scholarly journals Totally Mutant Telomeres: Single-Step Mutagenesis of Tandem Repeat DNA Sequences

BioTechniques ◽  
2001 ◽  
Vol 30 (5) ◽  
pp. 934-938 ◽  
Author(s):  
Dana Hager Underwood ◽  
Michael J. McEachern
Keyword(s):  
Tandem Repeat ◽  
Dna Sequences ◽  
Single Step ◽  
Repeat Dna

Structural properties of the DNA-bound form of a novel tandem repeat DNA-binding domain, STPR

2008 ◽  
Vol 72 (1) ◽  
pp. 414-426 ◽  
Author(s):  
Shin Saito ◽  
Takuya Yokoyama ◽  
Tomoyasu Aizawa ◽  
Kyosuke Kawaguchi ◽  
Takeshi Yamaki ◽  
...  
Keyword(s):  
Dna Binding ◽  
Structural Properties ◽  
Tandem Repeat ◽  
Binding Domain ◽  
Dna Binding Domain ◽  
Repeat Dna

Differential distribution and association of repeat DNA sequences in the lateral element of the synaptonemal complex in rat spermatocytes

Chromosoma ◽  
2007 ◽  
Vol 117 (1) ◽  
pp. 77-87 ◽  
Author(s):  
Abrahan Hernández-Hernández ◽  
Héctor Rincón-Arano ◽  
Félix Recillas-Targa ◽  
Rosario Ortiz ◽  
Christian Valdes-Quezada ◽  
...  
Keyword(s):  
Synaptonemal Complex ◽  
Dna Sequences ◽  
Differential Distribution ◽  
Lateral Element ◽  
Repeat Dna

Inheritance of Chromosomally Integrated Human Herpesvirus 6 DNA

Blood ◽  
1999 ◽  
Vol 94 (5) ◽  
pp. 1545-1549 ◽  
Author(s):  
Masanori Daibata ◽  
Takahiro Taguchi ◽  
Yuiko Nemoto ◽  
Hirokuni Taguchi ◽  
Isao Miyoshi
Keyword(s):  
Dna Sequences ◽  
Viral Genome ◽  
Family Members ◽  
Human Herpesvirus ◽  
Single Step ◽  
Human Herpesvirus 6 ◽  
Viral Genomes ◽  
Herpesvirus 6

Abstract Human herpesvirus 6 (HHV-6) genome has been detected in several human lymphoproliferative disorders with no signs of active viral infection, and found to be integrated into chromosomes in some cases. We previously reported a woman with HHV-6–infected Burkitt’s lymphoma. Fluorescence in situ hybridization showed that the viral genome was integrated into the long arm of chromosome 22 (22q13). The patient’s asymptomatic husband also carried HHV-6 DNA integrated at chromosome locus 1q44. To assess the possibility of chromosomal transmission of HHV-6 DNA, we looked for HHV-6 DNA in the peripheral blood of their daughter. She had HHV-6 DNA on both chromosomes 22q13 and 1q44, identical to the site of viral integration of her mother and father, respectively. The findings suggested that her viral genomes were inherited chromosomally from both parents. The 3 family members were all seropositive for HHV-6, but showed no serological signs of active infection. To confirm the presence of HHV-6 DNA sequences, we performed polymerase chain reaction (PCR) with 7 distinct primer pairs that target different regions of HHV-6. The viral sequences were consistently detected by single-step PCR in all 3 family members. We propose a novel latent form for HHV-6, in which integrated viral genome can be chromosomally transmitted. The possible role of the chromosomally integrated HHV-6 in the pathogenesis of lymphoproliferative diseases remains to be explained.

Dispersity of repeat DNA sequences in Oncopeltus fasciatus, an organism with diffuse centromeres

Chromosoma ◽  
1973 ◽  
Vol 43 (4) ◽  
pp. 349-373 ◽  
Author(s):  
J. M. Lagowski ◽  
Mei -Ying Wong Yu ◽  
H. S. Forrest ◽  
Charles D. Laird
Keyword(s):  
Dna Sequences ◽  
Oncopeltus Fasciatus ◽  
Repeat Dna

scholarly journals Monopolin recruits condensin to organize centromere DNA and repetitive DNA sequences

2013 ◽  
Vol 24 (18) ◽  
pp. 2807-2819 ◽  
Author(s):  
Laura S. Burrack ◽  
Shelly E. Applen Clancey ◽  
Jeremy M. Chacón ◽  
Melissa K. Gardner ◽  
Judith Berman
Keyword(s):  
Chromosome Segregation ◽  
Repetitive Dna ◽  
Dna Sequences ◽  
Meiotic Chromosome ◽  
Higher Order ◽  
Order Structure ◽  
Cross Link ◽  
Microtubule Attachment ◽  
Sister Chromatids ◽  
Repeat Dna

The establishment and maintenance of higher-order structure at centromeres is essential for accurate chromosome segregation. The monopolin complex is thought to cross-link multiple kinetochore complexes to prevent merotelic attachments that result in chromosome missegregation. This model is based on structural analysis and the requirement that monopolin execute mitotic and meiotic chromosome segregation in Schizosaccharomyces pombe, which has more than one kinetochore–microtubule attachment/centromere, and co-orient sister chromatids in meiosis I in Saccharomyces cerevisiae. Recent data from S. pombe suggest an alternative possibility: that the recruitment of condensin is the primary function of monopolin. Here we test these models using the yeast Candida albicans. C. albicans cells lacking monopolin exhibit defects in chromosome segregation, increased distance between centromeres, and decreased stability of several types of repeat DNA. Of note, changing kinetochore–microtubule copy number from one to more than one kinetochore–microtubule/centromere does not alter the requirement for monopolin. Furthermore, monopolin recruits condensin to C. albicans centromeres, and overexpression of condensin suppresses chromosome segregation defects in strains lacking monopolin. We propose that the key function of monopolin is to recruit condensin in order to promote the assembly of higher-order structure at centromere and repetitive DNA.

scholarly journals OSTRFPD: Multifunctional Tool for Genome-Wide Short Tandem Repeat Analysis for DNA, Transcripts, and Amino Acid Sequences with Integrated Primer Designer

2019 ◽  
Vol 15 ◽  
pp. 117693431984313
Author(s):  
Vivek Bhakta Mathema ◽  
Arjen M Dondorp ◽  
Mallika Imwong
Keyword(s):  
Tandem Repeat ◽  
Short Tandem Repeat ◽  
Tandem Repeats ◽  
Gc Content ◽  
Plasmodium Species ◽  
Single Step ◽  
Amino Acid Sequences ◽  
Practical Implementation ◽  
Genome Wide ◽  
Short Tandem

Microsatellite mining is a common outcome of the in silico approach to genomic studies. The resulting short tandemly repeated DNA could be used as molecular markers for studying polymorphism, genotyping and forensics. The omni short tandem repeat finder and primer designer (OSTRFPD) is among the few versatile, platform-independent open-source tools written in Python that enables researchers to identify and analyse genome-wide short tandem repeats in both nucleic acids and protein sequences. OSTRFPD is designed to run either in a user-friendly fully featured graphical interface or in a command line interface mode for advanced users. OSTRFPD can detect both perfect and imperfect repeats of low complexity with customisable scores. Moreover, the software has built-in architecture to simultaneously filter selection of flanking regions in DNA and generate microsatellite-targeted primers implementing the Primer3 platform. The software has built-in motif-sequence generator engines and an additional option to use the dictionary mode for custom motif searches. The software generates search results including general statistics containing motif categorisation, repeat frequencies, densities, coverage, guanine–cytosine (GC) content, and simple text-based imperfect alignment visualisation. Thus, OSTRFPD presents users with a quick single-step solution package to assist development of microsatellite markers and categorise tandemly repeated amino acids in proteome databases. Practical implementation of OSTRFPD was demonstrated using publicly available whole-genome sequences of selected Plasmodium species. OSTRFPD is freely available and open-sourced for improvement and user-specific adaptation.

Sign in / Sign up

Export Citation Format

Share Document