Sequence-specific targeting of dosage compensation in Drosophila favors an active chromatin context.

PLoS Genetics
Artyom A AlekseyenkoPeter J Park

Abstract

The Drosophila MSL complex mediates dosage compensation by increasing transcription of the single X chromosome in males approximately two-fold. This is accomplished through recognition of the X chromosome and subsequent acetylation of histone H4K16 on X-linked genes. Initial binding to the X is thought to occur at "entry sites" that contain a consensus sequence motif ("MSL recognition element" or MRE). However, this motif is only ∼2 fold enriched on X, and only a fraction of the motifs on X are initially targeted. Here we ask whether chromatin context could distinguish between utilized and non-utilized copies of the motif, by comparing their relative enrichment for histone modifications and chromosomal proteins mapped in the modENCODE project. Through a comparative analysis of the chromatin features in male S2 cells (which contain MSL complex) and female Kc cells (which lack the complex), we find that the presence of active chromatin modifications, together with an elevated local GC content in the surrounding sequences, has strong predictive value for functional MSL entry sites, independent of MSL binding. We tested these sites for function in Kc cells by RNAi knockdown of Sxl, resulting in induction of MSL complex. We show tha...Continue Reading

References

Mar 1, 1995·Current Biology : CB·H GranokS C Elgin
Feb 21, 1997·Cell·H Amrein, R Axel
Dec 21, 2004·Nucleic Acids Research·Rachel A DrysdaleUNKNOWN FlyBase Consortium
Aug 13, 2005·Bioinformatics·Tobias SingThomas Lengauer
Oct 6, 2005·Genes & Development·Fumika N HamadaMitzi I Kuroda
Mar 2, 2006·Journal of Biology·Vaijayanti GuptaBrian Oliver
Sep 1, 2007·PLoS Biology·Davide F V CoronaJohn W Tamkun
Oct 25, 2008·Nucleic Acids Research·Susan TweedieUNKNOWN FlyBase Consortium
Nov 26, 2008·Nature Biotechnology·Peter V KharchenkoPeter J Park
Dec 18, 2008·Genome Research·Steven HenikoffKami Ahmad
Mar 6, 2009·Genome Biology·Ben LangmeadSteven L Salzberg
Apr 14, 2009·Development·Marnie E Gelbart, Mitzi I Kuroda
Aug 4, 2009·Nature Structural & Molecular Biology·Marnie E GelbartMitzi I Kuroda
Nov 3, 2009·Current Opinion in Genetics & Development·John C Lucchesi
Feb 27, 2010·PLoS Biology·Yu ZhangBrian Oliver
Jun 22, 2010·Nature Structural & Molecular Biology·Oliver BellDirk Schübeler
Sep 17, 2010·PLoS Genetics·Michael J Guertin, John T Lis
Dec 24, 2010·Science·UNKNOWN modENCODE ConsortiumManolis Kellis
Dec 24, 2010·Nature·Peter V KharchenkoPeter J Park
Feb 15, 2011·Current Opinion in Genetics & Development·Tobias Straub, Peter B Becker
Mar 23, 2011·PLoS Genetics·Catherine RegnardPeter B Becker
Apr 21, 2011·Chromosoma·Per Stenberg, Jan Larsson

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Citations

Aug 12, 2014·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·Marcela M L Soruco, Erica Larschan
Nov 16, 2013·Science·Christopher E Ellison, Doris Bachtrog
Feb 10, 2016·Developmental Cell·Marta Clemente-RuizMarco Milán
Jul 28, 2015·Fly·Steven P Vensko, Eric A Stone
Oct 17, 2012·PLoS Genetics·Richard P MeiselAndrew G Clark
Dec 13, 2018·Nucleic Acids Research·Christian AlbigPeter B Becker
Jun 12, 2014·The EMBO Journal·Priscillia LhoumaudOlivier Cuvier
Mar 1, 2015·Biophysics Reviews·Djordje DjordjevicJoshua W K Ho
Oct 27, 2020·Genome Biology and Evolution·Aleksei BelyiJohn Parsch
Oct 23, 2021·Genome Research·Masafumi NozawaKoichiro Tamura
Jul 23, 2013·Genes & Development·Marcela M L SorucoErica Larschan
Jul 6, 2014·Genome Research·Yoav LubelskyDavid M MacAlpine

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Datasets Mentioned

BETA
GSM372470
GSM372471
GSE34859

Methods Mentioned

BETA
ChIP-chip
ChIP
acetylation
ChIP-seq
salt extraction
RNA-seq
PCR

Software Mentioned

bowtie
R package
modENOCODE
SPP
ROCR
R
LOWESS
modENCODE

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