satDNA Analyzer 1.2 as a Valuable Computing Tool for Evolutionary Analysis of Satellite-DNA Families: Revisiting Y-Linked Satellite-DNA Sequences of Rumex (Polygonaceae)

2007 ◽  
pp. 131-139
Author(s):  
Rafael Navajas-Pérez ◽  
Manuel Ruiz Rejón ◽  
Manuel Garrido-Ramos ◽  
José Luis Aznarte ◽  
Cristina Rubio-Escudero
Keyword(s):  
Dna Sequences ◽  
Satellite Dna ◽  
Evolutionary Analysis

The genomics of long tandem arrays of satellite DNA in the human genome

Genome ◽  
1989 ◽  
Vol 31 (2) ◽  
pp. 737-744 ◽  
Author(s):  
Huntington F. Willard
Keyword(s):  
Human Genome ◽  
Dna Sequences ◽  
Satellite Dna ◽  
Hierarchical Organization ◽  
Chromosomal Mapping ◽  
Genetic Linkage Analysis ◽  
Evolutionary Analysis ◽  
Range Restriction ◽  
And Behavior

At least 10% of DNA in the human genome consists of long arrays of repeated sequences, arranged in tandem head-to-tail arrays in a number of discrete, highly localized chromosomal regions. Different families of these so-called "satellite DNA" sequences have been defined, organized in diverged subsets on different chromosomes. The molecular, cytogenetic, and evolutionary analysis of the hierarchical organization of such sequences in the human and other complex genomes encompasses a variety of approaches, including chromosomal mapping, in situ hybridization, genetic linkage analysis, long-range restriction mapping, and DNA sequencing. Investigation of the organization of satellite arrays constitutes a necessary first step towards eventual elucidation of the origin, evolution, and maintenance of these sequences and their contribution to the structure and behavior of human chromosomes.Key words: human genome, satellite DNA, chromosomes, genome analysis.

scholarly journals Transcription termination and processing of transcripts from tRNA-related Xenopus satellite DNA sequences

1987 ◽  
Vol 164 (2) ◽  
pp. 287-293 ◽  
Author(s):  
Wolfgang MEYERHOF ◽  
Burghardt WITTIG ◽  
Beatrix TAPPESER ◽  
Walter KNOCHEL
Keyword(s):  
Dna Sequences ◽  
Satellite Dna ◽  
Transcription Termination

scholarly journals Phylogenetic and molecular evolutionary analysis of SENV DNA isolated from Iraqi Hepatitis Patients

Bionatura ◽  
2021 ◽  
Vol 6 (4) ◽  
pp. 2251-2255
Author(s):  
Arwa Mujahid Al-Shuwaikh ◽  
Ealaf Abbas khudair ◽  
Dalya Basil Hanna
Keyword(s):  
Dna Sequences ◽  
Genetic Alterations ◽  
Torque Teno Virus ◽  
Nucleotide Sequencing ◽  
Evolutionary Analysis ◽  
Dna Viruses ◽  
Post Transfusion Hepatitis ◽  
Substitution Mutations ◽  
Sen Virus ◽  
Molecular Evolutionary Analysis

SEN Virus (SENV) is a newly discovered group of transmissible, hepatotropic, single-stranded, circular, non-enveloped DNA viruses that are distantly linked to the widely distributed Torque Teno Virus (TTV) family. This research aimed to use nucleotide sequencing to identify the genetic alterations of SEN-V and to investigate the similarities between isolates. Seven DNA samples of SENV, which were previously extracted from blood of post transfusion hepatitis, were used to identify the genetic variation of SEN-V by nucleotide sequencing. According to the current analysis results, specific primer pairs were used to detect SENV DNA sequences isolated from Iraqi patients with hepatitis; however, those specific primers can also detect two new variants of SENV that are closely related to the Torque Teno Virus. In addition, four SENV isolates showed several substitution mutations, and one of them revealed the replacement of Proline (P) at position 11 with Serine (S). Only one local isolate of SENV was 100% identical to the Iranian isolate (GenBank acc. no. GQ452051.1) from thalassemia.

Epigenetic control of mammalian centromere protein binding: does DNA methylation have a role?

1996 ◽  
Vol 109 (9) ◽  
pp. 2199-2206
Author(s):  
A.R. Mitchell ◽  
P. Jeppesen ◽  
L. Nicol ◽  
H. Morrison ◽  
D. Kipling
Keyword(s):  
Dna Sequences ◽  
Satellite Dna ◽  
Inbred Mouse ◽  
Inbred Mouse Strain ◽  
Chromosome 1 ◽  
Satellite Sequences ◽  
E Protein ◽  
Minor Satellite ◽  
Internal Block ◽  
Terminal Block

Chromosome 1 of the inbred mouse strain DBA/2 has a polymorphism associated with the minor satellite DNA at its centromere. The more terminal block of satellite DNA sequences on this chromosome acts as the centromere as shown by the binding of CREST ACA serum, anti-CENP-B and anti-CENP-E polyclonal sera. Demethylation of the minor satellite DNA sequences accomplished by growing cells in the presence of the drug 5-aza-2′-deoxycytidine results in a redistribution of the CENP-B protein. This protein now binds to an enlarged area on the more terminal block and in addition it now binds to the more internal block of minor satellite DNA sequences on chromosome 1. The binding of the CENP-E protein does not appear to be affected by demethylation of the minor satellite sequences. We present a model to explain these observations. This model may also indicate the mechanism by which the CENP-B protein recognises specific sites within the arrays of minor satellite DNA on mouse chromosomes.

Chromatin organization in the homogeneously staining regions of a methotrexate-resistant mouse cell line: interspersion of inactive and active chromatin domains distinguished by acetylation of histone H4

1996 ◽  
Vol 109 (9) ◽  
pp. 2221-2228 ◽  
Author(s):  
L. Nicol ◽  
P. Jeppesen
Keyword(s):  
Cell Line ◽  
Dna Sequences ◽  
Satellite Dna ◽  
Mouse Cell ◽  
Histone H4 ◽  
Active Chromatin ◽  
Chromatin Domains ◽  
Resistant Mouse ◽  
Major Satellite ◽  
Drosophila Heterochromatin

We have analyzed the organization of the homogeneously staining regions (HSRs) in chromosomes from a methotrexate-resistant mouse melanoma cell line. Fluorescence in situ hybridization techniques were used to localize satellite DNA sequences and the amplified copies of the dihydrofolate reductase (DHFR) gene that confer drug-resistance, in combination with immunofluorescence using antibody probes to differentiate chromatin structure. We show that the major DNA species contained in the HSRs is mouse major satellite, confirming previous reports, and that this is interspersed with DHFR DNA in an alternating tandem array that can be resolved at the cytological level. Mouse minor satellite DNA, which is normally located at centromeres, is also distributed along the HSRs, but does not appear to interfere with centromere function. The blocks of major satellite DNA are coincident with chromatin domains that are labelled by an autoantibody that recognizes a mammalian homologue of Drosophila heterochromatin-associated protein 1, shown previously to be confined to centric heterochromatin in mouse. An antiserum that specifically recognizes acetylated histone H4, a marker for active chromatin, fails to bind to the satellite DNA domains, but labels the intervening segments containing DHFR DNA. We can find no evidence for the spreading of the inactive chromatin domains into adjacent active chromatin, even after extended passaging of cells in the absence of methotrexate selection.

Satellite DNA sequences of Drosophila melanogaster

1975 ◽  
Vol 96 (4) ◽  
pp. 665-692 ◽  
Author(s):  
Sharyn A. Endow ◽  
Mary Lake Polan ◽  
Joseph G. Gall
Keyword(s):  
Drosophila Melanogaster ◽  
Dna Sequences ◽  
Satellite Dna

scholarly journals A new family of satellite DNA sequences as a major component of centromeric heterochromatin in owls (Strigiformes)

Chromosoma ◽  
2004 ◽  
Vol 112 (7) ◽  
pp. 372-373 ◽  
Author(s):  
Kazuhiko Yamada ◽  
Chizuko Nishida-Umehara ◽  
Yoichi Matsuda
Keyword(s):  
Dna Sequences ◽  
Satellite Dna ◽  
Centromeric Heterochromatin ◽  
New Family

The molecular structure, chromosomal organization, and interspecies distribution of a family of tandemly repeated DNA sequences of Antirrhinum majus L.

Genome ◽  
1996 ◽  
Vol 39 (2) ◽  
pp. 243-248 ◽  
Author(s):  
Thomas Schmidt ◽  
Jörg Kudla
Keyword(s):  
In Situ Hybridization ◽  
Dna Sequences ◽  
Satellite Dna ◽  
Antirrhinum Majus ◽  
Repeated Dna ◽  
Satellite Dnas ◽  
Repeated Dna Sequences ◽  
The North ◽  
Tandemly Repeated Dna

Monomers of a major family of tandemly repeated DNA sequences of Antirrhinum majus have been cloned and characterized. The repeats are 163–167 bp long, contain on average 60% A + T residues, and are organized in head-to-tail orientation. According to site-specific methylation differences two subsets of repeating units can be distinguished. Fluorescent in situ hybridization revealed that the repeats are localized at centromeric regions of six of the eight chromosome pairs of A. majus with substantial differences in array size. The monomeric unit shows no homologies to other plant satellite DNAs. The repeat exists in a similar copy number and conserved size in the genomes of six European species of the genus Antirrhinum. Tandemly repeated DNA sequences with homology to the cloned monomer were also found in the North American section Saerorhinum, indicating that this satellite DNA might be of ancient origin and was probably already present in the ancestral genome of both sections. Key words : Antirrhinum majus, satellite DNA, repetitive DNA, methylation, in situ hybridization.

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