Pyrosequencing is emerging as one of the important next-generation sequencing technologies. We derive the statistical distributions of this technique in terms of nucleotide probabilities of the target sequences. We give exact distributions both for fixed number of flow cycles and for fixed sequence length. Explicit formulas are derived for the mean and variance of these distributions. In both c...

Initial environmental pyrosequencing studies suggested highly complex protistan communities with phylotype richness decisively higher than previously estimated. However, recent studies on individual bacteria or artificial bacterial communities evidenced that pyrosequencing errors may skew our view of the true complexity of microbial communities. We pyrosequenced two diversity markers (hypervari...

OBJECTIVE This study investigated whether pyrosequencing can be used to determine the methylation status of the MGMT promoter as a clinical biomarker using relatively old archival tissue samples of glioblastoma. We also examined other prognostic factors for survival of glioblastoma patients. METHODS The available study set included formalin-fixed paraffin-embedded (FFPE) tissue from 104 patie...

objective: to determine the role of global genome methylation in gastritis lesion and its relation with clinicopathologic finding. materials and methods: the study was conducted on 44 gastritis and normal adjacent specimens using a technique composed of restriction enzyme digestion and pyrosequencing known as luma (luminometric methylation assay). at first, dna extracted from gastritis lesion a...

Swiss Saanen goat is a widespread breed frequently found in commercial herds across the world. The present study aimed to identify the rumen microbial community of exotic Saanen goats adapted to a fibrous diet using barcoded pyrosequencing. Rumen content samples were collected from the four animals via a stomach tube after the morning graze and freeze-dried for DNA extraction. Bacterial and arc...

Single-nucleotide polymorphisms (SNPs) are the most frequent DNA sequence variations, and they have become increasingly popular markers for association studies. Allelic discrimination of the mostly binary SNPs has been reported for diploid species, mainly the human, but not for polyploid genomes such as the agriculturally important crops. In the present study, we analyzed the applicability of p...

DNA methylation of CpG sites in promoter regions of several cancer related genes, such as O6-MGMT, hMLH1, p14ARF, p16INK4a, RASSF1A and APC1A, has been actively explored recently. Much of the data has been obtained using a variation of an allele-specific PCR assay known as methylation specific PCR. This technique is objectionable for a number of methodological limitations and drawbacks. We want...

BACKGROUND Massively parallel pyrosequencing of amplicons from the V6 hypervariable regions of small-subunit (SSU) ribosomal RNA (rRNA) genes is commonly used to assess diversity and richness in bacterial and archaeal populations. Recent advances in pyrosequencing technology provide read lengths of up to 240 nucleotides. Amplicon pyrosequencing can now be applied to longer variable regions of t...

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The applications of traditional morphological and molecular methods for species identification are greatly restricted by processing speed and on a regional or greater scale are generally considered unfeasible. In this context, high-throughput sequencing, or metagenetics, has been proposed as an efficient tool to document biodiversity. Here we evaluated the effectiveness of 454 pyrosequencing in...