Characterization of matrix attachment sites in the upstream region of a tobacco chitinase gene

Characterization of matrix attachment sites in the upstream region of a tobacco chitinase gene The nuclear matrix is thought to partition the genome into functional and structural loop domains, and it has been implicated in several cellular processes, such as the replication and transcription of DNA and the processing of RNA. Therefore, the analysis of scaffold/matrix-associated DNA regions (S/MARs) might enhance our understanding of the functional roles of the higher-order organization of chromatin. In this study, the upstream region between positions −3320 and −1095 of the basic class I chitinase gene, CHN50, was shown to have specific affinity for the tobacco nuclear scaffold. Detailed analysis of nuclear scaffold-DNA binding in vitro revealed that two regions (positions −3320 to −2621 and −2221 to −1371) bound specifically to the nuclear scaffold. These S/MAR elements, designated S/M I and S/M II, are A+T-rich sequences with 75% and 74% A+T residues, respectively, and may include a number of sequence motifs that have frequently been found in other S/MARs. Moreover, S/M II contains a curved DNA sequence with anomalous mobility on polyacrylamide gels. A circular permutation assay revealed that the center of this curved region was located between positions −1767 and −1759. The possible functions and structural features of the S/MAR elements in the upstream region of CHN50 are discussed. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Plant Molecular Biology Springer Journals

Characterization of matrix attachment sites in the upstream region of a tobacco chitinase gene

Loading next page...
 
/lp/springer_journal/characterization-of-matrix-attachment-sites-in-the-upstream-region-of-jrBin89SKo
Publisher
Kluwer Academic Publishers
Copyright
Copyright © 1999 by Kluwer Academic Publishers
Subject
Life Sciences; Biochemistry, general; Plant Sciences; Plant Pathology
ISSN
0167-4412
eISSN
1573-5028
D.O.I.
10.1023/A:1006133003283
Publisher site
See Article on Publisher Site

Abstract

The nuclear matrix is thought to partition the genome into functional and structural loop domains, and it has been implicated in several cellular processes, such as the replication and transcription of DNA and the processing of RNA. Therefore, the analysis of scaffold/matrix-associated DNA regions (S/MARs) might enhance our understanding of the functional roles of the higher-order organization of chromatin. In this study, the upstream region between positions −3320 and −1095 of the basic class I chitinase gene, CHN50, was shown to have specific affinity for the tobacco nuclear scaffold. Detailed analysis of nuclear scaffold-DNA binding in vitro revealed that two regions (positions −3320 to −2621 and −2221 to −1371) bound specifically to the nuclear scaffold. These S/MAR elements, designated S/M I and S/M II, are A+T-rich sequences with 75% and 74% A+T residues, respectively, and may include a number of sequence motifs that have frequently been found in other S/MARs. Moreover, S/M II contains a curved DNA sequence with anomalous mobility on polyacrylamide gels. A circular permutation assay revealed that the center of this curved region was located between positions −1767 and −1759. The possible functions and structural features of the S/MAR elements in the upstream region of CHN50 are discussed.

Journal

Plant Molecular BiologySpringer Journals

Published: Oct 19, 2004

There are no references for this article.

You’re reading a free preview. Subscribe to read the entire article.


DeepDyve is your
personal research library

It’s your single place to instantly
discover and read the research
that matters to you.

Enjoy affordable access to
over 18 million articles from more than
15,000 peer-reviewed journals.

All for just $49/month

Explore the DeepDyve Library

Search

Query the DeepDyve database, plus search all of PubMed and Google Scholar seamlessly

Organize

Save any article or search result from DeepDyve, PubMed, and Google Scholar... all in one place.

Access

Get unlimited, online access to over 18 million full-text articles from more than 15,000 scientific journals.

Your journals are on DeepDyve

Read from thousands of the leading scholarly journals from SpringerNature, Elsevier, Wiley-Blackwell, Oxford University Press and more.

All the latest content is available, no embargo periods.

See the journals in your area

DeepDyve

Freelancer

DeepDyve

Pro

Price

FREE

$49/month
$360/year

Save searches from
Google Scholar,
PubMed

Create lists to
organize your research

Export lists, citations

Read DeepDyve articles

Abstract access only

Unlimited access to over
18 million full-text articles

Print

20 pages / month

PDF Discount

20% off