A perfluorocarbon nanodroplet formulation is shown to be an effective cavitation enhancement agent, enabling rapid and consistent fragmentation of genomic DNA in a standard ultrasonic water bath. This nanodroplet-enhanced method produces genomic DNA libraries and next-generation sequencing results indistinguishable from DNA samples fragmented in dedicated commercial acoustic sonication equipmen...

Multiplex SNP discrimination in the multiple codons of the genomic DNA is demonstrated by applying controller DNA technology (CDT) to MDR-TB 9G DNAChips. CDT allowed the efficient detection of 20 SNPs in five codons of the genomic DNA in 40 min. CDT could distinguish SNP targets to as low as 1 copy of the genomic DNA. 100% agreement with the sequencing analysis of clinical samples highlighted t...

Abstract Epigenetic genome engineering expands our capabilities from modifying the DNA sequence to controlling its regulation. It provides ability change epigenetic marks at defined genomic loci control gene expression without need for an intervention in genetic code. This short review touches on current approaches of editing with a focus long-term silencing.

Although there is evidence that the toxic effects of cis-diamminedichloroplatinum(II) (cisplatin) include morphologically abnormal mitochondria, direct demonstrations of mitochondrial DNA damage by this chemotherapeutic agent have rarely been reported. Here we show that, in rats exposed to a single dose of cisplatin during gestation, cisplatin-DNA binding levels in both maternal and fetal liver...

We describe a simple PCR-based method for the isolation of genomic DNA that lies adjacent to a known DNA sequence. The method is based on the directional cloning of digested genomic DNA into the multiple cloning site of a pUC-based plasmid to generate a limited genomic library. The library is plated onto a number of selective LA plates which are incubated overnight, and recombinant plasmid DNA ...

Genetic analysis of limiting quantities of genomic DNA play an important role in DNA forensics, paleoarcheology, genetic disease diagnosis, genetic linkage analysis, and genetic diversity studies. We have tested the ability of degenerate oligonucleotide primed polymerase chain reaction (DOP-PCR) to amplify picogram quantities of human genomic DNA for the purpose of increasing the amount of temp...

The isolation of intact, high-molecular mass genomic DNA is essential for many molecular biology applications including PCR, endonuclease digestion, southern blot analysis, and genomic library construction. Many protocols are available for the extraction of genomic DNA from plant tissue, and all the protocols have used expensive and hazardous chemical-liquid nitrogen for grinding plant material...

PrimPol is a human deoxyribonucleic acid (DNA) polymerase that also possesses primase activity and is involved in DNA damage tolerance, the prevention of genome instability and mitochondrial DNA maintenance. In this review, we focus on recent advances in biochemical and crystallographic studies of PrimPol, as well as in identification of new protein-protein interaction partners. Furthermore, we...

The identification of methylated sites on bacterial genomic DNA would be a useful tool to study the major roles of DNA methylation in prokaryotes: distinction of self and nonself DNA, direction of post-replicative mismatch repair, control of DNA replication and cell cycle, and regulation of gene expression. Three types of methylated nucleobases are known: N6-methyladenine, 5-methylcytosine and ...

A growing area of epigenetics research focuses on changes in gene expression that occur without altering the primary sequence, exclusively based on DNA, RNA, or protein modifications. Epigenetic modifications have been shown to change based on nutrition and environmental factors, and have been implicated in human diseases such as cancer and aging. In some cases, epigenetic changes are heritable...