Matrix-assisted laser desorption/ionization for short tandem repeat loci

Abstract

Matrix-assisted laser desorption/ionization was used for the detection of four base short tandem repeats (STR) for clinical samples using a time-of-flight mass spectrometer. Since STR plays an important role in genetic disease and human identification, this work indicates that laser desorption mass spectrometry has the potential to achieve rapid DNA typing for both forensic applications and genetic disease diagnosis.

Fragmentation pathway studies of oligonucleotides in matrix-assisted laser desorption/ionization mass spectrometry by charge tagging and H/D exchange

“…To date, Tang et al [5] and Liu et al [6] have reported the analysis of PCR products ϳ500 to 600 bases using UV-MALDI (at 337/355 nm), and Hillenkamp and co-workers extended the upper limit of DNA and RNA analyses up to ϳ2180 bases using IR-MALDI [7]. Applications such as analyzing short tandem repeats [8], gene-defect diseases [9 -11], and genotyping of single nucleotide polymorphisms [12] have been attempted. Despite these successes, oligonucleotide analysis by MALDI-MS has been limited primarily by the low ion abundances of larger oligonucleotides.…”

Trends in DNA forensic analysis

“…Indeed, there is no need for internal standards and allelic ladders as the actual mass of a DNA molecule is determined by MALDI-TOF method. Several researchers have reported progress in forensic STR analysis made by MALDI-TOF [80][81][82][83][84]. Ross and Belgrader [80] have reported a successful analysis of STR loci (COL1A, TPO1 and TPOX) present in subpicomole amounts.…”

Tandem mass spectrometric de novo sequencing of oligonucleotides using simulated annealing for stochastic optimization

“…Principally, mass spectrometric sequencing is based on the measurement of characteristic mass differences between sequence ladders. These informative ladders can either be produced prior to the mass spectrometric analysis via chemical or enzymatic reactions [11][12][13][14][15][16][17][18][19][20][21] or in the course of tandem mass spectrometric experiments via gas-phase fragmentation of oligonucleotide ions [22][23][24][25][26][27][28][29][30][31][32]. The principles of tandem mass spectrometry (MS/MS) of oligonucleotides have been extensively studied and reviewed [33].…”