Skip Navigation


Nucleic Acids Research Advance Access originally published online on February 27, 2009
Nucleic Acids Research 2009 37(6):e42; doi:10.1093/nar/gkp037
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (8190K) Freely available
Right arrow Screen PDF (1022K) Freely available
Right arrow Supplementary Data
Right arrowOA All Versions of this Article:
37/6/e42    most recent
gkp037v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Basheer, A.
Right arrow Articles by Strauss, J.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Basheer, A.
Right arrow Articles by Strauss, J.
Related Collections
Right arrow Chromatin
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2009, Vol. 37, No. 6 e42
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Methods Online

A library-based method to rapidly analyse chromatin accessibility at multiple genomic regions

Asjad Basheer, Harald Berger, Yazmid Reyes-Dominguez, Markus Gorfer and Joseph Strauss*

Austrian Research Centers, Fungal Genomics Unit and Department of Applied Genetics and Cell Biology, BOKU University Vienna, Muthgasse 18, A-1190 Vienna, Austria

*To whom correspondence should be addressed. Tel: +43 1 36006 6720; Fax: +43 1 36006 6392; Email: joseph.strauss{at}boku.ac.at

Received July 25, 2008. Revised January 8, 2009. Accepted January 9, 2009.

Traditional chromatin analysis methods only test one locus at the time or use different templates for each locus, making a standardized analysis of large genomic regions or many co-regulated genes at different loci a difficult task. On the other hand, genome-wide high-resolution mapping of chromatin accessibility employing massive parallel sequencing platforms generates an extensive data set laborious to analyse and is a cost-intensive method, only applicable to the analysis of a limited set of biological samples. To close this gap between the traditional and the high-throughput procedures we have developed a method in which a condition-specific, genome-wide chromatin fragment library is produced and then used for locus-specific DNA fragment analysis. To validate the method, we used, as a test locus, the well-studied promoter of the divergently transcribed niiA and niaD genes coding for nitrate assimilation enzymes in Aspergillus. Additionally, we have used the condition-specific libraries to study nucleosomal positioning at two different loci, the promoters of the general nitrogen regulator areA and the regulator of secondary metabolism, aflR.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.