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2 edition of DNA sequences associated with the nuclear matrix found in the catalog.

DNA sequences associated with the nuclear matrix

Umesh Anilkumar Patel

DNA sequences associated with the nuclear matrix

by Umesh Anilkumar Patel

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Published by Portsmouth Polytechnic, School of Biological Sciences in Portsmouth .
Written in English


Edition Notes

StatementUmesh Anilkumar Patel.
ID Numbers
Open LibraryOL13915016M

Among these S/MARs (Scaffold/Matrix attachment regions, abbreviated as S/MARs) is one of the most important DNA sequences. In the nucleus of eukaryotic cells specific regions of the DNA are. The seminal work by de Lange () showed that telomeres are associated with the nuclear matrix. Similarly, work by Ma et al. () described the association of chromosome territories with the nuclear matrix. Many questions regarding the nuclear matrix and its impact on the organization of the nucleus are yet to be addressed.

Genome contains many repeated DNA sequences; Some repeat sequences have increased frequency in primates Repeat sequence length: Varies from 1 nucleotide to whole gene Highly repetitive DNA is found in some untranslated regions 6 to 10 base pair sequences may be . The nuclear lamina is a dense (~30 to nm thick) fibrillar network inside the nucleus of most is composed of intermediate filaments and membrane associated s providing mechanical support, the nuclear lamina regulates important cellular events such as DNA replication and cell onally, it participates in chromatin organization and it anchors the nuclear.

  These motifs are characteristic for origins of replication, TG-rich sequences, curved DNA, kinked DNA, topoisomerase II sites, and AT-rich sequences. The stress-induced duplex destabilization (SIDD) program (Benham et al. ) identifies regions of DNA unwinding associated with nuclear matrix binding using a statistical mechanical procedure. Both methods require a larger .   Received J ; Revised and Accepted Octo INTRODUCTION. In the early s, researchers began to describe an important nuclear structure in eukaryotic cells that differed from the already well-known DNA/histone-based chromatin (1).This structure, referred to as the ‘nuclear matrix’ (NM), can be separated from the rest of the nucleus by applying DNAse I digestion.


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DNA sequences associated with the nuclear matrix by Umesh Anilkumar Patel Download PDF EPUB FB2

DNA sequences associated with the nuclear matrix Author: Patel, U. ISNI: Awarding Body: Portsmouth Polytechnic Current Institution: University of Portsmouth Date of Award: Availability of Full Text: Full text unavailable from EThOS.

Abstract. There is increasing evidence that chromosomal DNA is attached to a nuclear skeleton or matrix. The composition and morphology of the matrix appears to be highly complex in keeping with the long list of known and postulated functions, which seems to include nearly all important processes of the nucleus, such as transcription, RNA processing and transport, replication, and the Cited by: evidence that DNA closely associated with the nuclear matrix from 3T3 cells synchronized at the G1/S border is highly en-riched in specific DNA sequences.

This result suggests the pos-sibility that, at least during a fraction of the cell cycle, DNA loops may be anchored to the nuclear matrix through inter-action with a specific DNA sequence (or. DNA sequences associated with the nuclear matrix.

(Thesis) Patel U. Publisher: Portsmouth Polytechnic [] Metadata Source: The British Library Type: Thesis. Abstract. Highlight Terms No biological terms identified No abstract supplied.

Menu Formats. Abstract; Thesis at EThOS. The nuclear matrix was obtained from murine BALB/c 3T3 cells synchronized at the G1/S border of the cell cycle. We report the structure of two sequences, designated G4 and G5, which are highly enriched in the matrix DNA. Sequence G4, of bp, contains three bp direct head-to-tail by: The nuclear matrix was obtained from murine BALB/c 3T3 cells synchronized at the G1/S border of the cell cycle.

We report the structure of two sequences, designated G4 and G5, which are highly enriched in the matrix DNA. Sequence G4, of bp, contains three bp direct head-to-tail repeats.

To reveal whether specific DNA sequences are involved in this level of chromatin organization, we isolated and cloned a population of DNA molecules [average length of base pairs (bp)] closely associated with the nuclear matrix after exhaustive DNase digestion and subsequent extensive protease digestion.

Models of DNA replication associated with the nuclear matrix have proposed that the replicon clusters correspond to the 50–kb repeating DNA loop domains that are attached to the nuclear matrix (Dijkwel et al.

; Pardoll et al. ; Vogelstein et al. ; Berezney and Buchholtz ; BerezneyBerezney ; Cook ). The term S/MAR, otherwise called SAR, or MAR, are sequences in the DNA of eukaryotic chromosomes where the nuclear matrix attaches.

As architectural DNA components that organize the genome of eukaryotes into functional units within the cell nucleus, S/MARs mediate structural organization of the chromatin within the nucleus.

These elements constitute anchor points of the DNA for the chromatin. What are some nuclear activities that are believed to be associated with the nuclear matrix. The metaphase scaffold consists of a dense network of fibers.

THreads of DNA emanate from the scaffold, apparently as loops of average length 10 to 30 micrometers. Previous studies have shown that the average size of the nuclear DNA fragments liberated by non-specific nucleases in rat hepatocytes is kb. Thus the DNA sequences to be mapped are ≤ bp in length (Table (Table1) 1) and so likely to be cut as whole units by the endonuclease instead of being progressively eroded by partial digestions.

Biochemistry All Publications/Website. OR SEARCH CITATIONS. Scaffold/matrix-associated region (S/MAR) sequences are DNA regions that are attached to the nuclear matrix, and participate in many cellular processes.

The nuclear matrix is a complex structure consisting of various elements. In this paper we compared frequencies of simple nucleotide motifs in S/MAR sequences and in sequences extracted directly from various nuclear matrix elements, such as nuclear lamina.

DNA ORGANIZATION AND THE NUCLEAR MATRIX In the interphase nucleus, the 30 nm chroma- tin filaments f DNA loop domains each of approximately 60 kbp that are attached at their base to the inner portions of the nuclear matrix [Pardoll et al., The nuclear matrix is the nuclear scaffolding which has previously.

Region of DNA associated with the nuclear matrix. SAR (scaffold-associated region) Ultra high throughput DNA sequencing technique to map genome-wide interactions: cross linked DNA digested, biotin labelled on sticky end, ligated, shear, pull down biotinilated, sequence.

Used to show proximity of enhancers and promoters. Nuclear DNA is organized into loop domains through interactions between MARs3 (DNA sequences at the base of the loop) and nuclear matrix proteins, such as lamins, SatB1, SAF-B/HET, and ARBP (1, 2).

Aberrant expression of nuclear matrix, MAR-binding proteins could result in the reorganization of chromatin in cancer cells (3). Short DNA sequences that occur many times w/in a species' genome (A) A variety have been identified in many bacterial species of tobp in size, into which DNA is organized into the nuclear matrix and which are anchored to it at matrix attachment regions (MARs) Nucleoid-associated (C) Nuclear matrix (D) Histone.

The nuclear matrix protein scaffold attachment factor A (SAF-A), also called p or sp is identical to heterogeneous nuclear ribonucleoprotein (hnRNP) U. It is found that, in vitro, this protein preferentially binds to the multiple matrix-associated region (MAR) elements.

It is observed that microinjection of actin-binding proteins or. The sequences which anchor DNA, matrix attachment regions (MARs), can be identified by their specific and preferential binding to the matrix.

Previous evidence from our laboratory (Chiu et al. ) suggested that the close association of MARs with the nuclear matrix confers a high susceptibility to radiation-induced DNA-protein crosslink (DPC. For nuclear translocation of a plasmid DNA, the DNA can be covalently linked to a NLS peptide, or specific DNA sequences, such as a bp DNA containing the SV40 origin of replication and early promoter can be incorporated into the DNA by recombinant DNA technology, prior to the complexation of the DNA with a nanocarrier that ensures the cytosolic release of the DNA cargo (Chowdhury, ).

The H4 histone gene is associated with the nuclear matrix only during the proliferation period of the osteoblast developmental sequence when actively transcribed, at which time the distal promoter factor NMP-1, a unique kDa ATF transcription factor that binds in a sequence-specific manner to a strong positive regulatory element residing between − and −, is a nuclear matrix component .The Organization of the Bacterial Genome Eduardo P.C.

Rocha Annual Review of Genetics RECOMBINANT LIPOPROTEINS: Implications for Structure and Assembly of Native Lipoproteins David Atkinson and Donald M. Small Annual Review of Biophysics and Biophysical Chemistry HISTONE STRUCTURE AND THE ORGANIZATION OF THE NUCLEOSOME V.

Ramakrishnan.The DNA sequences associated with NuMat are called matrix-associated or scaffold-attachment regions (MARs/SARs). The MARs bind to NuMat and provide an anchor for higher order chromatin organization.

This association is dynamic and varies in a cell-specific manner (Fey and Penman ; Dworetzky et al. ; Cai et al. ; Varma and Mishra ).