Tandem repetitive DNA is highly abundant in eukaryotic genomes and contributes to transcription control and genome stability. However, how the individual sequences within tandem repeats behave remains largely unknown. Here we develop a collection of fission yeast strains with a reporter gene inserted at different units in a tandem repeat array. We show that, contrary to what is usually assumed,...

The genotypes of Mycobacterium leprae isolates originating from Mexico, Peru and Paraguay were analysed for the polymorphism of short tandem repeats in the rpoT gene. The genotype with four copies of the six-base tandem repeats in the rpoT gene was prominently predominant in Mexico, but the genotype of all isolates from Peru and Paraguay contained three copies of the six-base tandem repeats. Th...

Direct sequencing of the mitochondrial displacement loop (D-loop) of shrews (genus Sorex) for the region between the tRNA(Pro) and the conserved sequence block-F revealed variable numbers of 79-bp tandem repeats. These repeats were found in all 19 individuals sequenced, representing three subspecies and one closely related species of the masked shrew group (Sorex cinereus cinereus, S. c. miscix...

Objective(s): Short tandem repeat (STR) loci are the most informative DNA genetic markers for attempting to individualize biological material for application in paternity and forensic cases. Materials and Methods: Blood samples were collected and the total genomic DNA was extracted. The DNA samples were used for genotyping VWA and TPOX STR loci using PCR and polyacrylamide gel electrophoresis. ...

Simple sequence repeats (SSRs) are ubiquitous short tandem repeats, which are associated with various regulatory mechanisms and have been found in viral genomes. Herein, we develop MfSAT (Multi-functional SSRs Analytical Tool), a new powerful tool which can fast identify SSRs in multiple short viral genomes and then automatically calculate the numbers and proportions of various SSR types (mono-...

Motivation: Genomes are replete with short sequences repeated consecutively called tandem repeats. Reconstructing duplication histories for tandem repeats may yield valuable insights into their functions and the biological mechanisms of tandem repeat creation and extension. Results: We study the generalized neighbor-joining approaches for reconstructing tandem duplication history. We develop a ...

Motivation: Genomes are replete with short sequences repeated consecutively called tandem repeats. Reconstructing duplication histories for tandem repeats may yield valuable insights into their functions and the biological mechanisms of tandem repeat creation and extension. Results: we design and implement a set of heuristic algorithms for reconstructing tandem duplication history with neighbor...

Objective: Short tandem repeats (STRs) have been widely used in human identification forensics. Evaluation and design of new markers are useful tools to obtain additional information complete conventional analysis. Also, it will be an alternative way confirm the results problematic cases (complex kinship, degraded samples, etc.). Increasing number loci result reducing risk adventitious matches ...