule ensemble that allows the label-free fluorescence turn-on detection of enzymatic or oxidative cleavage of single-stranded DNA with high sensitivity and selectivity.
Michele Menotta et al.
The Journal of biological chemistry, 287(49), 41352-41363 (2012-10-12)
Ataxia telangiectasia (AT) is a rare genetic disease, still incurable, resulting from biallelic mutations in the ataxia telangiectasia-mutated (ATM) gene. Recently, short term treatment with glucocorticoid analogues improved neurological symptoms characteristic of this syndrome. Nevertheless, the molecular mechanism involved in
Rebecca Rodell et al.
Methods in molecular biology (Clifton, N.J.), 2444, 125-140 (2022-03-16)
Physiological and chemically induced modifications to nucleosides are common in both DNA and RNA. Physiological forms of these modifications play critical roles in gene expression, yet aberrant marks, if left unrepaired, may be associated with increased genome instability. Due to
Gerard Mazón et al.
Molecular cell, 52(1), 63-74 (2013-10-15)
Homology-dependent repair of double-strand breaks (DSBs) from nonsister templates has the potential to generate loss of heterozygosity or genome rearrangements. Here we show that the Saccharomyces cerevisiae Mph1 helicase prevents crossovers between ectopic sequences by removing substrates for Mus81-Mms4 or
Anna Schrempf et al.
Cell reports, 41(9), 111716-111716 (2022-11-19)
Polymerase theta (POLθ) is an error-prone DNA polymerase whose loss is synthetically lethal in cancer cells bearing breast cancer susceptibility proteins 1 and 2 (BRCA1/2) mutations. To investigate the basis of this genetic interaction, we utilized a small-molecule inhibitor targeting
Robert Busch et al.
Nature protocols, 2(12), 3045-3057 (2007-12-15)
DNA replication occurs almost exclusively during S-phase of the cell cycle and represents a simple biochemical metric of cell division. Previous methods for measuring cell proliferation rates have important limitations. Here, we describe experimental protocols for measuring cell proliferation and
Brian W Graham et al.
Nucleic acids research, 39(15), 6585-6595 (2011-05-18)
The minichromosome maintenance (MCM) helicase complex is essential for the initiation and elongation of DNA replication in both the eukaryotic and archaeal domains. The archaeal homohexameric MCM helicase from Sulfolobus solfataricus serves as a model for understanding mechanisms of DNA
A nuclease specific for heat-denatured DNA in isolated from a product of Aspergillus oryzae.
T Ando
Biochimica et biophysica acta, 114(1), 158-168 (1966-01-18)
Matthias John et al.
Methods in molecular biology (Clifton, N.J.), 721, 173-182 (2011-03-25)
Mammalian host cells and their viral pathogens express and make use of short noncoding RNA molecules to control the infectious cycle. In order to understand their physiological role, it is necessary to develop tools for detection and quantification of these
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